Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1387
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: 138038
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:5672 original size:3 final size:3
Alignment explanation
Indices: 5664--5692 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5654 CGAGTCAACT
5664 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
5693 TTTAATGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:7311 original size:20 final size:20
Alignment explanation
Indices: 7286--7336 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
7276 GTTGGGCATA
* *
7286 ATGTATCGATACAGT-TCTTC
1 ATGTATCGATACAATGTC-CC
7306 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTCCC
7326 ATGTATCGATA
1 ATGTATCGATA
7337 TATTTCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:7410 original size:19 final size:19
Alignment explanation
Indices: 7371--7422 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
7361 CAGTCTCATT
*
7371 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAGCATG
*
7391 TATCAATACAATGAGCATG
1 TATCGATACAATGAGCATG
7410 TATCGATACAATG
1 TATCGATACAATG
7423 TATCGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAGCATG
Found at i:7425 original size:13 final size:13
Alignment explanation
Indices: 7407--7433 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7397 TACAATGAGC
7407 ATGTATCGATACA
1 ATGTATCGATACA
7420 ATGTATCGATACA
1 ATGTATCGATACA
7433 A
1 A
7434 AGCATAATGT
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:9105 original size:46 final size:46
Alignment explanation
Indices: 8986--9107 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
8976 ATAAGATTAA
*
8986 GCAAATACCAATATCATCTAAAGTGC--AGATGTACATGAAATAAT
1 GCAAATACCAATATCATCTAAAGTGCAAATATGTACATGAAATAAT
* **
9030 GCAAATACCAATATCA-ATAGAA-TGACAAATATGTGTATGAAACT-AT
1 GCAAATACCAATATCATCTA-AAGTG-CAAATATGTACATGAAA-TAAT
*
9076 GCAAATACCAATGTCATCTAAAGTGCAAATAT
1 GCAAATACCAATATCATCTAAAGTGCAAATAT
9108 CAATATCCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
43 4 0.06
44 19 0.29
46 37 0.57
47 5 0.08
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (46 bp):
GCAAATACCAATATCATCTAAAGTGCAAATATGTACATGAAATAAT
Found at i:9134 original size:3 final size:3
Alignment explanation
Indices: 9126--9195 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
9116 CCTTCTTTTA
9126 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
9175 ATT -TT TTT ATTT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT
9196 TTAAAAAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
2 2 0.03
3 55 0.87
4 6 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:13741 original size:2 final size:2
Alignment explanation
Indices: 13734--13758 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13724 TTTCTCCCTT
13734 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13759 GAGGAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13852 original size:2 final size:2
Alignment explanation
Indices: 13807--13834 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13797 TTTACGCATG
13807 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
13835 GTAATATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13920 original size:6 final size:6
Alignment explanation
Indices: 13868--13906 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
13858 GACAATGATG
* * *
13868 ACATCC ACATGC ACACTC ACATTC ACATTC ACATTC ACA
1 ACATTC ACATTC ACATTC ACATTC ACATTC ACATTC ACA
13907 AATTTGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.36, C:0.38, G:0.03, T:0.23
Consensus pattern (6 bp):
ACATTC
Found at i:14100 original size:2 final size:2
Alignment explanation
Indices: 14093--14126 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14083 GTACAGATTG
14093 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14127 TCTTTGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18616 original size:21 final size:21
Alignment explanation
Indices: 18588--18634 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
18578 TTTTCTGTGG
*
18588 AAAA-TAAAGAAC-AAAAAAA
1 AAAATTAAAAAACGAAAAAAA
18607 ATAAATTAAAAAACTGAAAAAAA
1 A-AAATTAAAAAAC-GAAAAAAA
18630 AAAAT
1 AAAAT
18635 CAAGGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 7 0.30
22 4 0.17
23 8 0.35
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAATTAAAAAACGAAAAAAA
Found at i:26686 original size:6 final size:6
Alignment explanation
Indices: 26672--26717 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
26662 GTTCACATGA
* * *
26672 AAAGCT AAAGTT AAAGCT AAAGCT AAAGCT AAAGCC AAAGCC AAAG
1 AAAGCT AAAGCT AAAGCT AAAGCT AAAGCT AAAGCT AAAGCT AAAG
26718 GCAAAGGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.13
Consensus pattern (6 bp):
AAAGCT
Found at i:26695 original size:18 final size:18
Alignment explanation
Indices: 26672--26732 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
26662 GTTCACATGA
* *
26672 AAAGCTAAAGTTAAAGCT
1 AAAGCTAAAGCTAAAGCC
26690 AAAGCTAAAGCTAAAGCC
1 AAAGCTAAAGCTAAAGCC
* *
26708 AAAGCCAAAGGC-AAAGGC
1 AAAGCTAAA-GCTAAAGCC
26726 AAAGCTA
1 AAAGCTA
26733 GCTAATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 35 0.95
19 2 0.05
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.11
Consensus pattern (18 bp):
AAAGCTAAAGCTAAAGCC
Found at i:29956 original size:30 final size:30
Alignment explanation
Indices: 29885--29957 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
29875 TAATTTATGT
* * *
29885 TAAAAGCTTTTTTGAGTATAAATTAATAAT
1 TAAAAGCTTATTTGAGTAAAAATTAATAAC
** *
29915 TAAAAATTTATTTGAGTAAAAATTAATGAC
1 TAAAAGCTTATTTGAGTAAAAATTAATAAC
*
29945 TAAATGCTTATTT
1 TAAAAGCTTATTT
29958 ATATACAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (30 bp):
TAAAAGCTTATTTGAGTAAAAATTAATAAC
Found at i:30259 original size:2 final size:2
Alignment explanation
Indices: 30252--30284 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30242 ATTTATGATA
30252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30285 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30289 original size:2 final size:2
Alignment explanation
Indices: 30284--30359 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
30274 ATATATATAT
30284 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30326 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30360 GATGAAAGCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30512 original size:13 final size:13
Alignment explanation
Indices: 30494--30518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30484 AACTTTTGAA
30494 TTTTATTTATATT
1 TTTTATTTATATT
30507 TTTTATTTATAT
1 TTTTATTTATAT
30519 CCAATTTTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTATATT
Found at i:31038 original size:13 final size:13
Alignment explanation
Indices: 31020--31045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31010 TACACCAAGT
31020 ATGTATCGATACA
1 ATGTATCGATACA
31033 ATGTATCGATACA
1 ATGTATCGATACA
31046 CCAAAAAATT
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:31064 original size:34 final size:32
Alignment explanation
Indices: 31002--31066 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
30992 TAGCCAAACT
**
31002 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
31034 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
31067 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:34267 original size:16 final size:14
Alignment explanation
Indices: 34233--34261 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34223 AAGGGGGAGA
34233 GAATAGATATGTGT
1 GAATAGATATGTGT
34247 GAATAGATATGTGT
1 GAATAGATATGTGT
34261 G
1 G
34262 CAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (14 bp):
GAATAGATATGTGT
Found at i:36226 original size:24 final size:23
Alignment explanation
Indices: 36191--36236 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
36181 TGAAGCTTCT
* *
36191 AATTATATTATGATTAAAATTAAA
1 AATTATAATATGAAT-AAATTAAA
36215 AATTATAATATGAATAAATTAA
1 AATTATAATATGAATAAATTAA
36237 CATGAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTATAATATGAATAAATTAAA
Found at i:36684 original size:22 final size:23
Alignment explanation
Indices: 36650--36693 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36640 TAAATATTTT
36650 TTACTATTAATAAAAAAAAATTA
1 TTACTATTAATAAAAAAAAATTA
* *
36673 TTAC-ATTTATAAATAAAAATT
1 TTACTATTAATAAAAAAAAATT
36694 CTAATTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TTACTATTAATAAAAAAAAATTA
Found at i:38211 original size:18 final size:18
Alignment explanation
Indices: 38174--38212 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38164 TGGCATTATA
*
38174 AATATTTATATTATTAAT
1 AATATTTATATAATTAAT
* *
38192 AATATTTATGTAATTCAT
1 AATATTTATATAATTAAT
38210 AAT
1 AAT
38213 TAAAGAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
AATATTTATATAATTAAT
Found at i:38323 original size:12 final size:13
Alignment explanation
Indices: 38298--38327 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
38288 CATTAAAATA
38298 ATATTATAATATT
1 ATATTATAATATT
38311 ATATTAT-ATATT
1 ATATTATAATATT
38323 ATATT
1 ATATT
38328 TGTTAGCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTATAATATT
Found at i:39195 original size:20 final size:22
Alignment explanation
Indices: 39151--39204 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
39141 TACCAGTTTT
39151 TTGTATCGATA-AAATCCATAG
1 TTGTATCGATACAAATCCATAG
*
39172 -TGTATCGATACAAA-GCA-AG
1 TTGTATCGATACAAATCCATAG
39191 TTGTATCGATACAA
1 TTGTATCGATACAA
39205 TGTATCGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 25 0.83
21 3 0.10
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (22 bp):
TTGTATCGATACAAATCCATAG
Found at i:39733 original size:20 final size:19
Alignment explanation
Indices: 39683--39739 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
39673 TTGTATCGAT
* *
39683 ACATTGTATCGATATATGT
1 ACATTGTATCGATACATGG
* *
39702 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
39721 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
39740 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:39802 original size:13 final size:13
Alignment explanation
Indices: 39784--39814 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
39774 CGATACATGG
39784 TACATTATATCGA
1 TACATTATATCGA
39797 TACATTATATCGA
1 TACATTATATCGA
39810 TACAT
1 TACAT
39815 GATGAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:39805 original size:33 final size:33
Alignment explanation
Indices: 39768--39835 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
39758 CTACTACTGT
*
39768 TTATATCGATACATGGT-ACATTATATCGATACA
1 TTATATCGATACATGATGA-ATTATATCGATACA
