Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 21 of 32
Found at i:2867181 original size:13 final size:13
Alignment explanation
Indices: 2867163--2867187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2867153 TATAAAGAAC
2867163 ATGTATCGATACA
1 ATGTATCGATACA
2867176 ATGTATCGATAC
1 ATGTATCGATAC
2867188 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2881738 original size:13 final size:13
Alignment explanation
Indices: 2881720--2881747 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2881710 ATATAAAGAT
2881720 CAATGTATCGATA
1 CAATGTATCGATA
2881733 CAATGTATCGATA
1 CAATGTATCGATA
2881746 CA
1 CA
2881748 TTGAATAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2882773 original size:49 final size:49
Alignment explanation
Indices: 2882622--2883352 Score: 402
Period size: 49 Copynumber: 15.7 Consensus size: 49
2882612 ATGACAAGGC
* * * *
2882622 GCTGATTCATGGCCAACGACATTAGACTTGAAGAAGAA--TGCCAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* ** * * * * * * *
2882669 GTTGAGACAAGGCTAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGGTGCCAATGT
* * *
2882721 GCTGATTCAAGGCCAACGATATCGGACTTAAATATGAAGGTGCCAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
2882770 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCAAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * ** *
2882819 GCTGATTCAAGGCCAGCAATATCAGACTTAAAGATGAAGATGCCAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
2882868 GCTAATTCAAGGTCGACGACATTGGACTTAAAGATGGTTAAGGTGTCAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G--AAGGTGCCAATGT
* * *
2882920 GCTGATTCAAGGCAAACGACATTGGTCTTAAAGATGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * * *
2882969 GCTGATTTAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATTT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
** * * * * *
2883008 GCTGATTCAAGGCCAGTGACCTTGGTCTTAAAGA-CAATGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
2883056 GCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGCCGATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * * *
2883095 GCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* *
2883143 GCTGATTCAAGGCCAACGATATTGGGCTT---G-T----GT--CAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * *
2883182 GCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTGCCAATGT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * *
2883221 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
* * * * *
2883269 GCTGATTCAAGGCTAGCGATATTGGAC-TCAAGATGGTAAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G--AAGGTGCCAATGT
* * * *
2883320 GTTGATTCAAGTCCAGCGATATTGGACTTAAAG
1 GCTGATTCAAGGCCAACGACATTGGACTTAAAG
2883353 GTGCTAGAGA
Statistics
Matches: 540, Mismatches: 97, Indels: 89
0.74 0.13 0.12
Matches are distributed among these distances:
37 3 0.01
38 1 0.00
39 124 0.23
40 3 0.01
41 4 0.01
43 1 0.00
45 1 0.00
46 2 0.00
47 27 0.05
48 98 0.18
49 157 0.29
50 6 0.01
51 38 0.07
52 75 0.14
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
GCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATGT
Found at i:2882923 original size:150 final size:147
Alignment explanation
Indices: 2882708--2882990 Score: 404
Period size: 150 Copynumber: 1.9 Consensus size: 147
2882698 AGGAATGTTA
* * *
2882708 AAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAATATGAAGGTGCCAATGTGCT
1 AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGTGCT
* * *
2882773 GATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCAAATGTGCTGATTCAAGGCCAGCAA
66 GATTCAAGGCAAACGACATTGGTCTTAAAGATAAAGGTGCAAATATGCTGATTCAAGGCCAGCAA
2882838 TATCAGACTTAAAGATG
131 TATCAGACTTAAAGATG
* * * * *
2882855 AAGATGCCAATGTGCTAATTCAAGGTCGACGACATTGGACTTAAAGATGGTTAAGGTGTCAATGT
1 AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGAT-G--AAGGTGCCAATGT
* * *
2882920 GCTGATTCAAGGCAAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTTAAGGCCAG
63 GCTGATTCAAGGCAAACGACATTGGTCTTAAAGATAAAGGTGCAAATATGCTGATTCAAGGCCAG
*
2882985 CGATAT
128 CAATAT
2882991 TGGGCTTATG
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 41 0.35
148 1 0.01
150 76 0.64
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (147 bp):
AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGTGCT
GATTCAAGGCAAACGACATTGGTCTTAAAGATAAAGGTGCAAATATGCTGATTCAAGGCCAGCAA
TATCAGACTTAAAGATG
Found at i:2883014 original size:39 final size:39
Alignment explanation
Indices: 2882960--2883250 Score: 258
Period size: 39 Copynumber: 7.0 Consensus size: 39
2882950 AAGATGAAGG
*
2882960 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * ** *
2882999 TGCCAATTTGCTGATTCAAGGCCAGTGACCTTGGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
2883045 TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * * *
2883086 TGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
* *
2883132 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * *
2883173 TGTCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * *
2883212 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
2883251 AAGACAAGGT
Statistics
Matches: 206, Mismatches: 28, Indels: 36
0.76 0.10 0.13
Matches are distributed among these distances:
39 137 0.67
41 1 0.00
46 2 0.01
48 66 0.32
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:2883070 original size:48 final size:46
Alignment explanation
Indices: 2882999--2883350 Score: 242
Period size: 39 Copynumber: 7.9 Consensus size: 46
2882989 ATTGGGCTTA
* * *
2882999 TGCCAATTTGCTGATTCAAGGCCAGTGACCTTGGTCTTAAAGACAATG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGACAA-G
* *
2883047 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------A-
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
* *
2883086 TGCCGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA-AGACAA-G
* * *
2883134 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
* * * *
2883173 TGTCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
*
2883212 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AAGACAA-G
* * * * *
2883260 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGA----CAA-G
* * * *
2883311 TGCCAATATGTTGATTCAAGTCCAGCGATATTGGACTTAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA
2883351 AGGTGCTAGA
Statistics
Matches: 252, Mismatches: 30, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
39 106 0.42
41 1 0.00
46 1 0.00
47 4 0.02
48 100 0.40
51 40 0.16
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (46 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAGACAAG
Found at i:2883073 original size:87 final size:87
Alignment explanation
Indices: 2882914--2883206 Score: 451
Period size: 87 Copynumber: 3.4 Consensus size: 87
2882904 GTTAAGGTGT
* * * *
2882914 CAATGTGCTGATTCAAGGCAAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
2882979 GGCCAGCGATATTGGGCTTATGC
65 GGCCAGCGATATTGGGCTTATGC
* * * *
2883002 CAATTTGCTGATTCAAGGCCAGTGACCTTGGTCTTAAAGACAATGTGCCAATATGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
2883067 GCCAGCGATATTGGGCTTATGC
66 GCCAGCGATATTGGGCTTATGC
* *
2883089 CGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
* * *
2883154 GCCAACGATATTGGGCTTGTGT
66 GCCAGCGATATTGGGCTTATGC
*
2883176 CAATGTGCTGATTCAAGGCCAGCGATATTGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG
2883207 GCTTGTGCCA
Statistics
Matches: 186, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
87 151 0.81
88 35 0.19
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGGCTTATGC
Found at i:2883200 original size:126 final size:126
Alignment explanation
Indices: 2883045--2883293 Score: 435
Period size: 126 Copynumber: 2.0 Consensus size: 126
2883035 TTAAAGACAA
*
2883045 TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCGATGTGCTGATTCAAGGCCA
1 TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCA
*
2883110 GCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCT
66 GCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCT
* * *
2883171 TGTGTCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCA
1 TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCA
* *
2883236 GCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGG
66 GCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
2883294 ACTCAAGATG
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (126 bp):
TGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCA
GCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCT
