Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold215
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: 2124891
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 16
Found at i:4984 original size:42 final size:42
Alignment explanation
Indices: 4929--5047 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
4919 TTCTTCTCTC
* *
4929 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
4971 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
5013 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
5048 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:4988 original size:12 final size:11
Alignment explanation
Indices: 4962--5037 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
4952 TCTATTATCT
*
4962 CTCCTGTCTCTC
1 CTCCTATCTC-C
4974 CTCCTATCATCC
1 CTCCTATC-TCC
4986 CTCCTATCT--
1 CTCCTATCTCC
*
4995 CTACTATCT--
1 CTCCTATCTCC
*
5004 CTCCTGTCTCTC
1 CTCCTATCTC-C
5016 CTCCTATCATCC
1 CTCCTATC-TCC
*
5028 CTCCTCTCTC
1 CTCCTATCTC
5038 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:4989 original size:24 final size:24
Alignment explanation
Indices: 4953--5038 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
4943 CCTCCTCTCT
* *
4953 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
4977 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
4998 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
5019 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
5039 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:5013 original size:18 final size:18
Alignment explanation
Indices: 4944--5014 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
4934 CCTGTCATCC
* *
4944 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
4962 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
4984 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
5004 CTCCTGTCTCT
1 CTCCTGTCTCT
5015 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:34105 original size:12 final size:11
Alignment explanation
Indices: 34083--34158 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
34073 AGAGAAAGAA
*
34083 GAGAGAGGAGG
1 GAGATAGGAGG
34094 GATGATAGGAGG
1 GA-GATAGGAGG
*
34106 AGAGACAGGA--
1 -GAGATAGGAGG
*
34116 GAGATAGTA--
1 GAGATAGGAGG
34125 GAGATAGGAGG
1 GAGATAGGAGG
34136 GATGATAGGAGG
1 GA-GATAGGAGG
*
34148 AGAGACAGGAG
1 -GAGATAGGAG
34159 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:34115 original size:24 final size:24
Alignment explanation
Indices: 34082--34167 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
34072 AAGAGAAAGA
*
34082 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
34106 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
34124 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
34148 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
34168 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:34134 original size:42 final size:42
Alignment explanation
Indices: 34073--34191 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
34063 TAGCCCTCAA
* *
34073 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
34115 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
34157 AGAGATAATAGAGAGAGGAGGGATAACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
34192 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:34175 original size:18 final size:18
Alignment explanation
Indices: 34148--34197 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34138 TGATAGGAGG
* *
34148 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAC
*
34166 AGAGAGAGGAGGGATAAC
1 AGAGAGAGGAGAGATAAC
34184 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
34198 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.46, C:0.04, G:0.44, T:0.06
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAC
Found at i:39567 original size:42 final size:42
Alignment explanation
Indices: 39512--39630 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
39502 TTCTTCTCTC
* *
39512 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
39554 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
39596 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
39631 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:39571 original size:12 final size:11
Alignment explanation
Indices: 39545--39620 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
39535 TCTATTATCT
*
39545 CTCCTGTCTCTC
1 CTCCTATCTC-C
39557 CTCCTATCATCC
1 CTCCTATC-TCC
39569 CTCCTATCT--
1 CTCCTATCTCC
*
39578 CTACTATCT--
1 CTCCTATCTCC
*
39587 CTCCTGTCTCTC
1 CTCCTATCTC-C
39599 CTCCTATCATCC
1 CTCCTATC-TCC
*
39611 CTCCTCTCTC
1 CTCCTATCTC
39621 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:39572 original size:24 final size:24
Alignment explanation
Indices: 39536--39621 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
39526 CCTCCTCTCT
* *
39536 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
39560 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
39581 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
39602 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
39622 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:39596 original size:18 final size:18
Alignment explanation
Indices: 39527--39597 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
39517 CCTGTCATCC
* *
39527 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
39545 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
39567 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
39587 CTCCTGTCTCT
1 CTCCTGTCTCT
39598 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:44025 original size:20 final size:21
Alignment explanation
Indices: 44000--44054 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
43990 AAAACCCATA
44000 ATGTATTGATACAATG-AATG-
1 ATGTATTGATACAATGCAA-GC
*
44020 ATGTATTGATACATTGCAAGC
1 ATGTATTGATACAATGCAAGC
*
44041 ATGTATCGATACAA
1 ATGTATTGATACAA
44055 ATTGTAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (21 bp):
ATGTATTGATACAATGCAAGC
Found at i:49151 original size:42 final size:42
Alignment explanation
Indices: 49105--49212 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
49095 GAGAAAGAAA
* *
49105 AGATAGGAGGGATGATAAGAGGAGAGATAAAAGAGATAGTAG
1 AGATAGGAGGGATGATAGGAGGAGAGATAAAAGAGATAATAG
* * **
49147 AGATAAGAGGGATGCTAGGAGGAGAGATAGGAGAGATAATAG
1 AGATAGGAGGGATGATAGGAGGAGAGATAAAAGAGATAATAG
* *
49189 AGACAGGAGGGATGACAGGAGGAG
1 AGATAGGAGGGATGATAGGAGGAG
49213 GAGAGAAGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.44, C:0.03, G:0.42, T:0.12
Consensus pattern (42 bp):
AGATAGGAGGGATGATAGGAGGAGAGATAAAAGAGATAATAG
Found at i:50596 original size:15 final size:15
Alignment explanation
Indices: 50576--50618 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
50566 CTATGAGGTT
50576 GAGAAAAGAGTGAGA
1 GAGAAAAGAGTGAGA
* *
50591 GAGAAAA-ACTGAAA
1 GAGAAAAGAGTGAGA
*
50605 AAGAAAAGAGTGAG
1 GAGAAAAGAGTGAG
50619 TTTGGAGGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (15 bp):
GAGAAAAGAGTGAGA
Found at i:62317 original size:17 final size:17
Alignment explanation
Indices: 62272--62319 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
62262 ATTTATTCTC
* *
62272 ATCTTAACTAAATATTT
1 ATCTTAAATAAATATAT
*
62289 A-CTCAAATTAAATATAT
1 ATCTTAAA-TAAATATAT
62306 ATCTTAAATAAATA
1 ATCTTAAATAAATA
62320 ATACAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (17 bp):
ATCTTAAATAAATATAT
Found at i:68221 original size:21 final size:21
Alignment explanation
Indices: 68195--68234 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
68185 AAAGACCATG
*
68195 GATTTCATCATTAAACTTCAT
1 GATTTCAACATTAAACTTCAT
*
68216 GATTTCAACTTTAAACTTC
1 GATTTCAACATTAAACTTC
68235 CTAAATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (21 bp):
GATTTCAACATTAAACTTCAT
Found at i:69049 original size:30 final size:30
Alignment explanation
Indices: 69008--69070 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
68998 TTAGGAATTA
*
69008 TCTAAATAAATTAAAATTGAAAAGTCAAAT
1 TCTAAACAAATTAAAATTGAAAAGTCAAAT
69038 TCTAAACAAATTAAAATTGAAAAGTCAAAT
1 TCTAAACAAATTAAAATTGAAAAGTCAAAT
69068 TCT
1 TCT
69071 TATTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (30 bp):
TCTAAACAAATTAAAATTGAAAAGTCAAAT
Found at i:77395 original size:154 final size:155
Alignment explanation
Indices: 77200--77481 Score: 390
Period size: 154 Copynumber: 1.8 Consensus size: 155
77190 TTAGAATTCC
* * * *
77200 TCTTGTTTTCGAAATACGGAGTTTTCTTCTCCATAATTTTTTTAAGGGG-ATTTTTCTTGGTTTT
1 TCTTATTTTAGAAATACGGAGTTTTCTACTCCATAAATTTTTT-AGGGGAATTTTTCTTGGTTTT
* * *
77264 TAA-ATTTAAAATTCAACAAATATTATAGTTTAATTCATATTAAATCAAATTTT-AAAAATTCAT
65 TAATATTTAAAATTCAACAAATATTATAATTTAACTCATAATAAATC-AATTTTGAAAAATTCAT
77327 GAGTTTTTGAATTTTTCCTTGAAATTT
129 GAGTTTTTGAATTTTTCCTTGAAATTT
** * *
77354 TCTTATTTTAGAAATACGGAGTTTTCTACTCTGTAAATTTTTTCGGGGAATTTTTTTTGGTTTTT
1 TCTTATTTTAGAAATACGGAGTTTTCTACTCCATAAATTTTTTAGGGGAATTTTTCTTGGTTTTT
* * * *
77419 AATTTTTAAAATTTATCAAATATTATAATTTAACTCATAATAAATCATTTTTGAAAAATTCAT
66 AATATTTAAAATTCAACAAATATTATAATTTAACTCATAATAAATCAATTTTGAAAAATTCAT
77482 TTATTTTCAT
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
153 4 0.04
154 59 0.54
155 47 0.43