*
39801 TTATATCGATACATGATGAATTGTATCGATACA
1 TTATATCGATACATGATGAATTATATCGATACA
39834 TT
1 TT
39836 GTTTGTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (33 bp):
TTATATCGATACATGATGAATTATATCGATACA
Found at i:41447 original size:3 final size:3
Alignment explanation
Indices: 41423--41461 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
41413 TCAACCATCA
* * *
41423 ATG ATG AGG AAG ATG ATA ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
41462 GTGACTCGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:46029 original size:13 final size:13
Alignment explanation
Indices: 46011--46037 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46001 ACAACATTCC
46011 TTGTATCGATACA
1 TTGTATCGATACA
46024 TTGTATCGATACA
1 TTGTATCGATACA
46037 T
1 T
46038 GGGTTACTTT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:47966 original size:29 final size:29
Alignment explanation
Indices: 47922--47981 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
47912 TGAAAAATAA
* *
47922 AATAAATTTTTCCTTTGATTAAGGGGGAG
1 AATAAATCTTTCCTTTAATTAAGGGGGAG
*
47951 AATAAATCTTTGCTTTAATTAAGGGGGAG
1 AATAAATCTTTCCTTTAATTAAGGGGGAG
47980 AA
1 AA
47982 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (29 bp):
AATAAATCTTTCCTTTAATTAAGGGGGAG
Found at i:47991 original size:24 final size:26
Alignment explanation
Indices: 47925--48010 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 26
47915 AAAATAAAAT
* *
47925 AAATTTTTCCTTTGATTAAGGGGGAGAA
1 AAATCTTT-CTTTAATTAAGGGGGAG-A
47953 TAAATCTTTGCTTTAATTAAGGGGGAGA
1 -AAATCTTT-CTTTAATTAAGGGGGAGA
47981 AAAT-TTT-TTTAATCTAA-GGGGAGA
1 AAATCTTTCTTTAAT-TAAGGGGGAGA
48005 AAATCT
1 AAATCT
48011 CATTAACCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
24 17 0.33
25 4 0.08
26 3 0.06
27 4 0.08
28 1 0.02
29 23 0.44
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
AAATCTTTCTTTAATTAAGGGGGAGA
Found at i:48016 original size:24 final size:24
Alignment explanation
Indices: 47965--48035 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
47955 AATCTTTGCT
* **
47965 TTAATTAAGGGGGAGAAAATTTTT
1 TTAATTAAGGGGGAGAAAATCTCA
47989 TTAATCTAA-GGGGAGAAAATCTCA
1 TTAAT-TAAGGGGGAGAAAATCTCA
48013 TTAACCGATTAAGGGGGAGAAAA
1 TT-A---ATTAAGGGGGAGAAAA
48036 ATGAAAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 19 0.50
25 4 0.11
27 3 0.08
28 12 0.32
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (24 bp):
TTAATTAAGGGGGAGAAAATCTCA
Found at i:52343 original size:21 final size:20
Alignment explanation
Indices: 52319--52362 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
52309 ATGCAAATTT
52319 TTATTTT-TCTTAGTTAACTCA
1 TTATTTTATCTT-G-TAACTCA
52340 TTATTTTCATCTTGTAACTCA
1 TTATTTT-ATCTTGTAACTCA
52361 TT
1 TT
52363 TACCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 1 0.05
23 4 0.19
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATTTTATCTTGTAACTCA
Found at i:53999 original size:34 final size:33
Alignment explanation
Indices: 53957--54051 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
53947 TTTACAACCA
*
53957 TATCTTTTCGAAGGCTAAGATAGAACCTCTTCCT
1 TATCTTTTC-AAGGCTAAGATAGAACCTCTTCCC
* * *
53991 TATCTTTTCACAAGCTAAGATAAAACCTTTTCCC
1 TATCTTTTCA-AGGCTAAGATAGAACCTCTTCCC
*
54025 TATATTTTCAAAGGCTAAGATAGAACC
1 TATCTTTTC-AAGGCTAAGATAGAACC
54052 GCTCAATCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 50 0.96
35 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
TATCTTTTCAAGGCTAAGATAGAACCTCTTCCC
Found at i:54611 original size:13 final size:13
Alignment explanation
Indices: 54593--54622 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
54583 CAAAGCAAGT
54593 TGTATCAATACAA
1 TGTATCAATACAA
*
54606 TGTATCGATACAA
1 TGTATCAATACAA
54619 TGTA
1 TGTA
54623 ATATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:55916 original size:27 final size:28
Alignment explanation
Indices: 55866--55932 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 28
55856 ATAAAACTAG
*
55866 GGTTGGAGTATCCCCTTGAAAATAACAA
1 GGTTGGAGTATCCCCTAGAAAATAACAA
*
55894 GGTTGGAGTAT-CCCTCAG-AAATAACGA
1 GGTTGGAGTATCCCCT-AGAAAATAACAA
55921 GGTTGGAGTATC
1 GGTTGGAGTATC
55933 TCCGATTGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTAGAAAATAACAA
Found at i:56104 original size:79 final size:75
Alignment explanation
Indices: 55903--56124 Score: 248
Period size: 77 Copynumber: 2.9 Consensus size: 75
55893 AGGTTGGAGT
*
55903 ATCCCTCAGAAATAACGAGGTTGGAGTATCTCCGATTGTGAAAAATGGATGTTTTAGAAATAAAA
1 ATCCCTCAGAAATAACG-GGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTAGAAATAAAA
* *
55968 TAGGGGTTGGT
65 TAGGGGTTAGC
** * * *
55979 ATCCCTTTGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAA
1 ATCCCTCAG-AAATAA-CGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTAGAAATAAA
*
56044 GTAGGGGTTAAAGC
64 ATAGGGGTT--AGC
* * *
56058 ATCCCCTCAGAAATAACAGGGTTGGAGTATCTCC-AATGATGAAAAATTGATGTTTTTAAAAATA
1 AT-CCCTCAGAAATAAC-GGGTTGGAGTATCTCCGATTG-TGAAAAATCGATG-TTTTAGAAATA
56122 AAA
62 AAA
56125 CCGGGGTTGG
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
76 7 0.06
77 57 0.47
78 4 0.03
79 35 0.29
80 17 0.14
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (75 bp):
ATCCCTCAGAAATAACGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGTTTTAGAAATAAAAT
AGGGGTTAGC
Found at i:56198 original size:157 final size:155
Alignment explanation
Indices: 55905--56199 Score: 337
Period size: 157 Copynumber: 1.9 Consensus size: 155
55895 GTTGGAGTAT
* * *
55905 CCCTCAGAAATAACGAGGTTGGAGTATCTCCGATTGTGAAAAATGGATGTTTTAGAAATAAAATA
1 CCCTCAGAAATAACGAGGTTGGAGTATCTCCGAATGTGAAAAATGGATGTTTTAAAAATAAAACA
* * * * ** * *
55970 GGGGTTGGTATCCCTTTGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTT
66 GGGGTTGGTATCCCTTTAAAAACAA-GAGGTTAGAGTATCCCCGATTGTAAAAAATCGATATTCT
*
56035 AGAAATAAAGTAGGGGTTAAAGCATC
130 AAAAATAAAGTAGGGGTTAAAGCATC
*
56061 CCCTCAGAAATAAC-AGGGTTGGAGTATCTCC-AATGATGAAAAATTGATGTTTTTAAAAATAAA
1 CCCTCAGAAATAACGA-GGTTGGAGTATCTCCGAATG-TGAAAAATGGATG-TTTTAAAAATAAA
* * * * *
56124 ACCGGGGTTGGAATATCACC-TTAAAAACAA-AGTTTAGAGTATCCTCGATTGTAAAAAATTGGT
63 ACAGGGGTTGG--TATC-CCTTTAAAAACAAGAGGTTAGAGTATCCCCGATTGTAAAAAATCGAT
56187 ATTCTAAAAATAA
125 ATTCTAAAAATAA
56200 TGAGGTTAGA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
155 4 0.03
156 41 0.36
157 56 0.49
159 12 0.10
160 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (155 bp):
CCCTCAGAAATAACGAGGTTGGAGTATCTCCGAATGTGAAAAATGGATGTTTTAAAAATAAAACA
GGGGTTGGTATCCCTTTAAAAACAAGAGGTTAGAGTATCCCCGATTGTAAAAAATCGATATTCTA
AAAATAAAGTAGGGGTTAAAGCATC
Found at i:59906 original size:20 final size:21
Alignment explanation
Indices: 59853--59908 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
59843 TTAAATTATT
**
59853 ATAAATTAATTTATTATTTAA
1 ATAAATTAAAATATTATTTAA
59874 ATAAA--AAATATATTATTT-A
1 ATAAATTAAA-ATATTATTTAA
59893 ATAAATTAAAATATTA
1 ATAAATTAAAATATTA
59909 AACATGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAATTAAAATATTATTTAA
Found at i:61012 original size:32 final size:29
Alignment explanation
Indices: 60976--61042 Score: 71
Period size: 32 Copynumber: 2.2 Consensus size: 29
60966 TATTTTATAT
*
60976 TTATATAAATTTTAATATATTAATAATTCATA
1 TTATATAAATTTTAAGATA-T-ATAA-TCATA
* * *
61008 TTATACAGATTTTGAGATATATAATCATA
1 TTATATAAATTTTAAGATATATAATCATA
61037 TTATAT
1 TTATAT
61043 GTTTAGAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 10 0.33
30 4 0.13
31 1 0.03
32 15 0.50
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (29 bp):
TTATATAAATTTTAAGATATATAATCATA
Found at i:61413 original size:17 final size:18
Alignment explanation
Indices: 61387--61422 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
61377 TCGTTTCATA
*
61387 TTTAAGTTA-TTTTAAAT
1 TTTAAATTATTTTTAAAT
61404 TTTAAATTATTTTTAAAT
1 TTTAAATTATTTTTAAAT
61422 T
1 T
61423 GAATCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTAAATTATTTTTAAAT
Found at i:64407 original size:30 final size:31
Alignment explanation
Indices: 64345--64408 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
64335 AGATTTTTAT
*
64345 TTAGATTTTATTTATTTTTAGTTATTTTAAA
1 TTAGATTTTATTTATTTTTAGTTATATTAAA
*
64376 TTAG-TTTT-TTTATTTTTATTTTATATTAAA
1 TTAGATTTTATTTATTTTTA-GTTATATTAAA
64406 TTA
1 TTA
64409 TATAGTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 10 0.33
30 16 0.53
31 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (31 bp):
TTAGATTTTATTTATTTTTAGTTATATTAAA
Found at i:66784 original size:3 final size:3
Alignment explanation
Indices: 66776--66813 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
66766 TTTTCTTTGC
66776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
66814 GTTTTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:67002 original size:3 final size:3
Alignment explanation
Indices: 66987--67042 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
66977 GATAAAGTCT
*
66987 TTA TTA TTG TTA 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 TTA
67035 TTA TTA TT
1 TTA TTA TT
67043 TATGTCGAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:67097 original size:4 final size:4
Alignment explanation
Indices: 67088--67116 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
67078 AAATTTTTTA
67088 TATT TATT TATT TATT TATT TATT T-TT TA
1 TATT TATT TATT TATT TATT TATT TATT TA
67117 CTATGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:68231 original size:10 final size:10
Alignment explanation
Indices: 68208--68250 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
68198 TTCATCTCAA
68208 TTCATGTTTCGT
1 TTCAT-TTT-GT
68220 TTCATTTTGT
1 TTCATTTTGT
*
68230 TTTATTTTGT
1 TTCATTTTGT
68240 TTCA-TTTGT
1 TTCATTTTGT
68249 TT
1 TT
68251 GGTTTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 7 0.24
10 14 0.48
11 3 0.10
12 5 0.17
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (10 bp):
TTCATTTTGT
Found at i:69510 original size:48 final size:49
Alignment explanation
Indices: 69421--69517 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 49
69411 TTTTACATAG
*
69421 CCAAATAAAGTAGACAAAAAGACAAATAACTCCATTGGTTTTCCATATA
1 CCAAATAAAGCAGACAAAAAGACAAATAACTCCATTGGTTTTCCATATA
* *
69470 CCAAATAAAGCAGAC-AAAAGATAATTAACTCCACTT-GTTTTCCATATA
1 CCAAATAAAGCAGACAAAAAGACAAATAACTCCA-TTGGTTTTCCATATA
69518 ACCGAATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 28 0.64
49 16 0.36
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (49 bp):
CCAAATAAAGCAGACAAAAAGACAAATAACTCCATTGGTTTTCCATATA
Found at i:76585 original size:14 final size:14
Alignment explanation
Indices: 76568--76635 Score: 54
Period size: 13 Copynumber: 5.1 Consensus size: 14
76558 TCAAAAGTAC
76568 AAACAC-AAAAAAA
