Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold447
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: 214352
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:1104 original size:20 final size:21
Alignment explanation
Indices: 1079--1124 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1069 TTTATTTTCA
*
1079 ATTTTTAAAGTTTT-GTTAGAT
1 ATTTTGAAA-TTTTGGTTAGAT
*
1100 ATTTTGAAATTTTGGTTATAT
1 ATTTTGAAATTTTGGTTAGAT
1121 ATTT
1 ATTT
1125 ATTATTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (21 bp):
ATTTTGAAATTTTGGTTAGAT
Found at i:3929 original size:2 final size:2
Alignment explanation
Indices: 3922--3960 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3912 AAGTTCTTCT
3922 TA 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 TA T
3961 GTAGATCAAG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5399 original size:3 final size:3
Alignment explanation
Indices: 5391--5420 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
5381 GCAATTTCTT
5391 ATA ATA ATAA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT
5421 GTTCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6224 original size:2 final size:2
Alignment explanation
Indices: 6217--6262 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6207 TTATCTTCTT
6217 TA TA TA TA TA 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 TA TA TA TA TA
6259 -A TA T
1 TA TA T
6263 TAACAATATC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9127 original size:21 final size:22
Alignment explanation
Indices: 9102--9143 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9092 ATTTTCCTTA
9102 TTTTCCCTTTTAGTT-TTCTCT
1 TTTTCCCTTTTAGTTCTTCTCT
*
9123 TTTTCCCTTTTTGTTCTTCTC
1 TTTTCCCTTTTAGTTCTTCTC
9144 GTTGTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTCCCTTTTAGTTCTTCTCT
Found at i:11845 original size:24 final size:24
Alignment explanation
Indices: 11813--11918 Score: 65
Period size: 24 Copynumber: 4.5 Consensus size: 24
11803 AAATTGATCT
*
11813 AAAGTATGTTCTAGGAGTCTTGCC
1 AAAGGATGTTCTAGGAGTCTTGCC
* * * *
11837 AAAGGATGTTCCACGAGTCATGCT
1 AAAGGATGTTCTAGGAGTCTTGCC
* * *
11861 AAAAGATGTT-TCAAGAGT-TATGCA
1 AAAGGATGTTCT-AGGAGTCT-TGCC
* * *
11885 AAAGGTTGTTCTAGAAGTCGTGCC
1 AAAGGATGTTCTAGGAGTCTTGCC
*
11909 CAA-GATGTTC
1 AAAGGATGTTC
11919 CAAGAGTCGT
Statistics
Matches: 60, Mismatches: 18, Indels: 9
0.69 0.21 0.10
Matches are distributed among these distances:
23 6 0.10
24 53 0.88
25 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (24 bp):
AAAGGATGTTCTAGGAGTCTTGCC
Found at i:14736 original size:18 final size:18
Alignment explanation
Indices: 14713--14756 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14703 TTTTTGTTTA
14713 AAAAAAATCATATTGCAT
1 AAAAAAATCATATTGCAT
* * *
14731 AAAAAATTCGTATTTCAT
1 AAAAAAATCATATTGCAT
14749 AAAAAAAT
1 AAAAAAAT
14757 TAGAGAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAAAAATCATATTGCAT
Found at i:15350 original size:14 final size:14
Alignment explanation
Indices: 15313--15358 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
15303 CATACATTAT
15313 TTGTGAATAATACCC
1 TTGTGAATAATA-CC
*
15328 TGTATTGAATAATACC
1 T-T-GTGAATAATACC
15344 TTGTGAATAATACC
1 TTGTGAATAATACC
15358 T
1 T
15359 CACAGGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.44
15 2 0.07
16 4 0.15
17 9 0.33
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (14 bp):
TTGTGAATAATACC
Found at i:15618 original size:3 final size:3
Alignment explanation
Indices: 15603--15657 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
15593 ATTTATTTAT
15603 TTA TTA CTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15649 TTA TTA TTA
1 TTA TTA TTA
15658 ATTCATTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16052 original size:14 final size:14
Alignment explanation
Indices: 16013--16153 Score: 120
Period size: 14 Copynumber: 9.8 Consensus size: 14
16003 GTACTCTATG
16013 ACAAGTACTTTGGC
1 ACAAGTACTTTGGC
* *
16027 ACAGGCACTTTTGGC
1 ACAAGTAC-TTTGGC
* *
16042 ACAAGTATTTTGGT
1 ACAAGTACTTTGGC
*
16056 ATAAGTACCTTTGGC
1 ACAAGTA-CTTTGGC
*
16071 ACAAGTACTTTAGC
1 ACAAGTACTTTGGC
* * * *
16085 ATATGTACTCTAGC
1 ACAAGTACTTTGGC
*
16099 ACAGGTACCTTTGGC
1 ACAAGTA-CTTTGGC
*
16114 ATAAGTACTTTGGC
1 ACAAGTACTTTGGC
*
16128 ACAGGTACTTTTGGC
1 ACAAGTAC-TTTGGC
*
16143 ATAAGTACTTT
1 ACAAGTACTTT
16154 CAACATAGAT
Statistics
Matches: 99, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
14 55 0.56
15 44 0.44
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (14 bp):
ACAAGTACTTTGGC
Found at i:16068 original size:29 final size:29
Alignment explanation
Indices: 16013--16153 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 29
16003 GTACTCTATG
* * *
16013 ACAAGTA-CTTTGGCACAGGCACTTTTGGC
1 ACAAGTACCTTTGGCATAAGTAC-TTTGGC
* *
16042 ACAAGTA-TTTTGGTATAAGTACCTTTGGC
1 ACAAGTACCTTTGGCATAAGTA-CTTTGGC
* * * *
16071 ACAAGTA-CTTTAGCATATGTACTCTAGC
1 ACAAGTACCTTTGGCATAAGTACTTTGGC
*
16099 ACAGGTACCTTTGGCATAAGTACTTTGGC
1 ACAAGTACCTTTGGCATAAGTACTTTGGC
* *
16128 ACAGGTACTTTTGGCATAAGTACTTT
1 ACAAGTACCTTTGGCATAAGTACTTT
16154 CAACATAGAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
28 11 0.12
29 81 0.87
30 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (29 bp):
ACAAGTACCTTTGGCATAAGTACTTTGGC
Found at i:16169 original size:29 final size:28
Alignment explanation
Indices: 16050--16175 Score: 83
Period size: 29 Copynumber: 4.4 Consensus size: 28
16040 GCACAAGTAT
* **
16050 TTTGGTATAAGTACCTTTGGCACA-AGTAC
1 TTTGGCATAAGTA-CTTTAACACAGA-TAC
* * * * *
16079 TTTAGCATATGTACTCTAGCACAGGTACC
1 TTTGGCATAAGTACTTTAACACAGATA-C
** *
16108 TTTGGCATAAGTACTTTGGCACAGGTAC
1 TTTGGCATAAGTACTTTAACACAGATAC
*
16136 TTTTGGCATAAGTACTTTCAACATAGATAC
1 -TTTGGCATAAGTACTTT-AACACAGATAC
*
16166 TTTGACATAA
1 TTTGGCATAA
16176 ATACCTTCGG
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 11 0.14
29 60 0.77
30 7 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (28 bp):
TTTGGCATAAGTACTTTAACACAGATAC
Found at i:18434 original size:2 final size:2
Alignment explanation
Indices: 18427--18461 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18417 GTACTCCCTT
*
18427 TA TA TA TA TA AA 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 T
18462 CCTAACGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19863 original size:2 final size:2
Alignment explanation
Indices: 19856--19921 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
19846 AACTTTCAAT
*
19856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA 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 TA
*
19898 TA TA TA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
19922 CACACCACTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:20835 original size:2 final size:2
Alignment explanation
Indices: 20828--20858 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20818 TCATACATAC
