Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold462
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: 1234098
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 8
Found at i:119420 original size:52 final size:53
Alignment explanation
Indices: 119360--119500 Score: 207
Period size: 52 Copynumber: 2.7 Consensus size: 53
119350 ATCGATACAT
*** *
119360 TGTATCGATACACTGAT-CTTTGTTTCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
119412 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
119464 TGTATCGATACACT-ATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAG
119501 ATAAATTTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 3 0.04
52 77 0.95
53 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:119508 original size:52 final size:52
Alignment explanation
Indices: 119384--119500 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
119374 GATCTTTGTT
*
119384 TCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAATGTA
1 TCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTA
*
119436 TCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATGTA
1 TCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTA
119488 TCGATACATGCAG
1 TCGATACATGCAG
119501 ATAAATTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTA
Found at i:123928 original size:21 final size:22
Alignment explanation
Indices: 123904--123957 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
123894 ACATGGTCCA
123904 GTATCGATACATTTCAA-GCAT
1 GTATCGATACATTTCAATGCAT
*
123925 GTATCGATACA--TCAATTCAT
1 GTATCGATACATTTCAATGCAT
123945 GTATCGATACATT
1 GTATCGATACATT
123958 AACTTATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (22 bp):
GTATCGATACATTTCAATGCAT
Found at i:123970 original size:21 final size:20
Alignment explanation
Indices: 123904--123976 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
123894 ACATGGTCCA
*
123904 GTATCGATACATTTCAA-GCAT
1 GTATCGATACA--TCAATTCAT
123925 GTATCGATACATCAATTCAT
1 GTATCGATACATCAATTCAT
*
123945 GTATCGATACATTAACTT-ATT
1 GTATCGATACATCAA-TTCA-T
123966 GTATCGATACA
1 GTATCGATACA
123977 AATTTTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.09
20 18 0.38
21 25 0.53
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
GTATCGATACATCAATTCAT
Found at i:124038 original size:21 final size:20
Alignment explanation
Indices: 124014--124052 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
124004 GTTAGGACCT
*
124014 TGTATCTATACATGGTAGGCA
1 TGTATCGATACAT-GTAGGCA
124035 TGTATCGATACATGTAGG
1 TGTATCGATACATGTAGG
124053 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGTAGGCA
Found at i:125840 original size:21 final size:22
Alignment explanation
Indices: 125810--125861 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
125800 ACTATTCATT
*
125810 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATA
125832 ACT-TTCATGTATCGATACATA
1 ACTGTTCATGTATCGATACATA
125853 ACTGTTCAT
1 ACTGTTCAT
125862 AGTCATGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (22 bp):
ACTGTTCATGTATCGATACATA
Found at i:128063 original size:72 final size:72
Alignment explanation
Indices: 127945--128080 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
127935 TCTAAACTCA
* * * *
127945 AAAATGAAAATTAATTAATAAGTTTAGAAAAAAATACCCTTGAAAAGAA-ATTAAGTGAATTAGA
1 AAAATGAAAATAAATCAATAAGTTTAGAAAAAAATACCCTTAAAAAGAAGA-TAAATGAATTAGA
128009 AAAGTTAC
65 AAAGTTAC
* * * *
128017 AAAATGAAAATAAATCAATGAGTTTAGAAAATAAT-TCTTCTAAAAAGAAGATAAATGAATTAGA
1 AAAATGAAAATAAATCAATAAGTTTAGAAAAAAATACCCT-TAAAAAGAAGATAAATGAATTAGA
128081 GGAGAAAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.94
73 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.26
Consensus pattern (72 bp):
AAAATGAAAATAAATCAATAAGTTTAGAAAAAAATACCCTTAAAAAGAAGATAAATGAATTAGAA
AAGTTAC
Found at i:131662 original size:52 final size:52
Alignment explanation
Indices: 131584--131712 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
131574 CGAAATATGA
*
131584 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
*
131636 AAATTTGCCTGCATGTATCGATACATTTTATAATATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
131688 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
131713 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
Found at i:131739 original size:13 final size:13
Alignment explanation
Indices: 131721--131745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131711 CAAAGATCAG
131721 TGTATCGATACAA
1 TGTATCGATACAA
131734 TGTATCGATACA
1 TGTATCGATACA
131746 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:131823 original size:33 final size:33
Alignment explanation
Indices: 131786--131852 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
131776 AGTAGCTTAA
131786 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
131819 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
131852 A
1 A
131853 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:131826 original size:13 final size:13
Alignment explanation
Indices: 131808--131832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131798 CAAAAAAATA
131808 TGTATCGATACAT
1 TGTATCGATACAT
131821 TGTATCGATACA
1 TGTATCGATACA
131833 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133210 original size:13 final size:13
Alignment explanation
Indices: 133192--133216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133182 TTTTCCAGAT
133192 TGTATCGATACAA
1 TGTATCGATACAA
133205 TGTATCGATACA
1 TGTATCGATACA
133217 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:134931 original size:20 final size:20
Alignment explanation
Indices: 134905--134958 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
134895 AACCCTGAAA
134905 AGTATCGATACACATTTAAAT
1 AGTATCGATACACA-TTAAAT
* **
134926 -GTATCGATACAGATTGCAT
1 AGTATCGATACACATTAAAT
134945 AGTATCGATACACA
1 AGTATCGATACACA
134959 CAATATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
AGTATCGATACACATTAAAT
Found at i:135036 original size:53 final size:53
Alignment explanation
Indices: 134946--135081 Score: 227
Period size: 53 Copynumber: 2.6 Consensus size: 53
134936 AGATTGCATA
* *
134946 GTATCGATACACACAATATGTATCAATATAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
134999 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
135052 GTATCGATACACATAATAGGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
135082 TTGGAAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 78 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:137740 original size:13 final size:13
Alignment explanation
Indices: 137718--137755 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
137708 ATAAACCCTT
137718 TGTATCGATACAA
1 TGTATCGATACAA
*
137731 TGTATTGATACAA
1 TGTATCGATACAA
*
137744 CGTATCGATACA
1 TGTATCGATACA
137756 GAGAAAGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:143898 original size:24 final size:24
Alignment explanation
Indices: 143852--143901 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
143842 TTTGGTAAGA
*
143852 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
143876 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
143900 TT
1 TT
143902 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:145453 original size:21 final size:21
Alignment explanation
Indices: 145408--145454 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
145398 TCAATTTCAA
* *
145408 CAGGAAACAAGAGCCAACATT
1 CAGGAAACAAGAGACAACATC
145429 CAGGAAACAAG-GACAAGCATC
1 CAGGAAACAAGAGACAA-CATC
145450 CAGGA
1 CAGGA
145455 TTTAGGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.06
Consensus pattern (21 bp):
CAGGAAACAAGAGACAACATC
Found at i:147386 original size:17 final size:19
Alignment explanation
Indices: 147350--147386 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
147340 TGCATTGAAG
*
147350 TGTTTATGGATGATTTCAT
1 TGTTTATGGAGGATTTCAT
147369 TGTTTATGG-GGA-TTCAT
1 TGTTTATGGAGGATTTCAT
147386 T
1 T
147387 TGATGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.51
Consensus pattern (19 bp):
TGTTTATGGAGGATTTCAT
Found at i:150656 original size:1 final size:1
Alignment explanation
Indices: 150650--150714 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
150640 TGGCAATTGT
* * * *** * *
150650 AAAAAAAAAAAAGAAAAGAAAAAAAAGAAAAAAAAGGTAAAAAAAAACAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
150715 GTGAAGATTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.03, G:0.08, T:0.02
Consensus pattern (1 bp):
A
Found at i:150673 original size:14 final size:13
Alignment explanation
Indices: 150650--150714 Score: 69
Period size: 14 Copynumber: 4.7 Consensus size: 13
150640 TGGCAATTGT
150650 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
150663 AAAAGAAAAAAAAG
1 AAAA-AAAAAAAAG
150677 AAAAAAAAGGTAAAA-
1 AAAAAAAA---AAAAG
*
150692 AAAAACAAAAAAAC
1 AAAAA-AAAAAAAG
150706 AAAAAAAAA
1 AAAAAAAAA
150715 GTGAAGATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
13 16 0.35
14 18 0.39
15 5 0.11
16 7 0.15
ACGTcount: A:0.88, C:0.03, G:0.08, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:150673 original size:18 final size:17
Alignment explanation
Indices: 150650--150714 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 17
150640 TGGCAATTGT
150650 AAAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAA-AAAAG
150668 AAAAAAAAGAAAAAAAAGG
1 AAAAAAAA-AAAAAAAA-G
*
150687 TAAAAAAAAACAAAAAAAC
1 -AAAAAAAAA-AAAAAAAG
150706 AAAAAAAAA
1 AAAAAAAAA
150715 GTGAAGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 21 0.50
19 6 0.14
20 15 0.36
ACGTcount: A:0.88, C:0.03, G:0.08, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:150675 original size:9 final size:9
Alignment explanation
Indices: 150650--150713 Score: 69
Period size: 9 Copynumber: 6.9 Consensus size: 9
150640 TGGCAATTGT
150650 AAAAAAAA-
1 AAAAAAAAG
150658 AAAAGAAAAG
1 AAAA-AAAAG
150668 AAAAAAAAG
1 AAAAAAAAG
150677 AAAAAAAAGG
1 AAAAAAAA-G
150687 TAAAAAAAA-
1 -AAAAAAAAG
*
150696 ACAAAAAAAC
1 A-AAAAAAAG
150706 AAAAAAAA
1 AAAAAAAA
150714 AGTGAAGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.10
9 31 0.62
10 6 0.12
11 8 0.16
ACGTcount: A:0.88, C:0.03, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:150691 original size:10 final size:10
Alignment explanation
Indices: 150650--150715 Score: 66
Period size: 10 Copynumber: 6.9 Consensus size: 10
150640 TGGCAATTGT
150650 AAAAAAAA-A
1 AAAAAAAAGA
*
150659 AAAGAAAAG-
1 AAAAAAAAGA
150668 AAAAAAAAGA
1 AAAAAAAAGA
* *
150678 AAAAAAAGGT
1 AAAAAAAAGA
150688 AAAAAAAA-A
1 AAAAAAAAGA
* *
150697 CAAAAAAACA
1 AAAAAAAAGA
150707 AAAAAAAAG
1 AAAAAAAAG
150716 TGAAGATTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:150702 original size:30 final size:31
Alignment explanation
Indices: 150657--150715 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
150647 TGTAAAAAAA
*
150657 AAAAAGAAAAGAAAAAAA-AGAAAAAAAAGGT
1 AAAAAGAAAACAAAAAAACA-AAAAAAAAGGT
150688 AAAAA-AAAACAAAAAAACAAAAAAAAAG
1 AAAAAGAAAACAAAAAAACAAAAAAAAAG
150716 TGAAGATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.02
Consensus pattern (31 bp):
AAAAAGAAAACAAAAAAACAAAAAAAAAGGT
Found at i:160557 original size:20 final size:20
Alignment explanation
Indices: 160532--160603 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
160522 AATCCAGATG
160532 TATCGATACAATGATAAATA
1 TATCGATACAATGATAAATA
* * *
160552 TATCGATAAAATTTGA-AGCATG
1 TATCGATACAA--TGATA-AATA
*
160574 TATCGATACATAT-ATTAATA
1 TATCGATACA-ATGATAAATA
160594 TATCGATACA
1 TATCGATACA
160604 TTTCCTTGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 23 0.57
21 2 0.05
22 14 0.35
23 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (20 bp):
TATCGATACAATGATAAATA
Found at i:163671 original size:21 final size:20
Alignment explanation
Indices: 163583--163677 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
163573 ATAATGAATA
163583 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
* ***
163603 ATGTATCAATACATTTCAGAC
1 ATGTATCGATACATTT-ACTT
* * *
163624 ATCTATTGATACATTCACTT
1 ATGTATCGATACATTTACTT
163644 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTTACT-T
*
163665 TTGTATCGATACA
1 ATGTATCGATACA
163678 AATTGTAGAA
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:170119 original size:52 final size:51
Alignment explanation
Indices: 170038--170157 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 51
170028 TGAAGAGTTA
*
170038 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTAC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA-TTAC
*
170090 CTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGC
1 CTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAATTAC
170141 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
170158 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 20 0.31
52 40 0.62
53 5 0.08
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTAC
Found at i:170184 original size:13 final size:13
Alignment explanation