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (155 bp):
TCTTATTTTAGAAATACGGAGTTTTCTACTCCATAAATTTTTTAGGGGAATTTTTCTTGGTTTTT
AATATTTAAAATTCAACAAATATTATAATTTAACTCATAATAAATCAATTTTGAAAAATTCATGA
GTTTTTGAATTTTTCCTTGAAATTT
Found at i:78854 original size:20 final size:19
Alignment explanation
Indices: 78808--78862 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
78798 TTGTATCGAT
*
78808 ACATTGTATCGATAGATGC
1 ACATTGTATCGATACATGC
* *
78827 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
*
78846 ACAATTGTATTGATACA
1 AC-ATTGTATCGATACA
78863 ATGTATCGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:78888 original size:33 final size:33
Alignment explanation
Indices: 78831--78895 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
78821 AGATGCTCAT
*
78831 TGTATCGATACATGGACAATTGTATTGATACAA
1 TGTATCGATACATGGACAATTGTATCGATACAA
78864 TGTATCGATACATGCTGA-AA-TGTATCGATACA
1 TGTATCGATACATG--GACAATTGTATCGATACA
78896 TAGCTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 25 0.86
34 2 0.07
35 2 0.07
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGACAATTGTATCGATACAA
Found at i:85036 original size:13 final size:13
Alignment explanation
Indices: 85018--85042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85008 CAACATTCCT
85018 TGTATCGATACAA
1 TGTATCGATACAA
85031 TGTATCGATACA
1 TGTATCGATACA
85043 TTTGGTACTA
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:86924 original size:20 final size:21
Alignment explanation
Indices: 86889--86931 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
86879 TATTATTTGA
86889 TAAATAAAAGGGGGAGAATTT
1 TAAATAAAAGGGGGAGAATTT
86910 TAAATAAAA-GGGGAGAATTT
1 TAAATAAAAGGGGGAGAATTT
86930 TA
1 TA
86932 GAAATGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
TAAATAAAAGGGGGAGAATTT
Found at i:87602 original size:20 final size:20
Alignment explanation
Indices: 87555--87610 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
87545 TGTATAGATA
* *
87555 AATTGTATCCATACATGCTC
1 AATTGTATCGATACATGCAC
* *
87575 -ACTGTATCGATACATGGAC
1 AATTGTATCGATACATGCAC
87594 AATTGTATCGATACATG
1 AATTGTATCGATACATG
87611 AGATTAGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (20 bp):
AATTGTATCGATACATGCAC
Found at i:99886 original size:155 final size:154
Alignment explanation
Indices: 99355--99938 Score: 581
Period size: 155 Copynumber: 3.8 Consensus size: 154
99345 TTCAATATAT
* * * *
99355 AAAA-GATTATAGATGGGATG-AACATATCCTAAATACCCACCTTCGGCATAAAAGCGAACCCAG
1 AAAAGGATTATAGATGGGATGAAAC-TATCCTAAATACCCACCTTCAGCATAAAAACGGACCCAA
* * ** * * * *
99418 TGACAACCTAGGACTCAGTTCTAAAAAATTATGAAACTGCCCCTAGGGGATA-CTTTCGACGTAG
65 TGACAACCTAAGACTCAGTTCTAGAAAATTACAAAAATGCCCCTAGAGGATACCTTT-GACATAA
*
99482 AAGTACCTAATACTCCTAAAAGACTTA
129 AAGTACC-AATACCCCTAAAAGACTTA
* * * *
99509 AAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAACCGAATCCAAT
1 AAAAGGATTATAGATGGGATGAAACTATCCTAAATACCCACCTTCAGCATAAAAACGGACCCAAT
* * ** * * ** *
99574 GACAACCTAAGACTCGGTTACGA-AAAATTATGAAAACGCCCTTAG-GTTTACCTTTGACATATA
66 GACAACCTAAGACTCAGTT-CTAGAAAATTACAAAAATGCCCCTAGAGGATACCTTTGACATAAA
* *
99637 AGTACCCGATACCCCTAAAATACTTA
130 AGTA-CCAATACCCCTAAAAGACTTA
* * * * *
99663 AAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAGCATAATAGCAGACCCTAT
1 AAAAGGATTATAGATGGGATGAAACTATCCTAAATACCCACCTTCAGCATAAAAACGGACCCAAT
* * * *
99728 GACAACCTAAGAATCGGATCTATGAAAATTACAAAAATGCCCCTAGAGGATACCTTTGACTTAAA
66 GACAACCTAAGACTCAGTTCTA-GAAAATTACAAAAATGCCCCTAGAGGATACCTTTGACATAAA
* *
99793 AGTGCTCAATACCCCTAAAGGACTTA
130 AGTAC-CAATACCCCTAAAAGACTTA
* * * * * *
99819 AAAAGG-TGATAGATAGGAT-AAACTGATCCTAAATACCTACCTT-TGACATAAAAACGGACTCG
1 AAAAGGATTATAGATGGGATGAAACT-ATCCTAAATACCCACCTTCAG-CATAAAAACGGACCCA
* * * *
99881 GTGACAACCTAGGACTCAGTTATAAGAAAATTACAAAAATACCCCTAGAGGATACCTT
64 ATGACAACCTAAGACTCAGTTCT-AGAAAATTACAAAAATGCCCCTAGAGGATACCTT
99939 CGAATTAGAA
Statistics
Matches: 362, Mismatches: 56, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
153 2 0.01
154 114 0.31
155 201 0.56
156 45 0.12
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (154 bp):
AAAAGGATTATAGATGGGATGAAACTATCCTAAATACCCACCTTCAGCATAAAAACGGACCCAAT
GACAACCTAAGACTCAGTTCTAGAAAATTACAAAAATGCCCCTAGAGGATACCTTTGACATAAAA
GTACCAATACCCCTAAAAGACTTA
Found at i:100330 original size:141 final size:141
Alignment explanation
Indices: 100063--100334 Score: 369
Period size: 141 Copynumber: 1.9 Consensus size: 141
100053 AAAGTTGTGA
*
100063 ATTTCAAAAATCTCATTTCATACTTTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAGATTT
1 ATTTCAAAAATCTCATTTCATACTTTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAAATTT
* *
100128 CTATACCCCCAAAGAAAGCCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTAT
66 CTATACCCCCAAAGAAACCCATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTAT
100193 TCAATTTTTTT
131 TCAATTTTTTT
100204 ATTTCCAAAAAT-TCATTTCATA-TCTTAATGGAGAA-CTGAAAAGATACGAAAAGTTTTGAAAA
1 ATTT-CAAAAATCTCATTTCATACT-TTAATGGAGAATC-GAAAAGATACGAAAAGTTTTGAAAA
** * *
100266 TTT-TCATACCCCCACGGATACCCATGGGAATATTAGAAAT-TTCAAAAAATTTAAG-TGAAT-A
63 TTTCT-ATACCCCCAAAGAAACCCATAGGAATATTAGAAATCTT-AAAAAA-TTAAGAT-AATAA
100327 TTTTTATT
124 TTTTTATT
100335 GGATGAAAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
140 5 0.04
141 97 0.83
142 15 0.13
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (141 bp):
ATTTCAAAAATCTCATTTCATACTTTAATGGAGAATCGAAAAGATACGAAAAGTTTTGAAAATTT
CTATACCCCCAAAGAAACCCATAGGAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTAT
TCAATTTTTTT
Found at i:101421 original size:12 final size:12
Alignment explanation
Indices: 101400--101434 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
101390 TTTTCTTGTT
*
101400 TTTCTCTTTTTC
1 TTTCTTTTTTTC
101412 TTTCTTTTTTTC
1 TTTCTTTTTTTC
*
101424 TCTCTTTTTTT
1 TTTCTTTTTTT
101435 GCTGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:101430 original size:22 final size:21
Alignment explanation
Indices: 101391--101432 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
101381 TTTTCAAATT
101391 TTTCTTGTTTTTCTCTTTTTC
1 TTTCTTGTTTTTCTCTTTTTC
*
101412 TTTCTTTTTTTCTCTCTTTTT
1 TTTCTTGTTTT-TCTCTTTTT
101433 TTGCTGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTCTTGTTTTTCTCTTTTTC
Found at i:101919 original size:165 final size:164
Alignment explanation
Indices: 101743--102464 Score: 444
Period size: 165 Copynumber: 4.4 Consensus size: 164
101733 TAATATATAC
** * ** *
101743 AAAAAATTCAAATTTCATG-GAATAAATTGAATTTCTCAAAACTAATTTAACGAGTG-TTTAATA
1 AAAAAATTCAAAACTCATGAAAATAAATAAAATTT-TCAAAACTAATTTAA-GA-TGATTAAATA
* ** * *
101806 ATAATATTAGAT-AATTTATAAAAATTTTAAAG-AGGAGAAAATCCCCCTGAAAAA-ATTTAC-A
63 ATAATATTAGATGAATTT-TAAAAA-TTAAAAGCACAAAAAAAT-CCCCTCAAAAACATTTACGA
* *
101867 GAATA-AAAAATTTGGTGTTTCGAAAATAGGAAAATTTCAAG
125 -AATAGAAAAATTT-GTATTTCAAAAATAGGAAAATTTCAAG
* *
101908 AAAAAATTCAAAACTCATGAAAATAAATAAAATTTTGAAAACTAATTTAATATGAATTAAATAAT
1 AAAAAATTCAAAACTCATGAAAATAAATAAAATTTTCAAAACTAATTTAAGATG-ATTAAATAAT
* * *
101973 AATATTTGATGAATTTTAAAAATTAAAAGCCCAAAAAAATCTCCTCAAAAACATTTACGAAATAG
65 AATATTAGATGAATTTTAAAAATTAAAAGCACAAAAAAATCCCCTCAAAAACATTTACGAAATAG
* *
102038 AAAACTTTGTATTTCAAAAATAGGGAAATTTCAAG
130 AAAAATTTGTATTTCAAAAATAGGAAAATTTCAAG
* * * * *
102073 AAAAAA-TGAAAA---ATG--AATGAAT----TTTT-AAAACCAATTTAATATAAATTAAATAAT
1 AAAAAATTCAAAACTCATGAAAATAAATAAAATTTTCAAAACTAATTTAAGAT-GATTAAATAAT
* * * * * *
102127 AATATTTGATAAATTTTAAAAATGAAAA-C-CAAGAAAAAT-CCCTCTGAAAACATTTACGTAGT
65 AATATTAGATGAATTTTAAAAATTAAAAGCACAA-AAAAATCCCCTC-AAAAACATTTACGAAAT
* ** ** *
102189 AGAAAACTCAGTATTTTGAAAATA-AAAGAATTTCAAG
128 AGAAAAATTTGTATTTCAAAAATAGGAA-AATTTCAAG
** * * * * * * * *
102226 AAAAAAATGAAAAACTTATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAATTAAATAA
1 -AAAAAATTCAAAACTCATGAAAATAAATAAAATTTTCAAAACTAATTTAAGATG-ATT--A-AA
* *
102291 TAATAATATTTGATGAATTTT-AAAATTAAAA-C-CAAGAAAAATTCCCC-CGAAAACATTTACG
61 TAATAATATTAGATGAATTTTAAAAATTAAAAGCACAA-AAAAA-TCCCCTCAAAAACATTTACG
* * * * * *
102352 AAGTAGAAAACTTTGTATTTCGAAAAAAAAGAGAATTCCAA-
124 AAATAGAAAAATTTGTATTTC-AAAAATAGGAAAATTTCAAG
* * * * *
102393 ATGAAAA-TCAATAA-TGCAT-AAAATAAA-AGGAATTTTTCAAAACTGATTTAATAGTAATTAA
1 A-AAAAATTCAA-AACT-CATGAAAATAAATA--AAATTTTCAAAACTAATTTAAGA-TGATTAA
102454 ATAATAATATT
60 ATAATAATATT
102465 TAAAGAGTTT
Statistics
Matches: 457, Mismatches: 62, Indels: 77
0.77 0.10 0.13
Matches are distributed among these distances:
152 8 0.02
153 50 0.11
154 57 0.12
155 8 0.02
158 3 0.01
159 6 0.01
160 7 0.02
161 3 0.01
163 2 0.00
164 37 0.08
165 117 0.26
166 36 0.08
167 82 0.18
168 37 0.08
169 4 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (164 bp):
AAAAAATTCAAAACTCATGAAAATAAATAAAATTTTCAAAACTAATTTAAGATGATTAAATAATA
ATATTAGATGAATTTTAAAAATTAAAAGCACAAAAAAATCCCCTCAAAAACATTTACGAAATAGA
AAAATTTGTATTTCAAAAATAGGAAAATTTCAAG
Found at i:102109 original size:154 final size:156
Alignment explanation
Indices: 101938--102465 Score: 527
Period size: 167 Copynumber: 3.3 Consensus size: 156
101928 AAATAAATAA
*
101938 AATTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAGC
1 AATTTTTAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAA--
* * **
102003 CCAA-AAAAATCTCCTCAAAAACATTTACGAAATAGAAAACTTTGTATTTCAAAAAT-AGGGAAA