Found at i:2883461 original size:32 final size:32
Alignment explanation
Indices: 2883405--2883595 Score: 162
Period size: 32 Copynumber: 6.1 Consensus size: 32
2883395 AAGGTGTGAG
*
2883405 CTTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGA
1 CTTAAAA-AGAAAA-GGTGCCACGGAGTCGTGGA
* *
2883439 CTTAAAAAGAAAAGGTGCCACGGAGTTGCGGA
1 CTTAAAAAGAAAAGGTGCCACGGAGTCGTGGA
* * *
2883471 CTTAAAAAGAAAAAGATGCCTCGGAGTTGTGGA
1 CTTAAAAAG-AAAAGGTGCCACGGAGTCGTGGA
* *
2883504 CTT-AAAAG----GGTGCCACAGAGTTGTGGA
1 CTTAAAAAGAAAAGGTGCCACGGAGTCGTGGA
* * *
2883531 CTTAAAAGGAAAAAGTGCCACAGAGTCGTGGA
1 CTTAAAAAGAAAAGGTGCCACGGAGTCGTGGA
*** * *
2883563 CTT--TGGGAAAAGATGCCACTGAGTCGTGGA
1 CTTAAAAAGAAAAGGTGCCACGGAGTCGTGGA
2883593 CTT
1 CTT
2883596 TGAGAAGAGA
Statistics
Matches: 134, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
27 19 0.14
28 4 0.03
30 25 0.19
32 51 0.38
33 28 0.21
34 7 0.05
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.19
Consensus pattern (32 bp):
CTTAAAAAGAAAAGGTGCCACGGAGTCGTGGA
Found at i:2883485 original size:33 final size:33
Alignment explanation
Indices: 2883361--2883565 Score: 178
Period size: 32 Copynumber: 6.4 Consensus size: 33
2883351 AGGTGCTAGA
* *
2883361 GAGTTGTGGACTT-ACAGGAAAAATGGATGCCACG
1 GAGTTGTGGACTTAAAAAGAAAAA-GG-TGCCACG
* * * *
2883395 AAGGTGT-GAGCTTAAAAGGGAAAAGGGTGCCACG
1 GAGTTGTGGA-CTTAAAA-AGAAAAAGGTGCCACG
*
2883429 GAGTCGTGGACTTAAAAAG-AAAAGGTGCCACG
1 GAGTTGTGGACTTAAAAAGAAAAAGGTGCCACG
* * *
2883461 GAGTTGCGGACTTAAAAAGAAAAAGATGCCTCG
1 GAGTTGTGGACTTAAAAAGAAAAAGGTGCCACG
*
2883494 GAGTTGTGGACTT-AAAAG-----GGTGCCACA
1 GAGTTGTGGACTTAAAAAGAAAAAGGTGCCACG
* *
2883521 GAGTTGTGGACTTAAAAGGAAAAA-GTGCCACA
1 GAGTTGTGGACTTAAAAAGAAAAAGGTGCCACG
*
2883553 GAGTCGTGGACTT
1 GAGTTGTGGACTT
2883566 TGGGAAAAGA
Statistics
Matches: 141, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
27 19 0.13
28 4 0.03
32 54 0.38
33 26 0.18
34 26 0.18
35 6 0.04
36 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (33 bp):
GAGTTGTGGACTTAAAAAGAAAAAGGTGCCACG
Found at i:2883510 original size:26 final size:26
Alignment explanation
Indices: 2883481--2883538 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
2883471 CTTAAAAAGA
* *
2883481 AAAAGATGCCTCGGAGTTGTGGACTT
1 AAAAGATGCCACAGAGTTGTGGACTT
*
2883507 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAA-GATGCCACAGAGTTGTGGACTT
2883534 AAAAG
1 AAAAG
2883539 GAAAAAGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (26 bp):
AAAAGATGCCACAGAGTTGTGGACTT
Found at i:2883526 original size:60 final size:58
Alignment explanation
Indices: 2883448--2883565 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 58
2883438 ACTTAAAAAG
* * * *
2883448 AAAAGGTGCCACGGAGTTGCGGACTTAAAAAGAAAAAGATGCCTCGGAGTTGTGGACTT
1 AAAAGGTGCCACAGAGTTGCGGACTTAAAAAGAAAAAG-TGCCACAGAGTCGTGGACTT
* *
2883507 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGTGCCACAGAGTCGTGGACTT
1 AAAA-GGTGCCACAGAGTTGCGGACTTAAAAAGAAAAAGTGCCACAGAGTCGTGGACTT
2883566 TGGGAAAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 21 0.40
60 31 0.60
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (58 bp):
AAAAGGTGCCACAGAGTTGCGGACTTAAAAAGAAAAAGTGCCACAGAGTCGTGGACTT
Found at i:2883580 original size:30 final size:30
Alignment explanation
Indices: 2883541--2883909 Score: 375
Period size: 30 Copynumber: 11.9 Consensus size: 30
2883531 CTTAAAAGGA
*
2883541 AAAAG-TGCCACAGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
*
2883570 AAAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
2883600 AAGAGATTGCCACTAAGTCGTGGACTTTGTAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-GG
*
2883632 AAAAGATGCCACTGAGTCTTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * ** *
2883662 AAGAGATACCACTGAGTTATGGACTTTGAAGAA
1 AAAAGATGCCACTGAGTCGTGGACTTTG--G-G
*
2883695 AAAAGATGCCACTGAGTCGGGGAC-TTGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGG--G
* *
2883726 AAAAAGATGCCACTGAGTCGTGGAC-TTAGA
1 -AAAAGATGCCACTGAGTCGTGGACTTTGGG
* *
2883756 AAAGAGATGCCACTGAGTTGTGGACTTTGATG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
2883788 AAAAGATGCCACTGAGTCGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
2883818 ACAAGATGCCACTGAGTCATGGACTTTGAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTG-GG
* * * *
2883849 AAAGAGATGCCATTGAGTTGTGGACTCTGAGA
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GG
*
2883881 AAAGAGATGCCACTGAGTTGTGGACTTTG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG
2883910 AGAAGAGAGA
Statistics
Matches: 289, Mismatches: 38, Indels: 23
0.83 0.11 0.07
Matches are distributed among these distances:
29 8 0.03
30 100 0.35
31 71 0.25
32 91 0.31
33 19 0.07
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGG
Found at i:2883622 original size:61 final size:61
Alignment explanation
Indices: 2883546--2883917 Score: 430
Period size: 62 Copynumber: 6.0 Consensus size: 61
2883536 AAGGAAAAAG
* *
2883546 TGCCACAGAGTCGTGGACTTTG-GGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
2883606 TTGCCACTAAGTCGTGGACTTTGTAG-AAAAGATGCCACTGAGTCTTGGACTTTGGGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* ** * * *
2883668 TACCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGGGGACTTGGAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAAGATGCCACTGAGTCGTGGACTTTG-AG-AAGAGA
* *
2883733 TGCCACTGAGTCGTGGAC-TT-AGAAAAGAGATGCCACTGAGTTGTGGACTTTGATGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTGA-GAAGAGA
* * *
2883794 TGCCACTGAGTCGTGGACTTTG-GGACAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG--AAGAGA
* * * *
2883856 TGCCATTGAGTTGTGGACTCTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
2883918 GATTTGAAGA
Statistics
Matches: 265, Mismatches: 32, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
60 1 0.00
61 93 0.35
62 94 0.35
63 29 0.11
64 28 0.11
65 20 0.08
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:2883636 original size:62 final size:60
Alignment explanation
Indices: 2883546--2883917 Score: 431
Period size: 61 Copynumber: 6.0 Consensus size: 60
2883536 AAGGAAAAAG
* *
2883546 TGCCACAGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
2883606 TTGCCACTAAGTCGTGGACTTTGTAGAAAAGATGCCACTGAGTCTTGGACTTTGGGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* ** * * *
2883668 TACCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGGGGACTTGGAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAAAGATGCCACTGAGTCGTGGACTTTG-AG-AAGAGA
* * *
2883733 TGCCACTGAGTCGTGGACTTAGA-AAAGAGATGCCACTGAGTTGTGGACTTTGATGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAA-AGATGCCACTGAGTCGTGGACTTTGA-GAAGAGA
* * *
2883794 TGCCACTGAGTCGTGGACTTTGGGACAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAG--AAGAGA
* * * *
2883856 TGCCATTGAGTTGTGGACTCTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAG-AAA-AGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
2883918 GATTTGAAGA
Statistics
Matches: 264, Mismatches: 35, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
60 1 0.00
61 95 0.36
62 91 0.34
63 27 0.10
64 27 0.10
65 23 0.09
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (60 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:2883704 original size:125 final size:122
Alignment explanation
Indices: 2883548--2883917 Score: 451
Period size: 125 Copynumber: 3.0 Consensus size: 122
2883538 GGAAAAAGTG
* * *
2883548 CCACAGAGTCGTGGACTTTGGGAAAAGATGCCACTGAGTCGTGGACTTTGAG-AAGAGATTGCCA
1 CCACTGAGTCATGGACTTTGGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAGAGA-TGCCA
* *
2883612 CTAAGTCGTGGACTTTGTAGAAA-AGATGCCACTGAGTCT-TGGACTTTGGGAAGAGATA
65 CTGAGTCGTGGACTTTG-AGAAAGAGATGCCACTGAGT-TGTGGACTTTGAGAAGAGATA
* * * *
2883670 CCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGGGGACTTGGAAGAAAAAGATG
1 CCACTGAGTCATGGACTTTG--G-AAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAAGAGATG
* * *
2883735 CCACTGAGTCGTGGACTTAGA-AAAGAGATGCCACTGAGTTGTGGACTTTGATGAAAAGATG
62 CCACTGAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTTGTGGACTTTGA-GAAGAGATA
* * * *
2883796 CCACTGAGTCGTGGACTTTGGGACAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAGATGCCA
1 CCACTGAGTCATGGACTTTGGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-AAAGAGATGCCA
* * *
2883861 TTGAGTTGTGGACTCTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
65 CTGAGTCGTGGACTTTGAG-AAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGA
2883918 GATTTGAAGA