20828 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20859 TTTATTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21119 original size:17 final size:17
Alignment explanation
Indices: 21090--21122 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21080 ATACTTCAAA
21090 AATCAAATCCAAAATTT
1 AATCAAATCCAAAATTT
21107 AATCTAAAT-CAAAATT
1 AATC-AAATCCAAAATT
21123 AAACTCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (17 bp):
AATCAAATCCAAAATTT
Found at i:21438 original size:2 final size:2
Alignment explanation
Indices: 21431--21457 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21421 TAAGAAAAGA
21431 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
21458 CACACACATA
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:21468 original size:18 final size:18
Alignment explanation
Indices: 21447--21481 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21437 ATATATATAT
* *
21447 ATATATATATACACACAC
1 ATATAAATAAACACACAC
21465 ATATAAATAAACACACA
1 ATATAAATAAACACACA
21482 AGGAAGGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (18 bp):
ATATAAATAAACACACAC
Found at i:21753 original size:18 final size:18
Alignment explanation
Indices: 21714--21756 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21704 ATTAGATTGT
*
21714 TAAAA-TATTAAAATATA
1 TAAAATTATAAAAATATA
* *
21731 AAAAATTATAAAAATATG
1 TAAAATTATAAAAATATA
21749 TAAAATTA
1 TAAAATTA
21757 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAATTATAAAAATATA
Found at i:24508 original size:46 final size:45
Alignment explanation
Indices: 24450--24543 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
24440 GACGATGATC
* *
24450 ACATAAAAATTCATGTTTCCGTCAACTTTCTTTTACTTATTAATG
1 ACATAAAAATTCATGTTTCCATCAACTTTCTTATACTTATTAATG
* ** *
24495 ACATAAAAAATTCATGTTTCTATTGATTTTCTTATACTTATTAATG
1 ACAT-AAAAATTCATGTTTCCATCAACTTTCTTATACTTATTAATG
24541 ACA
1 ACA
24544 ATTGTTGCGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.10
46 38 0.90
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (45 bp):
ACATAAAAATTCATGTTTCCATCAACTTTCTTATACTTATTAATG
Found at i:25537 original size:20 final size:20
Alignment explanation
Indices: 25512--25556 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25502 TAAATTTATT
*
25512 TATAAAATTATATATAATAA
1 TATAAAATAATATATAATAA
* *
25532 TATAAAATAATATTTATTAA
1 TATAAAATAATATATAATAA
25552 TATAA
1 TATAA
25557 TAAATAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAAAATAATATATAATAA
Found at i:26633 original size:2 final size:2
Alignment explanation
Indices: 26626--26657 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26616 TATGAGTCAA
*
26626 AT AT AT AT AC 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
26658 TTACGAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26733 original size:16 final size:18
Alignment explanation
Indices: 26703--26736 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
26693 ATTTTATGTA
26703 ATTTTACATATAATTAAT
1 ATTTTACATATAATTAAT
26721 ATTTTA-ATA-AATTAAT
1 ATTTTACATATAATTAAT
26737 TATTACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTACATATAATTAAT
Found at i:26840 original size:18 final size:19
Alignment explanation
Indices: 26805--26843 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
26795 GATATGTGTT
*
26805 TTAATAATTTTATATATAA
1 TTAATAAATTTATATATAA
26824 TTAATAAATTT-TATATAA
1 TTAATAAATTTATATATAA
26842 TT
1 TT
26844 TATTTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATAAATTTATATATAA
Found at i:27522 original size:22 final size:22
Alignment explanation
Indices: 27497--27538 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27487 TATTTTTATT
*
27497 TAAATCTAAATATAAAAATATA
1 TAAATATAAATATAAAAATATA
*
27519 TAAATATTAATATAAAAATA
1 TAAATATAAATATAAAAATA
27539 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATAAATATAAAAATATA
Found at i:31064 original size:15 final size:16
Alignment explanation
Indices: 31036--31072 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
31026 AATATCAATT
31036 AATTTAAGTATTTTAA
1 AATTTAAGTATTTTAA
*
31052 AATTTAA-TATTTTTA
1 AATTTAAGTATTTTAA
31067 AATTTA
1 AATTTA
31073 TGATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
AATTTAAGTATTTTAA
Found at i:31644 original size:27 final size:26
Alignment explanation
Indices: 31613--31684 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
31603 AGATCTATCA
*
31613 TTTAATAAATATTTTTTTATTTTATAT
1 TTTAA-AAATATTTTTTTATTATATAT
* *
31640 TTTAAATAATAATTTATTT-TTATATTT
1 TTTAAA-AAT-ATTTTTTTATTATATAT
31667 TTTAAAAA-ATTTTTTTAT
1 TTTAAAAATATTTTTTTAT
31685 AAAAAAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 7 0.18
25 1 0.03
26 3 0.08
27 20 0.53
28 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTAAAAATATTTTTTTATTATATAT
Found at i:33352 original size:29 final size:29
Alignment explanation
Indices: 33293--33353 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
33283 AAAAAAAAAA
33293 TTTCTTAATTATTTTTATTTTTTAAAATT
1 TTTCTTAATTATTTTTATTTTTTAAAATT
33322 TTTCTTAATTATTTTTA-TTTTTAAAAGTT
1 TTTCTTAATTATTTTTATTTTTTAAAA-TT
33351 TTT
1 TTT
33354 TATAGTCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 9 0.29
29 22 0.71
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTCTTAATTATTTTTATTTTTTAAAATT
Found at i:33721 original size:15 final size:16
Alignment explanation
Indices: 33701--33730 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33691 TATAACCTAA
33701 ATATAAAAA-AATTAG
1 ATATAAAAACAATTAG
33716 ATATAAAAACAATTA
1 ATATAAAAACAATTA
33731 TTAATTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (16 bp):
ATATAAAAACAATTAG
Found at i:33927 original size:18 final size:17
Alignment explanation
Indices: 33904--33940 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
33894 TGTCGAACCT
33904 AATGCCATTTCTTGATCC
1 AATGCCATTTCTTGA-CC
33922 AATGCCATTTCTTGACC
1 AATGCCATTTCTTGACC
33939 AA
1 AA
33941 AGTCACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (17 bp):
AATGCCATTTCTTGACC
Found at i:34375 original size:9 final size:9
Alignment explanation
Indices: 34363--34413 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
34353 TCTAATTTAT
34363 TTTTTAAAA
1 TTTTTAAAA
34372 TTTTTAAAA
1 TTTTTAAAA
**
34381 TGTTTTATGA
1 T-TTTTAAAA
* *
34391 TTTTT-TAT
1 TTTTTAAAA
34399 TTTTTAAAA
1 TTTTTAAAA
34408 TTTTTA
1 TTTTTA
34414 TTAATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:34402 original size:27 final size:28
Alignment explanation
Indices: 34371--34443 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
34361 ATTTTTTAAA
*
34371 ATTTTTAAAATGTTTTA-TGA-T-TTTTT
1 ATTTTTAAAAT-TTTTATTAATTATTTTT
34397 ATTTTTTAAAATTTTTATTAATTATTTTT
1 A-TTTTTAAAATTTTTATTAATTATTTTT
34426 ATTTTTAAAATTTCTTAT
1 ATTTTTAAAATTT-TTAT
34444 ATCCTAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 6 0.15
27 12 0.29
28 13 0.32
29 10 0.24
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTTTAAAATTTTTATTAATTATTTTT
Found at i:35774 original size:13 final size:13
Alignment explanation