Indices: 170166--170190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170156 CAAAGATCAG
170166 TGTATCGATACAA
1 TGTATCGATACAA
170179 TGTATCGATACA
1 TGTATCGATACA
170191 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:170268 original size:33 final size:33
Alignment explanation
Indices: 170231--170297 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
170221 AGTAGCTTAA
170231 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
170264 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
170297 A
1 A
170298 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:170271 original size:13 final size:13
Alignment explanation
Indices: 170253--170277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170243 CAAAAAAATA
170253 TGTATCGATACAT
1 TGTATCGATACAT
170266 TGTATCGATACA
1 TGTATCGATACA
170278 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:181217 original size:93 final size:92
Alignment explanation
Indices: 181076--181314 Score: 271
Period size: 93 Copynumber: 2.6 Consensus size: 92
181066 AGCTATCCCT
* * ** ** * ** *
181076 CACATTCCTAATCATATCCCTTTCATCCAACCACTAGATGGTACTGATGCATCGTAAAGCCTTAT
1 CACATTCCCAATCATATCCATTTTTTTGAACCACTAGATGGTATTGATGCATCAAAAAGCCTGAT
181141 TTCCATGGGGAAAAGATATCCTGACAA
66 TTCCATGGGGAAAAGATATCCTGACAA
* * *
181168 CACATTTCCAATCATATCCAATTTTTTTTAACCACTAAATGGTATTGATGCATCAAAAAGCCTGA
1 CACATTCCCAATCATATCC-ATTTTTTTGAACCACTAGATGGTATTGATGCATCAAAAAGCCTGA
* ** * *
181233 TTTCCTTGGGGAATGGATATCCTGGCCA
65 TTTCCATGGGGAAAAGATATCCTGACAA
* * * *
181261 CTCATTCCCAATCATATCCCTTTTTTTGAGCCATTAGATGGTATTGATGCATCA
1 CACATTCCCAATCATATCCATTTTTTTGAACCACTAGATGGTATTGATGCATCA
181315 CATAACCATA
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
92 47 0.39
93 75 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (92 bp):
CACATTCCCAATCATATCCATTTTTTTGAACCACTAGATGGTATTGATGCATCAAAAAGCCTGAT
TTCCATGGGGAAAAGATATCCTGACAA
Found at i:181575 original size:22 final size:21
Alignment explanation
Indices: 181544--181586 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
181534 AATCACACTA
181544 TAAAAGGAAAAATGAATGAATG
1 TAAAAGGAAAAATGAA-GAATG
* *
181566 TAAAATGAAATATGAAGAATG
1 TAAAAGGAAAAATGAAGAATG
181587 AATCAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (21 bp):
TAAAAGGAAAAATGAAGAATG
Found at i:181936 original size:44 final size:44
Alignment explanation
Indices: 181870--182305 Score: 318
Period size: 44 Copynumber: 9.8 Consensus size: 44
181860 CCCAGATGTT
*
181870 AAACTCTTTTCACTTTCATTTGACGTGATGGTTCTACCCTGGTC
1 AAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTACCCTGGTC
* * *
181914 AAACTCTTTTCACTTTCGTTTGACGTGATGCTTCTGCCCTGGTT
1 AAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTACCCTGGTC
* * *
181958 AAACTCTTTTCACTTT-TTCTTGACGTGATGCTTCTACCCGGGTTC
1 AAACTCTTTTCACTTTCGT-TTGACGTGATGGTTCTACCCTGG-TC
* * *
182003 -AACTCTTTTGC-CTTCCATTTGACGTGATGGTTCTATCCTGGTC
1 AAACTCTTTT-CACTTTCGTTTGACGTGATGGTTCTACCCTGGTC
* * * *
182046 AAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTGGTC
1 AAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTACCCTGGTC
* * * *
182090 AAACTCCTTTT-ACTTTTGTTTGATGTAATAGTTCTCACCCTGGTC
1 AAACT-CTTTTCACTTTCGTTTGACGTGATGGTTCT-ACCCTGGTC
* * * * **
182135 AAACATTTTTTTCA--TTCTTTTTGATGTAATGGTTCTCACCACCCTAATC
1 AAAC--TCTTTTCACTTTC-GTTTGACGTGATGGTTCT----ACCCTGGTC
* * * * *
182184 AAACTCTTTTCA--TCCGGTTTGACATGATGGTTTTTGCCTTGGTC
1 AAACTCTTTTCACTTTC-GTTTGACGTGATGG-TTCTACCCTGGTC
* * **
182228 AAACTCTTTTCA-TTTTGATTTGACATGATGGTT-TAGCCCTAATC
1 AAACTCTTTTCACTTTCG-TTTGACGTGATGGTTCTA-CCCTGGTC
* *
182272 AAACTCTTTTCATCCTT-GTTTCGACGTAATGGTT
1 AAACTCTTTTCA-CTTTCGTTT-GACGTGATGGTT
182306 AAGCATTTGT
Statistics
Matches: 317, Mismatches: 53, Indels: 43
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.02
44 208 0.66
45 46 0.15
46 22 0.07
47 21 0.07
48 3 0.01
49 12 0.04
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (44 bp):
AAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTACCCTGGTC
Found at i:182517 original size:85 final size:85
Alignment explanation
Indices: 182359--182520 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
182349 CTTTTTATCC
* * * *
182359 TTTGTTTACTTATCGACTTAGTCCTAAGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTTAAT
1 TTTGTTTACTTATCGACTTAGTCCTAAGTAAACCCTTTTATCCTTTGTTGACCTGACAGCTTAAT
*
182424 TTCAGTCAACTTTTGTATTT
66 CTCAGTCAACTTTTGTATTT
* * * * * *
182444 TTTGTTTACTTGTCGGCTTAGTCCTAGGTAACCCCTTTTATCCTTTGTTGACCTGACTGCTTAGT
1 TTTGTTTACTTATCGACTTAGTCCTAAGTAAACCCTTTTATCCTTTGTTGACCTGACAGCTTAAT
*
182509 CTCGGTCAACTT
66 CTCAGTCAACTT
182521 GTCTAACTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (85 bp):
TTTGTTTACTTATCGACTTAGTCCTAAGTAAACCCTTTTATCCTTTGTTGACCTGACAGCTTAAT
CTCAGTCAACTTTTGTATTT
Found at i:183624 original size:164 final size:165
Alignment explanation
Indices: 183435--184090 Score: 581
Period size: 164 Copynumber: 4.0 Consensus size: 165
183425 AAAATTTTTT
* * *
183435 AAATACCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTTTTTATTTTCATAA-ATTCA
1 AAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTATTTATTTTCATAATTTTCA
* * ** * * *
183499 TTTTTTCTTGAAATTTTTTTGTTTTTGAAATACGGAGTTTTCTACTCCGTAAACATTTTCGAAGG
66 TTTTTTCTTAAAATTATCCTGTTTTTGAAATACGGAATTTTTTACTCCGTAAATATTTTCGAAGG
183564 GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
131 GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
* **
183599 AAATATCATCATTTAATTTACATTAAATCAG-TTT-AAAAA--AAATTTA-TTTCATGAATTTTT
1 AAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTATTTATTTTCAT-AA-TTTT
* * * * * *
183659 CATTTTTTCTCAAAATTATCCTGTTTTCGAAATTCAGGAATTTTTTACTCCATAAATGTTTT-TA
64 CATTTTTTCTTAAAATTATCCTGTTTTTGAAATAC-GGAATTTTTTACTCCGTAAATATTTTCGA
* * *
183723 GGGAGGATTTTTCTTGGTTTATAGTTTTTAAAATTCATC
128 AGG-GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
* * * * *
183762 AAATGTCATCATTTAATTCATATTAAATTAGTTTTG--AAATTTTACTT-TTTTCATTAATTTTT
1 AAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTATTTATTTTCA-TAA-TTTT
* * * * *
183824 CATCTTTTTCTTAAAATTATCGTGTTTCTAAAATACAGATTTTTTTACTCCGTAAATATTTTCG-
64 CAT-TTTTTCTTAAAATTATCCTGTTTTTGAAATACGGAATTTTTTACTCCGTAAATATTTTCGA
** * * *
183888 AGAAGAATTTTCTTACTTTATAATTTTTAAAATTTATC
128 AGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
* *** *
183926 AAATATTATCATTTAATTCATGCTAAATCAATTTTGAAAAATTC-ATTTATTTTCATAAGTTTTT
1 AAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTATTTATTTTCATAA--TTTT
* * * * * * * ** * *
183990 TATTTTTTCTTTGAAATTTTGCTATTTTTGAAAAATC--AAGTTTTTTATTTTGCAAATGTTTTC
64 CATTTTTTC-TTAAAATTATCCTGTTTTTGAAATA-CGGAA-TTTTTTACTCCGTAAATATTTTC
* *
184053 --AGGGAGATTTTTTTTA-TTTAAAATTTTTAAAATTCATC
126 GAAGGG-GATTTTTCTTAGTTTATAATTTTTAAAATTCATC
184091 TAACATTGTC
Statistics
Matches: 394, Mismatches: 77, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
159 6 0.02
160 6 0.02
162 38 0.10
163 87 0.22
164 91 0.23
165 76 0.19
166 89 0.23
167 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
AAATATCATCATTTAATTCACATTAAATCAGTTTTGAAAAATTCTATTTATTTTCATAATTTTCA
TTTTTTCTTAAAATTATCCTGTTTTTGAAATACGGAATTTTTTACTCCGTAAATATTTTCGAAGG
GGATTTTTCTTAGTTTATAATTTTTAAAATTCATC
Found at i:185281 original size:79 final size:80
Alignment explanation
Indices: 185167--185318 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
185157 CACTCCCTAA
* * ** * *
185167 TGAAAAATTTAATATTTTAGAGATAAAATTGGGGTTAGAGTATCCCCTT-GAAAACAATGGGGTT
1 TGAAAAATTCAATATTTTAGAAATAAAATCAGGGTTAGAGCAT-CCCTTCGAAAACAATAGGGTT
* *
185231 GGAGTATCCCCGATGT
65 AGACTATCCCCGATGT
* *
185247 TGAAAAA-TCAATATTTTGGAAATAAAATCAGGGTTGGAGCATCCCTTCGAAAACAATAGGGTTA
1 TGAAAAATTCAATATTTTAGAAATAAAATCAGGGTTAGAGCATCCCTTCGAAAACAATAGGGTTA
185311 GACTATCC
66 GACTATCC
185319 TCTAAAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
78 5 0.08
79 49 0.80
80 7 0.11
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (80 bp):
TGAAAAATTCAATATTTTAGAAATAAAATCAGGGTTAGAGCATCCCTTCGAAAACAATAGGGTTA
GACTATCCCCGATGT
Found at i:185759 original size:13 final size:13
Alignment explanation
Indices: 185741--185768 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
185731 CATTATTCAA
185741 TGTATCAATACAT
1 TGTATCAATACAT
185754 TGTATCAATACAT
1 TGTATCAATACAT
185767 TG
1 TG
185769 ATCTTTTTAT
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:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:201155 original size:28 final size:28
Alignment explanation
Indices: 201083--201194 Score: 145
Period size: 28 Copynumber: 4.0 Consensus size: 28
201073 TATTCCTCAC
* * *
201083 CCTTCAAAAGCCTACAGGTCAATGGCAT
1 CCTTCAAAAGCCCACAAGTCAATGGCAA
*
201111 CTTTTTC-AAAGCCCACAAGTCAATGGCAA
1 C--CTTCAAAAGCCCACAAGTCAATGGCAA
*
201140 CCTTTAAAAGCCCACAAGTCAATGGCAA
1 CCTTCAAAAGCCCACAAGTCAATGGCAA
*
201168 CCTTCAAAAGCCCACAAGTCCATGGCA
1 CCTTCAAAAGCCCACAAGTCAATGGCA
201195 TCTTTTTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 48 0.66
29 20 0.27
30 3 0.04
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAATGGCAA
Found at i:201162 original size:57 final size:56
Alignment explanation
Indices: 201083--201194 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 56
201073 TATTCCTCAC
* * * *
201083 CCTTCAAAAGCCTACAGGTCAATGGCATCTTTTTC-AAAGCCCACAAGTCAATGGCAA
1 CCTTCAAAAGCCCACAAGTCAATGGCAAC--CTTCAAAAGCCCACAAGTCAATGGCAA
* *
201140 CCTTTAAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCCACAAGTCCATGGCA
1 CCTTCAAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCCACAAGTCAATGGCA
201195 TCTTTTTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 3 0.06
56 20 0.42
57 25 0.52
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (56 bp):
CCTTCAAAAGCCCACAAGTCAATGGCAACCTTCAAAAGCCCACAAGTCAATGGCAA
Found at i:201241 original size:32 final size:32
Alignment explanation
Indices: 201199--201315 Score: 144
Period size: 33 Copynumber: 3.6 Consensus size: 32
201189 ATGGCATCTT
* * *
201199 TTTTCCTTTTAAGTCCACGACTCTGTGGCACC
1 TTTTCTTTTTAAGCCCACAACTCTGTGGCACC
*
201231 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTCTTTTT-AAGCCCACAACTCTGTGGCACC
* * *
201264 TTTTTTTTTTAAGTCCACAACTTTGTGGCACCC
1 TTTTCTTTTTAAGCCCACAACTCTGTGGCA-CC
201297 TTTTCTCTTTTAAGCCCAC
1 TTTTCT-TTTTAAGCCCAC
201316 CCTTTAAGCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 26 0.36
33 35 0.49
34 11 0.15
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.40
Consensus pattern (32 bp):
TTTTCTTTTTAAGCCCACAACTCTGTGGCACC
Found at i:201248 original size:67 final size:67
Alignment explanation
Indices: 201174--201315 Score: 200
Period size: 67 Copynumber: 2.1 Consensus size: 67
201164 GCAACCTTCA
* * *
201174 AAAGCCCACAAGTCCATGGCATCTTTTTTCCTTTTAAGTCCACGACTCTGTGGCA-CCTTTTCT-
1 AAAGCCCACAACTCCATGGCACCTTTTTT--TTTTAAGTCCACAACTCTGTGGCACCCTTTTCTC
201237 TTTT
64 TTTT
* *
201241 AAAGCCCACAACTCCGTGGCACCTTTTTTTTTTAAGTCCACAACTTTGTGGCACCCTTTTCTCTT
1 AAAGCCCACAACTCCATGGCACCTTTTTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTCTCTT
201306 TT
66 TT
201308 -AAGCCCAC
1 AAAGCCCAC
201316 CCTTTAAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
65 22 0.32
66 16 0.24
67 30 0.44
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (67 bp):
AAAGCCCACAACTCCATGGCACCTTTTTTTTTTAAGTCCACAACTCTGTGGCACCCTTTTCTCTT
TT
Found at i:201265 original size:33 final size:32
Alignment explanation
Indices: 201174--201315 Score: 124
Period size: 33 Copynumber: 4.3 Consensus size: 32
201164 GCAACCTTCA
* * *
201174 AAAGCCCACAAGTCCATGGCATCTTTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTT--TTT
* * * *
201208 TAAGTCCACGACTCTGTGGCACCTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTT-TTTTT
201241 AAAGCCCACAACTCCGTGGCACCTTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTTTTT
* * **
201273 TAAGTCCACAACTTTGTGGCACCCTTTTCTCTTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTT-T-TTTT
201308 -AAGCCCAC
1 AAAGCCCAC
201316 CCTTTAAGCC
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
32 22 0.25
33 32 0.36
34 28 0.32
35 6 0.07
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTTTTT
Found at i:202699 original size:20 final size:20
Alignment explanation
Indices: 202674--202714 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
202664 CAAATAGTAA
* *
202674 ATGTATCGATACATTTACTT
1 ATGTATCAATAAATTTACTT
*
202694 ATGTATCAATAAATTTCCTT
1 ATGTATCAATAAATTTACTT
202714 A
1 A
202715 GCAGTATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (20 bp):
ATGTATCAATAAATTTACTT
Found at i:206210 original size:22 final size:22
Alignment explanation
Indices: 206156--206212 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
206146 AATATAAATT
* * * *
206156 TAAACTTAAACCCATTTAAATC
1 TAAACTAAAAGCCATCTAAACC
206178 TAAACTAAAAGCCATCTAAACC
1 TAAACTAAAAGCCATCTAAACC
206200 TAAACTAAAAGCC
1 TAAACTAAAAGCC
206213 TAATTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.23
Consensus pattern (22 bp):
TAAACTAAAAGCCATCTAAACC
Found at i:209109 original size:20 final size:19
Alignment explanation
Indices: 209084--209191 Score: 93