64 CCAAGAAAAATCTCCTCGAAAACATTTACGAAGTAGAAAACTTTGTATTTCAAAAATAAAAG-AA
102066 TTTCAAG-AAAAAATG-A-AAAATGAATG
128 TTTCAAGAAAAAAATGAAGAAAATGAATG
* * * *
102092 AATTTTTAAAACCAATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATGAAAACC
1 AATTTTTAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAACC
* ** **
102157 AAGAAAAATC-CCTCTGAAAACATTTACGTAGTAGAAAACTCAGTATTTTGAAAATAAAAGAATT
66 AAGAAAAATCTCCTC-GAAAACATTTACGAAGTAGAAAACTTTGTATTTCAAAAATAAAAGAATT
102221 TCAAGAAAAAAATGAAAAACTTATGAAAATGAATG
130 TCAAGAAAAAAATG----A---A-GAAAATGAATG
* *
102256 AATTTTTGAAAAATGATTTAATATGAATTAAATAATAATAATATTTGATGAATTTT-AAAATTAA
1 AATTTTT-AAAACTAATTTAATATGAATT--A-AATAATAATATTTGATGAATTTTAAAAATTAA
*
102320 AACCAAGAAAAAT-TCCCCCGAAAACATTTACGAAGTAGAAAACTTTGTATTTCGAAAAA-AAAG
62 AACCAAGAAAAATCT-CCTCGAAAACATTTACGAAGTAGAAAACTTTGTATTTC-AAAAATAAA-
* * * * *
102383 AGAATTCCAAATGAAAATCAATAATGCATAAAATAAAAGG
124 AGAATTTC-AA-G-AAA--AA-AATGAAGAAAAT-GAATG
*
102423 AATTTTTCAAAACTGATTTAATA-GTAATTAAATAATAATATTT
1 AATTTTT-AAAACTAATTTAATATG-AATTAAATAATAATATTT
102466 AAAGAGTTTT
Statistics
Matches: 311, Mismatches: 33, Indels: 50
0.79 0.08 0.13
Matches are distributed among these distances:
152 8 0.03
153 49 0.16
154 68 0.22
162 1 0.00
164 30 0.10
165 18 0.06
166 6 0.02
167 83 0.27
168 36 0.12
169 2 0.01
170 1 0.00
171 3 0.01
173 2 0.01
174 4 0.01
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (156 bp):
AATTTTTAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAACC
AAGAAAAATCTCCTCGAAAACATTTACGAAGTAGAAAACTTTGTATTTCAAAAATAAAAGAATTT
CAAGAAAAAAATGAAGAAAATGAATG
Found at i:103565 original size:85 final size:84
Alignment explanation
Indices: 103416--103632 Score: 215
Period size: 85 Copynumber: 2.6 Consensus size: 84
103406 AAGCAGTCAG
** ** * *
103416 GTCAACAAAGGATAAAAGGGA-TTACTTGGGACTAAGTTAATAGGTGAACAAAGGATACAAAAGT
1 GTCAACAAAGGATAAAA-AAATTTACTTGGGACTAAGCCAATAGGT-AACAAAAGACACAAAAGT
* * * * *
103480 TGACCCAGATTGAATCGAGAA
64 TAACCAAGATTGAACCAACAA
* *
103501 GTCAATAAAGGATAAAAAAATTTACTTGGGACTAAGCCAACAGGTAAGCAAAAGACA-AAGAAGT
1 GTCAACAAAGGATAAAAAAATTTACTTGGGACTAAGCCAATAGGTAA-CAAAAGACACAA-AAGT
* *
103565 TAACTAAGATTGCACCAACAA
64 TAACCAAGATTGAACCAACAA
**
103586 GTCAACAAAGGATAAAAGGATTTA-TCTGGGACTAAGCCAATAGGTAA
1 GTCAACAAAGGATAAAAAAATTTACT-TGGGACTAAGCCAATAGGTAA
103633 ATGAAAAAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
84 6 0.06
85 103 0.94
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (84 bp):
GTCAACAAAGGATAAAAAAATTTACTTGGGACTAAGCCAATAGGTAACAAAAGACACAAAAGTTA
ACCAAGATTGAACCAACAA
Found at i:103831 original size:46 final size:47
Alignment explanation
Indices: 103775--103973 Score: 233
Period size: 47 Copynumber: 4.3 Consensus size: 47
103765 GACTAACACT
* *
103775 AATACAGTCAAATGACGGTGAAAAGAGTTTGACCAAG-ACTAATGCC
1 AATATAGTCAAATGACGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
* **
103821 AATATAGTCAAATG-CAGGTGAAAAGAGTTTGACCAGGTCCTAACACC
1 AATATAGTCAAATGAC-GGTGAAAAGAGTTTGACCAAGTCCTAATGCC
* * * * *
103868 AATATTGTCAAATAAGGGTGGAAAA-AGTTTGACTAGGTCCTAATGCC
1 AATATAGTCAAATGACGGT-GAAAAGAGTTTGACCAAGTCCTAATGCC
* * * *
103915 AATATAGTCAAACGAAGGTGAGAAGAGTTTGACAAAGTCCTAATGCC
1 AATATAGTCAAATGACGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
103962 AATATAGTCAAA
1 AATATAGTCAAA
103974 CAATGATGGA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 37 0.28
47 87 0.67
48 5 0.04
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (47 bp):
AATATAGTCAAATGACGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
Found at i:103923 original size:94 final size:92
Alignment explanation
Indices: 103739--103996 Score: 261
Period size: 94 Copynumber: 2.8 Consensus size: 92
103729 CCATCACATA
* * * * *
103739 AAACG-AGGATGAAAAGAGTTTGACTAG-ACTAACACTAATACAGTCAAATGACGGTGAAAAGAG
1 AAACGAAGG-TGAAAAGAGTTTGACAAGTCCTAACACCAATATAGTCAAATAACGGTGAAAAGAG
103802 TTTGACCAAGACTAATGCCAATATAGTC
65 TTTGACCAAGACTAATGCCAATATAGTC
* * * * *
103830 AAATGCAGGTGAAAAGAGTTTGACCAGGTCCTAACACCAATATTGTCAAATAAGGGTGGAAAA-A
1 AAACGAAGGTGAAAAGAGTTTGA-CAAGTCCTAACACCAATATAGTCAAATAACGGT-GAAAAGA
* * *
103894 GTTTGACTAGGTCCTAATGCCAATATAGTC
64 GTTTGACCAAG-ACTAATGCCAATATAGTC
* ** * * * * *
103924 AAACGAAGGTGAGAAGAGTTTGACAAAGTCCTAATGCCAATATAGTCAAACAATGATGGAAAGAA
1 AAACGAAGGTGAAAAGAGTTTGAC-AAGTCCTAACACCAATATAGTCAAATAACGGTGAAAAGAG
103989 TTTGACCA
65 TTTGACCA
103997 GATACAGCCA
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
91 18 0.13
92 5 0.04
93 37 0.27
94 75 0.56
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (92 bp):
AAACGAAGGTGAAAAGAGTTTGACAAGTCCTAACACCAATATAGTCAAATAACGGTGAAAAGAGT
TTGACCAAGACTAATGCCAATATAGTC
Found at i:103974 original size:47 final size:47
Alignment explanation
Indices: 103775--103996 Score: 227
Period size: 47 Copynumber: 4.7 Consensus size: 47
103765 GACTAACACT
* * * *
103775 AATACAGTCAAATGACGGTGAAAAGAGTTTGACCAAG-ACTAATGCC
1 AATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
* * * **
103821 AATATAGTCAAATGCAGGTGAAAAGAGTTTGACCAGGTCCTAACACC
1 AATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
* * * *
103868 AATATTGTCAAA-TAAGGGTGGAAAA-AGTTTGACTAGGTCCTAATGCC
1 AATATAGTCAAACGAA-GGT-GAAAAGAGTTTGACCAAGTCCTAATGCC
* *
103915 AATATAGTCAAACGAAGGTGAGAAGAGTTTGACAAAGTCCTAATGCC
1 AATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
* * *
103962 AATATAGTCAAAC-AATGATGGAAAGAATTTGACCA
1 AATATAGTCAAACGAA-GGTGAAAAGAGTTTGACCA
103997 GATACAGCCA
Statistics
Matches: 147, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
46 40 0.27
47 100 0.68
48 7 0.05
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (47 bp):
AATATAGTCAAACGAAGGTGAAAAGAGTTTGACCAAGTCCTAATGCC
Found at i:104016 original size:35 final size:35
Alignment explanation
Indices: 103967--104106 Score: 165
Period size: 35 Copynumber: 4.0 Consensus size: 35
103957 ATGCCAATAT
* *
103967 AGTCAAACAATGATGGAAAGAATTTGACCAGATAC
1 AGTCAAACAATGATGAAAAGAGTTTGACCAGATAC
* * *
104002 AGCCAAACGATGATGAAAAGAGTTTGACTAGATAC
1 AGTCAAACAATGATGAAAAGAGTTTGACCAGATAC
* *
104037 AGTCAGACAATGATAAAAAAGAGTTTGACCAGATAC
1 AGTCAAACAATGAT-GAAAAGAGTTTGACCAGATAC
* * *
104073 -GATCAAACGATGATGGAAAGAGTTTAACCAGATA
1 AG-TCAAACAATGATGAAAAGAGTTTGACCAGATA
104107 TAGCAAGAGT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
35 59 0.67
36 29 0.33
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (35 bp):
AGTCAAACAATGATGAAAAGAGTTTGACCAGATAC
Found at i:104142 original size:56 final size:57
Alignment explanation
Indices: 104055--104163 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 57
104045 AATGATAAAA
* *
104055 AAGAGTTTGACCAGATACGATCAAACGATGATGGAAAG-AGTTTAACCAGATATAGC
1 AAGAGTTTGACCACATACGATCAAACAATGATGGAAAGAAGTTTAACCAGATATAGC
* *
104111 AAGAGTTTGACTACATAC-AGTCAAACAATGATGGAAAGAAGTTTGACCAGATA
1 AAGAGTTTGACCACATACGA-TCAAACAATGATGGAAAGAAGTTTAACCAGATA
104164 CAGTTAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
55 1 0.02
56 33 0.70
57 13 0.28
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (57 bp):
AAGAGTTTGACCACATACGATCAAACAATGATGGAAAGAAGTTTAACCAGATATAGC
Found at i:104165 original size:36 final size:35
Alignment explanation
Indices: 104111--104355 Score: 285
Period size: 36 Copynumber: 6.9 Consensus size: 35
104101 CAGATATAGC
* * **
104111 AAGAGTTTGACTACATACAGTCAAACAATGATGGA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
*
104146 AAGAAGTTTGACCAGATACAGTTAAATGATGATGGA
1 AAG-AGTTTGACCAGATACAGTCAAATGATGATGGA
* *
104182 AAGAGTTTGACAAGATACAGTCAGATGATGATGGA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
* *
104217 AAGAAGTTTGACCAGATATAGTCAGATGATGATGGA
1 AAG-AGTTTGACCAGATACAGTCAAATGATGATGGA
*
104253 AAGAAGTTTGACCAAATACAGTCAAATGATGATGGA
1 AAG-AGTTTGACCAGATACAGTCAAATGATGATGGA
* * **
104289 AAGAGTTTGACCAAATACAGTTAAACAATGAT-GA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
* * * *
104323 GAAGAGTTTGACTAGATATATTCAAACGATGAT
1 -AAGAGTTTGACCAGATACAGTCAAATGATGAT
104356 ACCAAATACA
Statistics
Matches: 185, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
34 2 0.01
35 87 0.47
36 96 0.52
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (35 bp):
AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
Found at i:104177 original size:92 final size:92
Alignment explanation
Indices: 104019--104198 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 92
104009 CGATGATGAA
* *
104019 AAGAGTTTGACTAGATACAGTCAGACAATGATAAAAAAGAGTTTGACCAGATACGATCAAACGAT
1 AAGAGTTTGACTACATACAGTCAAACAATGATAAAAAAGAGTTTGACCAGATACGATCAAACGAT
*
104084 GATGGAAAGAGTTTAACCAGATATAGC
66 GATGGAAAGAGTTTAACAAGATATAGC
** * *
104111 AAGAGTTTGACTACATACAGTCAAACAATGAT-GGAAAGAAGTTTGACCAGATAC-AGTTAAATG
1 AAGAGTTTGACTACATACAGTCAAACAATGATAAAAAAG-AGTTTGACCAGATACGA-TCAAACG
*
104174 ATGATGGAAAGAGTTTGACAAGATA
64 ATGATGGAAAGAGTTTAACAAGATA
104199 CAGTCAGATG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 5 0.06
92 73 0.94
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (92 bp):
AAGAGTTTGACTACATACAGTCAAACAATGATAAAAAAGAGTTTGACCAGATACGATCAAACGAT
GATGGAAAGAGTTTAACAAGATATAGC
Found at i:104227 original size:71 final size:71
Alignment explanation
Indices: 104111--104355 Score: 307
Period size: 71 Copynumber: 3.5 Consensus size: 71
104101 CAGATATAGC
* * **