Indices: 35756--35781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35746 TTGTTGATCA
35756 TTGTATACACTTT
1 TTGTATACACTTT
35769 TTGTATACACTTT
1 TTGTATACACTTT
35782 AAGTTTAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TTGTATACACTTT
Found at i:39871 original size:23 final size:24
Alignment explanation
Indices: 39837--39881 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
39827 TATTTAATAG
39837 TAAAATTAAATTAA-ATTAATTTTT
1 TAAAATTAAATTAATA-TAATTTTT
39861 TAAAA-TAAATTAATATAATTT
1 TAAAATTAAATTAATATAATTT
39882 GATCCGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAATTAAATTAATATAATTTTT
Found at i:44566 original size:33 final size:33
Alignment explanation
Indices: 44529--44595 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
44519 TTCAACGATT
44529 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
44562 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
44595 T
1 T
44596 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:44567 original size:13 final size:13
Alignment explanation
Indices: 44549--44573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44539 CATAAAATGT
44549 TGTATCGATACAA
1 TGTATCGATACAA
44562 TGTATCGATACA
1 TGTATCGATACA
44574 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44654 original size:13 final size:13
Alignment explanation
Indices: 44636--44660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44626 ATTACTCAAA
44636 TGTATCGATACAT
1 TGTATCGATACAT
44649 TGTATCGATACA
1 TGTATCGATACA
44661 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44725 original size:52 final size:52
Alignment explanation
Indices: 44669--44793 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
44659 CACTGATCTT
*
44669 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
44721 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
44773 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
44794 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:48067 original size:20 final size:20
Alignment explanation
Indices: 48038--48075 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48028 GTAAAAAGAC
48038 AGAATATATCGATACATTAA
1 AGAATATATCGATACATTAA
*
48058 AGAATGTATCGATACATT
1 AGAATATATCGATACATT
48076 TGGGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
AGAATATATCGATACATTAA
Found at i:48468 original size:19 final size:18
Alignment explanation
Indices: 48430--48470 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
48420 CCATTTTTTT
*
48430 TTAAAAAAAAAATCTAAA
1 TTAAAAAAAAAAGCTAAA
*
48448 TTAAAAAAAATAAGCTCAA
1 TTAAAAAAAA-AAGCTAAA
48467 TTAA
1 TTAA
48471 TTCGAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (18 bp):
TTAAAAAAAAAAGCTAAA
Found at i:50321 original size:16 final size:16
Alignment explanation
Indices: 50291--50338 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
50281 AATATTCATA
*
50291 TTTAAATAA-AATAAT
1 TTTAATTAATAATAAT
50306 TTTAATTAATAATAAT
1 TTTAATTAATAATAAT
* * *
50322 CTTATTTAATATTAAT
1 TTTAATTAATAATAAT
50338 T
1 T
50339 ATCTAAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAATTAATAATAAT
Found at i:54482 original size:19 final size:20
Alignment explanation
Indices: 54446--54483 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54436 CTTTGACTTT
*
54446 TTAATTTTTAACTTTTTGAG
1 TTAATTTTTAACTATTTGAG
*
54466 TTAATTTTTGAC-ATTTGA
1 TTAATTTTTAACTATTTGA
54484 TTTGACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (20 bp):
TTAATTTTTAACTATTTGAG
Found at i:62497 original size:6 final size:6
Alignment explanation
Indices: 62486--62510 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62476 AAATCAAAGA
62486 CTATTC CTATTC CTATTC CTATTC C
1 CTATTC CTATTC CTATTC CTATTC C
62511 AGCGCCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CTATTC
Found at i:65047 original size:134 final size:134
Alignment explanation
Indices: 64807--65067 Score: 513
Period size: 134 Copynumber: 1.9 Consensus size: 134
64797 TGTTTGTAGT
64807 CATTGTTGACTTTTTTGGTGCTTGTTTCCATGCATTCCCGTTGCTATGTATTGATACAATTCATA
1 CATTGTTGACTTTTTTGGTGCTTGTTTCCATGCATTCCCGTTGCTATGTATTGATACAATTCATA
*
64872 ATGTATCGATACATACATTTGAAATTATAACTGTTTATAGCCATTTGAGATAATGTATCGATGCA
66 ATGTATCGATACATACATTTGAAATTATAACTGTTTATAGCCATTTGAGACAATGTATCGATGCA
64937 TTCC
131 TTCC
64941 CATTGTTGACTTTTTTGGTGCTTGTTTCCATGCATTCCCGTTGCTATGTATTGATACAATTCATA
1 CATTGTTGACTTTTTTGGTGCTTGTTTCCATGCATTCCCGTTGCTATGTATTGATACAATTCATA
65006 ATGTATCGATACATACATTTGAAATTATAACTGTTTATAGCCATTTGAGACAATGTATCGAT
66 ATGTATCGATACATACATTTGAAATTATAACTGTTTATAGCCATTTGAGACAATGTATCGAT
65068 ACAATTCATG
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 126 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (134 bp):
CATTGTTGACTTTTTTGGTGCTTGTTTCCATGCATTCCCGTTGCTATGTATTGATACAATTCATA
ATGTATCGATACATACATTTGAAATTATAACTGTTTATAGCCATTTGAGACAATGTATCGATGCA
TTCC
Found at i:65915 original size:23 final size:23
Alignment explanation
Indices: 65871--65916 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
65861 TTTAATTAGA
* * *
65871 CTTTTAGTTTATGTTTAGATGGG
1 CTTTTAGTTTAGGTTCAAATGGG
65894 CTTTTAGTTTAGGTTCAAATGGG
1 CTTTTAGTTTAGGTTCAAATGGG
65917 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.48
Consensus pattern (23 bp):
CTTTTAGTTTAGGTTCAAATGGG
Found at i:68806 original size:20 final size:20
Alignment explanation
Indices: 68777--68834 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
68767 AGGTCAAAAC
68777 CCTT-AAATGTATCGATACA
1 CCTTCAAATGTATCGATACA
68796 CCTTCAAATGTATCGATACA
1 CCTTCAAATGTATCGATACA
****
68816 TGACCAAATGTATCGATAC
1 CCTTCAAATGTATCGATAC
68835 TTACAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 4 0.12
20 30 0.88
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (20 bp):
CCTTCAAATGTATCGATACA
Found at i:68934 original size:13 final size:13
Alignment explanation
Indices: 68916--68941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68906 TACACACAAG
68916 ATGTATCGATACA
1 ATGTATCGATACA
68929 ATGTATCGATACA
1 ATGTATCGATACA
68942 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:68959 original size:33 final size:32
Alignment explanation
Indices: 68898--68961 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
68888 CTTAACTGTT
68898 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
68930 TGTATCGATACATCCCAA-ATTGTATCGATACA
1 TGTATCGATACA-CACAAGA-TGTATCGATACA
68962 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:75593 original size:20 final size:22
Alignment explanation
Indices: 75568--75612 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
75558 GCAGCACTCA
*
75568 CCAGGTCGCGACCG-GCA-CCC
1 CCAGGTCGCAACCGAGCAGCCC
75588 CCAGGTCGCAACCGAGCAGCCC
1 CCAGGTCGCAACCGAGCAGCCC
75610 CCA
1 CCA
75613 CACTCACAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.20, C:0.49, G:0.27, T:0.04
Consensus pattern (22 bp):
CCAGGTCGCAACCGAGCAGCCC
Found at i:75661 original size:21 final size:21
Alignment explanation
Indices: 75635--75682 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