Statistics
Matches: 212, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
122 19 0.09
123 49 0.23
124 12 0.06
125 80 0.38
126 47 0.22
127 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (122 bp):
CCACTGAGTCATGGACTTTGGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAGAGATGCCAC
TGAGTCGTGGACTTTGAGAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATA
Found at i:2883751 original size:187 final size:186
Alignment explanation
Indices: 2883539--2883907 Score: 512
Period size: 187 Copynumber: 2.0 Consensus size: 186
2883529 GACTTAAAAG
* *
2883539 GAAAAAGTGCCACAGAGTCGTGGACTTTGGGAAA-AGATGCCACTGAGTCGTGGACTTTGA-GAA
1 GAAAAAGTGCCACAGAGTCGTGGAC-TTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGATGAA
* * *
2883602 GAGATTGCCACTAAGTCGTGGACTTTGTAGAAAAGATGCCACTGAGTCTTGGACTTTG-G-GAAG
65 AAGA-TGCCACTAAGTCGTGGACTTTG-AGAAAAGATGCCACTGAGTCATGGACTTTGAGAAAAG
*
2883665 AGATACCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGGGGACTTGGAA
128 AGATACCACTGAGTTATGGACTCTG-AGAAAAAAGATGCCACTGAGTCGGGGACTTGGAA
* *
2883725 GAAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGATGAA
1 GAAAAAG-TGCCACAGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGATGAA
* * *
2883790 AAGATGCCACTGAGTCGTGGACTTTGGGACAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAG
65 AAGATGCCACTAAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAG
* * * * * *
2883855 ATGCCATTGAGTTGTGGACTCTGAGAAAAGAGATGCCACTGAGTTGTGGACTT
130 ATACCACTGAGTTATGGACTCTGAGAAAAAAGATGCCACTGAGTCGGGGACTT
2883908 TGAGAAGAGA
Statistics
Matches: 161, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
186 40 0.25
187 91 0.57
188 30 0.19
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (186 bp):
GAAAAAGTGCCACAGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGATGAAA
AGATGCCACTAAGTCGTGGACTTTGAGAAAAGATGCCACTGAGTCATGGACTTTGAGAAAAGAGA
TACCACTGAGTTATGGACTCTGAGAAAAAAGATGCCACTGAGTCGGGGACTTGGAA
Found at i:2887188 original size:52 final size:52
Alignment explanation
Indices: 2887110--2887238 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
2887100 CGAAATGTGA
*
2887110 AAATTTGCCTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
2887162 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
2887214 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2887239 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:2887251 original size:52 final size:51
Alignment explanation
Indices: 2887110--2887358 Score: 226
Period size: 52 Copynumber: 4.9 Consensus size: 51
2887100 CGAAATGTGA
* *** *
2887110 AAATTTGCCTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-AAGATAATGTATCGATACATATGGGC
*** *
2887162 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-AAGATAATGTATCGATACATATGGGC
* **
2887214 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA-ATGTATC
1 AAATTTGCCTGCATGTATCGATACAAAGAT-AATGTATCGATACATATG-GGC
** *
2887266 GATACATTTGAGT-AATGTATCGATAC------AATGTATCGATACATATGGGC
1 -A-A-ATTTGCCTGCATGTATCGATACAAAGATAATGTATCGATACATATGGGC
*
2887313 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACAAAGAT-AATGTATCGATACAT
2887359 TTTTTGGCAG
Statistics
Matches: 165, Mismatches: 18, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
44 6 0.04
45 13 0.08
46 1 0.01
47 14 0.08
48 3 0.02
51 4 0.02
52 104 0.63
53 1 0.01
54 13 0.08
55 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAAAGATAATGTATCGATACATATGGGC
Found at i:2887265 original size:13 final size:13
Alignment explanation
Indices: 2887247--2887305 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
2887237 CAAAGATCAG
2887247 TGTATCGATACAA
1 TGTATCGATACAA
2887260 TGTATCGATAC-A
1 TGTATCGATACAA
2887272 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
2887281 TGTATCGATACAA
1 TGTATCGATACAA
2887294 TGTATCGATACA
1 TGTATCGATACA
2887306 TATGGGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
9 4 0.10
10 3 0.08
11 3 0.08
12 4 0.10
13 25 0.64
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2887415 original size:13 final size:13
Alignment explanation
Indices: 2887397--2887424 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2887387 TATAAAATTT
2887397 ATGTATCGATACA
1 ATGTATCGATACA
2887410 ATGTATCGATACA
1 ATGTATCGATACA
2887423 AT
1 AT
2887425 ATTTTATGTA
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:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2887415 original size:151 final size:150
Alignment explanation
Indices: 2887141--2887422 Score: 356
Period size: 151 Copynumber: 1.9 Consensus size: 150
2887131 TACATTTTAT
* ***
2887141 AATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATAC
1 AATGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATAC
* * **
2887206 ATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATAC
66 ATCTGGGC-AAGTAGCCTAAATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATAC
2887271 ATTTGAGTAATGTATCGATAC
130 ATTTGAGTAATGTATCGATAC
*
2887292 AATGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATA
1 AATGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATA
* * * * *
2887356 CATTTTTTGGC-AGTAGCTTAAATTGTATCGATATAAA-ATTTA-TGTATCGATACAATGTATCG
65 CA--TCTGGGCAAGTAGCCTAAA-TGTATCGATACAAAGA-TCAGTGTATCGATACAATGTATCG
2887418 ATACA
126 ATACA
2887423 ATATTTTATG
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
150 2 0.02
151 90 0.80
152 15 0.13
153 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (150 bp):
AATGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATAC
ATCTGGGCAAGTAGCCTAAATGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACA
TTTGAGTAATGTATCGATAC
Found at i:2887420 original size:32 final size:33
Alignment explanation
Indices: 2887379--2887443 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2887369 TAGCTTAAAT
*
2887379 TGTATCGATATAA-AATTTATGTATCGATACAA
1 TGTATCGATACAATAATTTATGTATCGATACAA
*
2887411 TGTATCGATACAATATTTTATGTATCGATACAA
1 TGTATCGATACAATAATTTATGTATCGATACAA
2887444 ATCGTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATAATTTATGTATCGATACAA
Found at i:2888654 original size:13 final size:13
Alignment explanation
Indices: 2888636--2888662 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2888626 ACATGTTGCT
2888636 TTGTATCGATACA
1 TTGTATCGATACA
2888649 TTGTATCGATACA
1 TTGTATCGATACA
2888662 T
1 T
2888663 GTTCATTGTA
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:2888659 original size:33 final size:32
Alignment explanation
Indices: 2888617--2888681 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
2888607 CACACACAAA
*
2888617 TGTATCGATACATGTTGCTTTGTATCGATACAT
1 TGTATCGATACATGTT-CATTGTATCGATACAT
2888650 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
2888682 GGACAATTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:2888692 original size:20 final size:19
Alignment explanation
Indices: 2888646--2888702 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2888636 TTGTATCGAT
*
2888646 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2888665 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
2888684 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
2888703 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2894945 original size:13 final size:13
Alignment explanation
Indices: 2894927--2894955 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2894917 ACAATATTCC
2894927 TTGTATCGATACA
1 TTGTATCGATACA
2894940 TTGTATCGATACA
1 TTGTATCGATACA
2894953 TTG
1 TTG
2894956 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2896834 original size:43 final size:40
Alignment explanation
Indices: 2896786--2896877 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
2896776 ATGTGAAAAT
2896786 AAATTTTTATAAAAAGGGGGAGAAGATAATCGTTTAAGGGGAA
1 AAATTTTT-TAAAAA--GGGAGAAGATAATCGTTTAAGGGGAA
* * * *
2896829 AAATTTTTTTATAAGGGAGGAGATAATCGTTTAAGGGGGA
1 AAATTTTTTAAAAAGGGAGAAGATAATCGTTTAAGGGGAA
*
2896869 GAATTTTTT
1 AAATTTTTT
2896878 TTAAGGGGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
40 32 0.73
42 4 0.09
43 8 0.18
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (40 bp):
AAATTTTTTAAAAAGGGAGAAGATAATCGTTTAAGGGGAA
Found at i:2896880 original size:19 final size:19
Alignment explanation
Indices: 2896818--2896889 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
2896808 AAGATAATCG
* *
2896818 TTTAAGGGGAAAAATTTTT
1 TTTAAGGGGGAGAATTTTT
* **
2896837 TTATAAGGGAGGAG-ATAATCG
1 TT-TAAGGG-GGAGAAT-TTTT
2896858 TTTAAGGGGGAGAATTTTT