Period size: 20 Copynumber: 5.8 Consensus size: 19
209074 TTTACCCAGA
*
209084 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
*
209104 TGTATCGATAAATTGCTCAT
1 TGTATCGATACATT-CTCAT
209124 TGTATCGAT--A----CAT
1 TGTATCGATACATTCTCAT
*
209137 TGTATCAATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
* *
209157 TGTATCGATACATTTTACAA
1 TGTATCGATACATTCT-CAT
209177 TGTATCGATACATTC
1 TGTATCGATACATTC
209192 AGCTGATACA
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
18 1 0.01
19 1 0.01
20 57 0.79
21 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:209148 original size:53 final size:53
Alignment explanation
Indices: 209084--209190 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
209074 TTTACCCAGA
* * *
209084 TGTATCGATACATT-TTGCATTGTATCGATAAATTGCT-CATTGTATCGATACAT
1 TGTATCAATACATTGCT-CATTGTATCGATAAATT-CTACAATGTATCGATACAT
* *
209137 TGTATCAATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCAATACATTGCTCATTGTATCGATAAATTCTACAATGTATCGATACAT
209190 T
1 T
209191 CAGCTGATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (53 bp):
TGTATCAATACATTGCTCATTGTATCGATAAATTCTACAATGTATCGATACAT
Found at i:209152 original size:33 final size:33
Alignment explanation
Indices: 209101--209170 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
209091 ATACATTTTG
*
209101 CATTGTATCGATAAATTGCTCATTGTATCGATA
1 CATTGTATCAATAAATTGCTCATTGTATCGATA
*
209134 CATTGTATCAATACATTGCTCATTGTATCGATA
1 CATTGTATCAATAAATTGCTCATTGTATCGATA
209167 CATT
1 CATT
209171 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCAATAAATTGCTCATTGTATCGATA
Found at i:209170 original size:13 final size:13
Alignment explanation
Indices: 209121--209151 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
209111 ATAAATTGCT
*
209121 CATTGTATCGATA
1 CATTGTATCAATA
209134 CATTGTATCAATA
1 CATTGTATCAATA
209147 CATTG
1 CATTG
209152 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:209201 original size:53 final size:53
Alignment explanation
Indices: 209101--209203 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 53
209091 ATACATTTTG
* * *
209101 CATTGTATCGATAAATTGCTCATTGTATCGATACATTGTATCAATACATTGCT
1 CATTGTATCGATAAATTGCTCAATGTATCGATACATTGCAGCAATACATTGCT
* * *
209154 CATTGTATCGATACATT-TTACAATGTATCGATACATT-CAGCTGATACATT
1 CATTGTATCGATAAATTGCT-CAATGTATCGATACATTGCAGC-AATACATT
209204 CAGGCATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
52 3 0.07
53 39 0.93
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (53 bp):
CATTGTATCGATAAATTGCTCAATGTATCGATACATTGCAGCAATACATTGCT
Found at i:211627 original size:51 final size:51
Alignment explanation
Indices: 211566--211681 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
211556 ATTTTCGAGG
* * * *
211566 GGATACTCCAACCCGGGTTTTATTTCTAAAATACCAATTTTCCACAATCGA
1 GGATACTCCAACCCGGATTTTATTTCCAAAACACCAATTTTCCACAATAGA
* * * * * *
211617 GGATACTCCAACTCTGATTTTATTTCCAAAACGCTAATTTTTCACAATAGG
1 GGATACTCCAACCCGGATTTTATTTCCAAAACACCAATTTTCCACAATAGA
211668 GGATACTCCAACCC
1 GGATACTCCAACCC
211682 CGTTATTTCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACCCGGATTTTATTTCCAAAACACCAATTTTCCACAATAGA
Found at i:211700 original size:79 final size:79
Alignment explanation
Indices: 211617--211922 Score: 267
Period size: 79 Copynumber: 3.9 Consensus size: 79
211607 CCACAATCGA
* * *
211617 GGATACTCCAACTCTGATTTTATTTCCAAAACGCTAATTTTTCACAATAGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATAGGGGATACTCCAACCC
* *
211682 CGTTATTTCCAAGG
66 CGTTATTTTCGAGG
* * *** * * * * * *
211696 GGATACTTCAACCCTGGCCTTATTTCTAAATCA-TCGATTTTTCACAATCGGGTATACTCTAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACT-AATTTTTCACAATAGGGGATACTCCAACC
*
211760 TCGTTATTTTCGAGG
65 CCGTTATTTTCGAGG
* * * * * * *
211775 GAATACTCCAACCCCGATTTCATTTTCAAAATATTGATTTTT-ATAAATA-GGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCA-CAATAGGGGATACTCCAACC
*
211838 CTGTTATTTTCGAGG
65 CCGTTATTTTCGAGG
* *** * * * *
211853 GGATACTGCAACCCCGATTTTATTTCTGGAACACCAATTTTCCATAATCGGGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAAT-AGGGGATACTCCAACC
211918 CCGTT
65 CCGTT
211923 GTTATCTCCA
Statistics
Matches: 174, Mismatches: 47, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
78 60 0.34
79 95 0.55
80 19 0.11
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCACAATAGGGGATACTCCAACCC
CGTTATTTTCGAGG
Found at i:215332 original size:29 final size:29
Alignment explanation
Indices: 215299--215356 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
215289 ATAAAGAAAG
215299 GAATATTTATGTTGTACATTTAGATGTTC
1 GAATATTTATGTTGTACATTTAGATGTTC
215328 GAATATTTATGTTGTACATTTAGATGTTC
1 GAATATTTATGTTGTACATTTAGATGTTC
215357 TAAGTTCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (29 bp):
GAATATTTATGTTGTACATTTAGATGTTC
Found at i:217043 original size:42 final size:42
Alignment explanation
Indices: 216992--217095 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
216982 GAGAAAGAAG
* * *
216992 AGAGAGGAGGGATGATAGGAGGTGAGACATGAGAGATAGTAA
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAA
* *
217034 AGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAG
1 AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAA
* *
217076 AGAGAGGAAGGATGACAGGA
1 AGAGAGGAGGGATGATAGGA
217096 AGAGGAGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.42, C:0.03, G:0.43, T:0.12
Consensus pattern (42 bp):
AGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAA
Found at i:222910 original size:34 final size:34
Alignment explanation
Indices: 222860--222927 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
222850 TACTATAACA
*
222860 AAAAGAGGAGAAATATTTT-AAAAATAAATTTGT
1 AAAAGAGGAGAAATATTTTGAAAAATAAACTTGT
* *
222893 AAAAGAGGGAGAGATATTTTGAGAAATAAACTTGT
1 AAAAGA-GGAGAAATATTTTGAAAAATAAACTTGT
222928 TTTATAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 6 0.20
34 12 0.40
35 12 0.40
ACGTcount: A:0.50, C:0.01, G:0.21, T:0.28
Consensus pattern (34 bp):
AAAAGAGGAGAAATATTTTGAAAAATAAACTTGT
Found at i:222959 original size:13 final size:13
Alignment explanation
Indices: 222941--222967 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
222931 ATAAAGGGGG
222941 AGATTATTTTTGA
1 AGATTATTTTTGA
222954 AGATTATTTTTGA
1 AGATTATTTTTGA
222967 A
1 A
222968 ACAAAAAGGG
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:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGATTATTTTTGA
Found at i:223700 original size:20 final size:20
Alignment explanation
Indices: 223677--223729 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
223667 CACACCTAGA
223677 TGTATCGATATATATTGCTT
1 TGTATCGATATATATTGCTT
223697 TGTATCGATATATATTGCTT
1 TGTATCGATATATATTGCTT
223717 TGTATCGATATAT
1 TGTATCGATATAT
223730 TGTATCGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.49
Consensus pattern (20 bp):
TGTATCGATATATATTGCTT
Found at i:223738 original size:33 final size:32
Alignment explanation
Indices: 223696--223758 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
223686 ATATATTGCT
* *
223696 TTGTATCGATATATATTGCTTTGTATCGATATA
1 TTGTATCGATACATATT-CTTGGTATCGATATA
*
223729 TTGTATCGATACATGTTCTTGGTATCGATA
1 TTGTATCGATACATATTCTTGGTATCGATA
223759 CATAGTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (32 bp):
TTGTATCGATACATATTCTTGGTATCGATATA
Found at i:223774 original size:52 final size:53
Alignment explanation
Indices: 223677--223778 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 53
223667 CACACCTAGA
* * * * ** *
223677 TGTATCGATATATATTGCTTTGTATCGATATATATTGCTTTGTATCGATATAT
1 TGTATCGATACATATTGCTTGGTATCGATACATAGTGAATAGTATCGATATAT
*
223730 TGTATCGATACATGTT-CTTGGTATCGATACATAGTGAATAGTATCGATA
1 TGTATCGATACATATTGCTTGGTATCGATACATAGTGAATAGTATCGATA
223779 CATAAAACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 27 0.66
53 14 0.34
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (53 bp):
TGTATCGATACATATTGCTTGGTATCGATACATAGTGAATAGTATCGATATAT
Found at i:225469 original size:13 final size:13
Alignment explanation
Indices: 225451--225476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225441 TACACCAAGT
225451 ATGTATCGATACA
1 ATGTATCGATACA
225464 ATGTATCGATACA
1 ATGTATCGATACA
225477 CAAAAAATTG
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:225474 original size:32 final size:33
Alignment explanation
Indices: 225433--225496 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
225423 TAGCCAAACT
* **
225433 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
225465 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
225497 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:227731 original size:21 final size:21
Alignment explanation
Indices: 227698--227747 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
227688 TTGCAAGTTG
*
227698 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
227720 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
227741 AAATAAA
1 AAATAAA
227748 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:229565 original size:15 final size:15
Alignment explanation
Indices: 229545--229575 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
229535 TAAAAATGTC
*
229545 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
229560 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
229575 C
1 C
229576 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:231675 original size:13 final size:13
Alignment explanation
Indices: 231657--231692 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
231647 CATTTTTCTT
231657 TGTATCGATACAA
1 TGTATCGATACAA
*
231670 TGTATCGATACAC
1 TGTATCGATACAA
231683 TGTATCGATA
1 TGTATCGATA
231693 TAGGGGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:231849 original size:20 final size:20
Alignment explanation
Indices: 231806--231851 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
231796 AAATCTTTTG
231806 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
231827 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
231847 CAAAA
1 CAAAA
231852 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:234234 original size:13 final size:13
Alignment explanation
Indices: 234216--234241 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
234206 TACACCAAGT
234216 ATGTATCGATACA
1 ATGTATCGATACA
234229 ATGTATCGATACA
1 ATGTATCGATACA
234242 CAAAAAATTG
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:234239 original size:32 final size:33
Alignment explanation
Indices: 234198--234261 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
234188 TAGCCAAACT
* **
234198 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
234230 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
234262 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:238956 original size:13 final size:13
Alignment explanation
Indices: 238938--238963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
238928 CAATTTTTTG
238938 TGTATCGATACAT
1 TGTATCGATACAT
238951 TGTATCGATACAT
1 TGTATCGATACAT
238964 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:239702 original size:21 final size:21
Alignment explanation
Indices: 239661--239704 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
239651 TTACGCATTC
* *
239661 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
239682 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
239703 TC
1 TC
239705 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:241528 original size:13 final size:13
Alignment explanation
Indices: 241510--241535 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
241500 ATAATCACCC
241510 TGTATCGATACAA
1 TGTATCGATACAA
241523 TGTATCGATACAA
1 TGTATCGATACAA
241536 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:243635 original size:15 final size:15
Alignment explanation
Indices: 243615--243645 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
243605 ATTTCGTTTG
*
243615 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
243630 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
243645 G
1 G
243646 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:247727 original size:13 final size:13
Alignment explanation
Indices: 247709--247734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
247699 CAATTTTTTG
247709 TGTATCGATACAT
1 TGTATCGATACAT
247722 TGTATCGATACAT
1 TGTATCGATACAT
247735 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:250573 original size:20 final size:20
Alignment explanation
Indices: 250533--250606 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 20
250523 TTCTACAATT
*
250533 TGTATCGATACAATAAGTGAA
1 TGTATCGATAC-ATGAGTGAA
*
250554 TGTATGGATACATGAGTGAA
1 TGTATCGATACATGAGTGAA
**
250574 TGTATCGATACATGTCTGAAA
1 TGTATCGATACATGAGTG-AA
250595 TGTATCGATACA
1 TGTATCGATACA
250607 AGACCATATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 23 0.49
21 24 0.51
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAGTGAA
Found at i:253490 original size:80 final size:79
Alignment explanation