104111 AAGAGTTTGACTACATACAGTCAAACAATGATGGAAAGAAGTTTGACCAGATACAGTTAAATGAT
1 AAGAGTTTGACAAGATACAGTCAAATGATGATGGAAAGAAGTTTGACCAGATACAGTTAAATGAT
104176 GATGGA
66 GATGGA
* * * *
104182 AAGAGTTTGACAAGATACAGTCAGATGATGATGGAAAGAAGTTTGACCAGATATAGTCAGATGAT
1 AAGAGTTTGACAAGATACAGTCAAATGATGATGGAAAGAAGTTTGACCAGATACAGTTAAATGAT
104247 GATGGA
66 GATGGA
* **
104253 AAGAAGTTTGACCAA-ATACAGTCAAATGATGATGGAAAG-AGTTTGACCAAATACAGTTAAACA
1 AAG-AGTTTGA-CAAGATACAGTCAAATGATGATGGAAAGAAGTTTGACCAGATACAGTTAAATG
104316 ATGAT-GA
64 ATGATGGA
* * * *
104323 GAAGAGTTTGACTAGATATATTCAAACGATGAT
1 -AAGAGTTTGACAAGATACAGTCAAATGATGAT
104356 ACCAAATACA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 2 0.01
70 24 0.16
71 92 0.61
72 30 0.20
73 3 0.02
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.24
Consensus pattern (71 bp):
AAGAGTTTGACAAGATACAGTCAAATGATGATGGAAAGAAGTTTGACCAGATACAGTTAAATGAT
GATGGA
Found at i:104388 original size:58 final size:58
Alignment explanation
Indices: 104298--104413 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
104288 AAAGAGTTTG
* * * *
104298 ACCAAATACAGTTAAACAATGATGAGAAGAGTTTGACTAGATATATTCAAACGATGAT
1 ACCAAATACAATCAAACAATGATGAGAAGAGTTTGACTAGATAAAGTCAAACGATGAT
** *
104356 ACCAAATACAATCAAATGATGATG-GAAAGAGTTTGACTAGATAAAGTCAAATGATGAT
1 ACCAAATACAATCAAACAATGATGAG-AAGAGTTTGACTAGATAAAGTCAAACGATGAT
104414 GGAAAGAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.02
58 49 0.98
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (58 bp):
ACCAAATACAATCAAACAATGATGAGAAGAGTTTGACTAGATAAAGTCAAACGATGAT
Found at i:104413 original size:35 final size:35
Alignment explanation
Indices: 104367--104549 Score: 192
Period size: 35 Copynumber: 5.2 Consensus size: 35
104357 CCAAATACAA
* *
104367 TCAAATGATGATGGAAAGAGTTTGACTAGATAAAG
1 TCAAATGATGATGGAAAGAGTTTGACCAGATATAG
* * *
104402 TCAAATGATGATGGAAAGAGTTTAACCAGACACAG
1 TCAAATGATGATGGAAAGAGTTTGACCAGATATAG
* * *
104437 TTAAATGATGGT-GAGAAGAGTTTGACCAGATGTAG
1 TCAAATGATGATGGA-AAGAGTTTGACCAGATATAG
* * *
104472 TCAAACGATGGTGAGAAA-AGTTTGATCAGATATAG
1 TCAAATGATGATG-GAAAGAGTTTGACCAGATATAG
* * *
104507 TCAAACGATAATGGAAAGAGTTTGACCAAATATCA-
1 TCAAATGATGATGGAAAGAGTTTGACCAGATAT-AG
104542 TCAAATGA
1 TCAAATGA
104550 GAGAAAATTT
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
34 6 0.05
35 113 0.91
36 3 0.02
37 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.25
Consensus pattern (35 bp):
TCAAATGATGATGGAAAGAGTTTGACCAGATATAG
Found at i:104812 original size:25 final size:25
Alignment explanation
Indices: 104753--104803 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
104743 GTGGCTAAAA
104753 GAAAGAGATAAGATTAGGAATAAGT
1 GAAAGAGATAAGATTAGGAATAAGT
104778 GAAAGAGATAAGATTAGGAATAAGT
1 GAAAGAGATAAGATTAGGAATAAGT
104803 G
1 G
104804 GTCGGGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (25 bp):
GAAAGAGATAAGATTAGGAATAAGT
Found at i:104976 original size:92 final size:91
Alignment explanation
Indices: 104809--104981 Score: 226
Period size: 92 Copynumber: 1.9 Consensus size: 91
104799 AAGTGGTCGG
** * * *
104809 GATATCCTTGCCCTAAGGAAATTAGGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAG
1 GATATCCCAGCCCTAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAAGAA-
*
104874 GTGATATGATTGGGAATGTGTGGTCTA
65 GTAATATGATTGGGAATGTGTGGTCTA
104901 GATATCCCAGCCCTAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAG-GAGTTAAGGAAG
1 GATATCCCAGCCCTAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTG-GTT--GGAAG
104965 AA-TAACT-TGATTGGGAA
63 AAGTAA-TATGATTGGGAA
104982 CTATGTGTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
91 1 0.01
92 63 0.89
93 1 0.01
94 6 0.08
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (91 bp):
GATATCCCAGCCCTAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGGAAGAAG
TAATATGATTGGGAATGTGTGGTCTA
Found at i:105619 original size:87 final size:87
Alignment explanation
Indices: 105499--105713 Score: 223
Period size: 87 Copynumber: 2.5 Consensus size: 87
105489 ACAATGTGAC
** * * * * *
105499 CATTAATAAGTGGCAAATGCATATGAAACGATGCAAATGCCAATGTCATCTAAAGTGTTGATGTG
1 CATTAATAAAAGGCAAATGCATATGAAATGATGCAAATGCCAATGTCATCCAAAATGTAGATGTA
* * ** *
105564 CATGAAATGATGCAAATGCAAG
66 AATAAAACAATGCAAACGCAAG
* * * * *
105586 CATTAATAAAAGGCGAATGCATATGGAATGATGCAAATACTAATGTTATCCAAAATGTAGATGTA
1 CATTAATAAAAGGCAAATGCATATGAAATGATGCAAATGCCAATGTCATCCAAAATGTAGATGTA
*
105651 AATAAAACAATGCAAACGCAAT
66 AATAAAACAATGCAAACGCAAG
* ** *
105673 CATCAATAAAGAAACAAATGCATATGAAATAATGCAAATGC
1 CATTAATAAA-AGGCAAATGCATATGAAATGATGCAAATGC
105714 GGATGTGGTC
Statistics
Matches: 102, Mismatches: 25, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
87 78 0.76
88 24 0.24
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (87 bp):
CATTAATAAAAGGCAAATGCATATGAAATGATGCAAATGCCAATGTCATCCAAAATGTAGATGTA
AATAAAACAATGCAAACGCAAG
Found at i:107226 original size:13 final size:13
Alignment explanation
Indices: 107208--107232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107198 CATAAAGTGT
107208 TGTATCGATACAA
1 TGTATCGATACAA
107221 TGTATCGATACA
1 TGTATCGATACA
107233 TGTTTTTTTG
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:107313 original size:13 final size:13
Alignment explanation
Indices: 107295--107319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107285 ATCACTTAAA
107295 TGTATCGATACAT
1 TGTATCGATACAT
107308 TGTATCGATACA
1 TGTATCGATACA
107320 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107372 original size:52 final size:52
Alignment explanation
Indices: 107328--107508 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
107318 CACTGATCTT
107328 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
107380 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
107432 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
107484 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
107509 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:111651 original size:10 final size:10
Alignment explanation
Indices: 111636--111662 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
111626 TGCTAACTAA
111636 GTTTTTGTTT
1 GTTTTTGTTT
111646 GTTTTTGTTT
1 GTTTTTGTTT
111656 GTTTTTG
1 GTTTTTG
111663 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:121356 original size:1 final size:1
Alignment explanation
Indices: 121350--121476 Score: 119
Period size: 1 Copynumber: 127.0 Consensus size: 1
121340 CATCCTCCAC
* * * * * * * *
121350 AAAAAAAAAAAACAAAACAAAACAAAAACAAAAACAAAAAAAAAAACAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
121415 AAAAAGAAGAAGAACAAAAAAAAAAAACAAAAAAAACAAAAAAAAAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
121477 CAACAACAAC
Statistics
Matches: 96, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 96 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:121369 original size:18 final size:17
Alignment explanation
Indices: 121348--121476 Score: 145
Period size: 18 Copynumber: 7.5 Consensus size: 17
121338 GGCATCCTCC
121348 ACAAAAAAAAAAAACAAA
1 ACAAAAAAAAAAAA-AAA
* *
121366 ACAAAACAAAAACAAAA
1 ACAAAAAAAAAAAAAAA
121383 ACAAAAAAAAAAACAAAA
1 ACAAAAAAAAAAA-AAAA
121401 ACAAAAAACAAAAAAAAA
1 ACAAAAAA-AAAAAAAAA
* * *
121419 AGAAGAAGAACAAAAAAA
1 ACAA-AAAAAAAAAAAAA
* *
121437 A-AAAACAAAAAAAACA
1 ACAAAAAAAAAAAAAAA
121453 A-AAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAAAAA
121469 ACAAAAAA
1 ACAAAAAA
121477 CAACAACAAC
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
16 25 0.26
17 22 0.23
18 40 0.42
19 8 0.08
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAAAAAA
Found at i:122973 original size:30 final size:30
Alignment explanation
Indices: 122937--123142 Score: 226
Period size: 30 Copynumber: 7.1 Consensus size: 30
122927 TATCAACCTT
*
122937 CAAAGCCCACAAATCAGTGGCACCCTTTTC
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
122967 CGAAGCCCACAAGTTAGTGGCACCCTTTTC
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
* ***
122997 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
123027 AAAAGCCCACAAGTCAGTGGCAACC-TTT-
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
123055 AAAAGCCCACAAGTCAGTGGCAACC--TT-
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
*
123082 CAAAGCCCACAAATCAGTGGCACCCTTTTC
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
* * * *
123112 CGAAGACCACAAATCGGTGGCA-CCTTTTC
1 CAAAGCCCACAAGTCAGTGGCACCCTTTTC
123141 CA
1 CA
123143 TCTTTAAGTC
Statistics
Matches: 154, Mismatches: 19, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
27 24 0.16
28 25 0.16
29 13 0.08
30 92 0.60
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (30 bp):
CAAAGCCCACAAGTCAGTGGCACCCTTTTC
Found at i:123186 original size:52 final size:52
Alignment explanation
Indices: 123129--123340 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
123119 CACAAATCGG
* *
123129 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
123181 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
123224 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * * * * * * *
123276 TGACATCCTTTTTCTCAGCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
123331 TGGCATCTTT
1 TGGCACCTTT
123341 ATCACTTTTC
Statistics
Matches: 129, Mismatches: 19, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