1 TTTAAGGGGGAGAATTTTT
2896877 TTTAA-GGGGAGAA
1 TTTAAGGGGGAGAA
2896890 AAACAAAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
18 8 0.20
19 12 0.29
20 16 0.39
21 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.31, T:0.33
Consensus pattern (19 bp):
TTTAAGGGGGAGAATTTTT
Found at i:2896880 original size:41 final size:40
Alignment explanation
Indices: 2896803--2896889 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
2896793 TATAAAAAGG
2896803 GGGAGAAGATAATCGTTTAAGGGGAAAAATTTTTTTATAA
1 GGGAGAAGATAATCGTTTAAGGGGAAAAATTTTTTTATAA
* * *
2896843 GGGAGGAGATAATCGTTTAAGGGGGAGAATTTTTTT-TAA
1 GGGAGAAGATAATCGTTTAAGGGGAAAAATTTTTTTATAA
2896882 GGGGAGAA
1 -GGGAGAA
2896890 AAACAAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.07
40 39 0.93
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.30
Consensus pattern (40 bp):
GGGAGAAGATAATCGTTTAAGGGGAAAAATTTTTTTATAA
Found at i:2897445 original size:13 final size:13
Alignment explanation
Indices: 2897427--2897453 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2897417 ACATGCTGCT
2897427 TTGTATCGATACA
1 TTGTATCGATACA
2897440 TTGTATCGATACA
1 TTGTATCGATACA
2897453 T
1 T
2897454 GTTCATTGTA
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:2897468 original size:32 final size:33
Alignment explanation
Indices: 2897408--2897472 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2897398 CACAGCTAGA
*
2897408 TGTATCAATACATGCTGCTTTGTATCGATACAT
1 TGTATCAATACATGCTGCATTGTATCGATACAT
* *
2897441 TGTATCGATACATG-TTCATTGTATCGATACAT
1 TGTATCAATACATGCTGCATTGTATCGATACAT
2897473 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATGCTGCATTGTATCGATACAT
Found at i:2897483 original size:20 final size:19
Alignment explanation
Indices: 2897437--2897492 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2897427 TTGTATCGAT
*
2897437 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2897456 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2897475 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
2897493 AAAACTGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2897548 original size:20 final size:20
Alignment explanation
Indices: 2897523--2897575 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2897513 TATCATTATT
*
2897523 TGTATCGATACATGGAA-CAA
1 TGTATCGATACAT-GAAGAAA
2897543 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
2897563 TGTATCGATACAT
1 TGTATCGATACAT
2897576 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2909251 original size:20 final size:20
Alignment explanation
Indices: 2909226--2909320 Score: 190
Period size: 20 Copynumber: 4.8 Consensus size: 20
2909216 ATTTGCTTAC
2909226 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
2909246 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
2909266 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
2909286 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
2909306 ATGTATCGATACATT
1 ATGTATCGATACATT
2909321 TAGGTCAAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:2909384 original size:21 final size:20
Alignment explanation
Indices: 2909335--2909384 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2909325 TCAAAAACCC
*
2909335 AGAATGTATCAATACAATGA
1 AGAATGTATCAATACATTGA
*
2909355 ATAATGTATCAATACATTGCA
1 AGAATGTATCAATACATTG-A
*
2909376 AGCATGTAT
1 AGAATGTAT
2909385 TGATACATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAATGTATCAATACATTGA
Found at i:2910603 original size:28 final size:28
Alignment explanation
Indices: 2910537--2910603 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
2910527 ATTATTAGAA
2910537 AATTATTTTATTTATGATTAATAATAGT
1 AATTATTTTATTTATGATTAATAATAGT
* *
2910565 AAATATGTTTATTTA-GATTGTAATCATA-T
1 AATTAT-TTTATTTATGA-T-TAATAATAGT
2910594 AATTATTTTA
1 AATTATTTTA
2910604 AAATGTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 11 0.33
29 15 0.45
30 7 0.21
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.52
Consensus pattern (28 bp):
AATTATTTTATTTATGATTAATAATAGT
Found at i:2910777 original size:13 final size:13
Alignment explanation
Indices: 2910732--2910780 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
2910722 AGTTTCAAAG
2910732 TACATAATAAAAA
1 TACATAATAAAAA
* *
2910745 TACACAATGAAAA
1 TACATAATAAAAA
2910758 TACATAATAAAAA
1 TACATAATAAAAA
*
2910771 TATATAATAA
1 TACATAATAA
2910781 TGCAAAATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (13 bp):
TACATAATAAAAA
Found at i:2915260 original size:10 final size:9
Alignment explanation
Indices: 2915229--2915263 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
2915219 ACATTAGGAA
2915229 CATTTTTAG
1 CATTTTTAG
2915238 CATTTTTAG
1 CATTTTTAG
*
2915247 CATTTTAAG
1 CATTTTTAG
2915256 CCATTTTT
1 -CATTTTT
2915264 TGGTTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (9 bp):
CATTTTTAG
Found at i:2918580 original size:50 final size:50
Alignment explanation
Indices: 2918505--2918605 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
2918495 GGGTGAATTG
*
2918505 GTTCTTTTCGAATTTTTGGTTTTGAAGCAACACAATTCGAAATGAAAAGA
1 GTTCTTTTCGAATTTTCGGTTTTGAAGCAACACAATTCGAAATGAAAAGA
2918555 GTTCTTTTCGAATTTTCGGTTTTGAAGCAACACAATTCGAAATGAAAAGA
1 GTTCTTTTCGAATTTTCGGTTTTGAAGCAACACAATTCGAAATGAAAAGA
2918605 G
1 G
2918606 ATTAGGGAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (50 bp):
GTTCTTTTCGAATTTTCGGTTTTGAAGCAACACAATTCGAAATGAAAAGA
Found at i:2919294 original size:13 final size:13
Alignment explanation
Indices: 2919276--2919301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2919266 AATTTTTTTG
2919276 TGTATCGATACAT
1 TGTATCGATACAT
2919289 TGTATCGATACAT
1 TGTATCGATACAT
2919302 ACTTGGTGTA
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:2919396 original size:20 final size:20
Alignment explanation
Indices: 2919350--2919426 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
2919340 TTCCCAATGA
***
2919350 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
2919371 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
2919391 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
2919411 TGTGTATCGATACATT
1 CATGTATCGATACATT
2919427 TAAGGGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 30 0.64
21 15 0.32
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:2921865 original size:13 final size:13
Alignment explanation
Indices: 2921847--2921884 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2921837 ATAATCCCCC
2921847 TGTATCGATACAG
1 TGTATCGATACAG
*
2921860 TGTATCGATACAT
1 TGTATCGATACAG
2921873 TGTATCGATACA
1 TGTATCGATACA
2921885 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2923987 original size:15 final size:15
Alignment explanation
Indices: 2923967--2923997 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2923957 ATTTCGTTTG
*
2923967 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2923982 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2923997 G
1 G
2923998 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:2928109 original size:19 final size:18
Alignment explanation
Indices: 2928051--2928109 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
2928041 TACAAGCCAA
*
2928051 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA---TTTGG
*
2928072 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2928091 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2928110 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 12 0.36
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2928179 original size:20 final size:20
Alignment explanation
Indices: 2928133--2928209 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
2928123 TTCCCAATGA
***
2928133 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
2928154 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
2928174 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
2928194 TGTGTATCGATACATT
1 CATGTATCGATACATT
2928210 TAAGGGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 30 0.64
21 15 0.32
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:2928587 original size:20 final size:20
Alignment explanation
Indices: 2928543--2928616 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
2928533 TTTTACAATT
* *
2928543 TGTATCGATACAAACAGTTAA
1 TGTATCGATACATA-AGTAAA
2928564 TGTATCGATACATAAGTAAA
1 TGTATCGATACATAAGTAAA
***
2928584 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGT-AAA
2928605 TGTATCGATACA