Indices: 253089--253492 Score: 300
Period size: 80 Copynumber: 5.1 Consensus size: 79
253079 AAAGGGTACA
* * * * * *
253089 CCAACCCTTGTTTTCACTTCTAAAACACCGAATTTTTCATCTTCGAGGATA-TTTCAACCCCATT
1 CCAA-CCTCGTTTTTACTTCTAAAACATCGAATTTTTCATCTTAG-GGATACTCT-AACCCCATC
* *
253153 ATTT-TCGAGAAGATACT
63 ATTTCT-AAGAGGATACT
* * * * * * *
253170 CCAAGCC-CATTTTTACTTCCAAAACATTGAATTTTTCATCTCCAAGGATACTCCAA-CCCTTCC
1 CCAA-CCTCGTTTTTACTTCTAAAACATCGAATTTTTCATCT-TAGGGATACTCTAACCCCAT-C
*
253233 ATTTTTGAAG-GGATACT
63 ATTTCT-AAGAGGATACT
* * * * * * * *
253250 CTAACCACGTTTTTACTTCCAAAATATTGAATTTTTCATCTCAGGGATACTCCAACCCTATCATT
1 CCAACCTCGTTTTTACTTCTAAAACATCGAATTTTTCATCTTAGGGATACTCTAACCCCATCATT
* *
253315 TCTAAAAGGGTACT
66 TCTAAGAGGATACT
* * * * ** * * *
253329 TCAACCCCATTTTTATTTCTCGAACA-CTAAATTTTTTATCTTTAGGGATACTCTAACCCCACCA
1 CCAACCTCGTTTTTACTTCTAAAACATC-GAATTTTTCATC-TTAGGGATACTCTAACCCCATCA
* *
253393 TCTCGAA-AGGAATACT
64 TTTCTAAGAGG-ATACT
* *
253409 CCAACCTCGTTTTTACTTCTAAAACATCAAAATTTTCATCTTAGGAGATACTCTAACCCCATCAT
1 CCAACCTCGTTTTTACTTCTAAAACATCGAATTTTTCATCTTAGG-GATACTCTAACCCCATCAT
253474 TTCTAAGAGGATACT
65 TTCTAAGAGGATACT
253489 CCAA
1 CCAA
253493 TCCCACCATT
Statistics
Matches: 254, Mismatches: 56, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
78 2 0.01
79 66 0.26
80 172 0.68
81 14 0.06
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (79 bp):
CCAACCTCGTTTTTACTTCTAAAACATCGAATTTTTCATCTTAGGGATACTCTAACCCCATCATT
TCTAAGAGGATACT
Found at i:256379 original size:20 final size:19
Alignment explanation
Indices: 256350--256388 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
256340 AGGTCAAAAC
256350 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
256369 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
256389 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:256421 original size:20 final size:20
Alignment explanation
Indices: 256354--256449 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
256344 CAAAACCCTT
****
256354 AAATGTATCGATACACCTTC
1 AAATGTATCGATACATAACC
*
256374 AAATGTATCGATACATAATGC
1 AAATGTATCGATACATAA-CC
* *
256395 ACA-GTATCGATACATGACC
1 AAATGTATCGATACATAACC
* *
256414 AAATGTATCGATAC-TTACAA
1 AAATGTATCGATACATAAC-C
256434 AGAATGTATCGATACA
1 A-AATGTATCGATACA
256450 GGTGATTAGC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.10
20 39 0.64
21 16 0.26
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (20 bp):
AAATGTATCGATACATAACC
Found at i:261718 original size:13 final size:13
Alignment explanation
Indices: 261700--261738 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
261690 TAGTATTCTC
261700 TGTATCGATACAA
1 TGTATCGATACAA
*
261713 TGTATCGATACAG
1 TGTATCGATACAA
*
261726 TGTATAGATACAA
1 TGTATCGATACAA
261739 AGGGTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:264178 original size:20 final size:19
Alignment explanation
Indices: 264149--264187 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
264139 AGGTCAAAAC
264149 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
264168 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
264188 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:264328 original size:13 final size:13
Alignment explanation
Indices: 264310--264335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
264300 TACACACAAG
264310 ATGTATCGATACA
1 ATGTATCGATACA
264323 ATGTATCGATACA
1 ATGTATCGATACA
264336 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:264353 original size:33 final size:32
Alignment explanation
Indices: 264292--264355 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
264282 CTTAACTGTT
264292 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
264324 TGTATCGATACATCCCAA-ATTGTATCGATACA
1 TGTATCGATACA-CACAAGA-TGTATCGATACA
264356 TTGGCTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:265839 original size:22 final size:19
Alignment explanation
Indices: 265814--265864 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
265804 AATATTTTTT
265814 ATTTATTAATAAAATATATCTA
1 ATTTATTAATAAAA-AT-T-TA
265836 ATTTA-TACATAAAAATTTA
1 ATTTATTA-ATAAAAATTTA
265855 ATTTCATTAA
1 ATTT-ATTAA
265865 AATAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 6 0.23
22 11 0.42
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTATTAATAAAAATTTA
Found at i:266018 original size:20 final size:21
Alignment explanation
Indices: 265981--266019 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
265971 AATTAATTTT
265981 ATTTAATATTAAAAATAATAA
1 ATTTAATATTAAAAATAATAA
* *
266002 ATTT-ATATTTAATATAAT
1 ATTTAATATTAAAAATAAT
266020 TTACACATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAATATTAAAAATAATAA
Found at i:266105 original size:20 final size:19
Alignment explanation
Indices: 266076--266113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
266066 TTTATTATTT
*
266076 TTATTTTTTAAAATATAAAA
1 TTATTATTTAAAA-ATAAAA
266096 TTATTATTTAAAAATAAA
1 TTATTATTTAAAAATAAA
266114 TAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTATTTAAAAATAAAA
Found at i:266353 original size:12 final size:12
Alignment explanation
Indices: 266336--266363 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
266326 TATTCTTTAA
266336 TTTTATTTATTT
1 TTTTATTTATTT
266348 TTTTATTTATTT
1 TTTTATTTATTT
266360 TTTT
1 TTTT
266364 CTTCTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:275891 original size:2 final size:2
Alignment explanation
Indices: 275879--275911 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
275869 TTTGTTTGGT
275879 TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
275912 TCTTCAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:276460 original size:2 final size:2
Alignment explanation
Indices: 276453--276492 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
276443 CAATAACAAC
276453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
276493 TTTCATATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279763 original size:166 final size:165
Alignment explanation
Indices: 279406--279985 Score: 472
Period size: 166 Copynumber: 3.5 Consensus size: 165
279396 TAATATATAC
** * * ** * *
279406 AAAAAAATTCAAAATTCATG-AAATAAATTGAATTTCTCT-AAAA-TTATTTAATGGGGATTTAA
1 AAAAAAATAAAAAACTCATGAAAATAAATT-AATTT-T-TGAAAACTGATTTAATATGAATTAAA
* * ** * ** **
279468 TAACAATATTAGATGAATTTTAAAAATTTTAAAGCGAAGAAAATCCCCCTCGAAAACATTTTTGG
63 TAATAATATTTGATGAATTTTAAAAATTAAAAACCGAAGAAAAAACCCCTCGAAAACA-TTTACG
* * *
279533 AA-TA-GAAACTT--AGTTTTTCGAAAACATGAAAATTTCAA
127 AAGTAGGAAA-TTCCA-TATTTC-AAAAAATGAGAATTTCAA
* *
279571 AGAAAAAA-AATCAAAACTCTTGAAAATAAATTAATTTTTGAAAATTGATTTAATATGAATTAAA
1 A-AAAAAATAA--AAAACTCATGAAAATAAATTAATTTTTGAAAACTGATTTAATATGAATTAAA
279635 TAATAATATTTGATGAATTTTAAAAATTAAAAACCGAA-AAAAAACCCCTCGAAAACATTTACGA
63 TAATAATATTTGATGAATTTTAAAAATTAAAAACCGAAGAAAAAACCCCTCGAAAACATTTACGA
279699 AGTAGGAAATTCCATATTTCAAAAATATGAGAATTTCAA
128 AGTAGGAAATTCCATATTTCAAAAA-ATGAGAATTTCAA
* * * **
279738 CAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTACTATGAGCTAAA-A
1 -AAAAAAATAAAAAACTCATGAAAATAAATTAATTTTTGAAAACTGATTTAATATGAATTAAATA
* * * *
279802 AGTAATACTTGATGAATTTTAAAAATTAAAAACC-AAGAAAAATCCCC-CTAAAAACATTTACGG
65 A-TAATATTTGATGAATTTTAAAAATTAAAAACCGAAGAAAAAACCCCTC-GAAAACATTTACGA
* * * * * *
279865 AGTAGAAAACTCCGTATTTCGAAAACAAAG-GTATTTTAA
128 AGTAGGAAATTCCATATTTC-AAAA-AATGAGAATTTCAA
* * * * * * *
279904 AAGAAAATGAATAACTCAT-AAAATAAAAATAATTTTTCAAAACTGATTTAATGGTG-ATTAAAC
1 AAAAAAATAAAAAACTCATGAAAAT-AAATTAATTTTTGAAAACTGATTTAAT-ATGAATTAAAT
* *
279967 GATAATATTT-AAGAATTTT
64 AATAATATTTGATGAATTTT
279986 GATACTTGAA
Statistics
Matches: 342, Mismatches: 52, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
164 13 0.04
165 62 0.18
166 160 0.47
167 93 0.27
168 14 0.04
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (165 bp):
AAAAAAATAAAAAACTCATGAAAATAAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACCGAAGAAAAAACCCCTCGAAAACATTTACGAAGT
AGGAAATTCCATATTTCAAAAAATGAGAATTTCAA
Found at i:282440 original size:165 final size:166
Alignment explanation
Indices: 281856--282789 Score: 1106
Period size: 166 Copynumber: 5.7 Consensus size: 166
281846 TTTTTCGGGA
* * ** * * * * *
281856 GGATTTTTATGGGTTTAAAATTTTAAAAATTCATCAAATGTGATTATTTAATTC-TATTAGATCA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
* *
281920 GTTTTAAAAAATTAATTTATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTTTTTTG
66 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAA-TTCCTTTTTTTTG
* * ** *
281985 AAATAC-AAATGTTTCTACTTAGAAAATGTTTTCGAAG
130 AAATACGAAGT-TTTCAACTCCGTAAATGTTTTCGAAG
* *
282022 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAATTTA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
282087 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTT-CTTGAAATTCCCTTTTTTTTT
66 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATT-CC--TTTTTTT
*
282151 CTAAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
128 -TGAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
* * * *
282191 GAATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTC-TGTTAAATCT
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
** * *
282255 G-TTCAAAAAATTAGTTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTCCTTTTTTTGTG
66 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCTTTTTTT-TG
* * *
282319 AAATATGAAGTTTTCAAGTCCGTAAATGTTTTTGAAG
130 AAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
* * *
282356 GG-TTTTTCTTGG-TTTGAAATTTTAAAATTCATCAAATATTATAATTTATTTCATATTAAATCA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
282419 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAA-TTTTTCCTTGAAATTCTCTTTTTTTTG
66 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTC-CTTTTTTTTG
282483 AAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
130 AAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
* * *
282520 GGATTTTTCTTGGTTTTTTATTTTTAAAATTCATCAAATATAATAATTTATTTCATATTAAATCA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
* * * *
282585 TTTTTGAAAAATTAATTCATCTTCATGAGTTTTTGAA-TTTTTCCTTGAAATTTCTTTTTTCTGA
66 GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTGA
* * * ** * **
282649 AAAATCG-AGTTTTCTATTCCACAAAGGTTTTCGGGG
131 AATA-CGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
* ** * * * * ** *
282685 GGATTTTTCAT--TTTAAAATTTTTAGAATTCAT-ATAATATTATCATTGAACTCCCATTAATTC
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA-AATATTATAATTTAATTCATATTAAATC
* * * *
282747 AATTTTTAAAAATTCAATTTA-TTTCATGA-ATTTTGAATTTTTT
65 AGTTTTGAAAAATT-AATTCATTTTCATGAGTTTTTGAATTTTTT
282790 TATATATATT
Statistics
Matches: 670, Mismatches: 82, Indels: 35
0.85 0.10 0.04
Matches are distributed among these distances:
162 8 0.01
163 97 0.14
164 78 0.12
165 139 0.21
166 154 0.23
167 87 0.13
168 23 0.03
169 81 0.12
170 3 0.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (166 bp):
GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTAATTCATATTAAATCA
GTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTGA
AATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAG
Found at i:282760 original size:329 final size:331
Alignment explanation
Indices: 281874--282788 Score: 1152
Period size: 329 Copynumber: 2.8 Consensus size: 331
281864 ATGGGTTTAA
* * * * * *
281874 AATTTTAAAAATTCATCAAATGTGATTATTTAATTCTATTAGATCAGTTTTAAAAAATTAATTTA
1 AATTTTTAAAATTCATCAAATATAATTATTTAATTCTATTAAATCATTTTTAAAAAATTAATTCA
* * *
281939 TTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTCCTTTTTTTTGAAATA-CAAATGTTTCTAC
66 TTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTT-CTTTTTTCTGAAATATCGAGT-TTTCTA-
** **
282003 TTAGAAAATGTTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATAA
128 TTCCAAAATGTTTTCGAAGGGATTTTTCTT-GTTTAAAATTTTTAAAATTCATCAAATATTATAA
* *
282068 TTTAATTCATATTAATTTAGTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTT
192 TTTAATTCATATTAATTCAGTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTCCTT
*
282133 GAAATTCCCTTTTTTTTTCTAAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAGGAATTTT
257 GAAATT-CCTCTTTTTTTCTAAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAGGAATTTT
282198 TCTTGGTTTTT
321 TCTTGGTTTTT
* * * * *
282209 AATTTTTAAAATTCATCAAATATTATTATTTAATTCTGTTAAATC-TGTTCAAAAAATTAGTTCA
1 AATTTTTAAAATTCATCAAATATAATTATTTAATTCTATTAAATCATTTTTAAAAAATTAATTCA
* * * * *
282273 TTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTCCTTTTTTTGTGAAATAT-GAAGTTTTCAAG
66 TTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTC-TTTTTTCTGAAATATCG-AGTTTTCTAT
* * *
282337 TCCGTAAATGTTTTTGAAGGG-TTTTTCTTGGTTTGAAA-TTTTAAAATTCATCAAATATTATAA
129 TCC-AAAATGTTTTCGAAGGGATTTTTCTT-GTTTAAAATTTTTAAAATTCATCAAATATTATAA
* *
282400 TTTATTTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTCCTT
192 TTTAATTCATATTAATTCAGTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTCCTT
* *
282465 GAAATT-CTCTTTTTTT-TGAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAGGGATTTTT
257 GAAATTCCTCTTTTTTTCTAAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAGGAATTTTT
282528 CTTGGTTTTT
322 CTTGGTTTTT
* * * *
282538 TATTTTTAAAATTCATCAAATATAATAATTTATTTCATATTAAATCATTTTTGAAAAATTAATTC
1 AATTTTTAAAATTCATCAAATATAATTATTTAATTC-TATTAAATCATTTTTAAAAAATTAATTC
* *
282603 ATCTTCATGAGTTTTTGAA-TTTTTCCTTGAAATTTCTTTTTTCTGAAAAATCGAGTTTTCTATT
65 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTCTTTTTTCTGAAATATCGAGTTTTCTATT
* ** * * *
282667 CCACAAAGGTTTTCGGGGGGATTTTTCAT-TTTAAAATTTTTAGAATTCAT-ATAATATTATCAT
130 CCA-AAATGTTTTCGAAGGGATTTTTCTTGTTTAAAATTTTTAAAATTCATCA-AATATTATAAT
* * ** * * * *
282730 TGAACTCCCATTAATTCAATTTTTAAAAATTCAATTTA-TTTCATGA-ATTTTGAATTTTT
193 TTAATTCATATTAATTCAGTTTTGAAAAATT-AATTCATTTTCATGAGTTTTTGAATTTTT
282789 TTATATATAT
Statistics
Matches: 503, Mismatches: 65, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
328 19 0.04
329 176 0.35
330 46 0.09
331 31 0.06
332 92 0.18
333 17 0.03
334 80 0.16
335 42 0.08
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (331 bp):
AATTTTTAAAATTCATCAAATATAATTATTTAATTCTATTAAATCATTTTTAAAAAATTAATTCA
TTTTCATGAGTTTTTGAATTTTTTCCTTGAAATTTCTTTTTTCTGAAATATCGAGTTTTCTATTC
CAAAATGTTTTCGAAGGGATTTTTCTTGTTTAAAATTTTTAAAATTCATCAAATATTATAATTTA
ATTCATATTAATTCAGTTTTGAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTCCTTGAAA
TTCCTCTTTTTTTCTAAAATACGAAGTTTTCAACTCCGTAAATGTTTTCGAAGGAATTTTTCTTG
GTTTTT
Found at i:282945 original size:5 final size:5
Alignment explanation
Indices: 282937--282962 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
282927 TATTTTTTAG
282937 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
282963 TTTCTCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:283720 original size:13 final size:13
Alignment explanation
Indices: 283702--283728 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
283692 ACATTATGCT
283702 TTGTATCGATACA
1 TTGTATCGATACA
283715 TTGTATCGATACA
1 TTGTATCGATACA
283728 T
1 T
283729 GTTCACTGTA
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:283764 original size:20 final size:20
Alignment explanation
Indices: 283709--283768 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
283699 GCTTTGTATC
283709 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* * * *
283729 GTTCACTGTATTGATACATG
1 GATAATTGTATCGATACATG
283749 GATAATTGTATCGATACATG
1 GATAATTGTATCGATACATG
283769 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:289869 original size:18 final size:20
Alignment explanation
Indices: 289846--289887 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
289836 TTTGATGTTT
289846 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
289864 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
289884 ATTA
1 ATTA
289888 GGGTCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:290031 original size:13 final size:13
Alignment explanation
Indices: 290013--290052 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
290003 ACAATATTCC
*
290013 TTGTATCAATACA
1 TTGTATCGATACA
290026 TTGTATCGATACA
1 TTGTATCGATACA
290039 TTGTATCGATACA
1 TTGTATCGATACA
290052 T
1 T
290053 AGGGTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:291113 original size:22 final size:22
Alignment explanation
Indices: 291081--291142 Score: 85
Period size: 20 Copynumber: 3.0 Consensus size: 22
291071 TGTTGAAAAT
291081 AAAT-TTTTATATAGGGGGAGA
1 AAATCTTTTATATAGGGGGAGA
*
291102 AGATC-TTT-TATAGGGGGAGA
1 AAATCTTTTATATAGGGGGAGA
*
291122 AAATCTTTTATATAAGGGGAG
1 AAATCTTTTATATAGGGGGAG
291143 GTAACCGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 16 0.46
21 9 0.26
22 10 0.29
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (22 bp):
AAATCTTTTATATAGGGGGAGA
Found at i:296972 original size:20 final size:20
Alignment explanation
Indices: 296947--297018 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
296937 TACCCAGACG
296947 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * *
296967 TATCGATACATGTATGAATA
1 TATCGATACATTTTTCAATA
* * *
296987 TATCGATATATTCTTCAATG
1 TATCGATACATTTTTCAATA
*
297007 TATTGATACATT
1 TATCGATACATT
297019 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:297959 original size:20 final size:21
Alignment explanation
Indices: 297927--297965 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
297917 AGCCTTTGAC
*
297927 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
297948 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
297966 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:305407 original size:31 final size:30
Alignment explanation
Indices: 305369--305526 Score: 129
Period size: 27 Copynumber: 5.5 Consensus size: 30
305359 GTACTGTGAC
*
305369 CTTTTAAAAGTCCACGACTCAGTGGCATTTT
1 CTTTT-AAAGTCCACAACTCAGTGGCATTTT
* * *
305400 CTTTTAAAGTCCATAACTCTGTGGCA--TC
1 CTTTTAAAGTCCACAACTCAGTGGCATTTT
* * *
305428 CTTTT-AAGTCCACAACTCCGTGTCA--TC
1 CTTTTAAAGTCCACAACTCAGTGGCATTTT
*
305455 CTTTTAAAGTCCACAACTC-GTGGCA--TC
1 CTTTTAAAGTCCACAACTCAGTGGCATTTT
* **
305482 CTTTTAAAGTCCTACAACTCCGTGGCA--CC
1 CTTTTAAAGTCC-ACAACTCAGTGGCATTTT
305511 CTTTTAAAGTCCACAA
1 CTTTTAAAGTCCACAA
305527 TTCCGTAGCA
Statistics
Matches: 115, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
27 43 0.37
28 30 0.26
29 19 0.17
30 18 0.16
31 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.32
Consensus pattern (30 bp):
CTTTTAAAGTCCACAACTCAGTGGCATTTT
Found at i:305472 original size:28 final size:28
Alignment explanation
Indices: 305368--306684 Score: 626
Period size: 28 Copynumber: 45.6 Consensus size: 28
305358 AGTACTGTGA
* *
305368 CCTTTTAAAAGTCCACGACTCAGTGGCATTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA--T
* * *
305399 TCTTTTAAAGTCCATAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
305427 CCTTTT-AAGTCCACAACTCCGTGTCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
305454 CCTTTTAAAGTCCACAACT-CGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
305481 CCTTTTAAAGTCCTACAACTCCGTGGCAC
1 CCTTTTAAAGTCC-ACAACTCCGTGGCAT
* *
305510 CCTTTTAAAGTCCACAATTCCGTAGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * * *
305538 CACAACTCCGTGATA-CCCTTTA-AAGTCCATAACTCCGTGGCAC
1 --C--CT--TTTAAAGTCC---ACAA--C------TCCGTGGCAT
* * * *
305581 CCTTTTAAAGTTCATAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
305609 CCTTTTAAAGTCCACAAC-CTCGTCGCAT
1 CCTTTTAAAGTCCACAACTC-CGTGGCAT
** * * *
305637 TGTTTT-AAGTCCATAACTCCATGGTA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* *
305663 CCCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
305691 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
305719 CGTTTT-AAGTCCATAACTCTGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* *
305745 CCCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
305773 CCTTTTAAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
305800 CCTTTTTAAAGTCCACAACTCCGTGGCAT
1 CC-TTTTAAAGTCCACAACTCCGTGGCAT
* * * *
305829 CGTTTT-AAGTCCATAACTTCGTGGTA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
305855 CCCTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
305883 CCTTTTAAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
305911 CGTTTT-AAGTTCATAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
305938 CC-TTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
305965 CCTTTTAAAGTCCACAACTTCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * * *
305993 CCTTTTTAAGCCCACAAGTCGGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * *
306021 CCTTTTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTTAAAG-TC-CACAACTCCGTGGCAT
* * * *
306051 CCTATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCT-TTT-AAAG-TC-CACAACTCCGTGGC-AT
* * * * *
306084 CCATTTGAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCCGTGGC-AT
* * * *
306116 CCATTTCAAAGCCCACAAATCAGTGGCA-
1 CC-TTTTAAAGTCCACAACTCCGTGGCAT
* * * * *
306144 CACTTTCAAA-CCCACAAGTCAGTGGCAC
1 C-CTTTTAAAGTCCACAACTCCGTGGCAT
* * * *
306172 CCTTTTAAAGCCCACAAATCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
306200 CCTTTCAAAGCCCACAAGC-CAGTGGCA-
1 CCTTTTAAAGTCCACAA-CTCCGTGGCAT
* * * *
306227 CTCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 C-CTTTT-AAAGTCCACA--ACTCCGTGGC-AT
* * **
306260 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAT
* * * * * *
306289 CCTTTCAAAGCCCACGAGTCGGTGGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
306317 CACTTTTCAAAGCCCACAAGTCAGTGGCAT
1 C-CTTTT-AAAGTCCACAACTCCGTGGCAT
* * * *
306347 CCTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * * **
306374 CCCTTTCAAGCCCACAAGTTAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * *
306401 CTCTTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 C-CTTTT-AAAGTCCACA--ACTCCGTGGC-AT
* * *
306434 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAT
* * * * * *
306463 CCTTTCAAAGCCCACGAGTCAGGTGGCAACA
1 CCTTTTAAAGTCCACAACTC-CGTGGC-A-T
* * * * ** *
306494 CCTTTCACAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * *
306522 CCTTTTAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
* * * *
306550 CCTTTCAAAGCCCACATGACTCGGTGGCAAC
1 CCTTTTAAAGTCCACA--ACTCCGTGGC-AT
* * *
306581 CCTTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CC--TTTT-AAAGTCCACAACTCCGTGGCAT
* * * *
306612 CCTTTCAAAG-CTCACAAGTCAGTGGCAC
1 CCTTTTAAAGTC-CACAACTCCGTGGCAT
* * * *
306640 CCTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCAT
*
306667 CTCTTTTCAAAGCCCACA
1 C-CTTTT-AAAGTCCACA
306685 CGAGTTGGTG
Statistics
Matches: 1071, Mismatches: 143, Indels: 146
0.79 0.11 0.11
Matches are distributed among these distances:
26 14 0.01
27 237 0.22
28 439 0.41
29 84 0.08
30 100 0.09
31 48 0.04
32 101 0.09
33 12 0.01
34 15 0.01
35 3 0.00
36 3 0.00
37 3 0.00
38 1 0.00
39 2 0.00
41 1 0.00
43 8 0.01
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCCGTGGCAT
Found at i:305522 original size:56 final size:55
Alignment explanation
Indices: 305400--306666 Score: 600
Period size: 55 Copynumber: 22.5 Consensus size: 55
305390 GTGGCATTTT
* * *
305400 CTTTTAAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGTCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
305455 CTTTTAAAGTCCACAACTC-GTGGCATCCTTTTAAAGTCCTACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCC-ACAACTCCGTGGCACC
* * * **
305511 CTTTTAAAGTCCACAATTCCGT---A-GC-----A-T-CACAACTCCGTGATACC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * * *
305555 C-TTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTTCATAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* ** * * *
305610 CTTTTAAAGTCCACAAC-CTCGTCGCATTGTTTTAAGTCCATAACTCCATGGTACC
1 CTTTTAAAGTCCACAACTCT-GTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
305665 C-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * *
305720 GTTTT-AAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* *
305774 CTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATCC-TTTT-AAGTCCACAACTCCGTGGCACC
* * * * * *
305830 GTTTT-AAGTCCATAACT-TCGTGGTACCCTTTAAAGTCCACAACTCCGTGACACC
1 CTTTTAAAGTCCACAACTCT-GTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * *
305884 CTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTTCATAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
305939 C-TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACC
* * * * * * * * *
305994 CTTTTTAAGCCCACAAGTCGGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTT-AAG-TC-CACAACTCCGTGGCACC
* * * * * * * *
306052 CTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACC
1 CT-TTT-AAAG-TC-CACAACTCTGTGGC-ATCC-TTT-TAAG-TC-CACAACTCCGTGGC-ACC
* * * * * ** * *
306117 CATTTCAAAGCCCACAAATCAGTGGCA-CACTTTCAAACCCACAAGTCAGTGGCACC
1 C-TTTTAAAGTCCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCACC
* * * * * * * *
306173 CTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGC-CAGTGGCACT
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTT-TAAGTCCACAA-CTCCGTGGCACC
* * * * * * ** *
306229 CTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTT-AAAGTCCACA--ACTCTGTGGC-ATCCTTTT--AAGTCCACAACTCCGTGGCACC
* * * * * * * * * *
306290 CTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATC-CTTTT--AAGTCCACAACTCCGTGGCACC
* * * * * * * * ** *
306348 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAGCCCACAAGTTAGTGGCACT
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * * * * *
306403 CTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTT-AAAGTCCACA--ACTCTGTGGC-ATCCTTTT--AAGTCCACAACTCCGTGGCACC
* * * * * * * * * **
306464 CTTTCAAAGCCCACGAGTCAGGTGGCAACACCTTTCACAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGTCCACAACTC-TGTGGC-A-TCCTTTTA-AGTCCACAACTCCGTGGCACC
* * * * * *
306523 CTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACATGACTCGGTGGCAACC
1 CTTTTAAAGTCCACAACTCTGTGGCATCCTTT-TAAGTCCACA--ACTCCGTGGC-ACC
* * * * * *
306582 CTTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CTCACAAGTCAGTGGCACC
1 C--TTTT-AAAGTCCACAACTCTGTGGCATCCTTT-TAAGTC-CACAACTCCGTGGCACC
* * * *
306641 CTTTCAAAGCCCACAAGTCAGTGGCA