45 1 0.01
50 1 0.01
52 43 0.33
53 5 0.04
54 6 0.05
55 35 0.27
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:123212 original size:43 final size:43
Alignment explanation
Indices: 123144--123233 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
123134 CCTTTTCCAT
*
123144 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
123187 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
123230 CTTT
1 CTTT
123234 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:123977 original size:16 final size:16
Alignment explanation
Indices: 123956--123990 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
123946 TTATACTAAG
123956 TTTTTTGATAATGTAT
1 TTTTTTGATAATGTAT
123972 TTTTTTGATAATGTAT
1 TTTTTTGATAATGTAT
123988 TTT
1 TTT
123991 CATTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTTTTGATAATGTAT
Found at i:125922 original size:232 final size:232
Alignment explanation
Indices: 125500--126196 Score: 1270
Period size: 232 Copynumber: 3.0 Consensus size: 232
125490 TATTATTATT
*
125500 TCTTTTACAATTACTTTTTTTTCATTTTACACACTCCAAATAAATTTAAAAATTTTTATTCACTG
1 TCTTTTACAATTAC--TTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTCACTG
125565 ACATTGGCATATATGAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCC
64 ACATTGGCATATATGAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCC
125630 TTCCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCA
129 TTCCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCA
*
125695 ACGGAATAATAGGTTTTATTAATAAATCAATTATAGGTA
194 ACGGAATAATAAGTTTTATTAATAAATCAATTATAGGTA
*
125734 TCTTTTACAATTACTTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTTACTGAC
1 TCTTTTACAATTACTTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTCACTGAC
*
125799 ATTGGCATATATAAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCCTT
66 ATTGGCATATATGAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCCTT
125864 CCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCAAC
131 CCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCAAC
*
125929 GGAATAATAAATTTTATTAATAAATCAATTATAGGTA
196 GGAATAATAAGTTTTATTAATAAATCAATTATAGGTA
125966 TCTTTTACAATTACTTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTCACTGAC
1 TCTTTTACAATTACTTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTCACTGAC
*
126031 ATTGGCATATATGAAGTGTGCTTTTAAAAGGAAACCACATGAGTGCTTTCCATTTGTTTTCCCTT
66 ATTGGCATATATGAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCCTT
* **
126096 CCTTTTATTTTAAGTATAATCACTTTTTGTTATTTTTTTGATAATGTA-TTTTATTTATTTCAAC
131 CCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCAAC
* *
126160 GGAACAATAAGTTTTATTAATAAATAAATTATAGGTA
196 GGAATAATAAGTTTTATTAATAAATCAATTATAGGTA
126197 ATTATTTAAA
Statistics
Matches: 449, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
231 50 0.11
232 385 0.86
234 14 0.03
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (232 bp):
TCTTTTACAATTACTTTTTTCATTTTACACACTCCAAATAAATTTAAAAAATTTTATTCACTGAC
ATTGGCATATATGAAGTGTGCTTTTAAAAAGAAACCACATGAGTGCTTTCCATTTGTTTTCCCTT
CCTTTTATTTTAAATATAATCACCCTTTGTTATTTTTTTGATAATGTATTTTTATTTATTTCAAC
GGAATAATAAGTTTTATTAATAAATCAATTATAGGTA
Found at i:128493 original size:21 final size:21
Alignment explanation
Indices: 128443--128493 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
128433 TACTTAAAGT
128443 TATAATAAATAAAATTAATTA
1 TATAATAAATAAAATTAATTA
128464 TATAA-AAATAAAA-TAATTA
1 TATAATAAATAAAATTAATTA
128483 TATAATGAAAT
1 TATAAT-AAAT
128494 TTACTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.39
20 8 0.29
21 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TATAATAAATAAAATTAATTA
Found at i:128768 original size:21 final size:21
Alignment explanation
Indices: 128730--128795 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
128720 TAAACATATA
*
128730 TATTATTATTAAT-TTTAATTT
1 TATTATTA-TAATAATTAATTT
*
128751 TATTATTATAATAATTAATCT
1 TATTATTATAATAATTAATTT
* * *
128772 TACTACTACAATAATTAATTT
1 TATTATTATAATAATTAATTT
128793 TAT
1 TAT
128796 CATCACTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTATAATAATTAATTT
Found at i:129878 original size:15 final size:16
Alignment explanation
Indices: 129858--129911 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
129848 CATGTGGGTG
129858 AAAAATACTTT-TTAA
1 AAAAATACTTTATTAA
* *
129873 AAAAATATTTTATTTA
1 AAAAATACTTTATTAA
* **
129889 AAAAATAATAAATTAA
1 AAAAATACTTTATTAA
129905 AAAAATA
1 AAAAATA
129912 AAGAGATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATACTTTATTAA
Found at i:132598 original size:19 final size:20
Alignment explanation
Indices: 132555--132605 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
132545 TACAAGCCAA
**
132555 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
132575 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
132594 TGTATCGATACA
1 TGTATCGATACA
132606 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:132780 original size:195 final size:195
Alignment explanation
Indices: 132575--132975 Score: 784
Period size: 195 Copynumber: 2.1 Consensus size: 195
132565 CATTTTATGG
*
132575 TGTATCGATACATACTGTGTGTATCGATACAAGTTTGGCTACTGCCAAGCAATGCCAATGACTTG
1 TGTATCGATACATACTGTGTGTATCAATACAAGTTTGGCTACTGCCAAGCAATGCCAATGACTTG
132640 TATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGTGTATC
66 TATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGTGTATC
*
132705 GATACTTTTCAGGGTTTTGACTTTTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATACCTA
131 GATACTTTTCAGGGTTTTGACCTTTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATACCTA
132770 TGTATCGATACATACTGTGTGTATCAATACAAGTTTGGCTACTGCCAAGCAATGCCAATGACTTG
1 TGTATCGATACATACTGTGTGTATCAATACAAGTTTGGCTACTGCCAAGCAATGCCAATGACTTG
132835 TATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGTGTATC
66 TATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGTGTATC
132900 GATACTTTTCAGGGTTTTGACCTTTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATACCTA
131 GATACTTTTCAGGGTTTTGACCTTTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATACCTA
132965 TGTATCGATAC
1 TGTATCGATAC
132976 TTTGATATAT
Statistics
Matches: 204, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 204 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (195 bp):
TGTATCGATACATACTGTGTGTATCAATACAAGTTTGGCTACTGCCAAGCAATGCCAATGACTTG
TATCGATACATCTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGTGTATC
GATACTTTTCAGGGTTTTGACCTTTTTAGCCTAAGTCAACCTTAATGTATCGATACAAATACCTA
Found at i:133222 original size:8 final size:8
Alignment explanation
Indices: 133204--133238 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
133194 AAAGGAAAAT
133204 AAAAT-TA
1 AAAATATA
133211 AAAATATA
1 AAAATATA
133219 AAAATATA
1 AAAATATA
133227 AAAATATA
1 AAAATATA
133235 AAAA
1 AAAA
133239 AGAAAAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.19
8 22 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATATA
Found at i:134368 original size:2 final size:2
Alignment explanation
Indices: 134361--134388 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
134351 CATATTTTAC
134361 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
134389 GAGTAGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:136380 original size:34 final size:34
Alignment explanation
Indices: 136337--136407 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
136327 AAGGAATCTA
136337 AAATAAGTATGCTTACACTTGACTACGAATTGTT
1 AAATAAGTATGCTTACACTTGACTACGAATTGTT
136371 AAATAAGTATGCTTACACTTGACTACGAATTGTT
1 AAATAAGTATGCTTACACTTGACTACGAATTGTT
136405 AAA
1 AAA
136408 ATGAAGGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (34 bp):
AAATAAGTATGCTTACACTTGACTACGAATTGTT
Found at i:144593 original size:31 final size:32
Alignment explanation
Indices: 144558--144633 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
144548 AACTTAATCT
144558 AAAATAATCTAAATT-AAAATGA-ATTAAACTC
1 AAAATAATCTAAATTAAAAATGATA-TAAACTC
* * *
144589 AAAATTATTTAAATTAAAAATGATATAAATTC
1 AAAATAATCTAAATTAAAAATGATATAAACTC
144621 AAAATCAATCTAA
1 AAAAT-AATCTAA
144634 TTTTTTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 13 0.35
32 18 0.49
33 6 0.16
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATCTAAATTAAAAATGATATAAACTC
Found at i:144600 original size:16 final size:16
Alignment explanation
Indices: 144567--144625 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
144557 TAAAATAATC
*
144567 TAAATT-AAAATGAAT
1 TAAATTCAAAATGATT
* *
144582 TAAACTCAAAATTATT
1 TAAATTCAAAATGATT
* *
144598 TAAATTAAAAATGATA
1 TAAATTCAAAATGATT
144614 TAAATTCAAAAT
1 TAAATTCAAAAT
144626 CAATCTAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
15 5 0.14
16 30 0.86
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (16 bp):
TAAATTCAAAATGATT
Found at i:145419 original size:12 final size:12
Alignment explanation
Indices: 145398--145431 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
145388 TGTAACTATA
145398 TTTTATTTTTATT
1 TTTTA-TTTTATT
145411 TTTTATTTTATT
1 TTTTATTTTATT
*
145423 TTTAATTTT
1 TTTTATTTT
145432 TCTTAGTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:145419 original size:18 final size:19
Alignment explanation
