Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006286.1 Hibiscus syriacus cultivar Beakdansim tig00015006_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 181793
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2220 original size:16 final size:16
Alignment explanation
Indices: 2199--2234 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2189 GTTGATGGAA
2199 AAAGGCTACGTGAGGG
1 AAAGGCTACGTGAGGG
2215 AAAGGCTACGTGAGGG
1 AAAGGCTACGTGAGGG
2231 AAAG
1 AAAG
2235 CCTTAGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.42, T:0.11
Consensus pattern (16 bp):
AAAGGCTACGTGAGGG
Found at i:5940 original size:18 final size:18
Alignment explanation
Indices: 5919--5956 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5909 CCTTACACAC
5919 TTTGCCACAACAACACCA
1 TTTGCCACAACAACACCA
* *
5937 TTTGCCACGACAACGCCA
1 TTTGCCACAACAACACCA
5955 TT
1 TT
5957 CATACTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (18 bp):
TTTGCCACAACAACACCA
Found at i:6525 original size:4 final size:4
Alignment explanation
Indices: 6516--7740 Score: 2201
Period size: 4 Copynumber: 307.0 Consensus size: 4
6506 TGATAAATAC
** * *
6516 TGTA TGTA TGTA TGTA TACA TGTA TGTA TGCA TGTA TGTA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
6564 TGTA TGCA TGTA TGTA TGCA TGTA TGCA TGTA TGTA TGCA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
6612 TGCATA TGCA TGTA TGTA TGTA TGTCA TGTA TGCA TGTA TGTA TGTA TGTA
1 TG--TA TGTA TGTA TGTA TGTA TGT-A TGTA TGTA TGTA TGTA TGTA TGTA
* *
6663 TGTA TGTA TGCA TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6711 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6759 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6807 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6855 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6903 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6951 TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
6997 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7045 TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7091 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7139 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
7187 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGTA TGTA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
7235 TGTA TGCA TGTA TGTA TGCA TGTA TGTA TGCA TGTA TGCA TGTA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7283 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7331 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7379 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7427 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7475 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7523 TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7569 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7617 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7665 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7713 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA
7741 GATGGAGATC
Statistics
Matches: 1174, Mismatches: 38, Indels: 18
0.95 0.03 0.01
Matches are distributed among these distances:
2 6 0.01
4 1161 0.99
5 4 0.00
6 3 0.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:9483 original size:2 final size:2
Alignment explanation
Indices: 9476--9507 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9466 GCATCAGTAA
9476 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
9508 GATCAACTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10062 original size:13 final size:13
Alignment explanation
Indices: 10041--10075 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
10031 AACCGGAATG
*
10041 TCATCACGACCCA
1 TCATAACGACCCA
10054 TCATAACGACCCA
1 TCATAACGACCCA
10067 TCATAACGA
1 TCATAACGA
10076 GTATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (13 bp):
TCATAACGACCCA
Found at i:13738 original size:60 final size:60
Alignment explanation
Indices: 13645--13759 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
13635 TGTCCCCAAA
* * * *
13645 CTATGATTCTCATTTTAAATTGGTCCCTAAACTTTTGGA-CATTCTAATTTCATCCTCAAC
1 CTATGACTCTCATTCTAAATTGGTCCCTAAACTTTTAGATC-TTCCAATTTCATCCTCAAC
13705 CTATGACTCTCATTCTAAATTGGTCTCC-AAACTTTTAGATCTTCCAATTTCATCC
1 CTATGACTCTCATTCTAAATTGGTC-CCTAAACTTTTAGATCTTCCAATTTCATCC
13760 ATAAATTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 46 0.94
61 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (60 bp):
CTATGACTCTCATTCTAAATTGGTCCCTAAACTTTTAGATCTTCCAATTTCATCCTCAAC
Found at i:14137 original size:21 final size:21
Alignment explanation
Indices: 14111--14150 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14101 TTTCATTAAT
14111 ATTTAAATTTAGA-ATTAATTA
1 ATTTAAATTTA-ATATTAATTA
*
14132 ATTTAATTTTAATATTAAT
1 ATTTAAATTTAATATTAAT
14151 AAATGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTAAATTTAATATTAATTA
Found at i:14371 original size:30 final size:31
Alignment explanation
Indices: 14312--14374 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
14302 AAAATATATG
14312 TTTTGATCATTTTATTTTTATTCTTGTCTTA
1 TTTTGATCATTTTATTTTTATTCTTGTCTTA
*
14343 TTTTGGTCACTTTTATTTTTA-T-TTGTCTTA
1 TTTTGATCA-TTTTATTTTTATTCTTGTCTTA
14373 TT
1 TT
14375 ATGAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.33
31 9 0.30
32 11 0.37
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.68
Consensus pattern (31 bp):
TTTTGATCATTTTATTTTTATTCTTGTCTTA
Found at i:14486 original size:31 final size:30
Alignment explanation
Indices: 14441--14536 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
14431 AAAAATTGTT
* *
14441 AAATTCTAACTTAACCTTAAAACTTTAGACA
1 AAATACTAATTTAACCTT-AAACTTTAGACA
* * * * *
14472 AAATACTAGTTTAACCATAAATTTTAAATA
1 AAATACTAATTTAACCTTAAACTTTAGACA
* *
14502 AAATATTAATTTAATCTTTAAACTTT-GACA
1 AAATACTAATTTAA-CCTTAAACTTTAGACA
14532 AAATA
1 AAATA
14537 TCAATTTGAC
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
30 28 0.56
31 22 0.44
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATACTAATTTAACCTTAAACTTTAGACA
Found at i:32045 original size:70 final size:70
Alignment explanation
Indices: 31963--32103 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 70
31953 AATATTAAAA
* * * *
31963 CCTTTCAATTTAATCATTAAACTTTTGAATTGTTCCTGTTTTTATCACTCTCTCATTAAATAGTT
1 CCTTTCAATTTAATCATTAAACTTTTGAATTATTCCTATTTTGATAACTCTCTCATTAAATAGTT
32028 AACGT
66 AACGT
32033 CCTTTCAATTTAATCATTAAACTTTTGAATTATTCCTATTTTGATAACTCTCTCATTAAATAGTT
1 CCTTTCAATTTAATCATTAAACTTTTGAATTATTCCTATTTTGATAACTCTCTCATTAAATAGTT
32098 AACGT
66 AACGT
32103 C
1 C
32104 ATTATGACAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.46
Consensus pattern (70 bp):
CCTTTCAATTTAATCATTAAACTTTTGAATTATTCCTATTTTGATAACTCTCTCATTAAATAGTT
AACGT
Found at i:33736 original size:15 final size:16
Alignment explanation
Indices: 33705--33738 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33695 AAACCTGATC
*
33705 TAAATTAGCTAATCAA
1 TAAATTAGATAATCAA
33721 TAAATTAGAT-ATCAA
1 TAAATTAGATAATCAA
33736 TAA
1 TAA
33739 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (16 bp):
TAAATTAGATAATCAA
Found at i:34129 original size:20 final size:21
Alignment explanation
Indices: 34092--34144 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
34082 TGAAAATTAT
**
34092 AAATTATAAATTTTATAAATA
1 AAATTATAAATTAAATAAATA
34113 AAATTAT-AATTAAATAAAATA
1 AAATTATAAATTAAAT-AAATA
*
34134 TAATTTATAAA
1 -AAATTATAAA
34145 ATAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 6 0.23