1 CTTTTAAAGTCCACAACTCTGTGGCA
306667 CTCTTTTCAA
Statistics
Matches: 1013, Mismatches: 130, Indels: 137
0.79 0.10 0.11
Matches are distributed among these distances:
43 18 0.02
44 15 0.01
45 1 0.00
46 2 0.00
47 2 0.00
53 2 0.00
54 119 0.12
55 251 0.25
56 188 0.19
57 37 0.04
58 106 0.10
59 72 0.07
60 45 0.04
61 53 0.05
62 62 0.06
63 6 0.01
64 28 0.03
65 5 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (55 bp):
CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:305697 original size:82 final size:82
Alignment explanation
Indices: 305538--306216 Score: 558
Period size: 82 Copynumber: 8.1 Consensus size: 82
305528 TCCGTAGCAT
** * * * * * *
305538 CACAACTCCGTGATACCCTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTTCATAACTCTG
1 CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCCG
305603 TGGCACCCTTTTAAAGTC
65 TGGCACCCTTTTAAAGTC
* ** * * *
305621 CACAAC-CTCGTCGCATTGTTTTAAGTCCATAACTCCATGGTACCCTTTAAAGTCCACAACTCCG
1 CACAACTC-CGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCG
305685 TGGCACCCTTTTAAAGTC
65 TGGCACCCTTTTAAAGTC
* * *
305703 CACAACTCCGTGGCATCGTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCCGT
1 CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGT
305768 GGCACCCTTTTAAAGTC
66 GGCACCCTTTTAAAGTC
* * * * *
305785 CACAACTCCGTGGCA-CCTTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCATAACTTC
1 CACAACTCCGTGGCATCC-TTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCC
*
305849 GTGGTACCC-TTTAAAGTC
64 GTGGCACCCTTTTAAAGTC
* * * * * * *
305867 CACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTTCATAACTCCG
1 CACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCG
*
305932 TGGCATCC-TTTAAAGTC
65 TGGCACCCTTTTAAAGTC
* * * * * * *
305949 CACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTTAAGCCCACAAGTCG
1 CACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCC
*
306014 GTGGCACCCTTTTAAAGCCC
64 GTGGCACCCTTTTAAAG-TC
* * * * * * *
306034 ACACAAGTCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCA
1 -CACAACTCCGTGGCATCCT-TTT--AAG-TC-CACAACTCCGTGGC-ACCC-TTT-AAAG-TC-
* * * *
306099 CACAAGTCGGTGGCAACCCATTTCAAAGCC
55 CACAACTCCGTGGC-ACCC-TTTTAAAGTC
* * * ** * * * * *
306129 CACAAATCAGTGGCA-CACTTTCAAACCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAATCA
1 CACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCC
* *
306193 GTGGCACCCTTTCAAAGCC
64 GTGGCACCCTTTTAAAGTC
306212 CACAA
1 CACAA
306217 GCCAGTGGCA
Statistics
Matches: 515, Mismatches: 60, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
81 1 0.00
82 253 0.49
83 116 0.23
84 11 0.02
85 13 0.03
86 18 0.03
87 7 0.01
88 11 0.02
89 14 0.03
90 15 0.03
91 6 0.01
92 3 0.01
93 5 0.01
94 29 0.06
95 6 0.01
96 7 0.01
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (82 bp):
CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGT
GGCACCCTTTTAAAGTC
Found at i:305800 original size:192 final size:192
Alignment explanation
Indices: 305541--306009 Score: 751
Period size: 192 Copynumber: 2.4 Consensus size: 192
305531 GTAGCATCAC
** * * * *
305541 AACTCCGTGATACCCTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAAGTTCATAACTCTGTGG
1 AACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGG
*
305606 CACCCTTTTAAAGTCCACAAC-CTCGTCGCATTGTTTTAAGTCCATAACTCCATGGTACCCTTTA
66 CACCCTTTTAAAGTCCACAACTC-CGTCGCATCGTTTTAAGTCCATAACTCCATGGTACCCTTTA
*
305670 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCAT
130 AAGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCAT
*
305733 AACTCTGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGG
1 AACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGG
* * * *
305798 CACCTTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCATAACTTCGTGGTACCCTTTAA
66 CACCCTTTTAAAGTCCACAACTCCGTCGCATCGTTTTAAGTCCATAACTCCATGGTACCCTTTAA
*
305863 AGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTTCAT
131 AGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCAT
* *
305925 AACTCCGTGGCATCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTTCGTGG
1 AACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGG
* * *
305990 CATCCTTTTTAAGCCCACAA
66 CACCCTTTTAAAGTCCACAA
306010 GTCGGTGGCA
Statistics
Matches: 255, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
192 254 1.00
193 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.29
Consensus pattern (192 bp):
AACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGG
CACCCTTTTAAAGTCCACAACTCCGTCGCATCGTTTTAAGTCCATAACTCCATGGTACCCTTTAA
AGTCCACAACTCCGTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTTTAAGTCCAT
Found at i:306376 original size:175 final size:175
Alignment explanation
Indices: 305931--306716 Score: 932
Period size: 175 Copynumber: 4.5 Consensus size: 175
305921 TCATAACTCC
* * * * * *
305931 GTGGCATCCTTT-AAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTTC-GTGGCAT
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACAA-GTCAGTGGCAT
* * * * *
305993 CCTTTTTAAGCCCACAAGTCGGTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAAC-CTATT
65 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGCCAGTGGCAACTCT-TT
* * * *
306057 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTGAAAGCCCACACAAGTCG
127 TCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAG-CC-CACAAGTCA
* *
306108 GTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCACAC-TTTCAAA-CCCACAAGTCAGTGGCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACAAGTCAGTGGCA
* *
306171 CCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGC-ACTCTTTTC
64 TCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCAACTCTTTTC
*
306235 AAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTA
129 AAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCA
* *
306282 GTGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACACTTTTCAAAGCCCACAAGTCAGTGGCAT
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACACTTTTCAAAGCCCACAAGTCAGTGGCAT
* **
306347 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACAAGTTAGTGGC-ACTCTTTTCA
65 CCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCAACTCTTTTCA
306410 AAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCA
130 AAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCA
* * * *
306456 GTGGCATCCTTTCAAAGCCCACGAGTCAGGTGGCAACACCTTTCACAGCCCACAAGTTAGTGGCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA-GTGGC-ACACTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
306521 CCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACATGACTCGGTGGCAACCCTTT
64 TCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-C-CAGTGGCAA--CTCT
* * *
306586 TTTCAAAGCCCACA--AGTCAGTGGC-ATCC-TTTCAAAGCTCACAAGTCA
125 TTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCA
* * **
306633 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACA--AGTCAGTGGCA
*
306698 ACTCTTTTCAAAGCCCACA
64 TC-CTTTT-AAAGCCCACA
306717 CAAGTTAGTC
Statistics
Matches: 538, Mismatches: 51, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
172 21 0.04
173 7 0.01
174 118 0.22
175 132 0.25
176 54 0.10
177 74 0.14
178 20 0.04
179 72 0.13
180 23 0.04
181 17 0.03
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (175 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACACTTTTCAAAGCCCACAAGTCAGTGGCATC
CTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCAACTCTTTTCAA
AGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCA
Found at i:306498 original size:147 final size:141
Alignment explanation
Indices: 305739--306716 Score: 780
Period size: 147 Copynumber: 6.8 Consensus size: 141
305729 CCATAACTCT
* * * * * * *
305739 GTGGCACCCTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCT
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC-
* * * * * * * * *
305803 TTTTAAAGTCCACAACTCCGTGGC-A-TCGTTTT--AAGTCCATAACTTC-GTGGTACCCTTT-A
65 CTTTCAAGCCCACAAGTCGGTGGCAACTC-TTTTCAAAGCCCACAA-GTCAGTGGCACCCTTTCA
* * *
305862 AAGTCCACAACTCC
128 AAGCCCACAAGTCA
* * * * * * * * ** * * * *
305876 GTGACACCCTTTTAAAGTCCACAACTCCGTGGCATCGTTT-TAAGTTCATAACTCCGTGGCATCC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * * * * **
305940 TTTAAAGTCCACAACTCCGTGGC-ACCCTTTT-AAAGTCCACAACTTC-GTGGCATCCTTTTTAA
66 TTTCAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAA-GTCAGTGGCACCCTTTCAAA
*
306002 GCCCACAAGTCG
130 GCCCACAAGTCA
* * * *
306014 GTGGCACCCTTTTAAAGCCCACACAAGTCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTG
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAG-CC-CACAAGTCAGTG
* * * *
306079 GCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAATCAGTGGCA
60 GC-ACCC-TTT-CAAG-CC-CACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
306144 CACTTTCAAA-CCCACAAGTCA
120 CCCTTTCAAAGCCCACAAGTCA
* * *
306165 GTGGCACCCTTTTAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGCCAGTGGCACTC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-C
* * * *
306230 TTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTC
65 CTTTC-AAGCCCACA--AGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* *
306295 AAAGCCCACGAGTCG
127 AAAGCCCACAAGTCA
* *
306310 GTGGCAACACTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 GTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
** *
306375 CCTTTCAAGCCCACAAGTTAGTGGC-ACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACCCTTT
64 CCTTTCAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCC-TT
306439 TCAAAGCCCACAAGTCA
125 TCAAAGCCCACAAGTCA
* * * *
306456 GTGGCATCCTTTCAAAGCCCACGAGTCAGGTGGCAACACCTTTCACAGCCCACAAGTTAGTGGCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA-GTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
306521 CCCTTTTAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACATGACTCGGTGGCAACCCT
63 CCC-TTTCAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCC-
306584 TTTTTCAAAGCCCACAAGTCA
123 --TTTCAAAGCCCACAAGTCA
* *
306605 GTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
1 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-C
* *
306670 TTTTCAAAGCCCACACGAGTTGGTGGCAACTCTTTTCAAAGCCCACA
65 CTTTC-AAGCCCACA--AGTCGGTGGCAACTCTTTTCAAAGCCCACA
306717 CAAGTTAGTC
Statistics
Matches: 711, Mismatches: 88, Indels: 70
0.82 0.10 0.08
Matches are distributed among these distances:
136 28 0.04
137 54 0.08
138 52 0.07
139 1 0.00
140 12 0.02
141 2 0.00
142 25 0.04
143 13 0.02
144 81 0.11
145 56 0.08
146 64 0.09
147 133 0.19
148 34 0.05
149 67 0.09
150 15 0.02
151 52 0.07
152 22 0.03
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (141 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
TTTCAAGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCA
Found at i:307314 original size:20 final size:20
Alignment explanation
Indices: 307286--307360 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
307276 TTTTACCTAG
307286 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
307306 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
307326 ATGTATTGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
*
307346 ATGTATTGATACATT
1 ATGTATCGATACATT
307361 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:307346 original size:40 final size:39
Alignment explanation
Indices: 307286--307363 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
307276 TTTTACCTAG
*
307286 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* * * *
307326 ATGTATTGATATATTCTTCAATGTATTGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
307364 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:308301 original size:20 final size:21
Alignment explanation
Indices: 308269--308307 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
308259 AGCCTTTGAC
*
308269 CATGCATTTTTTATTATGTTT
1 CATGCATTTTTTAATATGTTT
308290 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
308308 CCAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:310670 original size:186 final size:186
Alignment explanation
Indices: 310356--310725 Score: 677
Period size: 186 Copynumber: 2.0 Consensus size: 186
310346 TAACTCAAGA
*
310356 CATAGGTTTCAATCGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAATTTC
1 CATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAATTTC
310421 GATCACTTCGTGGTGACTATCGAAGATCGATTAGATGGGCGATTCATCTACCGATCTTCCCCCTT
66 GATCACTTCGTGGTGACTATCGAAGATCGATTAGATGGGCGATTCATCTACCGATCTTCCCCCTT
*
310486 TAATCAATATATTTCACATCATGCCATGGAAATCCCCAATCGCGAGGGATATTAGG
131 TAATCAATATATTTCACATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAGG
* *
310542 CATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGACTCTAAAATTTC
1 CATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAATTTC
* *
310607 GGTCACTTCGTGGTGACTATCGAAGATCTATTAGATGGGCGATTCATCTACCGATCTTCCCCCTT
66 GATCACTTCGTGGTGACTATCGAAGATCGATTAGATGGGCGATTCATCTACCGATCTTCCCCCTT
*
310672 TAATCAATATATTTCTCATCATGCCATAGAAATCCCCAATCGCGAGGGATATTA
131 TAATCAATATATTTCACATCATGCCATAGAAATCCCCAATCGCGAGGGATATTA
310726 AGTCGGGCGT
Statistics