Indices: 145396--145432 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
145386 TCTGTAACTA
145396 TATTTTATTTTT-ATTTTT
1 TATTTTATTTTTAATTTTT
145414 TATTTTATTTTTAATTTTT
1 TATTTTATTTTTAATTTTT
145433 CTTAGTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TATTTTATTTTTAATTTTT
Found at i:146173 original size:2 final size:2
Alignment explanation
Indices: 146166--146197 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
146156 TCTTTTACAT
146166 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
146198 GCTGCCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:147071 original size:22 final size:21
Alignment explanation
Indices: 147020--147071 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
147010 TAAATATGAT
147020 TTTTAAATTTAATTTTTAGTAA
1 TTTTAAATTT-ATTTTTAGTAA
* *
147042 TTTAAAATTT-TTTATTATTAA
1 TTTTAAATTTATTT-TTAGTAA
147063 GTTTTAAAT
1 -TTTTAAAT
147072 ATAGAGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 6 0.24
22 16 0.64
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTAAATTTATTTTTAGTAA
Found at i:147151 original size:18 final size:17
Alignment explanation
Indices: 147112--147145 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
147102 TATTATAATA
*
147112 TTATATATATTTATTTC
1 TTATATATATATATTTC
147129 TTATATAATATATATTT
1 TTATAT-ATATATATTT
147146 TATATAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATATATATATTTC
Found at i:147373 original size:35 final size:33
Alignment explanation
Indices: 147330--147408 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 33
147320 TTCATAAAAT
*
147330 TTTAAAATTTTA-TAAATTAAATTAAGAGATTAAA
1 TTTAAAATTTTATTAAATTAAA-TAAGA-ATGAAA
* *
147364 TTTATAAATTTTTATTATATTAAATAATAATGAAA
1 TTTA-AAA-TTTTATTAAATTAAATAAGAATGAAA
147399 TTTAAAATTT
1 TTTAAAATTT
147409 CATTCACATG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
33 3 0.08
34 7 0.18
35 12 0.31
36 9 0.23
37 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (33 bp):
TTTAAAATTTTATTAAATTAAATAAGAATGAAA
Found at i:149791 original size:12 final size:12
Alignment explanation
Indices: 149776--149800 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
149766 TATATATATA
149776 TATGTGTGTGTG
1 TATGTGTGTGTG
149788 TATGTGTGTGTG
1 TATGTGTGTGTG
149800 T
1 T
149801 CTTTGTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.40, T:0.52
Consensus pattern (12 bp):
TATGTGTGTGTG
Found at i:152085 original size:7 final size:7
Alignment explanation
Indices: 152073--152109 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
152063 TAGCTTATTT
152073 AAACGAA
1 AAACGAA
152080 AAACGAA
1 AAACGAA
152087 AAACGAA
1 AAACGAA
*
152094 AAATGAA
1 AAACGAA
152101 AAACGAA
1 AAACGAA
152108 AA
1 AA
152110 TCTAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.73, C:0.11, G:0.14, T:0.03
Consensus pattern (7 bp):
AAACGAA
Found at i:152116 original size:14 final size:14
Alignment explanation
Indices: 152073--152116 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
152063 TAGCTTATTT
*
152073 AAACGAAAAACGAA
1 AAACGAAAATCGAA
152087 AAACGAAAAAT-GAA
1 AAACG-AAAATCGAA
*
152101 AAACGAAAATCTAA
1 AAACGAAAATCGAA
152115 AA
1 AA
152117 TATGCTGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 17 0.65
15 4 0.15
ACGTcount: A:0.70, C:0.11, G:0.11, T:0.07
Consensus pattern (14 bp):
AAACGAAAATCGAA
Found at i:153558 original size:20 final size:19
Alignment explanation
Indices: 153518--153558 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
153508 GTCATATTTT
*
153518 GTATTTTATTATATTTAAA
1 GTATTTTATTATATATAAA
*
153537 GTATTTTATATTTATATAAA
1 GTATTTTAT-TATATATAAA
153557 GT
1 GT
153559 TTGAGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
GTATTTTATTATATATAAA
Found at i:153704 original size:26 final size:23
Alignment explanation
Indices: 153675--153729 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 23
153665 AACTCAATTT
153675 ATTTTTTAATTATAAAATATATATTA
1 ATTTTTTAATTAT-AAAT-TATA-TA
* * *
153701 ATTTTATATTTATATATTATATA
1 ATTTTTTAATTATAAATTATATA
153724 ATTTTT
1 ATTTTT
153730 ATCATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
25 3 0.12
26 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTTAATTATAAATTATATA
Found at i:153737 original size:23 final size:21
Alignment explanation
Indices: 153691--153737 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
153681 TAATTATAAA
*
153691 ATATATATTAATTTTATATTT
1 ATATATATTAATTTTATATAT
153712 ATATATTATATAATTTT-TATCAT
1 ATATA-TAT-TAATTTTATAT-AT
153735 ATA
1 ATA
153738 AAAAATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATATTAATTTTATATAT
Found at i:156737 original size:28 final size:27
Alignment explanation
Indices: 156689--156742 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
156679 AAGCAGTTTC
*
156689 AAATTTTAAAAATGTTATCCAAATTTG
1 AAATTTAAAAAATGTTATCCAAATTTG
156716 AAATTTAAAAAGATGTTATCCAAATTT
1 AAATTTAAAAA-ATGTTATCCAAATTT
156743 TGAGGAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (27 bp):
AAATTTAAAAAATGTTATCCAAATTTG
Found at i:157392 original size:24 final size:25
Alignment explanation
Indices: 157360--157408 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
157350 GGTTTAATGG
* **
157360 TAAAGAAATGGATTAAAATAAAAAA
1 TAAAGAAATGAAGAAAAATAAAAAA
157385 TAAA-AAATGAAGAAAAATAAAAAA
1 TAAAGAAATGAAGAAAAATAAAAAA
157409 AGCAAAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.16
Consensus pattern (25 bp):
TAAAGAAATGAAGAAAAATAAAAAA
Found at i:164547 original size:75 final size:73
Alignment explanation
Indices: 164468--164706 Score: 223
Period size: 75 Copynumber: 3.2 Consensus size: 73
164458 TAATCTCACT
* *
164468 TTTTCAAGCTCGAGATCGTTGTTATGCCTTTTTAGTCTTAACCTTTCCAAAGGTTTAAAATGAGA
1 TTTTCAAGCTCAAGAT-GTTGTTATGCCATTTTAGTCTTAA-CTTTCCAAAGGTTTAAAATGAGA
164533 TCATCTTGCC
64 TCATCTTGCC
** ** * *
164543 TTTTC-AG-TCTTGAAATTGCTATGCCATTTTA-TGCTTTAACTTTCCTAAAAGTTTAAAATGAG
1 TTTTCAAGCTCAAGATGTTGTTATGCCATTTTAGT-C-TTAACTTTCC-AAAGGTTTAAAATGAG
**
164605 ATCATCTCACC
63 ATCATCTTGCC
* * * * * * *
164616 TTTTTAGGCTTAAAATTGTTGTTATGCCATTTTAGGCCTTAACATTCCAAAGGTTCAAAATGAGA
1 TTTTCAAGCTCAAGA-TGTTGTTATGCCATTTTA-GTCTTAACTTTCCAAAGGTTTAAAATGAGA
*
164681 TGATCTTGCC
64 TCATCTTGCC
*
164691 TTTTCATGCTCAAGAT
1 TTTTCAAGCTCAAGAT
164707 TATTGCCATA
Statistics
Matches: 127, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
71 1 0.01
72 21 0.17
73 36 0.28
74 4 0.03
75 40 0.31
76 24 0.19
77 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (73 bp):
TTTTCAAGCTCAAGATGTTGTTATGCCATTTTAGTCTTAACTTTCCAAAGGTTTAAAATGAGATC
ATCTTGCC
Found at i:164604 original size:73 final size:73
Alignment explanation
Indices: 164490--164696 Score: 238
Period size: 73 Copynumber: 2.8 Consensus size: 73
164480 AGATCGTTGT
* * *
164490 TATGCCTTTTTA-GTCTTAACCTTTCCAAAGGTTTAAAATGAGATCATCTTGCCTTTTCAGTCTT
1 TATGCCATTTTAGGCCTTAA-CTTTCCAAAGGTTTAAAATGAGATCATCTTGCCTTTTCAGGCTT
*
164554 GAAA-TTGC
65 AAAATTTGC
* * * ** *
164562 TATGCCATTTTATGCTTTAACTTTCCTAAAAGTTTAAAATGAGATCATCTCACCTTTTTAGGCTT
1 TATGCCATTTTAGGCCTTAACTTTCC-AAAGGTTTAAAATGAGATCATCTTGCCTTTTCAGGCTT
*
164627 AAAATTGTTGT
65 AAAA-T-TTGC
* * *
164638 TATGCCATTTTAGGCCTTAACATTCCAAAGGTTCAAAATGAGATGATCTTGCCTTTTCA
1 TATGCCATTTTAGGCCTTAACTTTCCAAAGGTTTAAAATGAGATCATCTTGCCTTTTCA
164697 TGCTCAAGAT
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
72 17 0.15
73 41 0.37
75 27 0.24
76 26 0.23
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (73 bp):
TATGCCATTTTAGGCCTTAACTTTCCAAAGGTTTAAAATGAGATCATCTTGCCTTTTCAGGCTTA
AAATTTGC
Found at i:167196 original size:38 final size:38
Alignment explanation
Indices: 167153--167225 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
167143 AAGAAATTAA
167153 ATTAAAATAGATATTTATA-T-AATAAATAATTAAAAATT
1 ATTAAAAT-GATATTTATATTAAAT-AATAATTAAAAATT
*
167191 ATTAAAATTATATTTATATTAAATAATAATTAAAA
1 ATTAAAATGATATTTATATTAAATAATAATTAAAA
167226 GTAAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 9 0.28
38 20 0.62
39 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (38 bp):
ATTAAAATGATATTTATATTAAATAATAATTAAAAATT
Found at i:167235 original size:28 final size:27
Alignment explanation
Indices: 167181--167235 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
167171 ATAATAAATA
* * * *
167181 ATTAAAAATTATTAAAATTATATTTAT
1 ATTAAAAATAATTAAAAGTAAAATTAT
167208 ATTAAATAATAATTAAAAGTAAAATTAT
1 ATTAAA-AATAATTAAAAGTAAAATTAT
167236 TATATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTAAAAATAATTAAAAGTAAAATTAT
Found at i:174342 original size:14 final size:15
Alignment explanation
Indices: 174317--174357 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
174307 ATTTTTTTAT
174317 AAAAATATTATACTTA
1 AAAAATA-TATACTTA
174333 AAAAA-ATATACTTA
1 AAAAATATATACTTA
174347 AAAAATATATA
1 AAAAATATATA
174358 TTTTAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 13 0.54
15 6 0.25
16 5 0.21
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATATATACTTA
Found at i:176552 original size:2 final size:2
Alignment explanation
Indices: 176545--176580 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
176535 ATGTATTTAG
176545 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
176581 TGATTGAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:181843 original size:21 final size:20