75625 AGAACATCCG
75635 AAACACCTCCGTTTTGCACCA
1 AAACACCTCCGTTTTGCACCA
75656 AAACACCTCCGTTTTGCACCA
1 AAACACCTCCGTTTTGCACCA
75677 AAACAC
1 AAACAC
75683 TTCCAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AAACACCTCCGTTTTGCACCA
Found at i:77024 original size:16 final size:16
Alignment explanation
Indices: 77005--77035 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
76995 TGATTAAAAG
77005 AAATTGTTAAATTGCA
1 AAATTGTTAAATTGCA
77021 AAATTGTTAAATTGC
1 AAATTGTTAAATTGC
77036 TTTATTAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
AAATTGTTAAATTGCA
Found at i:77607 original size:20 final size:19
Alignment explanation
Indices: 77578--77616 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
77568 AGGTCAAAAC
77578 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
77597 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
77617 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:77644 original size:13 final size:13
Alignment explanation
Indices: 77626--77650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77616 ATAATGCACA
77626 GTATCGATACATT
1 GTATCGATACATT
77639 GTATCGATACAT
1 GTATCGATACAT
77651 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:77663 original size:20 final size:22
Alignment explanation
Indices: 77638--77690 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
77628 ATCGATACAT
*
77638 TGTATCGATACATGAC-CA-AA
1 TGTATCGATACATGACAAAGAA
*
77658 TGTATCGATAC-TTACAAAGAA
1 TGTATCGATACATGACAAAGAA
77679 TGTATCGATACA
1 TGTATCGATACA
77691 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TGTATCGATACATGACAAAGAA
Found at i:77768 original size:13 final size:13
Alignment explanation
Indices: 77750--77775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77740 TACACACAAG
77750 ATGTATCGATACA
1 ATGTATCGATACA
77763 ATGTATCGATACA
1 ATGTATCGATACA
77776 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:81787 original size:3 final size:3
Alignment explanation
Indices: 81775--81818 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
81765 TAGGCATGAC
81775 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
81819 TAAAAAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:83264 original size:28 final size:28
Alignment explanation
Indices: 83206--83285 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
83196 TTCGATTCAT
* *
83206 ATGCTAACTAACATGGGCTT--ACTTAG
1 ATGCTAGCTAATATGGGCTTAGACTTAG
* *
83232 GTGCTAGCTAGTATGGGCTTAGACTTAG
1 ATGCTAGCTAATATGGGCTTAGACTTAG
* *
83260 ATGCTAGCTAATGTGGGTTTAGACTT
1 ATGCTAGCTAATATGGGCTTAGACTT
83286 TATAGGACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.36
28 28 0.64
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (28 bp):
ATGCTAGCTAATATGGGCTTAGACTTAG
Found at i:83495 original size:28 final size:28
Alignment explanation
Indices: 83393--83771 Score: 171
Period size: 28 Copynumber: 13.7 Consensus size: 28
83383 TAGACATAGA
* *
83393 TGCCAACTAATGTGGGCCTTGATTCATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* * * * *
83421 TGCCAATTAATGTGGACTTCGACCCGA-A
1 TGCCAACTAATGTGGGCTTTGACTC-ATG
* * * * *
83449 TGCTAGCTAATATAGGCTTTGACTAATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* * **
83477 TGCCACCTAGTGTGGGC-TT-ACAT-AAA
1 TGCCAACTAATGTGGGCTTTGAC-TCATG
* * * *
83503 TGCCAACTAATGTGGTCGTAGACTTA-G
1 TGCCAACTAATGTGGGCTTTGACTCATG
*
83530 ATGCCAACTAATGTGGGCTTTGATTCATG
1 -TGCCAACTAATGTGGGCTTTGACTCATG
* * * * *
83559 TGCTAACTGATATGGGCTTTGATTCATA
1 TGCCAACTAATGTGGGCTTTGACTCATG
* *
83587 TGCCAACTAATGTGGACTTTGATTCATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* *
83615 TGCCAACTAGTGTGGGC-TT-ACTTA-G
1 TGCCAACTAATGTGGGCTTTGACTCATG
* * * ** * * **
83640 ATGCCAGCTAGTGTGGGATTAAAATTAAA
1 -TGCCAACTAATGTGGGCTTTGACTCATG
* * ** *
83669 TGCTAGCTAATGTGGGCTTAAATTCATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* * * *
83697 TGGCAACTAATATGGGCTTCGATTCATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* ** *
83725 TGGCAACTAATAAGGGCTTTGATTCATG
1 TGCCAACTAATGTGGGCTTTGACTCATG
* * *
83753 TGCCAGCCAGTGTGGGCTT
1 TGCCAACTAATGTGGGCTT
83772 CCTTTTGATA
Statistics
Matches: 266, Mismatches: 73, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
25 1 0.00
26 35 0.13
27 9 0.03
28 219 0.82
29 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (28 bp):
TGCCAACTAATGTGGGCTTTGACTCATG
Found at i:83597 original size:138 final size:137
Alignment explanation
Indices: 83383--83771 Score: 408
Period size: 138 Copynumber: 2.8 Consensus size: 137
83373 AGTACAGGCT
* * * * * **
83383 TAGACATAGATGCCAACTAATGTGGGCCTTGATTCATGTGCCAATTAATGTGGACTTCGACCCGA
1 TAGACTTAGATGCCAACTAATGTGGGCTTTGATTCATGTG-CAACTAATATGGGCTTCGATTC-A
* * * *
83448 -ATGCTAGCTAATATAGGCTTTGACTAATGTGCCACCTAGTGTGGGCTTACATAAATGCCAACTA
64 TATGCCAACTAATATAGGCTTTGATTCATGTGCCACCTAGTGTGGGCTTACATAAATGCCAACTA
**
83512 ATGTGGTCG
129 ATGTGGGAG
* *
83521 TAGACTTAGATGCCAACTAATGTGGGCTTTGATTCATGTGCTAACTGATATGGGCTTTGATTCAT
1 TAGACTTAGATGCCAACTAATGTGGGCTTTGATTCATGTGC-AACTAATATGGGCTTCGATTCAT
* * * * *
83586 ATGCCAACTAATGT-GGACTTTGATTCATGTGCCAACTAGTGTGGGCTTACTTAGATGCCAGCTA
65 ATGCCAACTAATATAGG-CTTTGATTCATGTGCCACCTAGTGTGGGCTTACATAAATGCCAACTA
* *
83650 GTGTGGGAT
129 ATGTGGGAG
* * * * * **
83659 TAAAATTAAATGCTAGCTAATGTGGGCTTAAATTCATGTGGCAACTAATATGGGCTTCGATTCAT
1 TAGACTTAGATGCCAACTAATGTGGGCTTTGATTCATGT-GCAACTAATATGGGCTTCGATTCAT
* *
83724 GTGGCAACTAATA-AGGGCTTTGATTCATGTGCCAGCC-AGTGTGGGCTT
65 ATGCCAACTAATATA-GGCTTTGATTCATGTGCCA-CCTAGTGTGGGCTT
83772 CCTTTTGATA
Statistics
Matches: 209, Mismatches: 35, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.02
138 200 0.96
139 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
TAGACTTAGATGCCAACTAATGTGGGCTTTGATTCATGTGCAACTAATATGGGCTTCGATTCATA
TGCCAACTAATATAGGCTTTGATTCATGTGCCACCTAGTGTGGGCTTACATAAATGCCAACTAAT
GTGGGAG
Found at i:91528 original size:20 final size:20
Alignment explanation
Indices: 91475--91530 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
91465 ATTTGCTTCT
**
91475 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
91495 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
91515 ATGTATCGATACATTG
1 ATGTATCGATACATTG
91531 CCTTGGCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:92813 original size:20 final size:19
Alignment explanation
Indices: 92770--92829 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
92760 ACATTATGCT
* * *
92770 TTGTATCGATACATGTTCA
1 TTGTATAGATACATGATAA
92789 TTGTATAGATACATGCATAA
1 TTGTATAGATACATG-ATAA
*
92809 TTGTATTGATACATGA-AA
1 TTGTATAGATACATGATAA
92827 TTG
1 TTG
92830 GCAGTAGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 5 0.14
19 15 0.42
20 16 0.44
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (19 bp):
TTGTATAGATACATGATAA
Found at i:99040 original size:13 final size:13
Alignment explanation
Indices: 99022--99061 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
99012 CAAATATTCT
99022 TTGTATCGATACA
1 TTGTATCGATACA
99035 TTGTATCGATACA