Matches: 177, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
186 177 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (186 bp):
CATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAATTTC
GATCACTTCGTGGTGACTATCGAAGATCGATTAGATGGGCGATTCATCTACCGATCTTCCCCCTT
TAATCAATATATTTCACATCATGCCATAGAAATCCCCAATCGCGAGGGATATTAGG
Found at i:312644 original size:97 final size:97
Alignment explanation
Indices: 312465--312668 Score: 261
Period size: 97 Copynumber: 2.1 Consensus size: 97
312455 GGTTGGAGTG
* * * *
312465 TCCCTAACT-ATGATAATTTAGGCAAAAATAAGATTTAAATTATGATAAGTTTAAAAACGGGGTT
1 TCCCTAA-TGATGACAATTTAAGCAAAAATAAGATTTAAATTATGACAAGTTTAAAAACAGGGTT
*
312529 GGAGTATCCTCTTAAAAGAATAGGGTTAAAGTA
65 GGAGTATCCTCTTAAAAGAATAAGGTTAAAGTA
*
312562 TCCCTAATGATGACAATTTAAGCAAAAATAAGATTTAAATCT-TGACAAGTTTAAAAATAGGGTT
1 TCCCTAATGATGACAATTTAAGCAAAAATAAGATTTAAAT-TATGACAAGTTTAAAAACAGGGTT
* * **
312626 GGAGTAT-CTCTTCGAAAGATTAAGGTTGGAGTA
65 GGAGTATCCTCTT-AAAAGAATAAGGTTAAAGTA
*
312659 TCCCTGATGA
1 TCCCTAATGA
312669 ATAAAATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
96 6 0.06
97 86 0.92
98 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (97 bp):
TCCCTAATGATGACAATTTAAGCAAAAATAAGATTTAAATTATGACAAGTTTAAAAACAGGGTTG
GAGTATCCTCTTAAAAGAATAAGGTTAAAGTA
Found at i:315041 original size:51 final size:51
Alignment explanation
Indices: 314972--315100 Score: 141
Period size: 52 Copynumber: 2.5 Consensus size: 51
314962 GCATGTATCA
* * * ** * *
314972 ATACATTGAAGAATGTATCAATACATTGGGTCAAAAACCCAGAATGTATCG
1 ATACAATGAAAAATGTATCGATACATTAAGTCAAAAACCCAAAATGCATCG
* ** * *
315023 CTATGATGAATAATGTATCGATATATTTAAGTCAAAAACCCAAAATGCATCG
1 ATACAATGAAAAATGTATCGATACA-TTAAGTCAAAAACCCAAAATGCATCG
315075 ATACAATGAAAAATGTATCGATACAT
1 ATACAATGAAAAATGTATCGATACAT
315101 ATTCTTTTTA
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
51 19 0.31
52 42 0.69
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (51 bp):
ATACAATGAAAAATGTATCGATACATTAAGTCAAAAACCCAAAATGCATCG
Found at i:315181 original size:20 final size:21
Alignment explanation
Indices: 315138--315192 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
315128 TATACGGTCC
315138 TGTATCGATACATTTCAAGCA
1 TGTATCGATACATTTCAAGCA
*
315159 TGTATCGATAC-TTTCACA-TA
1 TGTATCGATACATTTCA-AGCA
*
315179 TGTATCAATACATT
1 TGTATCGATACATT
315193 ACCTTATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTCAAGCA
Found at i:316500 original size:13 final size:13
Alignment explanation
Indices: 316482--316507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
316472 TAGATTGAAC
316482 ATGTATCGATACA
1 ATGTATCGATACA
316495 ATGTATCGATACA
1 ATGTATCGATACA
316508 TCTGGGTGTG
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:316937 original size:28 final size:28
Alignment explanation
Indices: 316805--318792 Score: 1309
Period size: 28 Copynumber: 68.7 Consensus size: 28
316795 AAAAGGTACA
* * *
316805 CCACTAACTCGTGGGCTTTAAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * * *
316835 CCATTGACTTGTGAGTTTTAGAAAGGTATG
1 CCACTGACTTGTGGGCTTT-GAAAGG-GTG
* * *
316865 CCACTAACTCGTGGGCTTTAAAAGAGGATG
1 CCACTGACTTGTGGGCTTTGAAAG-GG-TG
* * * * *
316895 -CATTAACTTGTGGGCATTGAGAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
316922 CCACTGACTTGTGGGCATTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
316950 CCACTGACATATGGGCTTTGAAAGAGGATG
1 CCACTGACTTGTGGGCTTTGAAAG-GG-TG
*
316980 CCA-TCGACTTGTGGGCTTTGAGAGGGTG
1 CCACT-GACTTGTGGGCTTTGAAAGGGTG
* *
317008 CCACTAACTTGTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
317036 CCACTAACTAGTGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
*
317066 CCACTAACTTGTGGGCTTT-AAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGG-TG
* ** * *
317094 GCACTGACTTAAGGGCTTTGAGAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * ***
317122 CCACTGACTCGTGGGCTTTAAAAAAATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
317150 CCACTGACCTGTGGGCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTG-AAAGGG-TG
* *
317180 CCATTGACTTGTGGGCTTTAAAAAGGGGTG
1 CCACTGACTTGTGGGCTTT-GAAA-GGGTG
* *
317210 CCACTAACTTGTGGGCTTTAAAAGGGGGTG
1 CCACTGACTTGTGGGCTTTGAAA--GGGTG
* * *
317240 CCACTAACTTGTGGGCTTTGAGAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * *
317268 CCTCTAACTTATGGGCTCTGAAATGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * * *
317298 TCAC-CAGCTTGTAGGCTTTAAAAGGGGATG
1 CCACTGA-CTTGTGGGCTTTGAAA-GGG-TG
*
317328 CCACTGACTTATGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * *
317358 CCATTGACTTATGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
317386 CCATTGACTTGTGAGCTTTGAAAGGGGATA
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
*
317416 CCA-TCAACTTGTGGGCTTT-AAGAGGGTG
1 CCACT-GACTTGTGGGCTTTGAA-AGGGTG
* * ** * *
317444 CTACTAACTCATGGGCTTTAAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
317472 ACACTAACTTGTAGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* *
317502 CCACCGACTTGTGGGCTTTGAGAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * *
317530 CCATTTACTTATGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
317558 CCACTAACTTGGGGGCTTTGAAAGAGGATG
1 CCACTGACTTGTGGGCTTTGAAAG-GG-TG
* * *
317588 CCACTAACTTGTGGGATTTGAGAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
317616 CCACTGACTTGTGGGCTTT-AAATGGGTG
1 CCACTGACTTGTGGGCTTTGAAA-GGGTG
* * *
317644 CTACTAACTTATGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * *
317674 CTA-TCGACTTGTGGGTTTTAAAAGGGTG
1 CCACT-GACTTGTGGGCTTTGAAAGGGTG
* * *
317702 CCACTAACTTATGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
317730 CCATTAACTTGTGGGCTTTGAAAGGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGG-TG
317759 CCA-TCGACTTGTGGGCTTTGAAAGAGGATG
1 CCACT-GACTTGTGGGCTTTGAAAG-GG-TG
* *
317789 CCACCGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
317817 CCATTAACTTATGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
** * * **
317847 CCACCAACTTATGGGCTTTTAAAAAGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * * *
317875 CCACTAACTCGGGGGCTTTCAAAGGGCG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * *
317903 CCACTAAATTGCGGGCTTTGAAAAAGGATG
1 CCACTGACTTGTGGGCTTTG--AAAGGGTG
* * *
317933 CCACTAATTTGTGGACTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
*
317963 CCA-TCAACTTGTGGGCTTTGAAAGGGATG
1 CCACT-GACTTGTGGGCTTTGAAAGGG-TG
* *
317992 CCAC-GACTTGTGGGCTCTGAAAGTAGATG
1 CCACTGACTTGTGGGCTTTGAAAG--GGTG
* * *
318021 CCA-TCAACTTGTGGGCTTTGAGAGGATG
1 CCACT-GACTTGTGGGCTTTGAAAGGGTG
* * * *
318049 CCACTAACTTTTGGACTTTGAAAGGGGATA
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
** * *
318079 CCACCAACTTATAGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* *
318109 CTACTAACTTGTGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * * *
318139 CCACCGACTTGTAGGTTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
318167 CCATTAACTTGTGGGCTTTGAAAGGGAATG
1 CCACTGACTTGTGGGCTTTGAAAGGG--TG
* * *
318197 CCA-TCACCTTGTGGGCTTTGAGAA-GTTT
1 CCACTGA-CTTGTGGGCTTTGA-AAGGGTG
* * *
318225 CCACTGACTCGTGGTCTTT-AAATGAGTG
1 CCACTGACTTGTGGGCTTTGAAA-GGGTG
* * *
318253 CCATTGACTTCTGGG-TTTCGAAAGGCAATG
1 CCACTGACTTGTGGGCTTT-GAAAGG--GTG
* *
318283 CCCCT-ACCTTGTGGGCTTTGAGAGGGTG
1 CCACTGA-CTTGTGGGCTTTGAAAGGGTG
* * * *
318311 CCATTGATTTTTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
318339 CTACTGACTTGCGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* *
318369 CCACTGACTTATGGGCTTTGAGAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* ** * * *
318397 GCACTGACTCATAGGCTTTAAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
318425 CCACTAACTTGTGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* *
318455 CCACCGTCTTGTGGGCTTTGAAAAGGGATG
1 CCACTGACTTGTGGGCTTTG-AAAGGG-TG
* * *
318485 TCA-TCAACTTGTGGGCTTTGAAAGGATG
1 CCACT-GACTTGTGGGCTTTGAAAGGGTG
* * *
318513 CCATTAACTTGAGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * *
318543 CCACTAACTTATGGGCTTTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
318571 CCACTGACTCGTGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
318601 CCA-TCGAC-TGTGGGCTTTGAAAGGGGATG
1 CCACT-GACTTGTGGGCTTTGAAA-GGG-TG
* ** * *
318630 CCATTGACTTGTTAGCCTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
**
318658 CCACAAACTTGTGGGCTTTGAAAGGGGATG
1 CCACTGACTTGTGGGCTTTGAAA-GGG-TG
* * * *
318688 CCACCGGCTTATGGGCTTTTAAAGGGGGTG
1 CCACTGACTTGTGGGCTTTGAAA--GGGTG
** * * *
318718 TTAGTAACTTGTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
318746 CCATTGACTTGTGGGCATTT-AAAGGATG
1 CCACTGACTTGTGGGC-TTTGAAAGGGTG
* * *
318774 CCATTAACTTGTGAGCTTT
1 CCACTGACTTGTGGGCTTT
318793 TTTTTTAAAA
Statistics
Matches: 1565, Mismatches: 306, Indels: 177
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.00
27 11 0.01
28 692 0.44
29 196 0.13
30 645 0.41
31 19 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGGTG
Found at i:316992 original size:58 final size:57
Alignment explanation
Indices: 316815--318776 Score: 1117
Period size: 58 Copynumber: 33.9 Consensus size: 57
316805 CCACTAACTC
* * * * * * *
316815 GTGGGCTTTAAAAGGGGATGCCATTGACTTGTGAGTTTTAGAAAG-GTATGCCACTAACTC
1 GTGGGCTTTAAAA-GGG-TGCCACTAACTTGTGGGCTTT-GAAAGAGGATGCCAC-GACTT
* * *
316875 GTGGGCTTTAAAAGAGGATG-CATTAACTTGTGGGCATTGAGAGA-G-TGCCACTGACTT
1 GTGGGCTTTAAAAG-GG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * *
316932 GTGGGCATTAAAAGGGTGCCACTGACATATGGGCTTTGAAAGAGGATGCCATCGACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * *
316990 GTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTT-AAA-AGGGTGCCACTAACTA
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* *
317046 GTGGGCTTTGAAAGGGGATGCCACTAACTTGTGGGCTTT-AAAG-GGATGGCACTGACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
** * * * * * ** *
317104 AAGGGCTTTGAGAGAGTGCCACTGACTCGTGGGCTTT-AAA-AAAATGCCACTGACCT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * *
317160 GTGGGCTTTGAAAAGGGATGCCATTGACTTGTGGGCTTT-AAAAAGGGGTGCCACTAACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGA-GGATGCCAC-GACTT
* *
317220 GTGGGCTTTAAAAGGGGGTGCCACTAACTTGTGGGCTTTG--AGAGGATGCCTCTAACTT
1 GTGGGCTTTAAAA--GGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * * * * * *
317278 ATGGGCTCTGAAATGGGATGTCACCAGCTTGTAGGCTTTAAAAGGGGATGCCACTGACTT
1 GTGGGCT-TTAAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * * * *
317338 ATGGGCTTTGAAAGGGGATGCCATTGACTTATGGGCTTT-AAA-AGGGTGCCATTGACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * * * *
317396 GTGAGCTTTGAAAGGGGATACCA-TCAACTTGTGGGCTTT--AAGAGGGTGCTACTAACTC
1 GTGGGCTTT-AAAAGGG-TGCCACT-AACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * *
317454 ATGGGCTTTAAAAGAGTGACACTAACTTGTAGGCTTTGAAAGGGGATGCCACCGACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * * * *
317512 GTGGGCTTTGAGAGGGTGCCATTTACTTATGGGCTTT-AAA-AGGGTGCCACTAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * *
317568 GGGGGCTTTGAAAGAGGATGCCACTAACTTGTGGGATTTG--AGAGGGTGCCACTGACTT
1 GTGGGCTTT-AAA-AGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * *
317626 GTGGGCTTTAAATGGGTGCTACTAACTTATGGGCTTTGAAAGGGGATGCTATCGACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * **
317684 GTGGGTTTTAAAAGGGTGCCACTAACTTATGGGCTTT-AAA-AGGGTGCCATTAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* *
317740 GTGGGCTTTGAAAGGGATGCCA-TCGACTTGTGGGCTTTGAAAGAGGATGCCACCGACTT
1 GTGGGCTTTAAAAGGG-TGCCACT-AACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * * *
317799 GTGGGCTTTGAAAGGATGCCATTAACTTATGGGCTTTGAAAGGGGATGCCACCAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * * * * *
317857 ATGGGCTTTTAAAA-AGTGCCACTAACTCGGGGGCTTTCAAAG-GG-CGCCACTAAATT
1 GTGGGC-TTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * * *
317913 GCGGGCTTTGAAAAAGGATGCCACTAATTTGTGGACTTTGAAAGGGGATGCCATCAACTT
1 GTGGGCTTT--AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * *
317973 GTGGGCTTTGAAAGGGATGCCAC-GACTTGTGGGCTCTGAAAGTA-GATGCCATCAACTT
1 GTGGGCTTTAAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAG-AGGATGCCA-CGACTT
* * * * * * * *
318031 GTGGGCTTTGAGAGGATGCCACTAACTTTTGGACTTTGAAAGGGGATACCACCAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * *
318089 ATAGGCTTTGAAAGGGGATGCTACTAACTTGTGGGCTTTGAAAGGGGATGCCACCGACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * *
318149 GTAGGTTTTAAAAGGGTGCCATTAACTTGTGGGCTTTGAAAG-GGAATGCCATC-ACCTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGG-ATGCCA-CGA-CTT
* * * * * * *
318207 GTGGGCTTTGAGAA-GTTTCCACTGACTCGTGGTCTTT-AAATGA-G-TGCCATTGACTT
1 GTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTGAAA-GAGGATGCCA-CGACTT
* * * * * * * *
318263 CTGGG-TTTCGAAAGGCAATGCCCCTACCTTGTGGGCTTTG--AGAGGGTGCCATTGATTT
1 GTGGGCTTT-AAAAGG--GTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * * *
318321 TTGGGCTTTAAAAGGGTGCTACTGACTTGCGGGCTTTGAAAGGGGATGCCACTGACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * * * ** * *
318379 ATGGGCTTTGAGAGGGTGGCACTGACTCATAGGCTTT-AAA-AGGATGCCACTAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* *** * *