1 AAACACAAAAAAAA
* *
76581 AAA-ACAACACAAA
1 AAACACAAAAAAAA
*
76594 AAA-ACAAAAACAA
1 AAACACAAAAAAAA
*
76607 AAACA-AAAAAAAGC
1 AAACACAAAAAAA-A
*
76621 ATACACAAAAAAAA
1 AAACACAAAAAAAA
76635 A
1 A
76636 GAGTGCAAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
12 2 0.05
13 27 0.64
14 6 0.14
15 7 0.17
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:76594 original size:16 final size:16
Alignment explanation
Indices: 76569--76635 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 16
76559 CAAAAGTACA
76569 AACACAAAAAAAAAAAC
1 AACAC-AAAAAAAAAAC
76586 AACACAAAAAAACAAA-
1 AACACAAAAAAA-AAAC
*
76602 AACAAAAACAAAAAAAAGC
1 AAC-ACAA-AAAAAAAA-C
76621 ATACACAAAAAAAAA
1 A-ACACAAAAAAAAA
76636 GAGTGCAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 10 0.24
17 14 0.33
18 12 0.29
19 4 0.10
20 2 0.05
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (16 bp):
AACACAAAAAAAAAAC
Found at i:76597 original size:20 final size:19
Alignment explanation
Indices: 76568--76618 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
76558 TCAAAAGTAC
76568 AAACACAAAAAAAAAAAC-A
1 AAACA-AAAAAAAAAAACAA
*
76587 ACACAAAAAAACAAAAACAA
1 AAACAAAAAAA-AAAAACAA
76607 AAACAAAAAAAA
1 AAACAAAAAAAA
76619 GCATACACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.21
19 11 0.39
20 11 0.39
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (19 bp):
AAACAAAAAAAAAAAACAA
Found at i:76627 original size:36 final size:33
Alignment explanation
Indices: 76568--76633 Score: 96
Period size: 36 Copynumber: 1.9 Consensus size: 33
76558 TCAAAAGTAC
*
76568 AAACACAAAAAAAAAAACAACACAAAAAAACAA
1 AAACAAAAAAAAAAAAACAACACAAAAAAACAA
76601 AAACAAAAACAAAAAAAAGCATACACAAAAAAA
1 AAACAAAAA-AAAAAAAA-CA-ACACAAAAAAA
76634 AAGAGTGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.28
34 8 0.28
35 2 0.07
36 11 0.38
ACGTcount: A:0.80, C:0.17, G:0.02, T:0.02
Consensus pattern (33 bp):
AAACAAAAAAAAAAAAACAACACAAAAAAACAA
Found at i:76628 original size:22 final size:21
Alignment explanation
Indices: 76568--76635 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
76558 TCAAAAGTAC
*
76568 AAACACAAAAAA-AAAAAC-A
1 AAACAAAAAAAACAAAAACAA
*
76587 ACAC-AAAAAAACAAAAACAA
1 AAACAAAAAAAACAAAAACAA
* *
76607 AAACAAAAAAAAGCATACACAA
1 AAACAAAAAAAA-CAAAAACAA
76629 AAA-AAAA
1 AAACAAAA
76636 GAGTGCAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.15
19 9 0.22
20 4 0.10
21 11 0.28
22 10 0.25
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (21 bp):
AAACAAAAAAAACAAAAACAA
Found at i:77978 original size:31 final size:31
Alignment explanation
Indices: 77907--78323 Score: 428
Period size: 30 Copynumber: 13.7 Consensus size: 31
77897 GCCTTTCTTC
* * *
77907 TCAAAGTCCACAATTCAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
77937 TCTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
77968 TCAAAGTCCACAACTCAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
77998 TCTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
78029 TCAAAGTCCACAACTCA-T--C-TCTTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
78055 T--AAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
78084 TCAAAATCCACGACTCAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
78114 CCAAGGTCCACGGCTCAGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
78145 TCAAAGTCCACAACTTAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
78175 TCTAAGTTCACAACTCAGTGGCATCTTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATC---TTTTCT
* *
78209 TCAAAGTCCACGACTCGGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * * *
78240 ACAAAATCCATGACTCAGTGGCATCTTGTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
78270 CCAAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
78301 TCAAAGCCCACAACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
78324 CCCTTTTAAG
Statistics
Matches: 320, Mismatches: 51, Indels: 31
0.80 0.13 0.08
Matches are distributed among these distances:
24 13 0.04
25 1 0.00
26 1 0.00
27 8 0.03
28 8 0.03
29 1 0.00
30 133 0.42
31 126 0.39
32 4 0.01
33 3 0.01
34 19 0.06
35 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:77997 original size:61 final size:61
Alignment explanation
Indices: 77907--78794 Score: 530
Period size: 61 Copynumber: 14.5 Consensus size: 61
77897 GCCTTTCTTC
* *
77907 TCAAAGTCCACAATTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
*
77968 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
*
78029 TCAAAGTCCACAA--C--T--CATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
* * * * ** *
78084 TCAAAATCCACGACTCAGTGGCATCTC-TTCCCAAGGTCCACGGCTCAGTGGCATTTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAA-GTCCACAACTCAGTGGCATCTTTTCT
* *
78145 TCAAAGTCCACAACTTAGTGGCATCTCTTTTCTAAGTTCACAACTCAGTGGCATCTTTTTTTCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATC---TTTTCT
* * ** * * ** *
78209 TCAAAGTCCACGACTCGGTGGCAATCTCTTCACAAAATCCATGACTCAGTGGCATCTTGTC-
1 TCAAAGTCCACAACTCAGTGGC-ATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
* ** * * * * **
78270 CCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGGCA-CCCTT-T
1 TCAAAGTCCACAACTCAGTGGCATCTCTT-TTCTAAGTCCACAACTCAGTGGCATCTTTTCT
* * * *
78330 T--AAGTCCACAAC-CA-TGGCA-C-CCTTT-TAAGCCCACAAGTCTGTGGCACTCTTTTTCCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCA-TC-TTTT-CT
** * * * *
78387 TTTAAGCCCACAACTCTGTGGCA-CTCTTTTCCCTTTTAAGCCCATAACTCAGTGGCACTCTTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTT--C---TAAGTCCACAACTCAGTGGCA-TC-TTT
78451 TCCT
59 T-CT
* * * * **
78455 TCAAAGCCCACAACTCCGTGGCA-C-CCTTT-TAAGTCCACAACTCCGTGGCA-CCCTT-T
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
* * * * *
78511 T--AAGCCCACAACTTCA-TGGCACCTTTTTTCCTTTTAAGCCCACAACTCTGTGGCACTCTTTT
1 TCAAAGTCCACAAC-TCAGTGGCATCTCTTTT-C---TAAGTCCACAACTCAGTGGCA-TC-TTT
78573 TCCT
59 T-CT
** * * * * *
78577 TTTAAGTCCATAACTCCGTGGCATC-C-TTT-TAAGCCCACAACTCCGTGGTACTCTTGTTCCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCA-TCTT-TT-CT
** * * * *
78638 TTTAAGTTCACAACTCCGTGGCATC-C-TTT-TAAGCCCACAACTCTGTGGCACTCTTTTTCCT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCA-TC-TTTT-CT
** * * * * *
78699 TTTAAGCCCACAACTCCGTGGCA-CTCTTTTTCCTTTTAAGTCCACGATTCCGTGGCATCTTTTC
1 TCAAAGTCCACAACTCAGTGGCATCTC-TTTT-C---TAAGTCCACAACTCAGTGGCATCTTTTC
78763 TT
61 -T
** *
78765 TTTAAGTCCACAACTCCGTGGCA-CTCTTTT
1 TCAAAGTCCACAACTCAGTGGCATCTCTTTT
78795 TCCTTTTAAG
Statistics
Matches: 679, Mismatches: 91, Indels: 110
0.77 0.10 0.12
Matches are distributed among these distances:
52 18 0.03
53 2 0.00
54 18 0.03
55 57 0.08
56 10 0.01
57 6 0.01
58 11 0.02
59 13 0.02
60 17 0.03
61 325 0.48
62 15 0.02
63 4 0.01
64 27 0.04
65 31 0.05
66 35 0.05
67 8 0.01
68 82 0.12
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (61 bp):
TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCT
Found at i:78132 original size:116 final size:117
Alignment explanation
Indices: 77927--78279 Score: 460
Period size: 116 Copynumber: 2.9 Consensus size: 117
77917 CAATTCAGTG
*
77927 GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCAT
1 GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT
* *
77992 CTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAAC-T
66 CTC-TTCCCAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTT
*
78044 -CATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAATCCACGACTCAGTGGCAT
1 GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT
* *
78108 CTCTTCCCAAGGTCCACGGCTCAGTGGCATTTTTTCTTCAAAGTCCACAACTTAGT
66 CTCTTCCCAA-GTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAAC-T--T
* * *
78164 GGCATCTCTTTTCTAAGTTCACAACTCAGTGGCATCTTTTTTTCTTCAAAGTCCACGACTCGGTG
1 -GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATC---TTTTCTTCAAAGTCCACGACTCAGTG
* * * * *
78229 GCAATCTCTTCACAAAATCCATGACTCAGTGGCATCTTGTC-CCAAAGTCCA
62 GC-ATCTCTTC-CCAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCA
78280 TGACTCAGTG
Statistics
Matches: 207, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
115 5 0.02
116 103 0.50
120 1 0.00
122 32 0.15
125 35 0.17
126 28 0.14
127 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (117 bp):
GCATCTCTTTTCTAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT
CTCTTCCCAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTT
Found at i:78382 original size:27 final size:26
Alignment explanation
Indices: 78304--78521 Score: 114
Period size: 34 Copynumber: 7.4 Consensus size: 26
78294 CTTTTCTTCA
78304 AAGCCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAA-TCCGTGGCACCCTTTT
* *
78331 AAGTCCACAA-CCATGGCACCCTTTT
1 AAGCCCACAATCCGTGGCACCCTTTT
*
78356 AAGCCCACAAGTCTGTGGCACTCTTTTTCCTTTT
1 AAGCCCACAA-TCCGTGGCA--C-----CCTTTT
*
78390 AAGCCCACAACTCTGTGGCACTCTTTTCCCTTTT
1 AAGCCCACAA-TCCGTGGCA-------CCCTTTT
* * *
78424 AAGCCCATAACTCAGTGGCACTCTTTTTCCTT
1 AAGCCCACAA-TCCGTGGCAC-C--CTT--TT
78456 CAAAGCCCACAACTCCGTGGCACCCTTTT
1 --AAGCCCACAA-TCCGTGGCACCCTTTT
*
78485 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAA-TCCGTGGCACCCTTTT
78512 AAGCCCACAA
1 AAGCCCACAA
78522 CTTCATGGCA
Statistics
Matches: 155, Mismatches: 15, Indels: 42
0.73 0.07 0.20
Matches are distributed among these distances:
25 23 0.15
27 51 0.33
28 1 0.01
29 3 0.02
30 2 0.01
31 2 0.01
32 2 0.01
33 1 0.01
34 68 0.44
39 2 0.01
ACGTcount: A:0.23, C:0.36, G:0.13, T:0.28
Consensus pattern (26 bp):
AAGCCCACAATCCGTGGCACCCTTTT
Found at i:78388 original size:34 final size:34
Alignment explanation
Indices: 78350--79224 Score: 657
Period size: 34 Copynumber: 27.7 Consensus size: 34
78340 ACCATGGCAC
* *
78350 CCTTTTAAGCCCACAAGTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78384 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78418 CCTTTTAAGCCCATAACTCAGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
**
78452 CCTTCAAAGCCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
78479 CCTTTTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78506 CCTTTTAAGCCCACAACTTCATGGCAC-CTTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTC-TTTTT
*
78540 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78574 CCTTTTAAGTCCATAACTCCGTGGCA-------T
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78601 CCTTTTAAGCCCACAACTCCGTGGTACTCTTGTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
**
78635 CCTTTTAAGTTCACAACTCCGTGGCA-------T
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
78662 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
78696 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
78730 CCTTTTAAGTCCACGATTCCGTGGCA-TC-TTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78762 CTTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
78796 CCTTTTAAGTCCACGACTTCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * ** *
78823 CGTTTTAAGTCCACGACTCTATGGTAC-CTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
78856 TCTTTTAAGCTCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
78890 CCTTTTAAGTCCATAACTCTGTGGCA--CATTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * * * *
78922 CTTTTTAAGTCCACGATTCCGTGGCACCCTTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* ** * *
78956 CCTTTTAAGCCCACACCTTTGCGGCATCCCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCA-CTCTTTTT
*
78991 -CTTGTAAGCCCACAACTCCGTGGCA-TCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
79023 CCTTTTAAG--C-CAACTTCGTGGCAC-C----T
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
79049 --TTTTAAGTCCATAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* *
79074 CCTTTTAAGCTCACAACTCAGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
79108 CCTTTTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
79135 CC-TTTAAGTCCACAACTCCGTGGCAC-CTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
79167 CTTTTTAAAGCCCACAACTCTGCGACACTCTTTTT
1 CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
*
79202 CCTTTTAA-CTCCACAACTTCGTG
1 CCTTTTAAGC-CCACAACTCCGTG
79225 ACATCCTTTT
Statistics
Matches: 682, Mismatches: 101, Indels: 116
0.76 0.11 0.13
Matches are distributed among these distances:
24 7 0.01
26 26 0.04
27 150 0.22
28 2 0.00
29 1 0.00
30 13 0.02
31 1 0.00
32 63 0.09
33 34 0.05
34 366 0.54
35 19 0.03
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:78399 original size:156 final size:149
Alignment explanation
Indices: 78252--79200 Score: 663
Period size: 156 Copynumber: 6.1 Consensus size: 149
78242 AAAATCCATG
* * * *
78252 ACTCAGTGGCA-TCTTGTCCCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACT
1 ACTCTGTGGCACTCTTTTCCCTAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGCCCACAACT
* *
78316 CCGTGGCACCCTTTTAAGTCCACAA-CCATGGCACCCTTTTAAGCCCACAAGTCTGTGGCACTCT
66 CCGTGGCACCCTTTTAAGTCCACAACCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCT
78380 TTTTCCTTTTAAGCCCACA
131 TTTTCCTTTTAAGCCCACA
*
78399 ACTCTGTGGCACTCTTTTCCCTTTTAAGCCCATAACTCAGTGGCACTCTTTTTCCTTCAAAGCCC
1 ACTCTGTGGCACTCTTTTCCC---TAAGTCCATAACTCAGTGGCA-TC-TTTT-CTTCAAAGCCC
*
78464 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT-TCAT
60 ACAACTCCGTGGCACCCTTTTAAGTCCACAAC-CCGTGGCACCCTTTTAAGCCCACAACTCT-GT
78528 GGCAC-CTTTTTTCCTTTTAAGCCCACA
123 GGCACTC-TTTTTCCTTTTAAGCCCACA
* * *
78555 ACTCTGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGGCATC-CTT-TT--AAGCCCACA
1 ACTCTGTGGCACTC-TTTTCC--CTAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGCCCACA
* * *
78616 ACTCCGTGGTACTCTTGTTCCTTTTAAGTTCACAACTCCGTGGCATCCTTTTAAGCCCACAACTC
63 ACTCCGTGG--CAC-----CCTTTTAAGTCCACAAC-CCGTGGCACCCTTTTAAGCCCACAACTC
78681 TGTGGCACTCTTTTTCCTTTTAAGCCCACA
120 TGTGGCACTCTTTTTCCTTTTAAGCCCACA
* * ** * * ** *
78711 ACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGATTCCGTGGCATCTTTTCTTTTTAAGTCCAC
1 ACTCTGTGGCACTC-TTTTCC--CTAAGTCCATAACTCAGTGGCATCTTTTC-TTCAAAGCCCAC
* * * * *
78776 AACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTTCGTGGCACCGTTTTAAGTCCACGACT
62 AACTCCGTGGCA--C-----CCTTTTAAGTCCACAAC-CCGTGGCACCCTTTTAAGCCCACAACT
* * * *
78841 CTATGGTAC-CTTTTTTCTTTTAAGCTCACA
119 CTGTGGCACTCTTTTTCCTTTTAAGCCCACA
* * * ** *
78871 ACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCTGTGGCA-CATTTTCTTTTTAAGTCCA
1 ACTCTGTGGCACTC-TTTTCC--CTAAGTCCATAACTCAGTGGCATC-TTTTC-TTCAAAGCCCA
* * * * *
78935 CGATTCCGTGGCACCCTTTTCCCTTTTAAGCCCAC-ACCTTTGCGGCATCCCTTTTTCTTGTAAG
61 CAACTCCGTGGCA-------CCCTTTTAAGTCCACAACC--CGTGGCA-CCC----T-TT-TAAG
*
78999 CCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAG--C-CA
110 CCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACA
* ** *
79035 ACT-TCGTGGCAC-CTTTT---TAAGTCCATAACTCCGTGGCA-CCCTT-TT--AAGCTCACAAC
1 ACTCT-GTGGCACTCTTTTCCCTAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGCCCACAAC
* * *
79091 TCAGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAGTCCACAACTCCG
65 TCCGTGGCA--C-----CCTTTTAAGTCCACAAC-CCGTGGCACCCTTTTAAGCCCACAACTCTG
*
79155 TGGCAC-CTTTTTCTTTTTAAAGCCCACA
122 TGGCACTCTTTTTCCTTTT-AAGCCCACA
* *
79183 ACTCTGCGACACTCTTTT
1 ACTCTGTGGCACTCTTTT
79201 TCCTTTTAAC
Statistics
Matches: 671, Mismatches: 70, Indels: 120
0.78 0.08 0.14
Matches are distributed among these distances:
144 31 0.05
145 5 0.01
147 13 0.02
148 18 0.03
149 24 0.04
151 25 0.04
152 35 0.05
153 8 0.01
154 45 0.07
155 4 0.01
156 198 0.30
157 31 0.05
159 6 0.01
160 106 0.16
161 69 0.10
162 4 0.01
163 1 0.00
164 12 0.02
165 4 0.01
166 2 0.00
167 30 0.04
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (149 bp):
ACTCTGTGGCACTCTTTTCCCTAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGCCCACAACT
CCGTGGCACCCTTTTAAGTCCACAACCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCT
TTTTCCTTTTAAGCCCACA
Found at i:78494 original size:95 final size:95
Alignment explanation
Indices: 78384--79268 Score: 623
Period size: 95 Copynumber: 9.4 Consensus size: 95
78374 CACTCTTTTT
* * *
78384 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTCCCTTTTAAGCCCATAACTCAGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCACTCTT
** *
78449 TTTCCTTCAAAGCCCACAACTCCGTGGCAC
66 TTTCCTTTTAAGTCCACAACTCCGTGGCAC
78479 CCTTTTAAGTCCACAACTCCGTGGCA-------CCCTTTTAAGCCCACAACTTCA-TGGCAC-CT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAAC-TCAGTGGCACTC-
* *
78535 TTTTTCCTTTTAAGCCCACAACTCTGTGGCACTC
64 TTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C
* * *
78569 TTTTTCCTTTTAAGTCCATAACTCCGTGGCA------T-CCTTTTAAGCCCACAACTCCGTGGTA
1 -----CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCA
* * *
78627 CTCTTGTTCCTTTTAAGTTCACAACTCCGTGGCAT
61 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
78662 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCACTCTT
* *
78727 TTTCCTTTTAAGTCCACGATTCCGTGGCATC
66 TTTCCTTTTAAGTCCACAACTCCGTGGCA-C
* * * *
78758 TTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTTC-GTGGCA
1 ----CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAAC-TCAGTGGCA
* * ** *
78822 --C-----CGTTTTAAGTCCACGACTCTATGGTAC
61 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
78850 CTTTTTTCTTTTAAG-CTCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCTGTGG
1 C------CTTTTAAGTC-CACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGG
* * * *
78914 CA--CATTTTCTTTTTAAGTCCACGATTCCGTGGCACCCTTTTC
59 CACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-------C
* * ** * * * * *
78956 CCTTTTAAGCCCACACCTTTGCGGCATCCCTTTT-TCTTGTAAGCCCACAACTCCGTGGCA-TCT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCACTCT
*
79019 TTTTCCTTTTAAG--C-CAACTTCGTGGCAC
65 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
79047 CTTTTTAAGTCCATAACTCCGTGGCA-------CCCTTTTAAGCTCACAACTCAGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCACTCTT
79105 TTTCCTTTTAAGTCCACAACTCCGTGGCAC
66 TTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
79135 CC-TTTAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCTGCGACACTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTT-AAGCCCACAACTCAGTGGCACTCT
* * * *
79198 TTTTCCTTTTAACTCCACAACTTCGTGACAT
65 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
79229 CCTTTTAAGTCTACAACTCTGTGGTA-TC-TTTCTCCTTTTA
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTC-CCTTTTA
79269 CCCTTTTCAA
Statistics
Matches: 642, Mismatches: 85, Indels: 127
0.75 0.10 0.15
Matches are distributed among these distances:
84 22 0.03
85 16 0.02
87 24 0.04
88 89 0.14
89 3 0.00
90 1 0.00
91 20 0.03
92 1 0.00
93 29 0.05
94 108 0.17
95 179 0.28
96 1 0.00
98 11 0.02
99 22 0.03
100 92 0.14
101 22 0.03
106 2 0.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (95 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCAGTGGCACTCTT
TTTCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:78776 original size:66 final size:65
Alignment explanation
Indices: 78350--79234 Score: 614
Period size: 61 Copynumber: 14.0 Consensus size: 65
78340 ACCATGGCAC
* * * * *
78350 CCTTTTAAGCCCACAAGTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTT
*
78415 TTC
63 TTT
* * * ** *
78418 CCTTTTAAGCCCATAACTCAGTGGCACTCTTTTTCCTTCAAAGCCCACAACTCCGTGGCA-C---
1 CCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
78479 --
64 TT
* * *
78479 CCTTTTAAGTCCACAACTCCGTGGCA-C----CCTTTTAAGCCCACAACTTCATGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTT
78539 T
65 T
* * *
78540 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGGCA-----
1 CCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
78600 -T
64 TT
* * *
78601 CCTTTTAAGCCCACAACTCCGTGGTACTCTTGTTCCTTTTAAGTTCACAACTCCGTGGCA-----
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
78661 -T
64 TT
* * *
78662 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTT
78727 TTT
63 TTT
* * *
78730 CCTTTTAAGTCCACGATTCCGTGGCATCTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTT
78795 T
65 T
* * * * ** *
78796 CCTTTTAAGTCCACGACTTCGTGGCA-C----CGTTTTAAGTCCACGACTCTATGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
78856 TCTTTTAAG-CTCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCTGTGGCA-CAT
1 CCTTTTAAGTC-CACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
78919 TTT
63 TTT
* * * * * * ** *
78922 CTTTTTAAGTCCACGATTCCGTGGCACCCTTTTCCCTTTTAAGCCCACACCTTTGCGGCATCCCT
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTT-CCTTTTAAGTCCACAACTCCGTGGCA--CCT
78987 TTTT
62 TTTT
* * *
78991 -CTTGTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAG--C-CAACTTCGTGGCACC----
1 CCTTTTAAGTCCACAACTCCGTGGCATC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
79048 T
65 T
* *
79049 --TTTTAAGTCCATAACTCCGTGGCA-C----CCTTTTAAG-CTCACAACTCAGTGGCACTCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTC-CACAACTCCGTGGCAC-CTTT
79106 TT
64 TT
79108 CCTTTTAAGTCCACAACTCCGTGGCA-C----CC-TTTAAGTCCACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * * * * * *
79167 CTTTTTAAAGCCCACAACTCTGCGACACTCTTTTTCCTTTTAACTCCACAACTTCGTGACATCCT
1 CCTTTT-AAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCT
79232 TTT
62 TTT
79235 AAGTCTACAA
Statistics
Matches: 675, Mismatches: 84, Indels: 115
0.77 0.10 0.13
Matches are distributed among these distances:
51 9 0.01
53 1 0.00
54 34 0.05
55 2 0.00
56 1 0.00
57 21 0.03
58 1 0.00
59 14 0.02
60 66 0.10
61 204 0.30
62 6 0.01
63 1 0.00
64 10 0.01
65 6 0.01
66 109 0.16
67 36 0.05
68 143 0.21
69 11 0.02
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.36