1 TTGTATCGATACA
*
99048 ATGTATCGATACA
1 TTGTATCGATACA
99061 T
1 T
99062 GAGTTACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:99204 original size:21 final size:22
Alignment explanation
Indices: 99180--99222 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
99170 TCAAATCTTT
* *
99180 TTCAAATTTCTTC-TTTTTCAC
1 TTCAAAATACTTCATTTTTCAC
99201 TTCAAAATACTTCATTTTTCAC
1 TTCAAAATACTTCATTTTTCAC
99223 CAAAATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCAAAATACTTCATTTTTCAC
Found at i:100577 original size:33 final size:32
Alignment explanation
Indices: 100540--100605 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
100530 CGAGAGTTGA
* *
100540 TCACTTCACTTTCACAACACATGGGTGAGCACT
1 TCACTTCACTCTCACAACACATGGAT-AGCACT
*
100573 TCACTTCACTCTCACAGCACATGGATAGCACT
1 TCACTTCACTCTCACAACACATGGATAGCACT
100605 T
1 T
100606 TGGTGCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (32 bp):
TCACTTCACTCTCACAACACATGGATAGCACT
Found at i:100970 original size:29 final size:30
Alignment explanation
Indices: 100920--101006 Score: 117
Period size: 29 Copynumber: 3.0 Consensus size: 30
100910 AAATAAATTT
* *
100920 TTATCAA--GGGAGAGAATCTTTTAAACGA
1 TTATCAAGGGGGAGAAAATTTTTTAAACGA
*
100948 TTATC-ATGGGGAGAAAATTTTTTAAACGA
1 TTATCAAGGGGGAGAAAATTTTTTAAACGA
*
100977 TTATCAAGGGGGATAAAATTTTTTAAACGA
1 TTATCAAGGGGGAGAAAATTTTTTAAACGA
101007 GAGCCTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 24 0.46
30 22 0.42
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (30 bp):
TTATCAAGGGGGAGAAAATTTTTTAAACGA
Found at i:102618 original size:19 final size:21
Alignment explanation
Indices: 102590--102632 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
102580 AATTCATTCG
102590 TTTTCATTC-ATTTTTC-ATT
1 TTTTCATTCAATTTTTCTATT
*
102609 TTTTCCTTCAAATTTTTCTATT
1 TTTTCATTC-AATTTTTCTATT
102631 TT
1 TT
102633 CGAAATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCATTCAATTTTTCTATT
Found at i:102808 original size:151 final size:151
Alignment explanation
Indices: 102526--102818 Score: 340
Period size: 151 Copynumber: 1.9 Consensus size: 151
102516 TGGTTTTCAT
* * * * * *
102526 TTTTTAAAATTCATCAAATATTATTATTCAATTTATATTAGATCAGTTTTGAAAAATTCATTCGT
1 TTTTTAAAATTCATCAAATATCATCATTCAATTCATAGTAAATCAGTTTTGAAAAATTCATTCAT
* * * * * * * *
102591 TTTCATTCATTTTTCATTTTTTCCTTCAAATTTTTCTATTTTCGAAATATAGAGTTTTTTACTCC
66 TTTCATTAATTTTTCATTTTTTCCTTCAAAATCTCCTATTTCCAAAAAATAGAGTTTTCTACTCC
102656 ATAAATGTTTTTGGGGGATAA
131 ATAAATGTTTTTGGGGGATAA
* * *
102677 TTTTTAAAATTCATCAATTATCATCATTTAATTCATAGTAAA-CTAGTTTTGAAAAATTCATTTA
1 TTTTTAAAATTCATCAAATATCATCATTCAATTCATAGTAAATC-AGTTTTGAAAAATTCATTCA
** * * *
102741 TTTTCA-TAAGTTTTTCATTTTTTTTTTGAAAATCTCCTATTTCCAAAAAACT-TAGTTTTCTAT
65 TTTTCATTAA-TTTTTCATTTTTTCCTTCAAAATCTCCTATTTCCAAAAAA-TAGAGTTTTCTAC
102804 TCCATAAATGTTTTT
128 TCCATAAATGTTTTT
102819 AGGGAGATTT
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
150 3 0.03
151 113 0.97
152 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (151 bp):
TTTTTAAAATTCATCAAATATCATCATTCAATTCATAGTAAATCAGTTTTGAAAAATTCATTCAT
TTTCATTAATTTTTCATTTTTTCCTTCAAAATCTCCTATTTCCAAAAAATAGAGTTTTCTACTCC
ATAAATGTTTTTGGGGGATAA
Found at i:103855 original size:15 final size:15
Alignment explanation
Indices: 103837--103866 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
103827 TTCTTTGCTG
103837 AAATTTTTAAATCTA
1 AAATTTTTAAATCTA
103852 AAATTTTTAAATCTA
1 AAATTTTTAAATCTA
103867 GTGCGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTTTAAATCTA
Found at i:104971 original size:155 final size:152
Alignment explanation
Indices: 104777--105228 Score: 459
Period size: 153 Copynumber: 2.9 Consensus size: 152
104767 ATAAGGGTAT
* * *
104777 CGAGTACTTCTAAGTC-AAAGGTACCCATCGGGGACATTTTCATAATTTTTTAAAATCAAGTCTT
1 CGAGTACTTCTAAGTCGAAAGGTACCCAT-AGGGACATTTT-ATAATTTTTTAGAATCGAGTCTT
* * * *
104841 TGGTTATCATCAAGTCTACTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCAACCCATTTATA
64 AGGTTGTCA-CAGGTCTGCTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCAACCCATTTATA
104906 ATCATTTTTAAGTCTTGTAGGGGCAC
128 ATCATTTTTAAGTCTT-TAGGGGCAC
* * * *
104932 CGAGTACTTTTAAGTCGAAA-GTACCCCCTAAGGG-CATTTTGTAATTTTTTAGAATCGAGTCCT
1 CGAGTACTTCTAAGTCGAAAGGTA-CCCAT-AGGGACATTTTATAATTTTTTAGAATCGAGTCTT
* * * * * *
104995 AAGTTGTCACCGGGTCCGCTTTTA-GGCTGAAGGT-GGTATTTAGGATAGGTTCATCCCATTTAT
64 AGGTTGTCA-CAGGTCTGCTTTTATGTC-GAATGTGGGTATTTAGGATAGGTTCAACCCATTTAT
* *
105058 AATCATTTTTAAGTCCTTTAGGGGTAT
127 AATCATTTTTAAGT-CTTTAGGGGCAC
* * * *
105085 CAAGCACTTCTAAGT-GAAAGGTATCCCGTAGGGATATTTTTATAATTTTTCTAGAATCGAGTCT
1 CGAGTACTTCTAAGTCGAAAGGTA-CCCATAGGGACA-TTTTATAATTTTT-TAGAATCGAGTCT
* * * * * *
105149 TAGTTTGTCACTAGGTTTGCTTTTATATCGAATGTGGGTATTTAGGATAAGTT-AATTCCATCTA
63 TAGGTTGTCAC-AGGTCTGCTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCAA-CCCATTTA
*
105213 TAATCCTTTTTAAGTC
126 TAATCATTTTTAAGTC
105229 CTCTAGGATT
Statistics
Matches: 243, Mismatches: 42, Indels: 24
0.79 0.14 0.08
Matches are distributed among these distances:
152 8 0.03
153 71 0.29
154 56 0.23
155 61 0.25
156 47 0.19
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (152 bp):
CGAGTACTTCTAAGTCGAAAGGTACCCATAGGGACATTTTATAATTTTTTAGAATCGAGTCTTAG
GTTGTCACAGGTCTGCTTTTATGTCGAATGTGGGTATTTAGGATAGGTTCAACCCATTTATAATC
ATTTTTAAGTCTTTAGGGGCAC
Found at i:106151 original size:13 final size:13
Alignment explanation
Indices: 106133--106158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106123 CAATTTTTTG
106133 TGTATCGATACAT
1 TGTATCGATACAT
106146 TGTATCGATACAT
1 TGTATCGATACAT
106159 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:106223 original size:21 final size:21
Alignment explanation
Indices: 106197--106272 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
106187 CTGCCAAGAA
106197 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
106218 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
106238 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
106259 ATGTATCGATACAT
1 ATGTATCGATACAT
106273 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:106243 original size:20 final size:20
Alignment explanation
Indices: 106218--106290 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
106208 CATCTTTTTT
106218 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
106238 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
106259 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
106279 ATGTATCGATAC
1 ATGTATCGATAC
106291 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:106254 original size:41 final size:41
Alignment explanation
Indices: 106197--106290 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
106187 CTGCCAAGAA
106197 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
106238 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
106279 ATGTATCGATAC
1 ATGTATCGATAC
106291 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:107029 original size:132 final size:132
Alignment explanation