1 TGTATCGATACA
2928617 AAACCACCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 19 0.40
21 28 0.60
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTAAA
Found at i:2928695 original size:20 final size:20
Alignment explanation
Indices: 2928644--2928698 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
2928634 GAAAAGGAAA
**
2928644 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-TTACTCAT
** *
2928665 TGTATTAATACATTATTCAT
1 TGTATCGATACATTACTCAT
2928685 TGTATCGATACATT
1 TGTATCGATACATT
2928699 TTGGGTTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTACTCAT
Found at i:2931196 original size:97 final size:97
Alignment explanation
Indices: 2931064--2931421 Score: 434
Period size: 97 Copynumber: 3.7 Consensus size: 97
2931054 CAAAAAAATT
* **
2931064 AAATTTTTATCATCGAGGATACTCCAACCCCATTCTTTTGAGGGGATACTCCAATCCCGTTTTTA
1 AAATTTTTATCATCGGGGATACTCCAACCCCATTCTTCCGAGGGGATACTCCAATCCCGTTTTTA
*
2931129 AACTCATCTAGATTTAAACCTTATTTTTGCTC
66 AACTCATCTACATTTAAACCTTATTTTTGCTC
* * * * * * * *
2931161 AAATTTTTATCATTGGGGGTACTCCAACCCTATTCTTTCGAGGAGATAATCTAATCCCGCTTTTA
1 AAATTTTTATCATCGGGGATACTCCAACCCCATTCTTCCGAGGGGATACTCCAATCCCGTTTTTA
*
2931226 AACTCATCTACATTTAAACCTCATTTTTGCTC
66 AACTCATCTACATTTAAACCTTATTTTTGCTC
* * * * *
2931258 AAATTGTTAACATTGGGGCTACTCCAACCCCATTCTTCCGAGGGGATACTCCAA-CTCTGTTTTT
1 AAATTTTTATCATCGGGGATACTCCAACCCCATTCTTCCGAGGGGATACTCCAATC-CCGTTTTT
* * *
2931322 AAACTCATCAATATTTAAACCTTATTTTTGCTT
65 AAACTCATCTACATTTAAACCTTATTTTTGCTC
** * * * * *
2931355 AAATCATCATCATCGGGGATATTCCAACCCCATTCCTCCGA-GGG-TACTCCAACCCCGTTTTTC
1 AAATTTTTATCATCGGGGATACTCCAACCCCATTCTTCCGAGGGGATACTCCAATCCCGTTTTTA
2931418 AACT
66 AACT
2931422 AAAAAGTAAA
Statistics
Matches: 224, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
95 19 0.08
96 5 0.02
97 200 0.89
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.36
Consensus pattern (97 bp):
AAATTTTTATCATCGGGGATACTCCAACCCCATTCTTCCGAGGGGATACTCCAATCCCGTTTTTA
AACTCATCTACATTTAAACCTTATTTTTGCTC
Found at i:2934186 original size:21 final size:21
Alignment explanation
Indices: 2934146--2934187 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2934136 AATGCTAGCA
*
2934146 ATCCATATCAATAGTGATGCC
1 ATCCATATCAATAGTAATGCC
*
2934167 ATCCATATCAATATTAATGCC
1 ATCCATATCAATAGTAATGCC
2934188 TTTTCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
ATCCATATCAATAGTAATGCC
Found at i:2936508 original size:21 final size:22
Alignment explanation
Indices: 2936467--2936509 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2936457 TTCAACTATC
*
2936467 AATAGATTCAATACAGATTAAA
1 AATAGATTAAATACAGATTAAA
2936489 AATAG-TTAAATAGCAG-TTAAA
1 AATAGATTAAATA-CAGATTAAA
2936510 GCCTTTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (22 bp):
AATAGATTAAATACAGATTAAA
Found at i:2937852 original size:79 final size:79
Alignment explanation
Indices: 2937591--2937850 Score: 396
Period size: 79 Copynumber: 3.3 Consensus size: 79
2937581 CACGGGGCTA
* * * *
2937591 GAGTATCCCCGATTAT-GAAAAATCGGTATTTTGGAAGTAAAATCGGGGTTGGAGTATCCCCTTG
1 GAGTATCCCTGATTATAG-AAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCG
* *
2937655 AAAATAATAGGATTG
65 AAAATAACAGGGTTG
*
2937670 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
2937735 AAATAACAGGGTTG
66 AAATAACAGGGTTG
* * *
2937749 GAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
2937814 AAATAACAGGGTTG
66 AAATAACAGGGTTG
* *
2937828 GAGTATCCTTGATAATAGAAAAT
1 GAGTATCCCTGATTATAGAAAAT
2937851 TGATGCTTTA
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
79 165 0.99
80 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (79 bp):
GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AAATAACAGGGTTG
Found at i:2937866 original size:79 final size:79
Alignment explanation
Indices: 2937591--2937888 Score: 393
Period size: 79 Copynumber: 3.8 Consensus size: 79
2937581 CACGGGGCTA
* * * * * *
2937591 GAGTATCCCCGATTAT-GAAAAATCGGTATTTTGGAAGTAAAATCGGGGTTGGAGTATCCCCTTG
1 GAGTATCCCTGATTATAG-AAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCG
* *
2937655 AAAATAATAGGATTG
65 AAAATAACAGGGTTG
* * *
2937670 GAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
2937735 AAATAACAGGGTTG
66 AAATAACAGGGTTG
*
2937749 GAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
2937814 AAATAACAGGGTTG
66 AAATAACAGGGTTG
* * * * ***
2937828 GAGTATCCTTGATAATAGAAAATTGATGCTTT-AGAAATAAGGCCGGGGTTGGAGTATCCCC
1 GAGTATCCCTGATTATAGAAAATTGGTGTTTTGA-AAATAAAATCGGGGTTGGAGTATCCCC
2937889 AATTGTGAGA
Statistics
Matches: 198, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
78 1 0.01
79 196 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
GAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AAATAACAGGGTTG
Found at i:2937902 original size:51 final size:51
Alignment explanation
Indices: 2937846--2937990 Score: 182
Period size: 51 Copynumber: 2.8 Consensus size: 51
2937836 TTGATAATAG
* * ***
2937846 AAAATTGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCAATTGTGA
1 AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGA
* * * * * *
2937897 GAAATTGGTGTTTTGGAGATAAAATCGGAGTTGGAGTATCCTCGATTGTGA
1 AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGA
*
2937948 AAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
2937991 TAAAAAATAA
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 77 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCAATTGTGA
Found at i:2938049 original size:28 final size:28
Alignment explanation
Indices: 2937966--2938049 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
2937956 TATTTTAGAA
*
2937966 ATAAAAT--CGGGGTTGGAGTATCCCCT
1 ATAAAATAACGGGGTTGGAGTATCCCCG
* *
2937992 AAAAAATAACGGGATTGGAGTATCCCCG
1 ATAAAATAACGGGGTTGGAGTATCCCCG
* * *
2938020 ATGACATAACGGGGTTGGAGTACCCCCG
1 ATAAAATAACGGGGTTGGAGTATCCCCG
2938048 AT
1 AT
2938050 TTTGAAAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.12
28 42 0.88
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (28 bp):
ATAAAATAACGGGGTTGGAGTATCCCCG
Found at i:2938120 original size:28 final size:30
Alignment explanation
Indices: 2938080--2938152 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 30
2938070 GATATAAAGT
2938080 CGGGGTTGGAGTATCCCCTC-A-GAAATAA
1 CGGGGTTGGAGTATCCCCTCGATGAAATAA
*
2938108 CGGGGTTGGAGTAT--TCTCGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGATGAAATAA
*
2938136 CGGGGTTAGAGTATCCC
1 CGGGGTTGGAGTATCCC
2938153 TAATTGTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 3 0.08
27 1 0.03
28 34 0.89
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCTCGATGAAATAA
Found at i:2938174 original size:107 final size:107
Alignment explanation
Indices: 2937941--2938187 Score: 334
Period size: 107 Copynumber: 2.3 Consensus size: 107
2937931 AGTATCCTCG
2937941 ATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGA
1 ATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGA
* * *
2938006 TTGGAGTATCCCCGATGACATAACGGGGTTGGAGTACCCCCG
66 TTGGAGTATCCCCGATGAAATAACGGGGTTAGAGTACCCCCA
* *** * * * * *
2938048 ATTTTGAAAAATCAATATTTTAGATATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
1 ATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGA
* * * *
2938113 TTGGAGTATTCTCGATGAAATAACGGGGTTAGAGTATCCCTA
66 TTGGAGTATCCCCGATGAAATAACGGGGTTAGAGTACCCCCA
2938155 ATTGTGAAAAATTGGTATTTT-GAAAATAAAATC
1 ATTGTGAAAAATTGGTATTTTAG-AAATAAAATC
2938188 AGAGAATTCC
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
106 1 0.01
107 116 0.99
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (107 bp):
ATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTAAAAAATAACGGGA
TTGGAGTATCCCCGATGAAATAACGGGGTTAGAGTACCCCCA
Found at i:2938215 original size:73 final size:73
Alignment explanation
Indices: 2938120--2938264 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 73
2938110 GGGTTGGAGT
* * *
2938120 ATTCTCGATGAAATAACGGGGTTAGAGTATCCCTAATTGTGAAAAATTGGTATTTTGAAAATAAA
1 ATTCCCGATGAAATAACAGGGTTAGAGTATCCCTAAATGTGAAAAATTGGTATTTTGAAAATAAA
2938185 ATCAGAGA
66 ATCAGAGA
* * *
2938193 ATTCCCGATGAAATAACAGGGTTGGAGTATCCCTAAATGTGAAAAATTGGTGTTTTGGAAATAAA
1 ATTCCCGATGAAATAACAGGGTTAGAGTATCCCTAAATGTGAAAAATTGGTATTTTGAAAATAAA
2938258 ATCAGAG
66 ATCAGAG
2938265 TTGGAGTATC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (73 bp):
ATTCCCGATGAAATAACAGGGTTAGAGTATCCCTAAATGTGAAAAATTGGTATTTTGAAAATAAA
ATCAGAGA
Found at i:2938270 original size:51 final size:50
Alignment explanation