Consensus pattern (65 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:78879 original size:60 final size:61
Alignment explanation
Indices: 78698--79186 Score: 224
Period size: 66 Copynumber: 7.8 Consensus size: 61
78688 CTCTTTTTCC
* * * *
78698 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGATTCCGTGGCATCTTTTC
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----C
*
78763 T
61 G
* * *
78764 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTTCGTGGCACCG
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCG
* * * *
78825 TTTTAAGTCCACGACTCTATGGTAC-CTTTTTTCTTTTAAG-CTCACAACTCCGTGGCACTCTTT
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTC-CACAACTCCGTGGCA--C---
*
78888 TTCC
60 --CG
* ** * * * *
78892 TTTTAAGTCCATAACTCTGTGGCA--CATTTTCTTTTTAAGTCCACGATTCCGTGGCACCCTTTT
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-------
*
78955 CCC
59 CCG
* * **** * * *
78958 TTTTAAGCCCACACCTTTGCGGCATCCCTTTTT-CTTGTAAGCCCACAACTCCGTGGCATCTTTT
1 TTTTAAGTCCACAACTCCATGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----
*
79022 TCC
60 -CG
* * * *
79025 TTTTAAG--C-CAACTTCGTGGCAC-C----T--TTTTAAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCG
79076 TTTTAAG-CTCACAACT-CAGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-
1 TTTTAAGTC-CACAACTCCA-TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCG
* * * *
79136 CTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTC
1 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTT-AAGTCCACAACTC
79187 TGCGACACTC
Statistics
Matches: 342, Mismatches: 45, Indels: 78
0.74 0.10 0.17
Matches are distributed among these distances:
51 9 0.03
53 2 0.01
54 11 0.03
55 1 0.00
56 1 0.00
57 21 0.06
58 1 0.00
59 13 0.04
60 58 0.17
61 49 0.14
62 4 0.01
63 1 0.00
64 10 0.03
65 2 0.01
66 101 0.30
67 31 0.09
68 20 0.06
69 5 0.01
71 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.36
Consensus pattern (61 bp):
TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCG
Found at i:79072 original size:27 final size:27
Alignment explanation
Indices: 79033--79166 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 27
79023 CCTTTTAAGC
*
79033 CAACTTCGTGGCACCTTTTTAAGTCCA
1 CAACTCCGTGGCACCTTTTTAAGTCCA
* *
79060 TAACTCCGTGGCACCCTTTTAAG-CTCA
1 CAACTCCGTGGCACCTTTTTAAGTC-CA
*
79087 CAACTCAGTGGCACTCTTTTTCCTTTTAAGTCCA
1 CAACTCCGTGGCAC-C----T--TTTTAAGTCCA
*
79121 CAACTCCGTGGCACC-CTTTAAGTCCA
1 CAACTCCGTGGCACCTTTTTAAGTCCA
79147 CAACTCCGTGGCACCTTTTT
1 CAACTCCGTGGCACCTTTTT
79167 CTTTTTAAAG
Statistics
Matches: 88, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
26 26 0.30
27 37 0.42
28 1 0.01
33 1 0.01
34 22 0.25
35 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (27 bp):
CAACTCCGTGGCACCTTTTTAAGTCCA
Found at i:79141 original size:26 final size:26
Alignment explanation
Indices: 79111--79161 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
79101 TCTTTTTCCT
79111 TTTAAGTCCACAACTCCGTGGCACCC
1 TTTAAGTCCACAACTCCGTGGCACCC
79137 TTTAAGTCCACAACTCCGTGGCACC
1 TTTAAGTCCACAACTCCGTGGCACC
79162 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.24
Consensus pattern (26 bp):
TTTAAGTCCACAACTCCGTGGCACCC
Found at i:79215 original size:94 final size:91
Alignment explanation
Indices: 78574--79252 Score: 395
Period size: 94 Copynumber: 7.3 Consensus size: 91
78564 CACTCTTTTT
* * * * *
78574 CCTTTTAAGTCCATAACTCCGTGGCA-----TCCTTTTAAGCCCACAACTCCGTGGTACTCTTGT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCAGTGGCACTCTTTT
* *
78634 TCCTTTTAAGTTCACAACTCCGTGGCA
66 TCCTTTTAA-TCCACAACTTCGTGGCA
* * *
78661 TCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCT
1 -CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGCCCACAACTCAGTGGCACTCT
*
78726 TTTTCCTTTTAAGTCCACGA-TTCCGTGGCA
63 TTTTCCTTTTAA-TCCACAACTT-CGTGGCA
* *
78756 TCTTTTCTTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTTC-GTGG
1 -C----C-TTTTAAGTCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGCCCACAAC-TCAGTGG
* * * *
78820 CA--C-----CGTTTTAAGTCCACGAC-TCTATGGTA
57 CACTCTTTTTCCTTTTAA-TCCACAACTTC-GTGGCA
* * *
78849 CCTTTTTTCTTTTAAG-CTCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCTGTG
1 -C------CTTTTAAGTC-CACAACTCCGTGGCAC-CTTTTT-CTTTTAAGCCCACAACTCAGTG
* * *
78913 GCA--CATTTTCTTTTTAAGTCCACGA-TTCCGTGGCA
56 GCACTCTTTTTCCTTTTAA-TCCACAACTT-CGTGGCA
* * ** * * *
78948 CCCTTTTCCCTTTTAAGCCCACACCTTTGCGGCATCCCTTTTTCTTGTAAGCCCACAACTCCGTG
1 --------CCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTTCTTTTAAGCCCACAACTCAGTG
*
79013 GCA-TCTTTTTCCTTTTAA-GC-CAACTTCGTGGCA
56 GCACTCTTTTTCCTTTTAATCCACAACTTCGTGGCA
* *
79046 CCTTTTTAAGTCCATAACTCCGTGGCACC-----CTTTTAAGCTCACAACTCAGTGGCACTCTTT
1 CC-TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCAGTGGCACTCTTT
*
79106 TTCCTTTTAAGTCCACAACTCCGTGGCA
65 TTCCTTTTAA-TCCACAACTTCGTGGCA
* * * *
79134 CCCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGCGACACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC-TTTT-AAGCCCACAACTCAGTGGCACTCTT
*
79199 TTTCCTTTTAACTCCACAACTTCGTGACA
64 TTTCCTTTTAA-TCCACAACTTCGTGGCA
* *
79228 TCCTTTTAAGTCTACAACTCTGTGG
1 -CCTTTTAAGTCCACAACTCCGTGG
79253 TATCTTTCTC
Statistics
Matches: 482, Mismatches: 57, Indels: 97
0.76 0.09 0.15
Matches are distributed among these distances:
84 22 0.05
85 15 0.03
87 25 0.05
88 37 0.08
89 2 0.00
90 2 0.00
91 18 0.04
92 2 0.00
93 28 0.06
94 101 0.21
95 80 0.17
98 10 0.02
99 24 0.05
100 92 0.19
101 21 0.04
102 1 0.00
106 2 0.00
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.36
Consensus pattern (91 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAGCCCACAACTCAGTGGCACTCTTTT
TCCTTTTAATCCACAACTTCGTGGCA
Found at i:79234 original size:34 final size:33
Alignment explanation
Indices: 79137--79234 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 33
79127 CGTGGCACCC
* * * *
79137 TTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
1 TTTAACTCCACAACTTCGTGACACCTTTTTCCT
*
79170 TTTAAAGC-CCACAAC-TCTGCGACACTCTTTTTCCT
1 TTT-AA-CTCCACAACTTC-GTGACAC-CTTTTTCCT
79205 TTTAACTCCACAACTTCGTGACATCCTTTT
1 TTTAACTCCACAACTTCGTGACA-CCTTTT
79235 AAGTCTACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
33 5 0.10
34 33 0.63
35 14 0.27
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.38
Consensus pattern (33 bp):
TTTAACTCCACAACTTCGTGACACCTTTTTCCT
Found at i:79351 original size:31 final size:30
Alignment explanation
Indices: 79268--79354 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 30
79258 TTCTCCTTTT
**
79268 ACCCTTTTCAAAAGCC-CACAAGTCAGTGGCA
1 ACCC-TTTCAAAAGCCACACAAGTTGGT-GCA
*
79299 A-CC-TTCAAAAG-CAAACAAGTTGGTGCA
1 ACCCTTTCAAAAGCCACACAAGTTGGTGCA
79326 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1 ACCCTTTCAAAAG-CCACACAAGTTGGTG
79355 GCGTTTTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.11
28 18 0.38
29 8 0.17
30 2 0.04
31 14 0.30
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (30 bp):
ACCCTTTCAAAAGCCACACAAGTTGGTGCA
Found at i:79461 original size:49 final size:49
Alignment explanation
Indices: 79361--79991 Score: 383
Period size: 49 Copynumber: 13.0 Consensus size: 49
79351 GGTGGCGTTT
* * * * * *
79361 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCGTTA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
*
79411 TCTTTAAGACCAATGTCGCTGGCCTTGAATAAGCACATTGGCATCTTTA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * * * * * *
79460 TCTTTAAAACCAATATCACTGGCCTTGAATTAGCATATTGACA-CCTTG
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
** *
79508 TCTTTAAGACCAATGTCATTGGCCTTGAATCAACACATTGG---C---A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * * * *
79551 -C---AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
*
79596 TATTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * * * *
79639 -C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * *
79684 TCTTTAAGACCAATGTCG-TCGACCTTGAATCAGCACATTGGCACCTTAACCA
1 TCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCATCTT---TA
* * *
79736 TCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
* * * ** *
79785 TCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT---A
* * * * * *
79837 TTCCTTAA-CCCAATGTCGTTGGCCTTGAATCAGCAAATTAGCATTTTTCTCA
1 -TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-T-A
* * * * * * *
79889 TCTTCAAGTCTAATGTCGCTGACCGTGAATCAACACATTGACATTCTTTACA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTT--A
* * ** * * *
79941 TCTTTAAGCCCAATATCATTAGTCC-TGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGGCATCTTTA
79990 TC
1 TC
79992 ACTCTTCTCA
Statistics
Matches: 462, Mismatches: 85, Indels: 69
0.75 0.14 0.11
Matches are distributed among these distances:
39 63 0.14
42 3 0.01
43 1 0.00
45 2 0.00
46 3 0.01
48 38 0.08
49 188 0.41
50 4 0.01
51 10 0.02
52 136 0.29
53 13 0.03
54 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTA
Found at i:79571 original size:39 final size:39
Alignment explanation
Indices: 79513--79678 Score: 143
Period size: 39 Copynumber: 4.0 Consensus size: 39
79503 CCTTGTCTTT
* ** *
79513 AAGACCAATGTCATTGGCCTTGAATCAACACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
79552 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
*
79595 ATATTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 ------AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
79640 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
79679 CTTCATCTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
39 68 0.65
43 1 0.01
45 1 0.01
49 34 0.33
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:79634 original size:88 final size:87
Alignment explanation
Indices: 79469--79727 Score: 385
Period size: 88 Copynumber: 3.0 Consensus size: 87
79459 ATCTTTAAAA
* * * * *
79469 CCAATATCACTGGCCTTGAATTAGCATATTGACACCTT-GTCTTTAAGACCAATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTC-GTGGCCT
*
79533 TGAATCAACACATTGGCACAAGC
65 TGAATCAGCACATTGGCACAAGC
* *
79556 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCG-TGGCCT
*
79621 TGAATCAGCACATTGGCACAAGT
65 TGAATCAGCACATTGGCACAAGC
* *
79644 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGACCAATGTCGTCGACCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGT-GGCCT
79709 TGAATCAGCACATTGGCAC
65 TGAATCAGCACATTGGCAC
79728 CTTAACCATC
Statistics
Matches: 156, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
87 35 0.22
88 121 0.78
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:79762 original size:52 final size:50
Alignment explanation
Indices: 79640--79987 Score: 256
Period size: 52 Copynumber: 6.8 Consensus size: 50
79630 ACATTGGCAC
* * *