23 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTATAAATTAAATAAATA
Found at i:34137 original size:15 final size:15
Alignment explanation
Indices: 34107--34147 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
34097 ATAAATTTTA
34107 TAAATAAAATTATAAT
1 TAAATAAAA-TATAAT
34123 TAAATAAAATATAAT
1 TAAATAAAATATAAT
*
34138 T-TATAAAATA
1 TAAATAAAATA
34148 ATTTTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATAAAATATAAT
Found at i:34187 original size:35 final size:33
Alignment explanation
Indices: 34092--34201 Score: 121
Period size: 35 Copynumber: 3.1 Consensus size: 33
34082 TGAAAATTAT
**
34092 AAATTATAAATTTTATAAATAAAATTATAATTAAA
1 AAATTAT-AATTTTA-AAATAATTTTATAATTAAA
*
34127 TAAAATATAATTTATAAAATAATTTTATGAATTAAA
1 -AAATTATAATTT-TAAAATAATTTTAT-AATTAAA
*
34163 AAATTATAATTTTAAAATATATTTTTATAATTTAA
1 AAATTATAATTTTAAAATA-A-TTTTATAATTAAA
34198 AAAT
1 AAAT
34202 AAATTACAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
34 7 0.11
35 37 0.57
36 21 0.32
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
AAATTATAATTTTAAAATAATTTTATAATTAAA
Found at i:37960 original size:20 final size:21
Alignment explanation
Indices: 37935--38027 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
37925 TTTTCCGAAT
*
37935 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
37955 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
37976 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
37996 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
38017 TCGCAATGCGA
1 TCGCAATGCGA
38028 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:37980 original size:41 final size:41
Alignment explanation
Indices: 37935--38027 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
37925 TTTTCCGAAT
37935 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
37976 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
38017 TCGCAATGCGA
1 TCGCAATGCGA
38028 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:38040 original size:41 final size:41
Alignment explanation
Indices: 37954--38088 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
37944 GAATAAGTAA
* *
37954 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
37995 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
38036 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
38077 TTCGCAACGCGA
1 ATCGCAACGCGA
38089 TACTAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:38041 original size:20 final size:19
Alignment explanation
Indices: 38016--38130 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
38006 AATTGGGAAA
*
38016 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* * *
38036 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTAC--T
*
38057 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAC-TACT
*
38077 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACT-ACT
* *
38097 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATACTAC-T
*
38117 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
38131 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 47 0.60
21 23 0.29
22 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (19 bp):
ATCGCAACGCGATACTACT
Found at i:38326 original size:22 final size:22
Alignment explanation
Indices: 38298--38340 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
38288 CACTCTCTCA
38298 CCATCTCCGACGAAATCCGTCC
1 CCATCTCCGACGAAATCCGTCC
*
38320 CCATCTCCGGCGAAATCCGTC
1 CCATCTCCGACGAAATCCGTC
38341 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.16, T:0.19
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCC
Found at i:38639 original size:20 final size:20
Alignment explanation
Indices: 38616--38658 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
38606 GATAGTCGAA
38616 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* **
38636 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATAGTCATT
38656 TTC
1 TTC
38659 AGAAACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:39998 original size:18 final size:18
Alignment explanation
Indices: 39977--40021 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
39967 TCCACTTCGG
*
39977 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
39995 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
40013 GAGCCATCA
1 GAGCCATCA
40022 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:40528 original size:20 final size:20
Alignment explanation
Indices: 40503--40571 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
40493 TAGTTTACTT
40503 TCGCAAC-ACGAAAATGACTA
1 TCGCAACGACG-AAATGACTA
* *
40523 TCGCAACGTCGAAATGGCTA
1 TCGCAACGACGAAATGACTA
* **
40543 TCGCAATG-CGAAATGAAAA
1 TCGCAACGACGAAATGACTA
40562 TCGCAACGAC
1 TCGCAACGAC
40572 AATTTCGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.38
20 23 0.57
21 2 0.05
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
TCGCAACGACGAAATGACTA
Found at i:40556 original size:19 final size:20
Alignment explanation
Indices: 40514--40569 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
40504 CGCAACACGA
40514 AAATGACTATCGCAACGTCG
1 AAATGACTATCGCAACGTCG
* *
40534 AAATGGCTATCGCAATG-CG
1 AAATGACTATCGCAACGTCG
**
40553 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
40570 ACAATTTCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGTCG
Found at i:40600 original size:32 final size:33
Alignment explanation
Indices: 40542--40632 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
40532 CGAAATGGCT
*
40542 ATCGCAATGCGAAATGAAAATCGCAACGACAAT
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
40575 TTCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
40607 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
40633 TGCGATTTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:40610 original size:14 final size:14
Alignment explanation
Indices: 40558--40615 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
40548 ATGCGAAATG
40558 AAAATCGCAACGAC
1 AAAATCGCAACGAC
** *
40572 AATTTCGCAATGCGAA
1 AAAATCGCAA--CGAC
40588 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
40604 AAAATCGCAACG
1 AAAATCGCAACG
40616 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.56
16 8 0.24
18 7 0.21
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:40668 original size:14 final size:14
Alignment explanation
Indices: 40649--40706 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
40639 TTGTGTTTCG
40649 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
40663 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
40679 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
40695 CGTTGCGATTTT
1 CGTTGCGATTTT
40707 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:40683 original size:32 final size:33
Alignment explanation
Indices: 40644--40722 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
40634 GCGATTTGTG
40644 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
40676 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
40709 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
40723 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:40721 original size:19 final size:19
Alignment explanation
Indices: 40665--40764 Score: 61
Period size: 19 Copynumber: 5.5 Consensus size: 19
40655 GATTTTGTCG
*
40665 TTGCGA-TTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
40683 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
40697 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