318435 GTGGGCTTTGAAAGGGGATGCCACCGTCTTGTGGGCTTTGAAA-AGGGATGTCATCAACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGA-GGATGCCA-CGACTT
* * * * * *
318495 GTGGGCTTTGAAAGGATGCCATTAACTTGAGGGCTTTGAAAGGGGATGCCACTAACTT
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* * * *
318553 ATGGGCTTTGAAAA-GGTGCCACTGACTCGTGGGCTTTGAAAGGGGATGCCATCGAC-T
1 GTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCA-CGACTT
* * * ** * *
318610 GTGGGCTTTGAAAGGGGATGCCATTGACTTGTTAGCCTTG-AA-AGGATGCCACAAACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCAC-GACTT
* *** * * * * **
318668 GTGGGCTTTGAAAGGGGATGCCACCGGCTTATGGGCTTTTAAAGGGGGTGTTA-GTAACTT
1 GTGGGCTTT-AAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCACG--ACTT
* *
318728 GTGGGCTTTAAAAGGGTGCCATTGACTTGTGGGCATTT--AA-AGGATGCCA
1 GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGC-TTTGAAAGAGGATGCCA
318777 TTAACTTGTG
Statistics
Matches: 1494, Mismatches: 316, Indels: 188
0.75 0.16 0.09
Matches are distributed among these distances:
55 13 0.01
56 235 0.16
57 132 0.09
58 781 0.52
59 130 0.09
60 198 0.13
61 5 0.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (57 bp):
GTGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAGGATGCCACGACTT
Found at i:317009 original size:86 final size:85
Alignment explanation
Indices: 316805--318792 Score: 1628
Period size: 86 Copynumber: 22.9 Consensus size: 85
316795 AAAAGGTACA
* * * * * *
316805 CCACTAACTCGTGGGCTTTAAAAGGGGATGCCATTGACTTGTGAGTTTTAGAAAGGTATGCCACT
1 CCAC-AACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTA-AAAGG-GTGCCACT
* * *
316870 AACTCGTGGGCTTTAAAAGAGGATG
61 AACTTGTGGGCTTTGAAAGGGGATG
* * * * * * *
316895 -CATTAACTTGTGGGCATTGAGAGAGTGCCACTGACTTGTGGGCATTAAAAGGGTGCCACTGACA
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
* *
316959 TATGGGCTTTGAAAGAGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * *
316980 CCATCGACTTGTGGGCTTTGAGAGGGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACT
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
*
317045 AGTGGGCTTTGAAAGGGGATG
65 TGTGGGCTTTGAAAGGGGATG
* ** * * * *
317066 CCACTAACTTGTGGGCTTT-AAAGGGATGGCACTGACTTAAGGGCTTTGAGAGAGTGCCACTGAC
1 CCAC-AACTTGTGGGCTTTGAAAGGG-TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAAC
* ***
317130 TCGTGGGCTTT-AAA-AAAATG
64 TTGTGGGCTTTGAAAGGGGATG
* * *
317150 CCACTGACCTGTGGGCTTTGAAAAGGGATGCCATTGACTTGTGGGCTTTAAAAAGGGGTGCCACT
1 CCAC-AACTTGTGGGCTTTG-AAAGGG-TGCCACTGACTTGTGGGCTTT-AAAA-GGGTGCCACT
* *
317215 AACTTGTGGGCTTTAAAAGGGGGTG
61 AACTTGTGGGCTTTGAAAGGGGATG
* * * * * * * * * *
317240 CCACTAACTTGTGGGCTTTGAGAGGATGCCTCTAACTTATGGGCTCTGAAATGGGATGTCACCAG
1 CCAC-AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT-TTAAAAGGG-TGCCACTAA
* *
317305 CTTGTAGGCTTTAAAAGGGGATG
63 CTTGTGGGCTTTGAAAGGGGATG
* * * * * *
317328 CCACTGACTTATGGGCTTTGAAAGGGGATGCCATTGACTTATGGGCTTTAAAAGGGTGCCATTGA
1 CCAC-AACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAA
* *
317393 CTTGTGAGCTTTGAAAGGGGATA
63 CTTGTGGGCTTTGAAAGGGGATG
* * ** * *
317416 CCATCAACTTGTGGGCTTT-AAGAGGGTGCTACTAACTCATGGGCTTTAAAAGAGTGACACTAAC
1 CCA-CAACTTGTGGGCTTTGAA-AGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAAC
*
317480 TTGTAGGCTTTGAAAGGGGATG
64 TTGTGGGCTTTGAAAGGGGATG
* * * * *
317502 CCACCGACTTGTGGGCTTTGAGAGGGTGCCATTTACTTATGGGCTTTAAAAGGGTGCCACTAACT
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
* *
317567 TGGGGGCTTTGAAAGAGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * * *
317588 CCACTAACTTGTGGGATTTGAGAGGGTGCCACTGACTTGTGGGCTTTAAATGGGTGCTACTAACT
1 CCAC-AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
*
317653 TATGGGCTTTGAAAGGGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * * * * * *
317674 CTATCGACTTGTGGGTTTTAAAAGGGTGCCACTAACTTATGGGCTTTAAAAGGGTGCCATTAACT
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
317739 TGTGGGCTTTGAAA-GGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * * * *
317759 CCATCGACTTGTGGGCTTTGAAAGAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCATTAA
1 CCA-CAACTTGTGGGCTTTGAAAG-GG-TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAA
*
317824 CTTATGGGCTTTGAAAGGGGATG
63 CTTGTGGGCTTTGAAAGGGGATG
* * ** * * * * * *
317847 CCACCAACTTATGGGCTTTTAAAAAGTGCCACTAACTCGGGGGCTTTCAAAGGGCGCCACTAAAT
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
* **
317912 TGCGGGCTTTGAAAAAGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * * *
317933 CCACTAATTTGTGGACTTTGAAAGGGGATGCCA-TCAACTTGTGGGCTTTGAAAGGGATGCCAC-
1 CCAC-AACTTGTGGGCTTTGAAA-GGG-TGCCACT-GACTTGTGGGCTTTAAAAGGG-TGCCACT
* * **
317996 GACTTGTGGGCTCTGAAAGTAGATG
61 AACTTGTGGGCTTTGAAAGGGGATG
* * * * * * * *
318021 CCATCAACTTGTGGGCTTTGAGAGGATGCCACTAACTTTTGGACTTTGAAAGGGGATACCACCAA
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTAA
* *
318086 CTTATAGGCTTTGAAAGGGGATG
63 CTTGTGGGCTTTGAAAGGGGATG
* * * * *
318109 CTACTAACTTGTGGGCTTTGAAAGGGGATGCCACCGACTTGTAGGTTTTAAAAGGGTGCCATTAA
1 CCAC-AACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAA
*
318174 CTTGTGGGCTTTGAAAGGGAATG
63 CTTGTGGGCTTTGAAAGGGGATG
* * * * * * * * *
318197 CCATCACCTTGTGGGCTTTGAGAA-GTTTCCACTGACTCGTGGTCTTTAAATGAGTGCCATTGAC
1 CCA-CAACTTGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAAC
* **
318261 TTCTGGG-TTTCGAAAGGCAATG
64 TTGTGGGCTTT-GAAAGGGGATG
* * * * * * * *
318283 CCCCTACCTTGTGGGCTTTGAGAGGGTGCCATTGATTTTTGGGCTTTAAAAGGGTGCTACTGACT
1 CCAC-AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
*
318348 TGCGGGCTTTGAAAGGGGATG
65 TGTGGGCTTTGAAAGGGGATG
* * * * ** * *
318369 CCACTGACTTATGGGCTTTGAGAGGGTGGCACTGACTCATAGGCTTTAAAAGGATGCCACTAACT
1 CCAC-AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACT
318434 TGTGGGCTTTGAAAGGGGATG
65 TGTGGGCTTTGAAAGGGGATG
** * * * * *
318455 CCACCGTCTTGTGGGCTTTGAAAAGGGATGTCA-TCAACTTGTGGGCTTTGAAAGGATGCCATTA
1 CCA-CAACTTGTGGGCTTTG-AAAGGG-TGCCACT-GACTTGTGGGCTTTAAAAGGGTGCCACTA
*
318519 ACTTGAGGGCTTTGAAAGGGGATG
62 ACTTGTGGGCTTTGAAAGGGGATG
* * * * *
318543 CCACTAACTTATGGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGGGGATGCCA-TCG
1 CCAC-AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACT-A
318607 AC-TGTGGGCTTTGAAAGGGGATG
62 ACTTGTGGGCTTTGAAAGGGGATG
** ** * * ** * ***
318630 CCATTGACTTGTTAGCCTTGAAAGGATGCCACAAACTTGTGGGCTTTGAAAGGGGATGCCACCGG
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGG-TGCCACTAA
* * *
318695 CTTATGGGCTTTTAAAGGGGGTG
63 CTTGTGGGCTTTGAAAGGGGATG
** * * * * *
318718 TTAGTAACTTGTGGGCTTTAAAAGGGTGCCATTGACTTGTGGGCATTT-AAAGGATGCCATTAAC
1 CCA-CAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TTTAAAAGGGTGCCACTAAC
*
318782 TTGTGAGCTTT
64 TTGTGGGCTTT
318793 TTTTTTAAAA
Statistics
Matches: 1530, Mismatches: 315, Indels: 110
0.78 0.16 0.06
Matches are distributed among these distances:
84 20 0.01
85 70 0.05
86 728 0.48
87 193 0.13
88 414 0.27
89 54 0.04
90 51 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (85 bp):
CCACAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTT
GTGGGCTTTGAAAGGGGATG
Found at i:319648 original size:28 final size:28
Alignment explanation
Indices: 319590--320047 Score: 460
Period size: 28 Copynumber: 16.3 Consensus size: 28
319580 CCTTCTTAAT
* *
319590 GCCCATAAGTCAGTGGCA-ATTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
*
319617 GCCCACAAGTCAATGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
*
319645 GCCCATAAGTCAGTGGCATCC-TTTCAAA
1 GCCCACAAGTCAGTGGCA-CCTTTTCAAA
* * * *
319673 ACCCACAGGTCAGTGGTATCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* * * * * *
319701 GTCCATAAGTCAATAGCACCTTCTCGAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
319729 GCCCACAAGTCAGTGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* * *
319757 TCCCACAAGCCAGTGGCACCCCTTTCAAA
1 GCCCACAAGTCAGTGGCA-CCTTTTCAAA
* *
319786 GCCCACAAGTTAGTGGCACCCCTTTCAAA
1 GCCCACAAGTCAGTGGCA-CCTTTTCAAA
* * *
319815 GCCCACAAGTTAGGGGCACCTTCTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* * *
319843 GTCCATAAGTTAGTGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* *
319871 GGCCACAAGTCAGTGGCACCTTCTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
319899 GCCCACAAGTCAGTGGCATCC-TTTCAAAA
1 GCCCACAAGTCAGTGGCA-CCTTTTC-AAA
* * * *
319928 GCCCATAGGTTAGTGGCATCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* *
319956 GTCCACAAGTTAGTGGCA--TTCTTCCAAA
1 GCCCACAAGTCAGTGGCACCTT-TT-CAAA
* * *
319984 GCCCATAGGCCAGTGGCACCTTTTCAAA
1 GCCCACAAGTCAGTGGCACCTTTTCAAA
* *
320012 GTCCACAAGTTAGTGGCATCC-TTTCAAA
1 GCCCACAAGTCAGTGGCA-CCTTTTCAAA
320040 GCCCACAA
1 GCCCACAA
320048 AAGTTGGTGG
Statistics
Matches: 356, Mismatches: 63, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 19 0.05
28 251 0.71
29 82 0.23
30 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
GCCCACAAGTCAGTGGCACCTTTTCAAA
Found at i:319955 original size:113 final size:112
Alignment explanation
Indices: 319590--320044 Score: 504
Period size: 113 Copynumber: 4.0 Consensus size: 112
319580 CCTTCTTAAT
* * * *
319590 GCCCATAAGTCAGTGGCA-ATTTTCAAAGCCCACAAGTCAATGGCACCTTTTCAAAGCCCATAAG
1 GCCCATAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* * * * * *
319654 TCAGTGGCATCCTTTCAAAACCCACAGGTCAGTGGTATCTTTTCAAA
66 CCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * * * *
319701 GTCCATAAGTCAATAGCACCTTCTCGAAGCCCACAAGTCAGTGGCACCTTTTCAAATCCCACAAG
1 GCCCATAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
* *
319766 CCAGTGGCACCCCTTTCAAAGCCCACAAGTTAGTGGCACCCCTTTCAAA
66 CCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAA
* * * * * * *
319815 GCCCACAAGTTAGGGGCACCTTCTCAAAGTCCATAAGTTAGTGGCACCTTTTCAAAGGCCACAAG
1 GCCCATAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
*
319880 TCAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAA
66 CCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTC-AAA
* * * * * * *
319928 GCCCATAGGTTAGTGGCATCTTTTCAAAGTCCACAAGTTAGTGGCA--TTCTTCCAAAGCCCATA
1 GCCCATAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTT-TT-CAAAGCCCACA
* * * *
319991 GGCCAGTGGCACCTTTTCAAAGTCCACAAGTTAGTGGCATCCTTTCAAA
64 AGCCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
320040 GCCCA
1 GCCCA
320045 CAAAAGTTGG
Statistics
Matches: 291, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
111 17 0.06
112 68 0.23
113 134 0.46
114 72 0.25
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (112 bp):
GCCCATAAGTCAGTGGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAG
CCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
Found at i:320074 original size:32 final size:32
Alignment explanation
Indices: 320036--320121 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 32
320026 GGCATCCTTT
*
320036 CAAAGCCCACAAAAGTTGGTGGGAACTTTCTC
1 CAAAGCCCACAAAAGTTGGTGGCAACTTTCTC
* * *
320068 TAAAGCCCACACAAGTTGGTGGCAACTTTTTC
1 CAAAGCCCACAAAAGTTGGTGGCAACTTTCTC
*
320100 CAAAGCCCACATAAGTTGGTGG
1 CAAAGCCCACAAAAGTTGGTGG
320122 TAACCCTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (32 bp):
CAAAGCCCACAAAAGTTGGTGGCAACTTTCTC
Found at i:323913 original size:13 final size:13
Alignment explanation
Indices: 323895--323921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
323885 TACAAAGATT
323895 AATGTATCGATAC
1 AATGTATCGATAC
323908 AATGTATCGATAC
1 AATGTATCGATAC
323921 A
1 A
323922 TTAAATAATG
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):
AATGTATCGATAC
Found at i:326938 original size:126 final size:127
Alignment explanation
Indices: 326708--326966 Score: 448
Period size: 126 Copynumber: 2.0 Consensus size: 127
326698 TTTGTCAAAT
*
326708 ATTATGTGCATTCATGTTTTCCAAAATTTGTTTTGTTTCAAAATTGTAAAGGTAATATTTCGTGT
1 ATTATGTGCATTCATGTTTTCCAAAA----TTTTGTTTCAAAATTGTAAAGGCAATATTTCGTGT
326773 CGGTATCTCTCCAGTGCTTGACATGGAATATCTAGTTTTCAAAGTGAAATTCAGAGATCATTTTA
62 CGGTATCTCTCCAGTGCTTGACATGGAATATCTAGTTTTCAAAGTGAAATTCAGAGATCATTTTA
326838 C
127 C
*
326839 ATTATGTGCATTCATGTTTTCCAAAA-TTTGTTTCAAAATTGTAAAGGCAATATTTTGTGTCGGT
1 ATTATGTGCATTCATGTTTTCCAAAATTTTGTTTCAAAATTGTAAAGGCAATATTTCGTGTCGGT
*
326903 GTCTCTCCAGTGCTTGACATGGAATATCTAGTTTTCAAAGTGAAATTCAGAGATCATTTTAC
66 ATCTCTCCAGTGCTTGACATGGAATATCTAGTTTTCAAAGTGAAATTCAGAGATCATTTTAC
326965 AT
1 AT
326967 CTCTATGTTC
Statistics
Matches: 125, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
126 99 0.79
131 26 0.21
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (127 bp):
ATTATGTGCATTCATGTTTTCCAAAATTTTGTTTCAAAATTGTAAAGGCAATATTTCGTGTCGGT
ATCTCTCCAGTGCTTGACATGGAATATCTAGTTTTCAAAGTGAAATTCAGAGATCATTTTAC
Found at i:329719 original size:27 final size:28
Alignment explanation
Indices: 329665--329720 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
329655 TTGGTATTTC
329665 GATGATTTTGTGGTGGGTAGCTTAGTGGAG
1 GATGATTTTGTGGTGGGTA--TTAGTGGAG
*
329695 GATGATTTTGTGGTGGGT-TTGGTGGA
1 GATGATTTTGTGGTGGGTATTAGTGGA
329721 ATTATGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
30 18 0.72
ACGTcount: A:0.14, C:0.02, G:0.45, T:0.39
Consensus pattern (28 bp):
GATGATTTTGTGGTGGGTATTAGTGGAG
Done.