79640 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTT-CATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTACATCTTT
* *
79689 AAGACCAATGTCG-TCGACCTTGAATCAGCACATTGGCACCTTAACCATCTTT
1 AAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTT-A-CATCTTT
* *
79741 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTT-CATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTACATCTTT
* * ** * * *
79790 AAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-ACA-TCTTT
* * * * ** * *
79843 AA-CCCAATGTCGTTGGCCTTGAATCAGCAAATTAGCATTTTTCTCATCTTC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-ACATCTTT
* * * * * *
79894 AAGTCTAATGTCGCTGACCGTGAATCAACACATTGACATTCTTTACATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCTTACATCTTT
* * ** * *
79946 AAGCCCAATATCATTAGTCC-TGAATCAGCATATTGGCACCTT
1 AAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTT
79988 TATCACTCTT
Statistics
Matches: 236, Mismatches: 51, Indels: 23
0.76 0.16 0.07
Matches are distributed among these distances:
48 1 0.00
49 74 0.31
50 5 0.02
51 5 0.02
52 137 0.58
53 14 0.06
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (50 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTACATCTTT
Found at i:79815 original size:101 final size:102
Alignment explanation
Indices: 79640--79880 Score: 299
Period size: 101 Copynumber: 2.4 Consensus size: 102
79630 ACATTGGCAC
* * * * *
79640 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTCATCTTTAAGACCAATGTCGTCG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCAAATTAGCATCTTCATCTTTAAGACCAATATCATCG
*
79705 ACCTTGAATCAGCACATTGGCA-CCTTAACCA-TCTTT
66 ACCTTGAATCAGCACATTGGCATCCTTAA-CATTCCTT
* * * * * *
79741 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCATTG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCAAATTAGCATCTTCATCTTTAAGACCAATATCATCG
* * *
79806 GCCTTGAATCAGCATATTGGCATCTTTAACATTCCTT
66 ACCTTGAATCAGCACATTGGCATCCTTAACATTCCTT
* *
79843 AA-CCCAATGTCGTTGGCCTTGAATCAGCAAATTAGCAT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCAAATTAGCAT
79881 TTTTCTCATC
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
101 108 0.91
102 11 0.09
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (102 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCAAATTAGCATCTTCATCTTTAAGACCAATATCATCG
ACCTTGAATCAGCACATTGGCATCCTTAACATTCCTT
Found at i:80754 original size:13 final size:13
Alignment explanation
Indices: 80736--80763 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
80726 CATTATTCAA
80736 TGTATCGATACAT
1 TGTATCGATACAT
80749 TGTATCGATACAT
1 TGTATCGATACAT
80762 TG
1 TG
80764 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80758 original size:33 final size:33
Alignment explanation
Indices: 80716--80781 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
80706 GCCAAGGAAA
80716 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
80749 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
80782 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:84223 original size:14 final size:12
Alignment explanation
Indices: 84206--84248 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 12
84196 AGCTTTGGGC
84206 TTTTGATTTTGTTT
1 TTTTG-TTTT-TTT
84220 TTTTGTTTTTTT
1 TTTTGTTTTTTT
84232 CTCTTTGTTTTTTT
1 -T-TTTGTTTTTTT
84246 TTT
1 TTT
84249 CAATTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 6 0.22
14 16 0.59
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:88875 original size:21 final size:21
Alignment explanation
Indices: 88850--88903 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
88840 TTTTTGCCTA
88850 CATGTATCGATACATGCCTTC
1 CATGTATCGATACATGCCTTC
*
88871 CATGTATCGATACATGCCTTT
1 CATGTATCGATACATGCCTTC
88892 CATGTATCGATA
1 CATGTATCGATA
88904 TAAGGTCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (21 bp):
CATGTATCGATACATGCCTTC
Found at i:89093 original size:52 final size:50
Alignment explanation
Indices: 89032--89152 Score: 170
Period size: 52 Copynumber: 2.4 Consensus size: 50
89022 TTTTAAAAGA
*
89032 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTAGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTTT-GGGTTTTGA-CC
* *
89084 AAATGTATCGATACATTATTCATTGTATCGATGCATTTTGGGTTTTGACC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGGGTTTTGACC
* * *
89134 TAATGTATTGATGCATTTT
1 AAATGTATCGATACATTTT
89153 GGGTTTTGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 17 0.27
51 8 0.13
52 37 0.60
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGGGTTTTGACC
Found at i:89147 original size:30 final size:30
Alignment explanation
Indices: 89107--89175 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
89097 CATTATTCAT
*
89107 TGTATCGATGCATTTTGGGTTTTGACCTAA
1 TGTATCGATGCATTTTGGGTTTTGACCCAA
*
89137 TGTATTGATGCATTTTGGGTTTTGACCCAA
1 TGTATCGATGCATTTTGGGTTTTGACCCAA
89167 TGTATCGAT
1 TGTATCGAT
89176 ACATACAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (30 bp):
TGTATCGATGCATTTTGGGTTTTGACCCAA
Found at i:95135 original size:21 final size:19
Alignment explanation
Indices: 95111--95164 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
95101 TGATTTCCTT
95111 GTTTGAACACTAAGTTAAGTA
1 GTTTGAACA-TAA-TTAAGTA
* *
95132 GTTTGATCATAATTACGTA
1 GTTTGAACATAATTAAGTA
*
95151 GTTTGATCATAATT
1 GTTTGAACATAATT
95165 TCAAGGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.65
20 3 0.10
21 8 0.26
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (19 bp):
GTTTGAACATAATTAAGTA
Found at i:109774 original size:20 final size:20
Alignment explanation
Indices: 109726--109780 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
109716 AGGGTAGTTT
* **
109726 TGTATCGATACATTTTAGGCA
1 TGTATCGATACA-TTCACCCA
*
109747 TATATCGATACATTCACCCA
1 TGTATCGATACATTCACCCA
109767 TGTATCGATACATT
1 TGTATCGATACATT
109781 TACTATTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCACCCA
Found at i:110663 original size:61 final size:61
Alignment explanation
Indices: 110593--110721 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 61
110583 GTGACATTTA
* *
110593 ACTTGAAGATGATAAAGATGAG-AAAAGTGCCCATGTGTTGATTTAAGGCCAACAACACTAG
1 ACTTAAAGATGA-AAAGATGAGTAAAAGTGCCAATGTGTTGATTTAAGGCCAACAACACTAG
* * * * * * * *
110654 ACTTAAAGATGAAATGATTAGTAAAGGTGTCAATGTGTTGATTTAGGGCTAACGACATTAG
1 ACTTAAAGATGAAAAGATGAGTAAAAGTGCCAATGTGTTGATTTAAGGCCAACAACACTAG
*
110715 GCTTAAA
1 ACTTAAA
110722 AACTAAAAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 7 0.12
61 49 0.88
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (61 bp):
ACTTAAAGATGAAAAGATGAGTAAAAGTGCCAATGTGTTGATTTAAGGCCAACAACACTAG
Found at i:110881 original size:103 final size:103
Alignment explanation
Indices: 110760--111028 Score: 243
Period size: 103 Copynumber: 2.6 Consensus size: 103
110750 AGGGCCAACG
* ** * * * * *
110760 ACATTGGGCTTAGGAATGATAAAAGTACTAATATGCTGATTGAAGGCTAGCGATATCAGACTT-A
1 ACATTGGACTTAAAAATGA-AAAAGTGCTAATATGCTGATTCAAGGCCAGCAACATCAGACTTAA
* *
110824 AGATGACAAAGGTGCTAATGTGCCAATTCAAGGCCATCA
65 AGATGACAAAGGTGCCAATGTGCCAATTCAAGGCCAGCA
** * * * **
110863 ACATTGGACTTAAAAATGAGATGAGTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAA
1 ACATTGGACTTAAAAATGA-AAAAGTGCTAATATGCTGATTCAAGGCCAGCAACATCAGACTTAA
* ** * * *
110928 AGATGAGATGGGTGCCAATGTGCTAATTCAGGGCCAGCG
65 AGATGACAAAGGTGCCAATGTGCCAATTCAAGGCCAGCA
* * * * * * *
110967 ACATTAGACTTAAAGATGAAGAAGTGCTAATATGCTGATTTAGGGCCAGCGACATTAGACTT
1 ACATTGGACTTAAAAATGAAAAAGTGCTAATATGCTGATTCAAGGCCAGCAACATCAGACTT
111029 TAAAAAGAAA
Statistics
Matches: 130, Mismatches: 35, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
103 81 0.62
104 49 0.38
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (103 bp):
ACATTGGACTTAAAAATGAAAAAGTGCTAATATGCTGATTCAAGGCCAGCAACATCAGACTTAAA
GATGACAAAGGTGCCAATGTGCCAATTCAAGGCCAGCA
Found at i:110906 original size:52 final size:52
Alignment explanation
Indices: 110835--111028 Score: 212
Period size: 52 Copynumber: 3.8 Consensus size: 52
110825 GATGACAAAG
* * * *
110835 GTGCTAATGTGCCAATTCAAGGCCATCAACATTGGACTTAAAAATGAGATGA
1 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATGA
* * *
110887 GTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATGG
1 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATGA
* * *
110939 GTGCCAATGTGCTAATTCAGGGCCAGCGACATTAGACTTAAAGATGA-A-GAA
1 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATG-A
* * * * * * *
110990 GTGCTAATATGCTGATTTAGGGCCAGCGACATTAGACTT
1 GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTT
111029 TAAAAAGAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 1 0.01
51 36 0.29
52 87 0.70
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
GTGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATGA
Found at i:110963 original size:104 final size:103
Alignment explanation
Indices: 110789--111028 Score: 250
Period size: 103 Copynumber: 2.3 Consensus size: 103
110779 TAAAAGTACT
* * * * * * ** *
110789 AATATGCTGATTGAAGGCTAGCGATATCAGACTT-AAGATGACAAAGGTGCTAATGTGCCAATTC
1 AATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAGATGGGTGCCAATGTGCCAATTC
* *
110853 AAGGCCATCAACATTGGACTTAAAAATG-AGATGAGTGCC
66 AAGGCCAGCAACATTAGACTTAAAAATGAAGA--AGTGCC
* * * *
110892 AATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGATGGGTGCCAATGTGCTAATTC
1 AATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAGATGGGTGCCAATGTGCCAATTC
* * * *
110957 AGGGCCAGCGACATTAGACTTAAAGATGAAGAAGTGCT
66 AAGGCCAGCAACATTAGACTTAAAAATGAAGAAGTGCC
* * *
110995 AATATGCTGATTTAGGGCCAGCGACATTAGACTT
1 AATATGCTGATTCAAGGCCAGCAACATTAGACTT
111029 TAAAAAGAAA
Statistics
Matches: 110, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
103 59 0.54
104 48 0.44
105 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (103 bp):
AATATGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGAGATGGGTGCCAATGTGCCAATTC
AAGGCCAGCAACATTAGACTTAAAAATGAAGAAGTGCC
Found at i:111032 original size:52 final size:51
Alignment explanation
Indices: 110782--111028 Score: 205
Period size: 52 Copynumber: 4.8 Consensus size: 51
110772 GGAATGATAA
* * * * * *
110782 AAGTACTAATATGCTGATTGAAGGCTAGCGATATCAGACTT-AAGATGACA-
1 AAGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGA-AG
** * * * *
110832 AAGGTGCTAATGTGCCAATTCAAGGCCATCAACATTGGACTTAAAAATG-AG
1 AA-GTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG
* * * *
110883 ATGAGTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGATG-AG
1 A--AGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG
* * * *
110935 ATGGGTGCCAATGTGCTAATTCAGGGCCAGCGACATTAGACTTAAAGATGAAG
1 A--AGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG
* * *
110988 AAGTGCTAATATGCTGATTTAGGGCCAGCGACATTAGACTT