***
40716 TTGCGATAGCCATTTC-CA
1 TTGCGATTTTCATTTCGCA
** *
40734 CGTTGCGATAGTCATTTCGCG
1 --TTGCGATTTTCATTTCGCA
40755 TTGCGATTTT
1 TTGCGATTTT
40765 AAGTTTCGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.09
15 3 0.05
16 4 0.06
17 4 0.06
18 11 0.17
19 21 0.32
20 15 0.23
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:40741 original size:20 final size:19
Alignment explanation
Indices: 40716--40761 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
40706 TCATTTCGCA
40716 TTGCGATAGCCATTTCCACG
1 TTGCGATAGCCATTT-CACG
* *
40736 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCACG
40755 TTGCGAT
1 TTGCGAT
40762 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCACG
Found at i:42642 original size:14 final size:14
Alignment explanation
Indices: 42623--42658 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
42613 ATTGTTTAAT
42623 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
42637 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
42651 TGATTTGT
1 TGATTTGT
42659 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:42780 original size:19 final size:19
Alignment explanation
Indices: 42756--42823 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
42746 ATCGCAACGA
42756 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
42775 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
42794 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
42808 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
42824 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:42867 original size:20 final size:20
Alignment explanation
Indices: 42842--42899 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
42832 TCGCATTGCG
*
42842 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
42862 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
42882 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
42900 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:43980 original size:24 final size:24
Alignment explanation
Indices: 43953--44006 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
43943 GTATTCGAAA
* *
43953 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
43977 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
44001 TTTGAT
1 TTTGAT
44007 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:46519 original size:19 final size:19
Alignment explanation
Indices: 46497--46621 Score: 82
Period size: 19 Copynumber: 7.4 Consensus size: 19
46487 GGAAATTACT
46497 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
46516 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
46530 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
46549 ATCGCAA--C--ACT-AAT
1 ATCGCAATGCGAAATGAAA
*
46563 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
46582 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
46596 ATCGCAATGCGATATGAAA
1 ATCGCAATGCGAAATGAAA
46615 ATCGCAA
1 ATCGCAA
46622 CGTGAATTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 30
0.65 0.10 0.25
Matches are distributed among these distances:
14 27 0.34
15 4 0.05
16 5 0.06
17 5 0.06
18 4 0.05
19 34 0.43
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:46539 original size:33 final size:33
Alignment explanation
Indices: 46497--46623 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
46487 GGAAATTACT
46497 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
46530 ATCGCAATGCGAAATGAAAATCGCAAC-ACTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
* *
46562 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
46596 ATCGCAATGCGATATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
46624 TGAATTTAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
32 2 0.02
33 80 0.95
34 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:46630 original size:66 final size:66
Alignment explanation
Indices: 46498--46622 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
46488 GAAATTACTA
46498 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
46563 T
66 T
* *
46564 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGATATGAAAATCGCAAC
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAC
46623 GTGAATTTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
T
Found at i:46825 original size:14 final size:14
Alignment explanation
Indices: 46806--46842 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
46796 CATCAATTAA
46806 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
46820 ACAAATCACCTTTT
1 ACAAATCAACTTTT
46834 ACAAATCAA
1 ACAAATCAA
46843 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:48259 original size:21 final size:21
Alignment explanation
Indices: 48193--48259 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
48183 GTGAATCGGG
*
48193 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
48213 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
48235 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
48256 CTCT
1 CTCT
48260 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:48278 original size:42 final size:41
Alignment explanation
Indices: 48193--48311 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 41
48183 GTGAATCGGG
* * * *
48193 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
48235 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
48277 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGA
48312 AAGGCGAGTC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
41 4 0.06
42 54 0.84
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:50355 original size:20 final size:18
Alignment explanation
Indices: 50311--50368 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 18
50301 TCTTTTGGTT
50311 GAAATGAAATCGCAACGA
1 GAAATGAAATCGCAACGA
*
50329 GATAATGAGAATCGCAACGCG
1 GA-AATGA-AATCGCAACG-A
*
50350 GAAATGACTATCGCAACGA
1 GAAATGA-AATCGCAACGA
50369 TAGAATCGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 24 0.73
21 2 0.06
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (18 bp):
GAAATGAAATCGCAACGA
Found at i:50378 original size:14 final size:14
Alignment explanation
Indices: 50359--50395 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50349 GGAAATGACT
*
50359 ATCGCAACGATAGA
1 ATCGCAACGAGAGA
50373 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
50387 ATCGCAACG
1 ATCGCAACG
50396 CGAAATGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:50423 original size:47 final size:50
Alignment explanation
Indices: 50332--50453 Score: 151
Period size: 47 Copynumber: 2.4 Consensus size: 50
50322 GCAACGAGAT
* * *
50332 AATGAGAATCGCAACGCGGAAATGACTATCGCAACGATAGAATCGCAA-CG
1 AATGAGAATCGCAACGC-GAAATGACTATCGCAACCAGACAATCGCAACCG
**
50382 -A-GAGAATCGCAACGCGAAATGACTATCGTGACCAGACAATCGCAACGCG
1 AATGAGAATCGCAACGCGAAATGACTATCGCAACCAGACAATCGCAAC-CG
50431 AAATGAGAATCGCAACGCGAAAT
1 -AATGAGAATCGCAACGCGAAAT
50454 AAAAATCGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
47 25 0.40
48 14 0.23
49 3 0.05
51 1 0.02
52 19 0.31
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (50 bp):
AATGAGAATCGCAACGCGAAATGACTATCGCAACCAGACAATCGCAACCG
Found at i:50443 original size:19 final size:19
Alignment explanation
Indices: 50419--50469 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
50409 GTGACCAGAC
* *
50419 AATCGCAACGCGAAATGAG
1 AATCGCAACGCGAAATAAA
50438 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
*
50457 AATCGCAATGCGA
1 AATCGCAACGCGA
50470 TTTTTGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:50501 original size:19 final size:19