Indices: 106792--107056 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
106782 ATTTCAAAAG
106792 TCAAAATTTTACATTTTTCCTTTATTTTTCCCTTAAAAGAACAAATTTTACGAATTTGTACATTC
1 TCAAAATTTTACATTTTTCCTTTATTTTTCCCTTAAAAGAACAAATTTTACGAATTTGTACATTC
106857 TCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCTTTTATTAATAAATCTCCC
66 TCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCTTTTATTAATAAATCTCCC
106922 CC
131 CC
106924 TCAAAATTTTACATTTTTCCTTTATTTTTCCCTTAAAAGAACAAATTTTACGAATTTGTACATTC
1 TCAAAATTTTACATTTTTCCTTTATTTTTCCCTTAAAAGAACAAATTTTACGAATTTGTACATTC
106989 TCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCTTTTATTAATAAATCTCCC
66 TCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCTTTTATTAATAAATCTCCC
107054 CC
131 CC
107056 T
1 T
107057 TAATCAAATA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.27, C:0.26, G:0.05, T:0.42
Consensus pattern (132 bp):
TCAAAATTTTACATTTTTCCTTTATTTTTCCCTTAAAAGAACAAATTTTACGAATTTGTACATTC
TCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTTTATCTCCCCCTTTTATTAATAAATCTCCC
CC
Found at i:108879 original size:13 final size:13
Alignment explanation
Indices: 108861--108899 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
108851 ATAATCACCC
*
108861 TGTATCGATACAG
1 TGTATCGATACAA
108874 TGTATCGATACAA
1 TGTATCGATACAA
108887 TGTATCGATACAA
1 TGTATCGATACAA
108900 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:108910 original size:20 final size:20
Alignment explanation
Indices: 108885--108923 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
108875 GTATCGATAC
108885 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
108905 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
108924 TTTCCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:111007 original size:15 final size:15
Alignment explanation
Indices: 110971--111008 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
110961 TACATCAATT
* *
110971 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
110986 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
111001 TCATTTTG
1 TCATTTTG
111009 GACATCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:115088 original size:13 final size:13
Alignment explanation
Indices: 115070--115095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115060 CAATTTTTTG
115070 TGTATCGATACAT
1 TGTATCGATACAT
115083 TGTATCGATACAT
1 TGTATCGATACAT
115096 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:115160 original size:21 final size:21
Alignment explanation
Indices: 115134--115209 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
115124 CTGCCAAGAA
115134 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
115155 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
115175 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
115196 ATGTATCGATACAT
1 ATGTATCGATACAT
115210 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:115180 original size:20 final size:20
Alignment explanation
Indices: 115155--115227 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
115145 CATCTTTTTT
115155 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
115175 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
115196 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
115216 ATGTATCGATAC
1 ATGTATCGATAC
115228 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:115191 original size:41 final size:41
Alignment explanation
Indices: 115134--115227 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
115124 CTGCCAAGAA
115134 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
115175 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
115216 ATGTATCGATAC
1 ATGTATCGATAC
115228 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:118970 original size:13 final size:13
Alignment explanation
Indices: 118952--118977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118942 CAATTTTTGG
118952 TGTATCGATACAT
1 TGTATCGATACAT
118965 TGTATCGATACAT
1 TGTATCGATACAT
118978 ACTTAGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:118994 original size:32 final size:33
Alignment explanation
Indices: 118932--118995 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
118922 TACAAGCCAA
** *
118932 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTAGTGTATCGATACAT
*
118965 TGTATCGATAC-ATACTTAGTGTATGGATACA
1 TGTATCGATACAATACTTAGTGTATCGATACA
118996 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTAGTGTATCGATACAT
Found at i:121101 original size:21 final size:20
Alignment explanation
Indices: 121072--121114 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
121062 GGCTAGTGTG
*
121072 GGGACTGCCCGGTTACGACCT
1 GGGACTG-CCGGTCACGACCT
*
121093 GGGAGTGCCGGTCACGACCT
1 GGGACTGCCGGTCACGACCT
121113 GG
1 GG
121115 TGGGTGCTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.14, C:0.30, G:0.40, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCACGACCT
Found at i:125447 original size:22 final size:22
Alignment explanation
Indices: 125420--125475 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
125410 TTACAAGTTG
125420 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
125442 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
125463 AAATAAA-AACTTG
1 AAATAAAGAACTTG
125476 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:129399 original size:13 final size:13
Alignment explanation
Indices: 129381--129418 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
129371 CATTTTTCTT
129381 TGTATCGATACAA
1 TGTATCGATACAA
*
129394 TGTATCGATACAC
1 TGTATCGATACAA
129407 TGTATCGATACA
1 TGTATCGATACA
129419 GGGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:129573 original size:20 final size:20
Alignment explanation
Indices: 129530--129575 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
129520 AAATCTTTTG
129530 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
129551 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
129571 CAAAA
1 CAAAA
129576 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:131978 original size:13 final size:13
Alignment explanation
Indices: 131960--131985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
131950 TACACCAAGT
131960 ATGTATCGATACA
1 ATGTATCGATACA
131973 ATGTATCGATACA
1 ATGTATCGATACA
131986 CGAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:131982 original size:32 final size:33
Alignment explanation
Indices: 131941--132005 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
131931 GTAGCCAAAC
**
131941 ATGTATCGATACACCAAGTA-TGTATCGATACA
1 ATGTATCGATACACCAAAAATTGTATCGATACA
*
131973 ATGTATCGATACACGAAAAATTGTATCGATACA
1 ATGTATCGATACACCAAAAATTGTATCGATACA
132006 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACACCAAAAATTGTATCGATACA
Found at i:137259 original size:32 final size:30
Alignment explanation
Indices: 137223--137281 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
137213 GAAAACAAAT
137223 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