1 AAGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
111029 TAAAAAGAAA
Statistics
Matches: 162, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
50 3 0.02
51 64 0.40
52 91 0.56
53 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (51 bp):
AAGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG
Found at i:111285 original size:31 final size:30
Alignment explanation
Indices: 111246--111328 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 30
111236 TTTTGAAAGG
*
111246 AAGGTGCCACAAAGTTGTGGGCTTT-GAGAA
1 AAGGTGCCACAAACTTGTGGGCTTTGGAG-A
*
111276 AAGGTTGCCACTAACTTATGTGGGCTTTGGAGA
1 AAGG-TGCCACAAAC-T-TGTGGGCTTTGGAGA
*
111309 AAGGATGCCACCAACTTGTG
1 AAGG-TGCCACAAACTTGTG
111329 TGGGCTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 4 0.09
31 12 0.27
32 2 0.04
33 24 0.53
34 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (30 bp):
AAGGTGCCACAAACTTGTGGGCTTTGGAGA
Found at i:111303 original size:33 final size:33
Alignment explanation
Indices: 111261--111335 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
111251 GCCACAAAGT
* *
111261 TGTGGGCTTT-GAGAAAAGGTTGCCACTAACTTA
1 TGTGGGCTTTGGAG-AAAGGATGCCACCAACTTA
*
111294 TGTGGGCTTTGGAGAAAGGATGCCACCAACTTG
1 TGTGGGCTTTGGAGAAAGGATGCCACCAACTTA
111327 TGTGGGCTT
1 TGTGGGCTT
111336 AAAAGGATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 35 0.92
34 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (33 bp):
TGTGGGCTTTGGAGAAAGGATGCCACCAACTTA
Found at i:111382 original size:129 final size:128
Alignment explanation
Indices: 111151--111604 Score: 500
Period size: 129 Copynumber: 3.6 Consensus size: 128
111141 TTTGGAAGGG
* * * * * * *
111151 GGTGCCACCAACTTGTGTGGGCTTTTGA-AAAGGTTACCCCCAATTTGTATGGGCTTAAAAGGAT
1 GGTGCCACTAACTTGTGTGGGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGAT
* * * * **
111215 -AAGGTGCCACAGAGTCGT-GGTTTTTGAAAGGAAGGTGCCACAAAGTTGTGGGCTTTGAGAAAA
66 GAA-GTGCCATAGAGTTGTGGGCTTTAG-AAGGAAGGTGCCACGGAGTTGTGGGCTTTGAGAAAA
* * *
111278 GGTTGCCACTAACTTATGTGGGCTTTGGAGAAAGGATGCCACCAACTTGTGTGGGCTTAAAAGGA
1 GG-TGCCACTAACTTGTGTGGGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGA
* * * *
111343 TGAAGTGCCATAGAGTTATGGGCTTTAGAAGGAAGGTGCCATGGAGTTATAGGCTTT--G-AAA
65 TGAAGTGCCATAGAGTTGTGGGCTTTAGAAGGAAGGTGCCACGGAGTTGTGGGCTTTGAGAAAA
* **
111404 --TGCCA-TCGACTTGTGTAAGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGA
1 GGTGCCACT-AACTTGTGTGGGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGA
* *
111466 TGAAGTGCCAT-GAAGTTGTGGACTTTAGAAGGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAA
65 TGAAGTGCCATAG-AGTTGTGGGCTTTAGAAGGAAGGTGCCACGGAGTTGTGGGCTTTGAGA-AA
111530 A
128 A
* *
111531 GGATGCCACCT-ACTTGTATGGGCTTTTGAG-AAGGATGCCACCAACTTATGTGGGCTTAAAAAG
1 GG-TGCCA-CTAACTTGTGTGGGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGG
*
111594 ATGAGGTGCCA
64 ATGAAGTGCCA
111605 CGGAGTCATG
Statistics
Matches: 277, Mismatches: 35, Indels: 28
0.81 0.10 0.08
Matches are distributed among these distances:
122 2 0.01
123 104 0.38
126 3 0.01
127 6 0.02
128 23 0.08
129 109 0.39
130 29 0.10
132 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (128 bp):
GGTGCCACTAACTTGTGTGGGCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGAT
GAAGTGCCATAGAGTTGTGGGCTTTAGAAGGAAGGTGCCACGGAGTTGTGGGCTTTGAGAAAA
Found at i:111465 original size:123 final size:126
Alignment explanation
Indices: 111299--111620 Score: 411
Period size: 123 Copynumber: 2.6 Consensus size: 126
111289 ACTTATGTGG
* *
111299 GCTTTGGAGAAAGGATGCCACCAACTTGTGTGGGCTTAAAAGGATGAAGTGCCAT-AGAGTTATG
1 GCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGATGAAGTGCCATGA-AGTTATG
* * * *
111363 GGCTTTAGAAGGAAGGTGCCATGGAGTTATAGGCTTT-G-AA-ATGCCATCGACTTGTGTAA
65 GACTTTAGAAGGAAGGTGCCACGGAGTTATAGGCTTTAGAAAGATGCCACCGACTTGTATAA
*
111422 GCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGATGAAGTGCCATGAAGTTGTGG
1 GCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGATGAAGTGCCATGAAGTTATGG
* * * **
111487 ACTTTAGAAGGAAGGTGCCACGGAGTTGTGGGCTTTGAAAGAAAGGATGCCACCTACTTGTATGG
66 ACTTTAGAAGGAAGGTGCCACGGAGTTATAGGCTTT---AGAAA-GATGCCACCGACTTGTATAA
* * * * *
111552 GCTTTTGAG-AAGGATGCCACCAACTTATGTGGGCTTAAAAAGATGAGGTGCCACGGAGTCATGG
1 GCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGATGAAGTGCCATGAAGTTATGG
111616 ACTTT
66 ACTTT
111621 GAAAAAGTTA
Statistics
Matches: 173, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
123 92 0.53
124 1 0.01
127 1 0.01
128 2 0.01
129 54 0.31
130 23 0.13
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (126 bp):
GCTTTTGAGAAAGGATGCCACCAACTTATGTGGGCTTAAAAGGATGAAGTGCCATGAAGTTATGG
ACTTTAGAAGGAAGGTGCCACGGAGTTATAGGCTTTAGAAAGATGCCACCGACTTGTATAA
Found at i:111554 original size:34 final size:31
Alignment explanation
Indices: 111515--111587 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 31
111505 CACGGAGTTG
* *
111515 TGGGCTTTGAAAGAAAGGATGCCACCTACTTGTA
1 TGGGCTTTG--AG-AAGGATGCCACCAACTTATA
*
111549 TGGGCTTTTGAGAAGGATGCCACCAACTTATG
1 TGGGC-TTTGAGAAGGATGCCACCAACTTATA
111581 TGGGCTT
1 TGGGCTT
111588 AAAAAGATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 2 0.06
32 22 0.63
33 2 0.06
34 5 0.14
35 4 0.11
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGAAGGATGCCACCAACTTATA
Found at i:111893 original size:52 final size:52
Alignment explanation
Indices: 111798--111899 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
111788 TGAATTGAAT
** ***
111798 TTAAAGATGATGAAGGTACCAACGTGCTAATTTGAGGCTAGCAACATTGGTC
1 TTAAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCTAGCAACATTGGTC
*
111850 TTAAAGATGACAAAGGTACCAACGTGCTGATCCAAGG-TCAGCAACATTGG
1 TTAAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCT-AGCAACATTGG
111900 AACGAAAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 1 0.02
52 42 0.98
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (52 bp):
TTAAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCTAGCAACATTGGTC
Found at i:111908 original size:52 final size:52
Alignment explanation
Indices: 111800--111915 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 52
111790 AATTGAATTT
** *** * *
111800 AAAGATGATGAAGGTACCAACGTGCTAATTTGAGGCTAGCAACATTGGTCTT
1 AAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCTAGCAACATTGGACTG
*
111852 AAAGATGACAAAGGTACCAACGTGCTGATCCAAGG-TCAGCAACATTGGAAC-G
1 AAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCT-AGCAACATTGG-ACTG
111904 AAAGATGACAAA
1 AAAGATGACAAA
111916 TTTTGGCAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.02
52 52 0.96
53 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (52 bp):
AAAGATGACAAAGGTACCAACGTGCTAATCCAAGGCTAGCAACATTGGACTG
Found at i:113167 original size:9 final size:9
Alignment explanation
Indices: 113153--113185 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
113143 GGACCCTTTC
113153 TTTTTTTTG
1 TTTTTTTTG
*
113162 -TTTTTTTA
1 TTTTTTTTG
113170 TTTTTTTTG
1 TTTTTTTTG
113179 TTTTTTT
1 TTTTTTT
113186 ACGAAGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:113175 original size:17 final size:17
Alignment explanation
Indices: 113153--113186 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
113143 GGACCCTTTC
113153 TTTTTTTTGTTTTTTTA
1 TTTTTTTTGTTTTTTTA
113170 TTTTTTTTGTTTTTTTA
1 TTTTTTTTGTTTTTTTA
113187 CGAAGGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTA
Found at i:122635 original size:13 final size:13
Alignment explanation
Indices: 122617--122641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122607 CTGTCAGTCT
122617 ATGTATCGATACA
1 ATGTATCGATACA
122630 ATGTATCGATAC
1 ATGTATCGATAC
122642 TAAGCAAAAT
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):
ATGTATCGATACA
Found at i:123567 original size:21 final size:21
Alignment explanation
Indices: 123541--123596 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
123531 TTTTTATCCA
123541 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
123562 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
123583 AATGTATCGATACA
1 AATGTATCGATACA
123597 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:123650 original size:19 final size:19
Alignment explanation
Indices: 123626--123687 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
123616 TTTTGAATTT
123626 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
123645 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
* *
123666 CATA-AGTGTTGTATTGATA
1 CAAACAGT-TTGTATCGATA
123685 CAA
1 CAA
123688 TGTATCGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:123695 original size:32 final size:32
Alignment explanation
Indices: 123654--123726 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
123644 ACAAACAGAA
*
123654 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
123686 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
123718 AATGTATCG
1 AATGTATCG
123727 CTACGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:123712 original size:19 final size:18
Alignment explanation
Indices: 123656--123718 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
123646 AAACAGAAAA
123656 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
*
123675 TGTATTGATAC--AA---
1 TGTATCGATACATAAGTT
123688 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
123707 TGTATCGATACA
1 TGTATCGATACA
123719 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:123769 original size:21 final size:21
Alignment explanation
Indices: 123743--123784 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
123733 AGCTACTGCC
123743 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
123764 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
123785 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:123789 original size:13 final size:13
Alignment explanation
Indices: 123771--123796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123761 ATTAAGGAAA
123771 TGTATCGATACAT
1 TGTATCGATACAT
123784 TGTATCGATACAT
1 TGTATCGATACAT
123797 CGATCTTTGT
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:127322 original size:51 final size:52
Alignment explanation
Indices: 127256--127391 Score: 195
Period size: 51 Copynumber: 2.6 Consensus size: 52
127246 GCTAAGTTCT
* *
127256 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
127307 CAATTTTCTATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCTACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
127359 CAATTTT-TCACAATCGGGGACACTCCAACCCCG
1 CAATTTTCT-ACAATCGGGGATACTCCAACCCCG
127392 TTAATCATTG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
51 40 0.54
52 34 0.46
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (52 bp):
CAATTTTCTACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:127512 original size:107 final size:106
Alignment explanation
Indices: 127361--127553 Score: 264
Period size: 107 Copynumber: 1.8 Consensus size: 106
127351 AAAAACACCA
* *
127361 ATTTTTCACAATCGGGGACACTCCAACCCCGTTAATCATTGGGGATACTCCAACCCCGTTA-TTT
1 ATTTCTCACAATCGGGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTT
*
127425 CTGATGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
66 C-GAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
* * ** *
127467 ATTTCTCACAATCGGGGATACTCCAACCTCGTCATTTTCA-CGGGGATACTCCAACCCCGTTGTT
1 ATTTCTCACAATCGGGGACACTCCAACCCCGT--TAATCATCGGGGATACTCCAACCCCGTTATT
*
127531 TTCGAGGGGATACTCCAATCCCG
64 TTCGAGGGGATACTCCAACCCCG
127554 TTATTATCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
106 29 0.39
107 38 0.51
108 8 0.11
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (106 bp):
ATTTCTCACAATCGGGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTT
CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
Found at i:127519 original size:28 final size:29
Alignment explanation
Indices: 127479--127554 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
127469 TTCTCACAAT
*
127479 CGGGGATACTCCAACCTCGTCATTTTC-A
1 CGGGGATACTCCAACCCCGTCATTTTCGA
**
127507 CGGGGATACTCCAACCCCGTTGTTTTCGA
1 CGGGGATACTCCAACCCCGTCATTTTCGA
*
127536 -GGGGATACTCCAATCCCGT
1 CGGGGATACTCCAACCCCGT
127555 TATTATCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (29 bp):
CGGGGATACTCCAACCCCGTCATTTTCGA
Found at i:127569 original size:107 final size:107
Alignment explanation
Indices: 127360--127581 Score: 263
Period size: 107 Copynumber: 2.1 Consensus size: 107
127350 CAAAAACACC
* *
127360 AATTTTTCACAATCGGGGACACTCCAACCCCGTTAATCATTGGGGATACTCCAACCCCGTTATTT
1 AATTTCTCACAATCGGGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTT
* * *
127425 CTGATGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT-
66 CTGAGGGGATACTCCAACCCCGGCTTTATCTCCAAAATATTA
* * * ** *
127466 GATTTCTCACAATCGGGGATACTCCAACCTCGTCATTTTCA-CGGGGATACTCCAACCCCGTTGT
1 AATTTCTCACAATCGGGGACACTCCAACCCCGT--TAATCATCGGGGATACTCCAACCCCGTTAT
* *
127530 TT-TCGAGGGGATACTCCAATCCC-GTTATTATCTCCAAAATATTA
64 TTCT-GAGGGGATACTCCAACCCCGGCT-TTATCTCCAAAATATTA
127574 AATTTCTC
1 AATTTCTC
127582 TTCGGGAGAT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
106 32 0.33
107 54 0.56
108 11 0.11
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (107 bp):
AATTTCTCACAATCGGGGACACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTT
CTGAGGGGATACTCCAACCCCGGCTTTATCTCCAAAATATTA
Found at i:133736 original size:74 final size:74
Alignment explanation
Indices: 133629--133812 Score: 336
Period size: 74 Copynumber: 2.5 Consensus size: 74
133619 ATTTGCTTGC
**
133629 ATGTATCGATACG-TTG-AAGAATGTATCGATACATTTGGGTCAAACACCCAGAATGTATCAATA
1 ATGTATCGATACGATTGTAAGCGTGTATCGATACATTTGGGTCAAACACCCAGAATGTATCAATA
133692 CAATGAGAA
66 CAATGAGAA
133701 ATGTATCGATACGATTGTAAGCGTGTATCGATACATTTGGGTCAAACACCCAGAATGTATCAATA
1 ATGTATCGATACGATTGTAAGCGTGTATCGATACATTTGGGTCAAACACCCAGAATGTATCAATA
133766 CAATGAGAA
66 CAATGAGAA
133775 ATGTATCGATACGATTGTAAGCGTGTATCGATACATTT
1 ATGTATCGATACGATTGTAAGCGTGTATCGATACATTT
133813 CCTTGGCAAT
Statistics
Matches: 108, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
72 13 0.12
73 3 0.03
74 92 0.85
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (74 bp):
ATGTATCGATACGATTGTAAGCGTGTATCGATACATTTGGGTCAAACACCCAGAATGTATCAATA
CAATGAGAA
Found at i:135170 original size:36 final size:36
Alignment explanation
Indices: 135123--135482 Score: 282
Period size: 36 Copynumber: 10.1 Consensus size: 36
135113 TTCATTAAAA
*
135123 ATATTTCATCAAAAACTTCCAAAGCCTTTTTTGAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
135159 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * * *
135195 ATGTTTCATCCAAAACCTT-TAAAGCCCTTCTTGAGG
1 ATATTTCAT-CAAAAACTTCCAAAGCCTTTCTTGAGG
* * ** * * *
135231 ATGTTTCATTAAAAACTTTTAAAGCTTTTTTTAAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * * * * * *
135267 ATATTTTAGC-AAAACCTCCAAAACGTTTCGTGGGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * * * * **
135302 ACATTTCATTAAAGACTTCCGAAGTCTTTCTAAAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * * *
135338 ATGTTCCATCAAAAACTTCCAAAGCCTCTCTTGATG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * * * *
135374 ATGTTTCATTAAAAACTTTCGAAGCCTTTCTTAAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
* * *
135410 ATA-TT--TCAAAAACCTCCAAAGCCTCTCCTT-AAG
1 ATATTTCATCAAAAACTTCCAAAGCCT-TTCTTGAGG
* ** *
135443 ATATTTCATTAAAAACTTTTAAAGCCTTTCTTAAGG
1 ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
135479 ATAT
1 ATAT
135483 AACTTCTAAA
Statistics
Matches: 247, Mismatches: 69, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
33 20 0.08
34 6 0.02
35 35 0.14
36 178 0.72
37 8 0.03
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
ATATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGG
Found at i:135245 original size:72 final size:71
Alignment explanation
Indices: 135123--135482 Score: 323
Period size: 72 Copynumber: 5.1 Consensus size: 71
135113 TTCATTAAAA
* * * * *
135123 ATATTTCATCAAAAACTTCCAAAGCCTTTTTTGAGGATATTTCATCAAAAACTTCCAAAGCCTTT
1 ATATTTCATCAAAACCTT-CAAAGCCCTTCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTTT
*
135188 CTTGAGG
65 CTTAAGG
* * * * *
135195 ATGTTTCATCCAAAACCTTTAAAGCCCTTCTTGAGGATGTTTCATTAAAAACTTTTAAAGCTTTT
1 ATATTTCAT-CAAAACCTTCAAAGCCCTTCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTTT
*
135260 TTTAAGG
65 CTTAAGG
* * * * ** * * * * * * *
135267 ATATTTTAGCAAAACCTCCAAAACGTTTCGTGGGGACATTTCATTAAAGACTTCCGAAGTCTTTC
1 ATATTTCATCAAAACCTTCAAAGCCCTTCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTTTC
*
135332 TAAAGG
66 TTAAGG
* * * * * *
135338 ATGTTCCATCAAAAACTTCCAAAG-CCTCTCTTGATGATGTTTCATTAAAAACTTTCGAAGCCTT
1 ATATTTCATCAAAACCTT-CAAAGCCCT-TCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTT
135402 TCTTAAGG
64 TCTTAAGG
* * * *
135410 ATATTTCA--AAAACCTCCAAAGCCTCTCCTT-AAGATATTTCATTAAAAACTTTTAAAGCCTTT
1 ATATTTCATCAAAACCTTCAAAGCC-CTTCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTTT
135472 CTTAAGG
65 CTTAAGG
135479 ATAT
1 ATAT
135483 AACTTCTAAA
Statistics
Matches: 224, Mismatches: 59, Indels: 13
0.76 0.20 0.04
Matches are distributed among these distances:
69 44 0.20
70 10 0.04
71 60 0.27
72 102 0.46
73 8 0.04
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (71 bp):
ATATTTCATCAAAACCTTCAAAGCCCTTCTTGAGGATATTTCATTAAAAACTTTCAAAGCCTTTC
TTAAGG
Found at i:135392 original size:143 final size:141
Alignment explanation
Indices: 135161--135429 Score: 353
Period size: 143 Copynumber: 1.9 Consensus size: 141
135151 TTTTGAGGAT
** * * *
135161 ATTTCATCAAAAACTTCCAAAGCCTTTCTTGAGGATGTTTCATCCAAAACCTTTAAAGCCCTTCT
1 ATTTCATCAAAAACTTCCAAAGCCTTTCTAAAGGATGTTCCATCCAAAAACTTCAAAGCCCTTCT
* * * *
135226 TGAGGATGTTTCATTAAAAACTTTTAAAGCTTTTTTTAAGGATATTTTAGCAAAACCTCCAAAAC
66 TGAGGATGTTTCATTAAAAACTTTCAAAGCCTTTCTTAAGGATATTTCA--AAAACCTCCAAAAC
135291 GTTTCGTGGGGAC
129 GTTTCGTGGGGAC
* * * *
135304 ATTTCATTAAAGACTTCCGAAGTCTTTCTAAAGGATGTTCCAT-CAAAAACTTCCAAAG-CCTCT
1 ATTTCATCAAAAACTTCCAAAGCCTTTCTAAAGGATGTTCCATCCAAAAACTT-CAAAGCCCT-T
* *
135367 CTTGATGATGTTTCATTAAAAACTTTCGAAGCCTTTCTTAAGGATATTTCAAAAACCTCCAAA
64 CTTGAGGATGTTTCATTAAAAACTTTCAAAGCCTTTCTTAAGGATATTTCAAAAACCTCCAAA
135430 GCCTCTCCTT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
141 12 0.11
142 11 0.10
143 86 0.79
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (141 bp):
ATTTCATCAAAAACTTCCAAAGCCTTTCTAAAGGATGTTCCATCCAAAAACTTCAAAGCCCTTCT
TGAGGATGTTTCATTAAAAACTTTCAAAGCCTTTCTTAAGGATATTTCAAAAACCTCCAAAACGT
TTCGTGGGGAC
Found at i:135588 original size:24 final size:22
Alignment explanation
Indices: 135561--135620 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
135551 AACATTTCAG
135561 AGCTTCTCTCAAGAATACCCAAGA
1 AGCTTCTCTCAAGAAT-CCCAA-A
* *
135585 AGCTTCTTTCAAGGAATCCTAAA
1 AGCTTCTCTCAA-GAATCCCAAA
*
135608 AGCTTTTCTCAAG
1 AGCTTCTCTCAAG
135621 GATATTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 11 0.35
24 15 0.48
25 4 0.13
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (22 bp):
AGCTTCTCTCAAGAATCCCAAA
Found at i:135619 original size:23 final size:25
Alignment explanation
Indices: 135561--135622 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
135551 AACATTTCAG
*
135561 AGCTTCTCTCAA-GAATACCCAAGA
1 AGCTTTTCTCAAGGAATACCCAAGA
*
135585 AGCTTCTT-TCAAGGAAT-CCTAA-A
1 AGCTT-TTCTCAAGGAATACCCAAGA
135608 AGCTTTTCTCAAGGA
1 AGCTTTTCTCAAGGA
135623 TATTTCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 13 0.39
25 5 0.15
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (25 bp):
AGCTTTTCTCAAGGAATACCCAAGA
Found at i:136453 original size:115 final size:110
Alignment explanation
Indices: 136157--136455 Score: 318
Period size: 110 Copynumber: 2.7 Consensus size: 110
136147 GCCCAAGTCA
* *
136157 TATAAAAATATATATTAGATAAAATAAGTCACACATGC--TTAATTAATTTATTTGGGCCTATTT
1 TATAAAAATATATATTAGATAAAATAAG-CCCACATGCTATTAATTAATTTATTTAGGCCTATTT
* ** * * *
136220 TATTTACTTATATTGGGTCATAATTATTTAATTTAAGGCCAAATCT
65 TATTTAATTATATTACGTCATAATCATTTAATTTAACGCCAAACCT
* * * * *
136266 TATAAAAA-AAATACTAGAT-AAATAGGTCTACATGCTTATTTAATTAATTTATTTAGGCCTATT
1 TATAAAAATATATATTAGATAAAATAAGCCCACATGC-TA-TTAATTAATTTATTTAGGCCTATT
* * * *
136329 TCATTTAATTATATTACGTCATAAATCATTTAATTTCACGCTAAGCCT
64 TTATTTAATTATATTACGTCAT-AATCATTTAATTTAACGCCAAACCT
** *
136377 TATCAAAAATATATATTAGATAAAAATAAGCCCATGTGCATATTAATTAATTTATTTTAGACCTA
1 TAT-AAAAATATATATTAGAT-AAAATAAGCCCACATGC-TATTAATTAATTTA-TTTAGGCCTA
136442 TTTTATTTAATTAT
62 TTTTATTTAATTAT
136456 GTTAGGCTAA
Statistics
Matches: 153, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
106 6 0.04
107 6 0.04
108 9 0.06
109 8 0.05
110 41 0.27
111 22 0.14
112 5 0.03
113 9 0.06
114 12 0.08
115 35 0.23
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (110 bp):
TATAAAAATATATATTAGATAAAATAAGCCCACATGCTATTAATTAATTTATTTAGGCCTATTTT
ATTTAATTATATTACGTCATAATCATTTAATTTAACGCCAAACCT
Found at i:137602 original size:26 final size:25
Alignment explanation
Indices: 137560--137625 Score: 105
Period size: 26 Copynumber: 2.6 Consensus size: 25
137550 CAAGTTAGGC
*
137560 AAATATTAATCTAATCAATGGGATT
1 AAATATTGATCTAATCAATGGGATT
137585 AAATATTGATCCTAATCAATGGGATT
1 AAATATTGAT-CTAATCAATGGGATT
*
137611 AAATATTGGTCTAAT
1 AAATATTGATCTAAT
137626 GTTTTTAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 14 0.37
26 24 0.63
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (25 bp):
AAATATTGATCTAATCAATGGGATT
Done.