Alignment explanation
Indices: 50465--50509 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
50455 AAAATCGCAA
*
50465 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
50484 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
50503 TGCGATT
1 TGCGATT
50510 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:51087 original size:20 final size:20
Alignment explanation
Indices: 51062--51110 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
51052 TATGTAAATT
51062 GCGTTGCGAAAGTCAGAATC
1 GCGTTGCGAAAGTCAGAATC
*
51082 GCGTTGCGAAAGTCAGTATC
1 GCGTTGCGAAAGTCAGAATC
*
51102 TCGTTGCGA
1 GCGTTGCGA
51111 TTTTGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAGAATC
Found at i:51171 original size:41 final size:41
Alignment explanation
Indices: 51079--51173 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
51069 GAAAGTCAGA
* * * * ** *
51079 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
51120 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
51162 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
51174 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:51263 original size:21 final size:21
Alignment explanation
Indices: 51223--51263 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
51213 ACTGTATACC
**
51223 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
51244 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
51264 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:62935 original size:22 final size:22
Alignment explanation
Indices: 62904--62956 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
62894 ACGTAAGTCT
62904 TTCGGGACATATACAT-AGGTCA
1 TTCGGGACA-ATACATGAGGTCA
*
62926 TTTGGGAC-ATACATGAGGTCA
1 TTCGGGACAATACATGAGGTCA
62947 TTCGGGACAA
1 TTCGGGACAA
62957 ATTTCATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 13 0.48
22 8 0.30
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
TTCGGGACAATACATGAGGTCA
Found at i:63196 original size:3 final size:3
Alignment explanation
Indices: 63190--63217 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
63180 ATAATATTGT
63190 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
63218 GTGAATGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:64910 original size:28 final size:28
Alignment explanation
Indices: 64870--64929 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
64860 TCTGTTAGGT
*
64870 AAAATTACGAAAATACCCTTATA-TGATA
1 AAAATTACAAAAATACCCTTATATTG-TA
*
64898 AAAATTACAAAAATACCTTTATATTGTA
1 AAAATTACAAAAATACCCTTATATTGTA
64926 AAAA
1 AAAA
64930 GACAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATTACAAAAATACCCTTATATTGTA
Found at i:66059 original size:35 final size:35
Alignment explanation
Indices: 66001--66138 Score: 145
Period size: 35 Copynumber: 3.9 Consensus size: 35
65991 AAGTCTCTGC
*
66001 AGGTTCAGCTCGATCAAACTGGTAATTTCTTATAT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
* * ****
66036 AGGTTCAGAC-CGATAAAATTGGTAATTCCTTGCGGC
1 AGGTTCAG-CTCGATCAAACTGGTAATTCCTT-ATAT
*
66072 ATGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
* *
66107 AGGTTCAGACT-GATCGAACTGGTAAGTCCTTA
1 AGGTTCAG-CTCGATCAAACTGGTAATTCCTTA
66139 CGGATCTAAG
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
35 53 0.65
36 29 0.35
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (35 bp):
AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
Found at i:66130 original size:71 final size:71
Alignment explanation
Indices: 66003--66137 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
65993 GTCTCTGCAG
* * *
66003 GTTCAGCTCGATCAAACTGGTAATTTCTTATATAGGTTCAGACCGATAAAATTGGTAATTCCTTG
1 GTTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATAAAACTGGTAAGTCCTTG
66068 CGGCAT
66 CGGCAT
* **
66074 GTTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACTGATCGAACTGGTAAGTCCTT
1 GTTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATAAAACTGGTAAGTCCTT
66138 ACGGATCTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (71 bp):
GTTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATAAAACTGGTAAGTCCTTG
CGGCAT
Found at i:67030 original size:19 final size:19
Alignment explanation
Indices: 67006--67078 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
66996 GAATGCAATT
67006 AGTGCATCGATGCACCAGA
1 AGTGCATCGATGCACCAGA
**
67025 AGTGCATCGATGCATGA-A
1 AGTGCATCGATGCACCAGA
** *
67043 GAGTGCATCGATGCATAAGG
1 -AGTGCATCGATGCACCAGA
67063 AGTGCATCGATGCACC
1 AGTGCATCGATGCACC
67079 TACTTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.02
19 45 0.98
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (19 bp):
AGTGCATCGATGCACCAGA
Found at i:67892 original size:20 final size:21
Alignment explanation
Indices: 67833--67892 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
67823 GTTCTTAAGG
67833 AGTGGTCCTTCGGGACATATAC
1 AGTGGTCCTTCGGGACA-ATAC
* * *
67855 AGTGGTTCTTTGGAACAAT-C
1 AGTGGTCCTTCGGGACAATAC
*
67875 ATTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
67893 ATATTCAGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 15 0.48
21 2 0.06
22 14 0.45
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (21 bp):
AGTGGTCCTTCGGGACAATAC
Found at i:72370 original size:81 final size:82
Alignment explanation
Indices: 72199--72412 Score: 277
Period size: 81 Copynumber: 2.6 Consensus size: 82
72189 AAACTGCGTC
* * * * * *
72199 CAATAGGGCTTACCTTAAGCACACAGCAAAAAGGAAGCCAACCTAAGGATAGGCTTTGGGGCCTG
1 CAATAGGGCTTACCCTAAGCACACA--ACAAAGGGAGCCAACATAAGGATAGGCGTTGGAGCCTG
**
72264 TATCCTTAAGTTTGTAAAT
64 TATCCTTAAGTCCGTAAAT
*
72283 CAATAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACATGAGGATAGGCGTT-GAGCCTGTA
1 CAATAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACATAAGGATAGGCGTTGGAGCCTGTA
*
72347 TCCTTAAGTCCGTAAGT
66 TCCTTAAGTCCGTAAAT
* * *
72364 CAATAGGTCTTACCCTAAGCACACAGCAAAGGGAGCCAACCTAATGGAT
1 CAATAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACATAA-GGAT
72413 CATCTTGGGG
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 62 0.54
82 29 0.25
84 24 0.21
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (82 bp):
CAATAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACATAAGGATAGGCGTTGGAGCCTGTA
TCCTTAAGTCCGTAAAT
Found at i:75186 original size:27 final size:27
Alignment explanation
Indices: 75156--75207 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
75146 AAAGTTCTGG
*
75156 TCAATAGTGGTCAACACCGGTCAACGT
1 TCAACAGTGGTCAACACCGGTCAACGT
* *
75183 TCAACAGTTGTCAACGCCGGTCAAC
1 TCAACAGTGGTCAACACCGGTCAAC
75208 AGTCGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (27 bp):
TCAACAGTGGTCAACACCGGTCAACGT
Found at i:77463 original size:81 final size:82
Alignment explanation
Indices: 77323--77507 Score: 318
Period size: 81 Copynumber: 2.3 Consensus size: 82
77313 CACACGGTAA
* *
77323 AAAGGAAGCCAACCTAAGGATAGGCTTTGGGGCCTGTATCCTTAAGTCCGTAAATCAATAGGGAT
1 AAAGGGAGCCAACCTAAGGATAGGCTTTGGAGCCTGTATCCTTAAGTCCGTAAATCAATAGGGAT
77388 TACCCTAAGTACACAGC
66 TACCCTAAGTACACAGC
* *
77405 AAAGGGAGCCAACCTAAGGATAGGCTTT-GAGCCTGTATCCTTAAGTCCGTAAGTCAATAGGGCT
1 AAAGGGAGCCAACCTAAGGATAGGCTTTGGAGCCTGTATCCTTAAGTCCGTAAATCAATAGGGAT
77469 TACCCTAAGTACACAGC
66 TACCCTAAGTACACAGC
77486 AAAGGGAGCCAACCTAATGGAT
1 AAAGGGAGCCAACCTAA-GGAT
77508 CATCTTGGGG
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 67 0.68
82 31 0.32
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (82 bp):
AAAGGGAGCCAACCTAAGGATAGGCTTTGGAGCCTGTATCCTTAAGTCCGTAAATCAATAGGGAT