137255 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
137282 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:137593 original size:15 final size:14
Alignment explanation
Indices: 137560--137629 Score: 108
Period size: 13 Copynumber: 5.0 Consensus size: 14
137550 TACAATTTTT
137560 TGTGTATCGATACA
1 TGTGTATCGATACA
137574 T-TGTATCGATACA
1 TGTGTATCGATACA
137587 TGGTGTATCGATACA
1 T-GTGTATCGATACA
137602 T-TGTATCGATACA
1 TGTGTATCGATACA
137615 TGGTGTATCGATACA
1 T-GTGTATCGATACA
137630 AGTTTGGCTA
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
13 26 0.50
14 1 0.02
15 25 0.48
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TGTGTATCGATACA
Found at i:137601 original size:28 final size:28
Alignment explanation
Indices: 137561--137629 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
137551 ACAATTTTTT
137561 GTGTATCGATACATTGTATCGATACATG
1 GTGTATCGATACATTGTATCGATACATG
137589 GTGTATCGATACATTGTATCGATACATG
1 GTGTATCGATACATTGTATCGATACATG
137617 GTGTATCGATACA
1 GTGTATCGATACA
137630 AGTTTGGCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (28 bp):
GTGTATCGATACATTGTATCGATACATG
Found at i:140162 original size:13 final size:13
Alignment explanation
Indices: 140144--140182 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
140134 ATAAACCCCC
* *
140144 TGTATCGATATAG
1 TGTATCGATACAA
140157 TGTATCGATACAA
1 TGTATCGATACAA
140170 TGTATCGATACAA
1 TGTATCGATACAA
140183 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:140193 original size:20 final size:20
Alignment explanation
Indices: 140168--140221 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
140158 GTATCGATAC
140168 AATGTATCGATACA-AAGAAA
1 AATGTATCGATACACAA-AAA
*
140188 AATGTATCGATACACAAACA
1 AATGTATCGATACACAAAAA
*
140208 CATGTATCGATACA
1 AATGTATCGATACA
140222 TTTTGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (20 bp):
AATGTATCGATACACAAAAA
Found at i:142258 original size:15 final size:15
Alignment explanation
Indices: 142238--142268 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
142228 ATTTCGTTTG
*
142238 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
142253 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
142268 G
1 G
142269 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:144100 original size:21 final size:21
Alignment explanation
Indices: 144071--144115 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
144061 AAGTTTTTAT
*
144071 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
144091 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
144113 TTT
1 TTT
144116 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:146035 original size:32 final size:30
Alignment explanation
Indices: 145999--146057 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
145989 GAAAACAAAT
145999 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
146031 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
146058 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:146356 original size:13 final size:13
Alignment explanation
Indices: 146338--146363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
146328 CAATTTTTTG
146338 TGTATCGATACAT
1 TGTATCGATACAT
146351 TGTATCGATACAT
1 TGTATCGATACAT
146364 ACTTGGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:147677 original size:13 final size:13
Alignment explanation
Indices: 147659--147684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147649 CAATTTTTGG
147659 TGTATCGATACAT
1 TGTATCGATACAT
147672 TGTATCGATACAT
1 TGTATCGATACAT
147685 ACTTAGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:147699 original size:32 final size:33
Alignment explanation
Indices: 147639--147702 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
147629 TACAAGCCAA
** *
147639 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTAGTGTATCGATACAT
147672 TGTATCGATAC-ATACTTAGTGTATCGATACA
1 TGTATCGATACAATACTTAGTGTATCGATACA
147703 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTAGTGTATCGATACAT
Found at i:151205 original size:33 final size:33
Alignment explanation
Indices: 151168--151232 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
151158 TTTCGAGTAA
* * * *
151168 TGTATCGATACAATTTTTTATGTATTGATACAT
1 TGTATCGATACAATGTGTCATGTATCGATACAT
151201 TGTATCGATACAATGTGTCATGTATCGATACA
1 TGTATCGATACAATGTGTCATGTATCGATACA
151233 AATTGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATGTGTCATGTATCGATACAT
Found at i:151226 original size:20 final size:20
Alignment explanation
Indices: 151201--151318 Score: 102
Period size: 20 Copynumber: 5.8 Consensus size: 20
151191 ATTGATACAT
151201 TGTATCGATACAATGTGTCA
1 TGTATCGATACAATGTGTCA
151221 TGTATCGATACAAATTGTGGT-A
1 TGTATCGATAC-AA-TGT-GTCA
* * *
151243 GGGTAGCTACTACCAAT-T-TCA
1 -TGTATCGA-TA-CAATGTGTCA
151264 TGTATCGATACAAT-TGTGCA
1 TGTATCGATACAATGTGT-CA
*
151284 TGTATCGATACAATG-ATCA
1 TGTATCGATACAATGTGTCA
151303 TGTATCGATACAATGT
1 TGTATCGATACAATGT
151319 ATTGATACAA
Statistics
Matches: 80, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
18 5 0.06
19 20 0.25
20 34 0.43
21 3 0.04
22 5 0.06
23 8 0.10
24 4 0.05
25 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAATGTGTCA
Found at i:151306 original size:19 final size:18
Alignment explanation
Indices: 151256--151318 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 18
151246 TAGCTACTAC
*
151256 CAATTTCATGTATCGATA
1 CAATGTCATGTATCGATA
151274 CAATTGTGCATGTATCGATA
1 CAA-TGT-CATGTATCGATA
151294 CAATGATCATGTATCGATA
1 CAATG-TCATGTATCGATA
151313 CAATGT
1 CAATGT
151319 ATTGATACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
18 4 0.10
19 21 0.51
20 16 0.39
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (18 bp):
CAATGTCATGTATCGATA
Found at i:151315 original size:39 final size:41
Alignment explanation
Indices: 151201--151316 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 41
151191 ATTGATACAT
* *
151201 TGTATCGATACAATGTGTCATGTATCGATACAAATTGTGGTAG
1 TGTATCGATACAATG-ATCATGTATCGATAC-AATTGTGGCAG
* * * *
151244 GGTAGCTACTACCAAT-TTCATGTATCGATACAATTGT-GCA-
1 TGTATCGA-TA-CAATGATCATGTATCGATACAATTGTGGCAG
151284 TGTATCGATACAATGATCATGTATCGATACAAT
1 TGTATCGATACAATGATCATGTATCGATACAAT
151317 GTATTGATAC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
38 4 0.07
39 19 0.31
40 5 0.08
41 2 0.03
42 6 0.10
43 19 0.31
44 2 0.03
45 4 0.07
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (41 bp):
TGTATCGATACAATGATCATGTATCGATACAATTGTGGCAG
Found at i:151344 original size:33 final size:32
Alignment explanation
Indices: 151283--151347 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
151273 ACAATTGTGC
* *
151283 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
*
151315 ATGTATTGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
151348 TCTGGATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:155428 original size:13 final size:13
Alignment explanation