Indices: 2938213--2938381 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 50
2938203 AAATAACAGG
** * * *
2938213 GTTGGAGTATCCCTAAATGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATC-GA
* ** * * *
2938264 GTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATC-GA
* ** *
2938315 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAATCGG
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGA
2938365 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
2938382 GATGAAATAT
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
50 2 0.02
51 94 0.98
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGA
Found at i:2940773 original size:13 final size:13
Alignment explanation
Indices: 2940726--2940755 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2940716 GTAAATCCTG
2940726 AATGTATCGATAC
1 AATGTATCGATAC
2940739 AATGTATCGATAC
1 AATGTATCGATAC
2940752 AATG
1 AATG
2940756 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2941471 original size:42 final size:43
Alignment explanation
Indices: 2941425--2941562 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
2941415 CCTGTCTCTT
* * * *
2941425 AAGGACAAAGTGAAAAAG-AGTACGTCCTGCT-TTTCGAGGACA
1 AAGGAAAAAGGGAAAAAGAAATACGTCCTGCTCCTT-GAGGACA
*
2941467 AAGGAAAAAGGGAAAAAGAAATGCGTCCTGCTCCTTGAGGACA
1 AAGGAAAAAGGGAAAAAGAAATACGTCCTGCTCCTTGAGGACA
* * * * * *
2941510 AA--AGAAAGAGAAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
1 AAGGAAAAAGGGAAAAAGAAA-TACGTCCTGCTCCTTGAGGAC-A
2941553 AAGGGAAAAA
1 AA-GGAAAAA
2941563 AAGGGAATGA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
41 14 0.18
42 35 0.45
43 23 0.29
44 2 0.03
46 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.16
Consensus pattern (43 bp):
AAGGAAAAAGGGAAAAAGAAATACGTCCTGCTCCTTGAGGACA
Found at i:2941586 original size:45 final size:39
Alignment explanation
Indices: 2941492--2941638 Score: 118
Period size: 42 Copynumber: 3.5 Consensus size: 39
2941482 AAGAAATGCG
* ** *
2941492 TCCTGCTCCTTGAGGACAAAA-GAAAGAGAAAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAAGGAAA-A-AAGGA-AAAG-GTA
*
2941534 TCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAATGAAGTGTG
1 TCCTGCTCTTTGAGGACAAAA-GG-AAAAAA-GGAA--AAG-GTA
* *
2941579 TCCTGCTCTTTAAGGAC-AAAGGAGAAAAGGAAAAGGTA
1 TCCTGCTCTTTGAGGACAAAAGGAAAAAAGGAAAAGGTA
2941617 TCCTGCTCTTTGAGGACTAAAA
1 TCCTGCTCTTTGAGGAC-AAAA
2941639 AGTGCCACCA
Statistics
Matches: 88, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
38 18 0.20
39 3 0.03
40 3 0.03
41 4 0.05
42 25 0.28
43 5 0.06
44 6 0.07
45 24 0.27
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.20
Consensus pattern (39 bp):
TCCTGCTCTTTGAGGACAAAAGGAAAAAAGGAAAAGGTA
Found at i:2941622 original size:38 final size:44
Alignment explanation
Indices: 2941527--2941638 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 44
2941517 GAGAAAAATA
*
2941527 AAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAATG
1 AAGTGTATCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAA-G
* * *
2941572 AAGTGTGTCCTGCTCTTTAAGGAC-AAA-GG-AGAAAA-GGAA-
1 AAGTGTATCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAAG
2941611 AAG-GTATCCTGCTCTTTGAGGACTAAAA
1 AAGTGTATCCTGCTCTTTGAGGAC-AAAA
2941639 AGTGCCACCA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
38 18 0.31
39 3 0.05
40 3 0.05
41 4 0.07
42 5 0.08
43 2 0.03
44 3 0.05
45 21 0.36
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (44 bp):
AAGTGTATCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAAG
Found at i:2941681 original size:61 final size:60
Alignment explanation
Indices: 2941603--2941968 Score: 392
Period size: 61 Copynumber: 6.1 Consensus size: 60
2941593 GACAAAGGAG
* *
2941603 AAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
** * *
2941664 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * ** * * * *
2941725 GCAAAGAGAAAA--CATACTGCTTTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTT
1 --AAA-AGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
2941786 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
*
2941847 ----G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2941902 AAAAGGAAAAGGCGTCATACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
2941964 AAAAG
1 AAAAG
2941969 GCGTCCTACG
Statistics
Matches: 265, Mismatches: 24, Indels: 31
0.83 0.08 0.10
Matches are distributed among these distances:
54 3 0.01
55 47 0.18
56 1 0.00
58 1 0.00
59 5 0.02
60 4 0.02
61 161 0.61
62 37 0.14
63 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:2941836 original size:122 final size:116
Alignment explanation
Indices: 2941610--2941970 Score: 447
Period size: 122 Copynumber: 3.1 Consensus size: 116
2941600 GAGAAAAGGA
* * *
2941610 AAAGGTATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAA
1 AAAGGCATACTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAA
** *
2941674 GGCATCCTGCTCTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTTG
65 GGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
* * * * *
2941726 CAAAGAGAAAACATACTGCTTTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAG
1 -AAAG-G----CATACTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAG
2941791 GAGAAA-GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
60 GA-AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
* * * *
2941848 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 AAAGGCATACTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAG
* * * * *
2941913 GCGTCATACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
66 GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG
2941965 AAAGGC
1 AAAGGC
2941971 GTCCTACGCT
Statistics
Matches: 210, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
115 3 0.01
116 70 0.33
117 33 0.16
118 1 0.00
120 1 0.00
121 8 0.04
122 91 0.43
123 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (116 bp):
AAAGGCATACTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAG
GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:2941878 original size:55 final size:55
Alignment explanation
Indices: 2941800--2941990 Score: 256
Period size: 55 Copynumber: 3.3 Consensus size: 55
2941790 GGAGAAAGCA
* *
2941800 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2941855 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
2941916 TCATACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2941972 TCCTACGCTTTGAAGACTA
1 TCCTACTCTTTGAGGACTA
2941991 TAGGGCGAAA
Statistics
Matches: 122, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
55 46 0.38
56 23 0.19
60 1 0.01
61 29 0.24
62 23 0.19
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2942078 original size:272 final size:266
Alignment explanation
Indices: 2941741--2942294 Score: 817
Period size: 272 Copynumber: 2.1 Consensus size: 266
2941731 AGAAAACATA
*
2941741 CTGCTTTTTGAGGACT-GGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAAGCATCCTG
1 CTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAAGCATCCTG
*
2941805 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
*
2941870 ACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCATACTCTTTGAGGACTA
131 ACTAAAAAATGCCACCAACTTGTGTGGG-TTT----GG-AAAGGCGTCATACTCTTTGAGGA-TA
*
2941935 GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACGCTTTGAAGACTATAGGGCGAA
189 GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACGCTTTGAAGACTAAAGGGCGAA
2942000 AGGAGAGAGCGTC
254 AGGAGAGAGCGTC
* * *
2942013 CTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTAGG-CTTTAAAAGGAGAAGGCATCCT
1 CTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTCGAGT-GGTCTTTAAAAGGAGAAAGCATCCT
* * *
2942076 GCTCTTTGAGGACTGGGAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
65 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
* * * *
2942141 GACTAAAAAATGCCACCAACTTGTGTGGGTTTTGAAAGGCGTCCTACTCTTTGAGGATTGAAAGG
130 GACTAAAAAATGCCACCAACTTGTGTGGGTTTGGAAAGGCGTCATACTCTTTGAGGATAGAAAAG
* * * * * * *
2942206 TGCCGCCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGA
195 TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACGCTTTGAAGACTAAAGGGCGAAAGGAGA
*
2942271 GAGTGTC
260 GAGCGTC
2942278 CTGCTCTTTGAGGACTA
1 CTGCTCTTTGAGGACTA
2942295 AAGGGTGAAA
Statistics
Matches: 258, Mismatches: 22, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
265 86 0.33
266 22 0.09
267 1 0.00
271 3 0.01
272 140 0.54
273 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (266 bp):