TACCCTAAGTACACAGC
Found at i:80267 original size:27 final size:27
Alignment explanation
Indices: 80228--80289 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
80218 AAAGTTCTGA
* *
80228 TCAACAGAGGTCAACACCGGTCAACGT
1 TCAACAGTGGTCAACACCGGTCAACGG
* *
80255 TCAACAGTTGTCAACGCCGGTCAACGG
1 TCAACAGTGGTCAACACCGGTCAACGG
80282 TCAACAGT
1 TCAACAGT
80290 CGATCGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.18
Consensus pattern (27 bp):
TCAACAGTGGTCAACACCGGTCAACGG
Found at i:88204 original size:27 final size:27
Alignment explanation
Indices: 88166--88219 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
88156 CTATCACCAC
*
88166 TTTGAACTTGAAACTCCATAACATCAA
1 TTTGAACTTGAAACTCCACAACATCAA
* *
88193 TTTGAACTTGAAAGTCCACAGCATCAA
1 TTTGAACTTGAAACTCCACAACATCAA
88220 GATCTTCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TTTGAACTTGAAACTCCACAACATCAA
Found at i:89230 original size:21 final size:22
Alignment explanation
Indices: 89206--89253 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
89196 TTTCCTATAG
89206 TTTTATAAAAGTTTT-CTTT-T
1 TTTTATAAAAGTTTTACTTTGT
*
89226 CTTTT-TCAAAGTTTTACTTTGT
1 -TTTTATAAAAGTTTTACTTTGT
89248 TTTTAT
1 TTTTAT
89254 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 12 0.52
22 2 0.09
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTATAAAAGTTTTACTTTGT
Found at i:89908 original size:18 final size:18
Alignment explanation
Indices: 89882--89924 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
89872 TTTAAATTTA
* * *
89882 TTTAATTAATTATTTTCT
1 TTTATTTAATTATTATAT
*
89900 TTTATTTAATTCTTATAT
1 TTTATTTAATTATTATAT
89918 TTTATTT
1 TTTATTT
89925 TAAAAACAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:91145 original size:23 final size:23
Alignment explanation
Indices: 91119--91178 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
91109 TAAGTAATTA
**
91119 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
91142 ACCTATTACGTTATGTAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
91165 ACCTAATACGTTAT
1 ACCTATTACATTAT
91179 TATGCTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:91241 original size:23 final size:23
Alignment explanation
Indices: 91206--91249 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
91196 CCAGTAATTA
**
91206 ACCTATTTTATTATATAAGTGTT
1 ACCTATTACATTATATAAGTGTT
91229 ACCTATTACATTATATAAGTG
1 ACCTATTACATTATATAAGTG
91250 GTATCTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGTT
Found at i:91258 original size:87 final size:87
Alignment explanation
Indices: 91111--91352 Score: 349
Period size: 87 Copynumber: 2.8 Consensus size: 87
91101 TAACAAATTA
* *
91111 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATGTAAGCGCTACCTAATACGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGT
91176 TATTATGCTTGATAATGTTTCC
66 TATTATGCTTGATAATGTTTCC
* * * * * *
91198 AGTAATTAACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTATCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGT
*
91263 TATTGTGCTTGATAATGTTTCC
66 TATTATGCTTGATAATGTTTCC
* ** * * *
91285 AGTAATTAACCTATTTTATTATATAAGCGCAACCTATTTTATTATATAAACGCTACCTATTACAT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGT
91350 TAT
66 TAT
91353 ATAAGCGCTA
Statistics
Matches: 134, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 134 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATACGT
TATTATGCTTGATAATGTTTCC
Found at i:91265 original size:23 final size:23
Alignment explanation
Indices: 91215--91259 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91205 AACCTATTTT
* *
91215 ATTATATAAGTGTTACCTATTAC
1 ATTATATAAGTGGTACCTAATAC
*
91238 ATTATATAAGTGGTATCTAATA
1 ATTATATAAGTGGTACCTAATA
91260 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATTATATAAGTGGTACCTAATAC
Found at i:91322 original size:23 final size:23
Alignment explanation
Indices: 91292--91366 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
91282 TCCAGTAATT
91292 AACCTATTTTATTATATAAGCGC
1 AACCTATTTTATTATATAAGCGC
*
91315 AACCTATTTTATTATATAAACGC
1 AACCTATTTTATTATATAAGCGC
* **
91338 TACCTATTACATTATATAAGCGC
1 AACCTATTTTATTATATAAGCGC
*
91361 TACCTA
1 AACCTA
91367 ATATGTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (23 bp):
AACCTATTTTATTATATAAGCGC
Found at i:91375 original size:23 final size:23
Alignment explanation
Indices: 91293--91375 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
91283 CCAGTAATTA
* *
91293 ACCTATTTTATTATATAAGCGCA
1 ACCTATTATATTATATAAGCGCT
* *
91316 ACCTATTTTATTATATAAACGCT
1 ACCTATTATATTATATAAGCGCT
*
91339 ACCTATTACATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
* *
91362 ACCTAATATGTTAT
1 ACCTATTATATTAT
91376 TGTGTTTGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:91432 original size:110 final size:110
Alignment explanation
Indices: 91205--91452 Score: 372
Period size: 110 Copynumber: 2.3 Consensus size: 110
91195 TCCAGTAATT
* * * * *
91205 AACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTATCTAATATGTTATTGTG
1 AACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTG
91270 CTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGC
66 CTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGC
*
91315 AACCTATTTTATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTG
1 AACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTG
* *
91380 TTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGTG-
66 CTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGC
* ** *
91424 ATATCTATTGCATTATATAAGCGGTACCT
1 A-ACCTATTTTATTATATAAGCGCTACCT
91453 GTAACACCCC
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
109 1 0.01
110 123 0.99
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (110 bp):
AACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTG
CTTGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGC
Found at i:92343 original size:23 final size:23
Alignment explanation
Indices: 92316--92398 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
92306 TCATATAAAT
*
92316 TGCACCTAAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCGCGTAGAAA
92339 TGCACCGAAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCGCGTAGAAA
* *
92362 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAA
* *
92385 TGCACAGTAGTGCC
1 TGCACCGAAGTGCC
92399 ATATAAGATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.17
Consensus pattern (23 bp):
TGCACCGAAGTGCCGCGTAGAAA
Found at i:93322 original size:35 final size:36
Alignment explanation
Indices: 93262--93332 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
93252 TTCATTTATG
*
93262 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
93298 GGGGAATCGATACCCCCCA-AGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
93333 CCTGCACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
Found at i:96949 original size:21 final size:22
Alignment explanation
Indices: 96930--96971 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
96920 AATTTCCCTT
96930 TAGGGGGGAATCGGTTCCCTAC
1 TAGGGGGGAATCGGTTCCCTAC
* *
96952 TATGGGGGTATCGGTTCCCT
1 TAGGGGGGAATCGGTTCCCT
96972 CATGACATTC
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:0.14, C:0.21, G:0.36, T:0.29
Consensus pattern (22 bp):
TAGGGGGGAATCGGTTCCCTAC
Found at i:98062 original size:23 final size:23
Alignment explanation
Indices: 98036--98146 Score: 91
Period size: 23 Copynumber: 4.8 Consensus size: 23
98026 AGCTCATATA
*
98036 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * *
98059 AATTTGTC-TCGAAAG-ACCGCGTAG