Alignment explanation
Indices: 181813--181861 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
181803 TAAGATTATG
181813 ATAAATATTAAAAT-TATAGA
1 ATAAATATTAAAATGTATA-A
181833 ATAAGATATTAAAATGTATAA
1 ATAA-ATATTAAAATGTATAA
*
181854 ATATATAT
1 ATAAATAT
181862 ACTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
ATAAATATTAAAATGTATAA
Found at i:184535 original size:82 final size:81
Alignment explanation
Indices: 184449--184627 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 81
184439 TCATTTTAGC
* * * * ***
184449 TATCACAATTGAAGAATTAACTTCTAGATGTCACCACTAGAAGTTTTGGATAACACCATGGAAGA
1 TATCAC-ACTGAAGAATAAAATTATAGATGTCACCACTAGAAGTTTTGGATAACACCACCAAAGA
*
184514 CTTAAATTTGTCTCGGT
65 CTTAAATTTGTCTCAGT
* * *
184531 TATCATCACTGAAGACTAAAATTATAGGTGTCACCACTATAAGTTTTGGATAACACCACCAAAGA
1 TATCA-CACTGAAGAATAAAATTATAGATGTCACCACTAGAAGTTTTGGATAACACCACCAAAGA
*
184596 CTTGAATTTGTCTCAGT
65 CTTAAATTTGTCTCAGT
*
184613 TATCACCACCGAAGA
1 TATCA-CACTGAAGA
184628 CTTGCATGTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
82 81 0.99
83 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (81 bp):
TATCACACTGAAGAATAAAATTATAGATGTCACCACTAGAAGTTTTGGATAACACCACCAAAGAC
TTAAATTTGTCTCAGT
Found at i:184628 original size:82 final size:82
Alignment explanation
Indices: 184477--184629 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 82
184467 AACTTCTAGA
*** * * *
184477 TGTCACCACTAGAAGTTTTGGATAACACCATGGAAGACTTAAATTTGTCTCGGTTATCATCACTG
1 TGTCACCACTAGAAGTTTTGGATAACACCACCAAAGACTTAAATTTGTCTCAGTTATCACCACCG
184542 AAGACTAAAATTATAGG
66 AAGACTAAAATTATAGG
* *
184559 TGTCACCACTATAAGTTTTGGATAACACCACCAAAGACTTGAATTTGTCTCAGTTATCACCACCG
1 TGTCACCACTAGAAGTTTTGGATAACACCACCAAAGACTTAAATTTGTCTCAGTTATCACCACCG
184624 AAGACT
66 AAGACT
184630 TGCATGTGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (82 bp):
TGTCACCACTAGAAGTTTTGGATAACACCACCAAAGACTTAAATTTGTCTCAGTTATCACCACCG
AAGACTAAAATTATAGG
Found at i:185291 original size:27 final size:27
Alignment explanation
Indices: 185253--185341 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
185243 TCACCTGTGG
*
185253 AATTTTCAATTAAACTTTTTACATATA
1 AATTTTTAATTAAACTTTTTACATATA
* * *
185280 AATTTTTAATTAAGCCTTTTACACATAA
1 AATTTTTAATTAAACTTTTTACATAT-A
* *
185308 AATTTTTAGTTAAAATGTTTTA-AT-TA
1 AATTTTTAATTAAACT-TTTTACATATA
185334 AATTTTTA
1 AATTTTTA
185342 CATATGAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 9 0.18
27 23 0.45
28 14 0.27
29 5 0.10
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTTTTAATTAAACTTTTTACATATA
Found at i:185299 original size:28 final size:27
Alignment explanation
Indices: 185253--185321 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
185243 TCACCTGTGG
* *
185253 AATTTTCAATTAAACTTTT-TACATATA
1 AATTTTTAATTAAACTTTTACACATA-A
*
185280 AATTTTTAATTAAGCCTTTTACACATAA
1 AATTTTTAATTAA-ACTTTTACACATAA
*
185308 AATTTTTAGTTAAA
1 AATTTTTAATTAAA
185322 ATGTTTTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 12 0.34
28 18 0.51
29 5 0.14
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (27 bp):
AATTTTTAATTAAACTTTTACACATAA
Found at i:185323 original size:13 final size:13
Alignment explanation
Indices: 185305--185362 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
185295 CTTTTACACA
*
185305 TAAAATTTTTAGT
1 TAAAATTTTTAAT
185318 TAAAATGTTTTAAT
1 TAAAAT-TTTTAAT
185332 T-AAATTTTTACAT
1 TAAAATTTTTA-AT
*
185345 ATGAAATTTTTAAT
1 -TAAAATTTTTAAT
185359 TAAA
1 TAAA
185363 CTTATCATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 5 0.13
13 15 0.38
14 10 0.26
15 9 0.23
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (13 bp):
TAAAATTTTTAAT
Found at i:185353 original size:41 final size:41
Alignment explanation
Indices: 185279--185362 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
185269 TTTTACATAT
* *
185279 AAATTTTTAATTAAGCCTTTTACACATAAAATTTTTAGTTA
1 AAATTTTTAATTAAGACTTTTACACATAAAATTTTTAATTA
* * *
185320 AAATGTTTTAATTAA-ATTTTTACATATGAAATTTTTAATTA
1 AAAT-TTTTAATTAAGACTTTTACACATAAAATTTTTAATTA
185361 AA
1 AA
185363 CTTATCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 27 0.73
42 10 0.27
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (41 bp):
AAATTTTTAATTAAGACTTTTACACATAAAATTTTTAATTA
Found at i:185447 original size:28 final size:28
Alignment explanation
Indices: 185325--185448 Score: 89
Period size: 28 Copynumber: 4.6 Consensus size: 28
185315 AGTTAAAATG
* *
185325 TTTTAATTAAA-TTTTTACATA-TGAAAT
1 TTTTAATTAAACTTTTCACACATTG-AAT
* * * * *
185352 TTTTAATTAAACTTATCATATATGGAAA
1 TTTTAATTAAACTTTTCACACATTGAAT
* * * *
185380 TTTCAATTGAAC--TTCAC-CTATAGATT
1 TTTTAATTAAACTTTTCACAC-ATTGAAT
185406 TTTTAA-TAAACTTTTCACACATTGAAT
1 TTTTAATTAAACTTTTCACACATTGAAT
185433 TTTTAATTAAACTTTT
1 TTTTAATTAAACTTTT
185449 TAGTTAAACT
Statistics
Matches: 73, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
25 4 0.05
26 12 0.16
27 27 0.37
28 29 0.40
29 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (28 bp):
TTTTAATTAAACTTTTCACACATTGAAT
Found at i:185461 original size:12 final size:13
Alignment explanation
Indices: 185432--185461 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
185422 ACACATTGAA
185432 TTTTTAATTAAAC
1 TTTTTAATTAAAC
*
185445 TTTTTAGTTAAAC
1 TTTTTAATTAAAC
185458 TTTT
1 TTTT
185462 GCATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (13 bp):
TTTTTAATTAAAC
Found at i:186728 original size:3 final size:3
Alignment explanation
Indices: 186720--186747 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
186710 ACTTGAGCCA
186720 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
186748 AAAAAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:186931 original size:17 final size:19
Alignment explanation
Indices: 186909--186950 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
186899 TTTTTTAATT
186909 TATTATTTTAAT-AAA-AA
1 TATTATTTTAATAAAATAA
186926 TATTA-TTTAATAAAATAA
1 TATTATTTTAATAAAATAA
186944 TATTATT
1 TATTATT
186951 ATTTCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 7 0.32
19 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATTTTAATAAAATAA
Found at i:186947 original size:18 final size:16
Alignment explanation
Indices: 186909--186950 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 16
186899 TTTTTTAATT
186909 TATTATTTTAATAAAAA
1 TATTA-TTTAATAAAAA
186926 TATTATTTAATAAAATAA
1 TATTATTTAAT-AAA-AA
186944 TATTATT
1 TATTATT
186951 ATTTCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATTTAATAAAAA
Found at i:187248 original size:18 final size:17
Alignment explanation
Indices: 187222--187255 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
187212 ATTTTAATTA
187222 TTTAATATTAATATATTT
1 TTTAATATTAA-ATATTT
*
187240 TTTAGTATTAAATATT
1 TTTAATATTAAATATT
187256 ATTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTAATATTAAATATTT
Found at i:187396 original size:18 final size:18
Alignment explanation
Indices: 187370--187417 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 18
187360 ATATTTTAAC
187370 AATACTTATAATATTATT
1 AATACTTATAATATTATT
*
187388 AATA-TT-T-ATATAATT
1 AATACTTATAATATTATT
*
187403 AATAGTT-TAATATTA
1 AATACTTATAATATTA
187418 AATAGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
17 7 0.27
18 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
AATACTTATAATATTATT
Found at i:189840 original size:28 final size:28
Alignment explanation
Indices: 189800--189876 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
189790 GGAATAAAGC
* **
189800 CGGGGTTGGAGTATCCCC-TTGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
189828 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
189856 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
189877 TGTGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:189972 original size:52 final size:49
Alignment explanation
Indices: 189859--190028 Score: 161
Period size: 45 Copynumber: 3.4 Consensus size: 49
189849 GAAATAACGA
* * *
189859 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGA-T-T-AAAAAATTGGTG-TTTTGAAAATAAAACCGG
* * *
189912 AGCTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AA--AAAATTGGTGTTTTGAAAATAAAACCGG
* *
189964 GGTTGGAGTATCCCCG----AAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAAAATTGGTGTTTTGA-AAATAAAACCGG
190009 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
190029 TGAGAAATCA
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
44 1 0.01
45 40 0.41
47 1 0.01
51 3 0.03
52 30 0.31
53 23 0.23
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTTGGAGTATCCCCGATTAAAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:190124 original size:27 final size:28
Alignment explanation
Indices: 190058--190132 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
190048 GAATAAAGTA
* *
190058 GGGGTTGGAGTATCCCCTCA-GAAATAAT
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
190086 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
190113 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
190133 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:190231 original size:51 final size:51
Alignment explanation
Indices: 190118--190237 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 51
190108 TTAACGGGGT