CTGCTCTTTGAGGACTAGGAAGGTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAAGCATCCTG
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTAAAAAATGCCACCAACTTGTGTGGGTTTGGAAAGGCGTCATACTCTTTGAGGATAGAAAAGT
GCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACGCTTTGAAGACTAAAGGGCGAAAGGAGAG
AGCGTC
Found at i:2942095 original size:61 final size:61
Alignment explanation
Indices: 2941998--2942166 Score: 208
Period size: 61 Copynumber: 2.9 Consensus size: 61
2941988 CTATAGGGCG
*
2941998 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTA
1 AAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTA
* * *
2942059 AAAGGAGA-AGGCATCCTGCTCTTTGAGGACTGGGAAGTGTCACCAACTTGTGTGGGCTTT-
1 AAAGGAGAGA-GCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTA
* ** *
2942119 -AA--A-AG-GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGT
1 AAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGT
2942167 GGGTTTTGAA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
55 37 0.39
56 1 0.01
57 1 0.01
59 2 0.02
60 1 0.01
61 54 0.56
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
AAAGGAGAGAGCATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTA
Found at i:2942158 original size:55 final size:55
Alignment explanation
Indices: 2942008--2942257 Score: 284
Period size: 55 Copynumber: 4.4 Consensus size: 55
2941998 AAAGGAGAGA
** *
2942008 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAG
* *** *
2942069 GCATCCTGCTCTTTGAGGACTGGGAAGTGTCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2942124 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGTTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * *
2942179 GCGTCCTACTCTTTGAGGATTGAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2942234 GTGTCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
2942258 GGGTGAAAGG
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
55 118 0.71
56 1 0.01
58 1 0.01
61 46 0.28
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2942240 original size:110 final size:113
Alignment explanation
Indices: 2942008--2942257 Score: 319
Period size: 110 Copynumber: 2.2 Consensus size: 113
2941998 AAAGGAGAGA
** *
2942008 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAGAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTT---AGGAGAAGGCAT
* * *
2942073 CCTGCTCTTTGAGGACTGGGAAGTGTCACCAACTTGTGTGGGCTTTAAAAG
63 CCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2942124 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGT-GGGTTT-TGA-AAGGCGTCCT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTAGGAGAAGGCATCCT
* * *
2942186 ACTCTTTGAGGA-TTGAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAG
66 ACTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2942234 GTGTCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
2942258 GGGTGAAAGG
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
109 4 0.03
110 69 0.57
111 2 0.02
115 5 0.04
116 40 0.33
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (113 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTAGGCTTTAGGAGAAGGCATCCT
ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2942288 original size:39 final size:39
Alignment explanation
Indices: 2942234--2942338 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
2942224 GCTTTGAAAG
2942234 GTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
1 GTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
2942273 GTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
1 GTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
*
2942312 GCGTCCTGCTCTTTGAGGACTAGAAGG
1 GTGTCCTGCTCTTTGAGGACTA-AAGG
2942339 TGCTACCAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
39 60 0.94
40 4 0.06
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (39 bp):
GTGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
Found at i:2943404 original size:1 final size:1
Alignment explanation
Indices: 2943384--2943480 Score: 77
Period size: 1 Copynumber: 97.0 Consensus size: 1
2943374 CTTTTCTCTC
* * * * * ** * * *
2943384 TTTTTTCTTTGTTTTGTTTTTTTTTTTTGTTTTTTTGTTTTTGGTTTTTTTGTTTTTTTGTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2943449 TTTTTTTTTTGTTTTTTTGTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2943481 AAATGTGGGA
Statistics
Matches: 72, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (1 bp):
T
Found at i:2943416 original size:27 final size:24
Alignment explanation
Indices: 2943397--2943480 Score: 127
Period size: 24 Copynumber: 3.5 Consensus size: 24
2943387 TTTCTTTGTT
2943397 TTGTTTTTTTTTTTTGTTTTTTTG
1 TTGTTTTTTTTTTTTGTTTTTTTG
**
2943421 TT-TTTGGTTTTTTTGTTTTTTTG
1 TTGTTTTTTTTTTTTGTTTTTTTG
2943444 TT-TGTTTTTTTTTTTGTTTTTTTG
1 TTGT-TTTTTTTTTTTGTTTTTTTG
2943468 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
2943481 AAATGTGGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
23 22 0.41
24 31 0.57
25 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (24 bp):
TTGTTTTTTTTTTTTGTTTTTTTG
Found at i:2943431 original size:23 final size:21
Alignment explanation
Indices: 2943384--2943480 Score: 122
Period size: 22 Copynumber: 4.3 Consensus size: 21
2943374 CTTTTCTCTC
*
2943384 TTTTTTCTTTGTTTTGTTTTTT
1 TTTTTTGTTT-TTTTGTTTTTT
2943406 TTTTTTGTTTTTTTGTTTTTGGT
1 TTTTTTGTTTTTTTGTTTTT--T
2943429 TTTTTTGTTTTTTTGTTTGTTTTT
1 TTTTTTGTTTTTTTG--T-TTTTT
2943453 TTTTTTGTTTTTTTGTTGTTTT
1 TTTTTTGTTTTTTTGTT-TTTT
2943475 TTTTTT
1 TTTTTT
2943481 AAATGTGGGA
Statistics
Matches: 68, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
21 11 0.16
22 20 0.29
23 16 0.24
24 16 0.24
25 1 0.01
26 4 0.06
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (21 bp):
TTTTTTGTTTTTTTGTTTTTT
Found at i:2943448 original size:35 final size:32
Alignment explanation
Indices: 2943384--2943475 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
2943374 CTTTTCTCTC
* *
2943384 TTTTTTCTTTGTTTTGTT-TTTTTTT-TTTGTT
1 TTTTTTTTTTGTTTTTTTGTTTTTTTGTTTG-T
2943415 TTTTTGTTTTTGGTTTTTTTGTTTTTTTGTTTGT
1 TTTTT-TTTTT-GTTTTTTTGTTTTTTTGTTTGT
2943449 TTTTTTTTTTGTTTTTTTGTTGTTTTT
1 TTTTTTTTTTGTTTTTTTGTT-TTTTT
2943476 TTTTTAAATG
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.09
32 15 0.28
33 17 0.31
34 13 0.24
35 4 0.07
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (32 bp):
TTTTTTTTTTGTTTTTTTGTTTTTTTGTTTGT
Found at i:2943457 original size:32 final size:31
Alignment explanation
Indices: 2943384--2943480 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 31
2943374 CTTTTCTCTC
* * *
2943384 TTTTTTCTTTGTTTTGTTTTTTTTTTTTGTTT
1 TTTTTTTTTTGGTTT-TTTTGTTTTTTTGTTT
*
2943416 TTTTGTTTTTGGTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTGGTTTTTTTGTTTTTTTGTTT
* *
2943447 GTTTTTTTTTTTGTTTTTTTGTTGTTTT-TTT
1 -TTTTTTTTTTGGTTTTTTTGTTTTTTTGTTT
2943478 TTT
1 TTT
2943481 AAATGTGGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.05
31 18 0.32
32 36 0.63
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.87
Consensus pattern (31 bp):
TTTTTTTTTTGGTTTTTTTGTTTTTTTGTTT
Found at i:2955959 original size:20 final size:20
Alignment explanation
Indices: 2955885--2955956 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
2955875 AAAAAGACAT
* * *
2955885 AATGTATCAATACATTGTAG
1 AATGTATCGATACATTGAAA
* * *
2955905 AATATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
2955925 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
2955945 AATGTATCGATA
1 AATGTATCGATA
2955957 TATCAGGGTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:2956672 original size:28 final size:28
Alignment explanation
Indices: 2956518--2957275 Score: 873
Period size: 28 Copynumber: 26.0 Consensus size: 28
2956508 AAAAAAAAAT
* *
2956518 GTGCCACTAACTTGTGTAGGCTTTGAAAAAA
1 GTGCCACTGACTTGTG--GGCTTTG-AAAGA
* *
2956549 GTTGCCATTGACACATGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTG-AAAGA
** * *
2956581 GTGTTACTGACTTGCGTGGGCTTTAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
*
2956611 GTGCCACTGACTTGCGTGGGC-TTGAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGA
2956640 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
**
2956668 GTGCCACTGACTCCTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2956695 GGTGCCACTGACTTGCGTGGGCTTTAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
*
2956727 GTGCCACTGACTTGTACGGGC-TTGAAAGG
1 GTGCCACTGACTTGT--GGGCTTTGAAAGA