1 AA-TTG-CACCG-AAGTGCCACGTAG
* **
98083 AAATGCACCGAAGTGCCGGGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
98106 AAATGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
98129 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
98147 TATAAGATTG
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
22 4 0.06
23 49 0.70
24 13 0.19
25 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:98584 original size:18 final size:20
Alignment explanation
Indices: 98547--98584 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
98537 ATTCATGTCT
*
98547 TATTCTTATATCATCATATA
1 TATTCTTATAGCATCATATA
98567 TATT-TTATAGCA-CATATA
1 TATTCTTATAGCATCATATA
98585 AGCACATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTCTTATAGCATCATATA
Found at i:99054 original size:36 final size:36
Alignment explanation
Indices: 99007--99078 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
98997 TTCATTTATG
*
99007 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
**
99043 GGGGAATCGATACCCCCCCTAGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
99079 CCTGCACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGAGGGGAATCTGTTCCC
Found at i:99921 original size:23 final size:23
Alignment explanation
Indices: 99895--99945 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
99885 CAAGTAATTA
**
99895 ACCTATTTTATTATATAAGT-GCT
1 ACCTATTACATTATATAAGTAG-T
99918 ACCTATTACATTATATAAGTAGT
1 ACCTATTACATTATATAAGTAGT
99941 ACCTA
1 ACCTA
99946 ATATGTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTAGT
Found at i:113985 original size:12 final size:12
Alignment explanation
Indices: 113970--114004 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
113960 ATTTAAAAAA
113970 AAATAATATTAT
1 AAATAATATTAT
113982 AAATAATATTTAT
1 AAATAATA-TTAT
113995 AGAATAATAT
1 A-AATAATAT
114005 AATTAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.38
13 6 0.29
14 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
AAATAATATTAT
Found at i:114009 original size:29 final size:28
Alignment explanation
Indices: 113946--114073 Score: 80
Period size: 29 Copynumber: 4.4 Consensus size: 28
113936 ATTTTTGGTG
* * *
113946 ATAATTAGAAA-AATATTTA-AAAAAAA
1 ATAATTATAAATAATATTTATAAATAAT
113972 ATAATATTATAAATAATATTTATAGAATAAT
1 AT-A-ATTATAAATAATATTTATA-AATAAT
* ** *
114003 ATAATTAGAAAATTAATATAAATAAATGAT
1 ATAATTA-TAAA-TAATATTTATAAATAAT
* * * *
114033 ACCATTTATAAATAATAATTATACATTAAT
1 A-TAATTATAAATAATATTTATA-AATAAT
114063 ATAATTATAAA
1 ATAATTATAAA
114074 AAAAATATTA
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
26 2 0.03
27 1 0.01
28 7 0.09
29 28 0.37
30 19 0.25
31 19 0.25
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (28 bp):
ATAATTATAAATAATATTTATAAATAAT
Found at i:114072 original size:22 final size:23
Alignment explanation
Indices: 114014--114072 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
114004 TAATTAGAAA
*
114014 ATTAATATAAATA-AATGATACC
1 ATTAATATAATTATAATGATACC
* * *
114036 ATTTATA-AATAATAATTATA-C
1 ATTAATATAATTATAATGATACC
114057 ATTAATATAATTATAA
1 ATTAATATAATTATAA
114073 AAAAAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAATATAATTATAATGATACC
Found at i:116106 original size:15 final size:15
Alignment explanation
Indices: 116086--116121 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
116076 TATTTAGCTA
*
116086 GGCGGGCGGATGTGG
1 GGCGGGCGGATGCGG
116101 GGCGGGCGGATGCGG
1 GGCGGGCGGATGCGG
116116 GGCGGG
1 GGCGGG
116122 TAAAGTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.17, G:0.69, T:0.08
Consensus pattern (15 bp):
GGCGGGCGGATGCGG
Found at i:116821 original size:15 final size:15
Alignment explanation
Indices: 116803--116843 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
116793 ATTATATATA
116803 GATGAAATATATGT-C
1 GATGAAAT-TATGTAC
116818 GATGAAATTATGTAC
1 GATGAAATTATGTAC
*
116833 AATGAAATTAT
1 GATGAAATTAT
116844 CTTTTTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (15 bp):
GATGAAATTATGTAC
Found at i:125544 original size:10 final size:10
Alignment explanation
Indices: 125515--125575 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
125505 GCTGTTGGAA
125515 AACCGGTTTG
1 AACCGGTTTG
*
125525 -ACCAGTTTTG
1 AACC-GGTTTG
125535 AACCGGTTTG
1 AACCGGTTTG
*
125545 -ACCGGTATG
1 AACCGGTTTG
125554 AACCGGTTTG
1 AACCGGTTTG
*
125564 -ACCGGTCTG
1 AACCGGTTTG
125573 AAC
1 AAC
125576 TGGGTTGGCC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 19 0.45
10 20 0.48
11 3 0.07
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:125557 original size:19 final size:19
Alignment explanation
Indices: 125515--125575 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
125505 GCTGTTGGAA
* *
125515 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTATG
125535 AACCGGTTTGACCGGTATG
1 AACCGGTTTGACCGGTATG
*
125554 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTATG
125573 AAC
1 AAC
125576 TGGGTTGGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
19 25 0.66
20 13 0.34
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTATG
Found at i:125604 original size:17 final size:17
Alignment explanation
Indices: 125579--125619 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
125569 TCTGAACTGG
* *
125579 GTTGGCCCGACCCGACT
1 GTTGACCCGACCCGACC
125596 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
125613 GTTGACC
1 GTTGACC
125620 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.41, G:0.27, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:125621 original size:7 final size:7
Alignment explanation
Indices: 125609--125652 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
125599 GACCCGACCC
125609 GACCGTT
1 GACCGTT
125616 GACCGTT
1 GACCGTT
125623 GACCGTT
1 GACCGTT
*
125630 AACCG-T
1 GACCGTT
125636 GACCGTT
1 GACCGTT
125643 GACCGTT
1 GACCGTT
125650 GAC
1 GAC
125653 TTTCTTTGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:125640 original size:20 final size:21
Alignment explanation
Indices: 125610--125649 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
125600 ACCCGACCCG
125610 ACCGTTGACCGTTGACCGTTA
1 ACCGTTGACCGTTGACCGTTA
125631 ACCG-TGACCGTTGACCGTT
1 ACCGTTGACCGTTGACCGTT
125650 GACTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (21 bp):
ACCGTTGACCGTTGACCGTTA
Found at i:132873 original size:20 final size:20
Alignment explanation
Indices: 132826--132870 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
132816 GCTGTTGGAA
* *
132826 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACCAGGTATG
132846 AACCGGTTTGACC-GGTATG
1 AACCGGTTTGACCAGGTATG
132865 AACCGG
1 AACCGG
132871 GTTGGCCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (20 bp):
AACCGGTTTGACCAGGTATG
Found at i:132896 original size:17 final size:17
Alignment explanation
Indices: 132871--132928 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
132861 TATGAACCGG
*
132871 GTTGGCCCGACCCGACT
1 GTTGACCCGACCCGACT
132888 GTTGACCCGACCCGA-T
1 GTTGACCCGACCCGACT
*
132904 CGTTGACCCGACCCGACC
1 -GTTGACCCGACCCGACT
132922 GTTGACC
1 GTTGACC
132929 GTTGACCGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.16, C:0.41, G:0.26, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:132942 original size:6 final size:7
Alignment explanation
Indices: 132918--132947 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
132908 GACCCGACCC
132918 GACCGTT
1 GACCGTT
132925 GACCGTT
1 GACCGTT
132932 GACCG-T
1 GACCGTT
132938 GACCGTT
1 GACCGTT
132945 GAC
1 GAC