Indices: 155410--155435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155400 CAATTTTTTG
155410 TGTATCGATACAT
1 TGTATCGATACAT
155423 TGTATCGATACAT
1 TGTATCGATACAT
155436 ACTTGCTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:156175 original size:21 final size:21
Alignment explanation
Indices: 156134--156177 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
156124 CTCTCCTTTA
* *
156134 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
156155 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
156176 TC
1 TC
156178 ATATCAAAAA
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:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:157999 original size:13 final size:13
Alignment explanation
Indices: 157981--158019 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
157971 ATAATCACCC
157981 TGTATCGATACAA
1 TGTATCGATACAA
*
157994 TGTATCAATACAA
1 TGTATCGATACAA
158007 TGTATCGATACAA
1 TGTATCGATACAA
158020 AGAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:158238 original size:8 final size:8
Alignment explanation
Indices: 158225--158249 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
158215 CATCATTCAA
158225 CACAAAAT
1 CACAAAAT
158233 CACAAAAT
1 CACAAAAT
158241 CACAAAAT
1 CACAAAAT
158249 C
1 C
158250 TAATCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:160121 original size:15 final size:15
Alignment explanation
Indices: 160101--160131 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
160091 ATTTCGTTTG
*
160101 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
160116 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
160131 G
1 G
160132 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:161964 original size:21 final size:21
Alignment explanation
Indices: 161935--161979 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
161925 AAGTTTTCAT
*
161935 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
161955 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
161977 TTT
1 TTT
161980 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:170042 original size:20 final size:21
Alignment explanation
Indices: 169988--170046 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
169978 ATTTGGCACA
* *
169988 ATGTATCGATAC-AATTCTTC
1 ATGTATCGATACAAAGTCGTC
170008 ATGTATCGATACAAAGT-GTC
1 ATGTATCGATACAAAGTCGTC
170028 ATGTATCGATACAAA-TCGT
1 ATGTATCGATACAAAGTCGT
170047 GGTAGGGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.89
21 3 0.09
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
ATGTATCGATACAAAGTCGTC
Found at i:170114 original size:19 final size:19
Alignment explanation
Indices: 170069--170157 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 19
170059 ACTGCTAGTT
*
170069 TCATGTATTGATACAATTG-
1 TCATGTATCGATACAA-TGA
170088 TGCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
170108 TCATGTATCGATAC-A--A
1 TCATGTATCGATACAATGA
*
170124 TC---TATCAATACAATGA
1 TCATGTATCGATACAATGA
170140 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
170158 TATCGATACA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
13 8 0.14
14 1 0.02
16 6 0.10
18 1 0.02
19 28 0.47
20 15 0.25
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:170135 original size:32 final size:32
Alignment explanation
Indices: 170091--170198 Score: 155
Period size: 32 Copynumber: 3.3 Consensus size: 32
170081 ACAATTGTGC
170091 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAATGATCATGTATCGATACA
* *
170123 ATCTATCAATACAATGATCATGTATCGATACA
1 ATGTATCGATACAATGATCATGTATCGATACA
* *
170155 ATGTATCGATACAAAGCATAATAG-ATCGATACA
1 ATGTATCGATACAATG-ATCAT-GTATCGATACA
170188 ATGTATCGATA
1 ATGTATCGATA
170199 TGTGTATCGA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 43 0.63
33 24 0.35
34 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAATGATCATGTATCGATACA
Found at i:170160 original size:13 final size:13
Alignment explanation
Indices: 170142--170168 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
170132 TACAATGATC
170142 ATGTATCGATACA
1 ATGTATCGATACA
170155 ATGTATCGATACA
1 ATGTATCGATACA
170168 A
1 A
170169 AGCATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:171654 original size:31 final size:32
Alignment explanation
Indices: 171618--171679 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
171608 TTCAACAATT
*
171618 TGTATCGATACATAAGTTTTG-ATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
171649 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
171680 TAATTGCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:171673 original size:19 final size:19
Alignment explanation
Indices: 171617--171682 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
171607 ATTCAACAAT
*
171617 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
171636 TTG-ATCGATAC---A--A
1 TTGTATCGATACATAAGTA
171649 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
171667 TTGTATCGATACATAA
1 TTGTATCGATACATAA
171683 TTGCTACTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
12 2 0.05
13 8 0.21
15 1 0.03
16 1 0.03
18 9 0.23
19 18 0.46
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:171738 original size:33 final size:33
Alignment explanation
Indices: 171701--171767 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
171691 GCCAAGGAAA
***
171701 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
171734 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
171767 T
1 T
171768 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:171739 original size:13 final size:13
Alignment explanation
Indices: 171721--171746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171711 CATTTTTCTG
171721 TGTATCGATACAT
1 TGTATCGATACAT
171734 TGTATCGATACAT
1 TGTATCGATACAT
171747 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:174162 original size:51 final size:53
Alignment explanation
Indices: 174098--174439 Score: 156
Period size: 52 Copynumber: 6.5 Consensus size: 53
174088 AGTTTCTCAA
* * * *
174098 TTCTCCACAATCGGGGATATTCCAACTCCAATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
* * **
174149 TT-TTCTATAATCGGGGATACTCTAACTCTGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCAATTTTATTTCC-AAAAACACCAAT
** * * *** * * *
174203 TTCTTCACAATCGGGGATACTCCAAC-CC-CGTTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCAATTTTAT-TTC-CAAAAACACCAAT
** ** * * * *
174256 CCCGTT-A-TTTCTGAGGGGATACTCCAACCCCAGTTTTA--TCGCTAAAACACTAAT
1 TTC-TTCACAATC---GGGGATACTCCAACTCCAATTTTATTTC-CAAAAACACCAAT
** * *
174310 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCAATTTTATTTCCAAAAACACCAA-T
* * *
174363 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
*
174415 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
174440 CTCGTTATTT
Statistics
Matches: 214, Mismatches: 51, Indels: 51
0.68 0.16 0.16
Matches are distributed among these distances:
50 4 0.02
51 31 0.14
52 86 0.40
53 34 0.16
54 33 0.15
55 21 0.10
56 2 0.01
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAAT
Done.