* *
190118 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTTGGAAATAAAATCAGAG
1 TGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTTGAAAATAAAATCAGAG
*
190170 TTGAGGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCAGAG
1 TGGA-GTATCCCCGATTATGA-AAAATTAGTGTTTTTGAAAATAAAATCAGAG
*
190221 ATGGAATATCCCCGATT
1 -TGGAGTATCCCCGATT
190238 GCGGAGAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
51 30 0.50
52 7 0.12
53 23 0.38
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (51 bp):
TGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCAGAG
Found at i:192620 original size:13 final size:13
Alignment explanation
Indices: 192602--192627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192592 CAAAGAATAG
192602 ATGTATCGATACA
1 ATGTATCGATACA
192615 ATGTATCGATACA
1 ATGTATCGATACA
192628 CATAAAAATG
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:192713 original size:32 final size:32
Alignment explanation
Indices: 192672--192732 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
192662 GCTAATTATG
* *
192672 TATCGATACAATACTTACGTATCGATACATTA
1 TATCAATACAACACTTACGTATCGATACATTA
*
192704 TATCAATACAACACTTATGTATCGATACA
1 TATCAATACAACACTTACGTATCGATACA
192733 AATTGTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (32 bp):
TATCAATACAACACTTACGTATCGATACATTA
Found at i:192731 original size:19 final size:19
Alignment explanation
Indices: 192667--192733 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
192657 CAGTAGCTAA
*
192667 TTATGTATCGATACAATAC
1 TTATGTATCGATACAACAC
*
192686 TTACGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
*
192701 TTA--TATCAATACAACAC
1 TTATGTATCGATACAACAC
192718 TTATGTATCGATACAA
1 TTATGTATCGATACAA
192734 ATTGTTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 6 0.16
15 3 0.08
16 5 0.13
17 3 0.08
19 21 0.55
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:193382 original size:15 final size:15
Alignment explanation
Indices: 193362--193390 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
193352 AAATTCATTA
193362 TCCATAATATTTATG
1 TCCATAATATTTATG
193377 TCCATAATATTTAT
1 TCCATAATATTTAT
193391 CAATATATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.48
Consensus pattern (15 bp):
TCCATAATATTTATG
Found at i:194314 original size:20 final size:20
Alignment explanation
Indices: 194289--194443 Score: 94
Period size: 20 Copynumber: 6.7 Consensus size: 20
194279 TTTTTACCTG
194289 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
194309 ATGTATCGATACATTCTATTTTTTACCTA
1 ATGTATCGAT--A--C-A-TTTTT--C-A
194338 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* *
194359 ATTTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
194379 ATGTATCAATACATTCTGTCTTTTTACCTA
1 ATGTATCGATACA-------TTTTT--C-A
194409 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
194430 ATGTATCGATACAT
1 ATGTATCGATACAT
194444 CTAGTTAAAA
Statistics
Matches: 108, Mismatches: 6, Indels: 42
0.69 0.04 0.27
Matches are distributed among these distances:
20 53 0.49
21 2 0.02
22 3 0.03
24 11 0.10
25 2 0.02
26 6 0.06
27 4 0.04
28 2 0.02
29 2 0.02
30 11 0.10
31 12 0.11
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:194351 original size:50 final size:49
Alignment explanation
Indices: 194279--194375 Score: 176
Period size: 50 Copynumber: 2.0 Consensus size: 49
194269 AAAAGTCACA
194279 TTTTTACCTGATGTATCGATACATTTTTCAATGTATCGATACATTCTAT
1 TTTTTACCTGATGTATCGATACATTTTTCAATGTATCGATACATTCTAT
*
194328 TTTTTACCTAGATGTATCGATACATTTTTCAATTTATCGATACATTCT
1 TTTTTACCT-GATGTATCGATACATTTTTCAATGTATCGATACATTCT
194376 TCAATGTATC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 9 0.20
50 37 0.80
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.47
Consensus pattern (49 bp):
TTTTTACCTGATGTATCGATACATTTTTCAATGTATCGATACATTCTAT
Found at i:194392 original size:70 final size:71
Alignment explanation
Indices: 194289--194443 Score: 267
Period size: 71 Copynumber: 2.2 Consensus size: 71
194279 TTTTTACCTG
* *
194289 ATGTATCGATACATTTTTCAATGTATCGATACATTCTAT-TTTTTACCTAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCAATACATTCTATCTTTTTACCTAGATGTATCGATACAT
194353 TTTTCA
66 TTTTCA
* *
194359 ATTTATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTTTACCTAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCAATACATTCTATCTTTTTACCTAGATGTATCGATACAT
194424 TTTTCA
66 TTTTCA
194430 ATGTATCGATACAT
1 ATGTATCGATACAT
194444 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 35 0.44
71 44 0.56
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (71 bp):
ATGTATCGATACATTCTTCAATGTATCAATACATTCTATCTTTTTACCTAGATGTATCGATACAT
TTTTCA
Found at i:196579 original size:27 final size:27
Alignment explanation
Indices: 196547--196614 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
196537 TATTCATCGA
*
196547 GGATACTCCAACCTTATTCC-TCTAAGG
1 GGATACTCCAACCTTATTCCTTCGAA-G
196574 GGATACTCCAACCTTATTCCTTCGAAG
1 GGATACTCCAACCTTATTCCTTCGAAG
196601 GGATACTCCAACCT
1 GGATACTCCAACCT
196615 CGTTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCTTATTCCTTCGAAG
Found at i:196745 original size:98 final size:98
Alignment explanation
Indices: 196572--196804 Score: 333
Period size: 98 Copynumber: 2.4 Consensus size: 98
196562 ATTCCTCTAA
* * *
196572 GGGGATACTCCAACCTTATTCCTTCGAAGGGATACTCCAACCTCGTTTTTAAAAATTGTCAAGAT
1 GGGGATACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCATTTTTAAAAATTGTCAAGAT
* *
196637 TTGAAACTTATCCTTGCCTAAATTGTCATTATT
66 TTGAAACTTATCCTTACCTAAATTGTCATCATT
* * *
196670 GGGGACACTCCAACCTTATTCCTCCGAGGGGATACTCCAATCTCATTTTTAAAACA-TGTTAAGA
1 GGGGATACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCATTTTTAAAA-ATTGTCAAGA
* *
196734 TTTGAATCTTATCCTTACCTAAATTTTCATCATT
65 TTTGAAACTTATCCTTACCTAAATTGTCATCATT
* **
196768 AGGGATACTCCAACCCCATTCCTCCGAGGGGATACTC
1 GGGGATACTCCAACCTTATTCCTCCGAGGGGATACTC
196805 GAAGTCCGTT
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
98 119 0.99
99 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (98 bp):
GGGGATACTCCAACCTTATTCCTCCGAGGGGATACTCCAACCTCATTTTTAAAAATTGTCAAGAT
TTGAAACTTATCCTTACCTAAATTGTCATCATT
Found at i:203095 original size:33 final size:33
Alignment explanation
Indices: 203058--203122 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
203048 AAGATAAATT
* *
203058 ATCAAAGGTATCTTAAAATTTATCAAAGGTATC
1 ATCAAAGGTATCTTAAAATTCAACAAAGGTATC
203091 ATCAAAGGTATCTTAAAATTCAACAAAGGTAT
1 ATCAAAGGTATCTTAAAATTCAACAAAGGTAT
203123 ATGAGCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (33 bp):
ATCAAAGGTATCTTAAAATTCAACAAAGGTATC
Found at i:203102 original size:21 final size:21
Alignment explanation
Indices: 203057--203102 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
203047 AAAGATAAAT
* **
203057 TATCAAAGGTATCTTAAAATT
1 TATCAAAGGTATCATAAAAGG
*
203078 TATCAAAGGTATCATCAAAGG
1 TATCAAAGGTATCATAAAAGG
203099 TATC
1 TATC
203103 TTAAAATTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (21 bp):
TATCAAAGGTATCATAAAAGG
Found at i:205686 original size:13 final size:13
Alignment explanation
Indices: 205668--205693 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
205658 CAATTTTTTG
205668 TGTATCGATACAT
1 TGTATCGATACAT
205681 TGTATCGATACAT
1 TGTATCGATACAT
205694 ATTTTGTGTA
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:205704 original size:32 final size:33
Alignment explanation
Indices: 205648--205711 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
205638 TACAAGCCAA
*
205648 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
205681 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
205712 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:205705 original size:19 final size:19
Alignment explanation
Indices: 205648--205711 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
205638 TACAAGCCAA
*
205648 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
205668 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
205681 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
205700 TGTATCGATACA
1 TGTATCGATACA
205712 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:207780 original size:21 final size:20
Alignment explanation
Indices: 207751--207793 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
207741 GACTAGTGTG
* *
207751 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
207772 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
207792 GG
1 GG
207794 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:208252 original size:13 final size:13
Alignment explanation
Indices: 208234--208271 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
208224 ATAATCCCCC
208234 TGTATCGATACAG
1 TGTATCGATACAG
*
208247 TGTATCGATACAT
1 TGTATCGATACAG
*
208260 TGTATTGATACA
1 TGTATCGATACA
208272 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:209986 original size:20 final size:19
Alignment explanation
Indices: 209932--209986 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
209922 AAAACCCTTA
*
209932 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
209952 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
209972 AATGTATCGATACAT
1 AAAGTATCGATACAT
209987 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Done.