132948 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:132942 original size:13 final size:14
Alignment explanation
Indices: 132918--132947 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
132908 GACCCGACCC
132918 GACCGTTGACCGTT
1 GACCGTTGACCGTT
132932 GACCG-TGACCGTT
1 GACCGTTGACCGTT
132945 GAC
1 GAC
132948 TTTCTTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:137090 original size:12 final size:12
Alignment explanation
Indices: 137073--137140 Score: 72
Period size: 12 Copynumber: 6.0 Consensus size: 12
137063 AAAATACGGT
*
137073 ATGAACAGTACC
1 ATGAACAATACC
137085 ATGAACAATA--
1 ATGAACAATACC
137095 ATGAACAATACC
1 ATGAACAATACC
* *
137107 GTGAATAATA-C
1 ATGAACAATACC
137118 -TGAACAATACC
1 ATGAACAATACC
*
137129 ATGAACAGTACC
1 ATGAACAATACC
137141 GAATGTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
10 18 0.38
11 2 0.04
12 27 0.57
ACGTcount: A:0.47, C:0.21, G:0.13, T:0.19
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:137101 original size:22 final size:22
Alignment explanation
Indices: 137073--137135 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
137063 AAAATACGGT
*
137073 ATGAACAGTACCATGAACAATA
1 ATGAACAATACCATGAACAATA
* *
137095 ATGAACAATACCGTGAATAATA
1 ATGAACAATACCATGAACAATA
*
137117 CTGAACAATACCATGAACA
1 ATGAACAATACCATGAACA
137136 GTACCGAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (22 bp):
ATGAACAATACCATGAACAATA
Found at i:137859 original size:22 final size:22
Alignment explanation
Indices: 137833--137879 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
137823 AGGCTATGAA
* * *
137833 ATTTGTCCCGAATGACCTCTGT
1 ATTTGTCCCAAAGGACCTATGT
137855 ATTTGTCCCAAAGGACCTATGT
1 ATTTGTCCCAAAGGACCTATGT
137877 ATT
1 ATT
137880 GTATTTGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (22 bp):
ATTTGTCCCAAAGGACCTATGT
Found at i:138454 original size:15 final size:16
Alignment explanation
Indices: 138434--138475 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
138424 CTATACAATG
*
138434 ATGTATAA-AATATTC
1 ATGTATAACAATATGC
*
138449 ATGTATAACACTATGC
1 ATGTATAACAATATGC
*
138465 ATGTATCACAA
1 ATGTATAACAA
138476 ATTAAATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (16 bp):
ATGTATAACAATATGC
Found at i:139530 original size:20 final size:22
Alignment explanation
Indices: 139505--139544 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
139495 TGTTGTATAT
139505 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
139525 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
139545 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:139696 original size:20 final size:20
Alignment explanation
Indices: 139673--139729 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
139663 GAAGGAAAGA
* **
139673 AGGATGCATGGATGCACAGG
1 AGGATGCATCGATGCACAAC
139693 AGGATGCATCGATGCACAAC
1 AGGATGCATCGATGCACAAC
139713 AGGATGCATCGATGCAC
1 AGGATGCATCGATGCAC
139730 TAAGTGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.16
Consensus pattern (20 bp):
AGGATGCATCGATGCACAAC
Found at i:141206 original size:19 final size:20
Alignment explanation
Indices: 141163--141210 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
141153 TCTAAATCCT
*
141163 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
141183 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
141202 TTTTCAAAA
1 TTTTCAAAA
141211 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:141224 original size:24 final size:23
Alignment explanation
Indices: 141188--141233 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
141178 TTTGGCTTTC
*
141188 AAAATCTATTTTTGTTTTCAAAAG
1 AAAATCTATTTTTATTTT-AAAAG
141212 AAAATC-ATTTTTTATTTTAAAA
1 AAAATCTA-TTTTTATTTTAAAA
141234 TTTGAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (23 bp):
AAAATCTATTTTTATTTTAAAAG
Found at i:142526 original size:20 final size:20
Alignment explanation
Indices: 142501--142572 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
142491 GCAGCCTTTG
*
142501 TGCATGGATGGAAAGAAGGA
1 TGCATGGATGCAAAGAAGGA
* *
142521 TGCATGGATGCACAGGAGGA
1 TGCATGGATGCAAAGAAGGA
* *
142541 TGCATCGATGCACAA-CAGGA
1 TGCATGGATGCA-AAGAAGGA
*
142561 TGCATCGATGCA
1 TGCATGGATGCA
142573 CTAAGTGCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (20 bp):
TGCATGGATGCAAAGAAGGA
Found at i:142573 original size:20 final size:20
Alignment explanation
Indices: 142517--142573 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
142507 GATGGAAAGA
* **
142517 AGGATGCATGGATGCACAGG
1 AGGATGCATCGATGCACAAC
142537 AGGATGCATCGATGCACAAC
1 AGGATGCATCGATGCACAAC
142557 AGGATGCATCGATGCAC
1 AGGATGCATCGATGCAC
142574 TAAGTGCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.16
Consensus pattern (20 bp):
AGGATGCATCGATGCACAAC
Found at i:144052 original size:19 final size:20
Alignment explanation
Indices: 144009--144056 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
143999 TCTAAATCAT
*
144009 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
144029 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
144048 TTTTCAAAA
1 TTTTCAAAA
144057 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:145220 original size:20 final size:22
Alignment explanation
Indices: 145195--145234 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
145185 TGTTGTATAT
145195 AGCCG-TTGGGGATG-TTTTAG
1 AGCCGTTTGGGGATGATTTTAG
145215 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
145235 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTAG
Found at i:145375 original size:20 final size:20
Alignment explanation
Indices: 145353--145419 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
145343 TTTGTGTATG
* *
145353 GATGGACAGAAGGATGCATG
1 GATGCACAGAAGGATGCATC
*
145373 GATGCACAGGAGGATGCATC
1 GATGCACAGAAGGATGCATC
145393 GATGCACA-ACAGGATGCATC
1 GATGCACAGA-AGGATGCATC
145413 GATGCAC
1 GATGCAC
145420 TAAGTGCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (20 bp):
GATGCACAGAAGGATGCATC
Found at i:146900 original size:19 final size:20
Alignment explanation
Indices: 146857--146904 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
146847 TCTAAATCCT
*
146857 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
146877 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
146896 TTTTCAAAA
1 TTTTCAAAA
146905 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:148273 original size:21 final size:21
Alignment explanation
Indices: 148226--148283 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 21
148216 TCGAAATGGA
148226 GTGCATGGATGCACTAGTGCAG
1 GTGCATGGATGCACTAGTG-AG
148248 GTGCATGGATGCACTGCAG-G-G
1 GTGCATGGATGCACT--AGTGAG
148269 GTGCATGGATGCACT
1 GTGCATGGATGCACT
148284 TTGACACCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 16 0.47
22 15 0.44
23 1 0.03
24 2 0.06
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (21 bp):
GTGCATGGATGCACTAGTGAG
Found at i:150073 original size:18 final size:18
Alignment explanation
Indices: 150038--150073 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
150028 TTACTCTAAC
*
150038 ACTTCTCCCTCTTATTAT
1 ACTTCTCCCCCTTATTAT
*
150056 ACTTCTCCCCCTTTTTAT
1 ACTTCTCCCCCTTATTAT
150074 TAAATCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (18 bp):
ACTTCTCCCCCTTATTAT
Found at i:152340 original size:22 final size:22
Alignment explanation
Indices: 152268--152351 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
152258 CATAACCTCC
* *
152268 AGGGGGTATCGATTCCCCTAC-
1 AGGGGGAATCGATTCCCCTTCA
* *
152289 GGGGAGGAATCGGTTCCCCTTCAA
1 AGGG-GGAATCGATTCCCCTTC-A
*
152313 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
152335 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
152352 TCTGCACCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.06
22 30 0.57
23 17 0.32
24 3 0.06
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:154130 original size:7 final size:7
Alignment explanation
Indices: 154118--154154 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
154108 GTCAAAGAAA
154118 GTCAACG
1 GTCAACG
154125 GTCAACG
1 GTCAACG
154132 GTC-ACG
1 GTCAACG
154138 GTCAACG
1 GTCAACG
154145 GTCAACG
1 GTCAACG
154152 GTC
1 GTC
154155 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:154140 original size:13 final size:14
Alignment explanation
Indices: 154118--154154 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
154108 GTCAAAGAAA
154118 GTCAACGGTCAACG
1 GTCAACGGTCAACG
154132 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
154145 GTCAACGGTC
1 GTCAACGGTC
154155 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:154166 original size:17 final size:17
Alignment explanation
Indices: 154124--154201 Score: 84
Period size: 17 Copynumber: 4.4 Consensus size: 17
154114 GAAAGTCAAC
*
154124 GGTCAACGGTCACGGTCAA
1 GGTCAACGGTC-GGGTC-A
*
154143 CGGTCAACGGTCGGGTCG
1 -GGTCAACGGTCGGGTCA
*
154161 GGTCAACGGTTGGGTCA
1 GGTCAACGGTCGGGTCA
* *
154178 GGTCAACAGTCGGGTTA
1 GGTCAACGGTCGGGTCA
154195 GGTCAAC
1 GGTCAAC
154202 CCGGTTCAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 36 0.71
19 4 0.08
20 11 0.22
ACGTcount: A:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCA
Found at i:154219 original size:19 final size:19
Alignment explanation
Indices: 154195--154245 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
154185 AGTCGGGTTA
*
154195 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
154214 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
154233 GTTCAAACCGGTT
1 GGTCAAACCGGTT
154246 TTCCAACAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:154233 original size:10 final size:10
Alignment explanation
Indices: 154197--154245 Score: 57
Period size: 9 Copynumber: 5.1 Consensus size: 10
154187 TCGGGTTAGG
*
154197 TCAACCCGGT
1 TCAAACCGGT
*
154207 TCAGACCGG-
1 TCAAACCGGT
154216 TCAAACCGGT
1 TCAAACCGGT
*
154226 TCAGACC-GT
1 TCAAACCGGT
154235 TCAAACCGGT
1 TCAAACCGGT
154245 T
1 T
154246 TTCCAACAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:160240 original size:12 final size:12
Alignment explanation
Indices: 160223--160250 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
160213 AACGGTCAAC
160223 GGTCAACGGTCG
1 GGTCAACGGTCG
160235 GGTCAACGGTCG
1 GGTCAACGGTCG
160247 GGTC
1 GGTC
160251 GGGTCAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:160252 original size:17 final size:17
Alignment explanation
Indices: 160216--160271 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
160206 GAAAGTCAAC
*
160216 GGTCAACGGTCAACGGTCG
1 GGTCAACGGTC--GGGTCG
160235 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
160252 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
160269 GGT
1 GGT
160272 GAACCCGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 24 0.69
19 11 0.31
ACGTcount: A:0.16, C:0.23, G:0.43, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:160300 original size:19 final size:19
Alignment explanation
Indices: 160276--160338 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
160266 TCGGGTGAAC
*
160276 CCGGTTCAGACCGATCAAA
1 CCGGTTCAGACCGGTCAAA
160295 CCGGTTCAGACCGGTCAAA
1 CCGGTTCAGACCGGTCAAA
160314 CCGGTTC-GAACCGGTCAAA
1 CCGGTTCAG-ACCGGTCAAA
160333 CCGGTT
1 CCGGTT
160339 TTCCAGCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
18 1 0.02
19 41 0.98
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.17
Consensus pattern (19 bp):
CCGGTTCAGACCGGTCAAA
Found at i:160316 original size:9 final size:9
Alignment explanation
Indices: 160285--160337 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
160275 CCCGGTTCAG
*
160285 ACCGATCAA
1 ACCGGTCAA
*
160294 ACCGGTTCAG
1 ACCGG-TCAA
160304 ACCGGTCAA
1 ACCGGTCAA
*
160313 ACCGGTTCGA
1 ACCGG-TCAA
160323 ACCGGTCAA
1 ACCGGTCAA
160332 ACCGGT
1 ACCGGT
160338 TTTCCAGCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 21 0.57
10 16 0.43
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:164918 original size:117 final size:118
Alignment explanation
Indices: 164698--164919 Score: 263
Period size: 117 Copynumber: 1.9 Consensus size: 118
164688 CTTTCAAATC
* *
164698 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGTTCGAAATCCTTCTTCAAGATTT
1 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCGAAATCCTTCTTCAACATTT
* * * * *
164763 CATTTTGATTTTCAAAATTCATTTTCGTTTTTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAAGTCATTTTAGCTTTCAAAAGAAGTTTGTTTAATTTG
* * * *
164816 AAAA-TTTCTTTTTCAA-AGTTTTCAAATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAACAT
1 AAAATTTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCGAAATCCTTCT-TCAACAT
** *
164878 TTCATTTTGATTTTC-CTAGTCTTCTTTAGCTTTCAAAAGAAG
64 TTCATTTTGATTTTCAAAAGTCAT-TTTAGCTTTCAAAAGAAG
164920 ATCACTTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
116 6 0.07
117 77 0.89
118 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCGAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAAGTCATTTTAGCTTTCAAAAGAAGTTTGTTTAATTTG
Found at i:169745 original size:32 final size:31
Alignment explanation
Indices: 169709--169786 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
169699 TTGGGGCCAT
169709 AGGGCCTACCTAAGAACACATCTTAGGGCCGC
1 AGGGCCTACCTAAGAA-ACATCTTAGGGCCGC
* * **
169741 AGGGCCTACCCAATAATGATCTTAGGGCCGC
1 AGGGCCTACCTAAGAAACATCTTAGGGCCGC
*
169772 AGAGCCTACCTAAGA
1 AGGGCCTACCTAAGA
169787 GTCACATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 25 0.64
32 14 0.36
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (31 bp):
AGGGCCTACCTAAGAAACATCTTAGGGCCGC
Found at i:169797 original size:31 final size:30
Alignment explanation
Indices: 169712--169797 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 30
169702 GGGCCATAGG
* *
169712 GCCTACCTAAGAACACATCTTAGGGCCGCAGG
1 GCCTACCTAAGATCACA--TTAGGGCCGCAGA
* * *
169744 GCCTACCCAATAATGATC-TTAGGGCCGCAGA
1 GCCTACCTAA-GATCA-CATTAGGGCCGCAGA
169775 GCCTACCTAAGAGTCACATTAGG
1 GCCTACCTAAGA-TCACATTAGG
169798 TCCATAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
30 2 0.05
31 28 0.67
32 9 0.21
33 2 0.05
34 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (30 bp):
GCCTACCTAAGATCACATTAGGGCCGCAGA
Found at i:172584 original size:22 final size:22
Alignment explanation
Indices: 172546--172588 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
172536 TCTGAAAAAA
172546 TTTACCAAACTAACACCCAAAT
1 TTTACCAAACTAACACCCAAAT
*
172568 TTTACACAAA-TAGCACCCAAA
1 TTTAC-CAAACTAACACCCAAA
172589 CAGAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (22 bp):
TTTACCAAACTAACACCCAAAT
Found at i:177804 original size:21 final size:21
Alignment explanation
Indices: 177780--177844 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
177770 TCAATCCATA
*
177780 TTAACATCACATCTCTTCATG
1 TTAACATCACATCTCTTCACG
* *
177801 TTAACATAACAAAT-TCTTTTACG
1 TTAACAT--CACATCTC-TTCACG
*
177824 TTGACATCACATCTCTTCACG
1 TTAACATCACATCTCTTCACG
177845 CAATGTAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 16 0.47
22 4 0.12
23 14 0.41
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (21 bp):
TTAACATCACATCTCTTCACG
Done.