2956756 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2956784 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2956811 GGTGCCACTGACTTGCATGGGCTTTAAAAGGA
1 -GTGCCACTGACTTG--TGGGCTTTGAAA-GA
*
2956843 GTGCCACTAACTTGTGTGGGCTTTGAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
*
2956873 GTGCCACTAACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2956901 GTGCCATTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2956929 GTGCCACTGACTCGTGCGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2956956 GGTGCCACTCACTTGCGTGGGCTTTAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTGAAA-GA
2956988 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2957016 GTGCCACTGACTCGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
2957043 TGTGCCACTGACTTGCGTGGGC-TTGAAAAGGA
1 -GTGCCACTGACTT--GTGGGCTTTG-AAA-GA
* *
2957075 GTGCCACTAACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAGA
2957105 GTGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
2957133 GTGCCACTGACTTGTGGGCTTTGAAAGTA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-A
*
2957162 GTGCCACTGACTTATGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAA-GA
* *
2957191 GTGCCACTGATTTGTGGGCTTTGAAAATA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
2957220 GTGCCACTGACTTGTGGGCTTTGAAAGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-A
2957249 GTGCCACTGACTTGTGGGCTTTGAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAG
2957276 GGATGAACAT
Statistics
Matches: 638, Mismatches: 50, Indels: 80
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.02
28 248 0.39
29 157 0.25
30 98 0.15
31 84 0.13
32 28 0.04
33 3 0.00
34 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:2957020 original size:232 final size:233
Alignment explanation
Indices: 2956518--2957274 Score: 1075
Period size: 232 Copynumber: 3.2 Consensus size: 233
2956508 AAAAAAAAAT
* * * *
2956518 GTGCCACTAACTTGTGTAGGCTTTGAAAAAAGTTGCCATTGACACATGTGGGCTTTGAAAAGAGT
1 GTGCCACTGACTTGTG--GGCTTTG-AAAGAG-TGCCACTGACTC--GTGGGCTTTGAAAAG-GT
** * *
2956583 GTTACTGACTTGCGTGGGCTTTAAAAGG-GTGCCACTGACTTGCGTGGGC-TTGAAAGGGTGCCA
59 GCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCA
**
2956646 CTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCCTGGGCTTTGAAA-AGGTGCCACTGACTTG
124 CTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGAC-T-
** *
2956710 CGTGGGCTTT-AAAAGGAGTGCCACTGACTTGTACGGGC-TTGAAAGG-
186 CGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGTGGGCTTTAAAAGGA
2956756 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
* * *
2956821 ACTTGCATGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGAGTGCCACTAACTT
66 ACTTGCGTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
* *
2956886 GTGGGCTTTGAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGCGCTTT
131 GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
* *
2956951 GAAAAG-GTGCCACTCACTTGCGTGGGCTTTAAAAGGA
196 GAAAAGAGTGCCACTGACTTGTGTGGGCTTTAAAAGGA
*
2956988 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAATGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
*
2957053 ACTTGCGTGGGCTTGAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
66 ACTTGCGTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
**
2957118 GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGTAGTGCCACTGACTTATGGGCTT
131 GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-AGTGCCACTGACTCGTGGGCTT
* *
2957183 TGAAAGGAGTGCCACTGA-TT-TGTGGGCTTTGAAAA-TA
195 TGAAAAGAGTGCCACTGACTTGTGTGGGCTTT-AAAAGGA
*
2957220 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-AGTGCCACTGACTCGTGGGCTTTGAAA
2957275 GGGATGAACA
Statistics
Matches: 475, Mismatches: 34, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
230 17 0.04
231 44 0.09
232 242 0.51
233 125 0.26
234 20 0.04
235 5 0.01
236 7 0.01
238 15 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (233 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTG
ACTTGCGTGGGCTTTAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTT
GTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTT
GAAAAGAGTGCCACTGACTTGTGTGGGCTTTAAAAGGA
Found at i:2957276 original size:87 final size:87
Alignment explanation
Indices: 2956518--2957276 Score: 879
Period size: 87 Copynumber: 8.7 Consensus size: 87
2956508 AAAAAAAAAT
* * * * *
2956518 GTGCCACTAACTTGTGTAGGCTTTGAAAAAAGTTGCCATTGACACATGTGGGCTTTGAAAAGAGT
1 GTGCCACTGACTTGTG--GGCTTTGAAAGAAG-TGCCACTG--ACTTGTGGGCTTTGAAAGGAGT
** *
2956583 GTTACTGACTTGCGTGGGCTTT-AAAAGG
61 GCCACTGAC-T-CGTGGGCTTTGAAAAGA
*
2956611 GTGCCACTGACTTGCGTGGGC-TTGAAAG-GGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCC
1 GTGCCACTGACTT--GTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
2956673 ACTGACTCCTGGGCTTTGAAAAG-
64 ACTGACTCGTGGGCTTTGAAAAGA
* *
2956696 GTGCCACTGACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTACGGGC-TTGAAAGG-GTG
1 GTGCCACTGACTT--GTGGGCTTTGAAAGAAGTGCCACTGACTTGT--GGGCTTTGAAAGGAGTG
*
2956759 CCACTGACTTGTGGGCTTTG-AAAGA
62 CCACTGACTCGTGGGCTTTGAAAAGA
* * *
2956784 GTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTTGCATGGGCTTTAAAAGGAGTGCC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTG--TGGGCTTTGAAAGGAGTGCC
* *
2956848 ACTAACTTGTGTGGGCTTTG-AAAGA
64 ACTGAC-T-CGTGGGCTTTGAAAAGA
* *
2956873 GTGCCACTAACTTGTGGGCTTTGAAAG-AGTGCCATTGACTTGTGGGCTTTGAAA-GAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
*
2956936 TGACTCGTGCGCTTTGAAAAG-
66 TGACTCGTGGGCTTTGAAAAGA
* * *
2956957 GTGCCACTCACTTGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCC
1 GTGCCACTGACTT--GTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
2957021 ACTGACTCGTGGGCTTTGAAAA-T
64 ACTGACTCGTGGGCTTTGAAAAGA
* *
2957044 GTGCCACTGACTTGCGTGGGC-TTGAAAAGGAGTGCCACTAACTTGTGTGGGCTTTGAAAGG-GT
1 GTGCCACTGACTT--GTGGGCTTTG-AAAGAAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGT
*
2957107 GCCACTGACTTGTGGGCTTTG-AAAGA
61 GCCACTGACTCGTGGGCTTTGAAAAGA
* *
2957133 GTGCCACTGACTTGTGGGCTTTGAAAGTAGTGCCACTGACTTATGGGCTTTGAAAGGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
* * *
2957198 TGATTTGTGGGCTTTGAAAATA
66 TGACTCGTGGGCTTTGAAAAGA
2957220 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGG
2957277 GATGAACATT
Statistics
Matches: 595, Mismatches: 42, Indels: 64
0.85 0.06 0.09
Matches are distributed among these distances:
84 21 0.04
85 68 0.11
86 81 0.14
87 222 0.37
88 63 0.11
89 107 0.18
90 8 0.01
91 1 0.00
92 6 0.01
93 15 0.03
95 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (87 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCAC
TGACTCGTGGGCTTTGAAAAGA
Found at i:2958501 original size:1 final size:1
Alignment explanation
Indices: 2958495--2958554 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
2958485 GACCCTTCTA
* * * * * * *
2958495 TTTTTTTTCTATTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2958555 AGGTGTAAAG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.02, C:0.03, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:2958518 original size:18 final size:16
Alignment explanation
Indices: 2958507--2958554 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 16
2958497 TTTTTTCTAT
2958507 TTTTTCTTTTTTTTTTG
1 TTTTT-TTTTTTTTTTG
2958524 TTTTTTTGTTTTGTTTTG
1 TTTTTTT-TTTT-TTTTG
2958542 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
2958555 AGGTGTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.14
17 13 0.45
18 12 0.41
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:2958519 original size:19 final size:17
Alignment explanation
Indices: 2958495--2958554 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
2958485 GACCCTTCTA
*
2958495 TTTTTTTTCTATTTTTT
1 TTTTTTTTTTATTTTTT
*
2958512 CTTTTTTTTTTGTTTTTT
1 -TTTTTTTTTTATTTTTT
* *
2958530 TGTTTTGTTTTGTTTTTT
1 T-TTTTTTTTTATTTTTT
2958548 TTTTTTT
1 TTTTTTT
2958555 AGGTGTAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 6 0.16
18 31 0.84
ACGTcount: A:0.02, C:0.03, G:0.07, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTATTTTTT
Found at i:2969879 original size:33 final size:33
Alignment explanation
Indices: 2969842--2969908 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2969832 TTCAACGATT
2969842 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2969875 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2969908 T
1 T
2969909 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2969880 original size:13 final size:13
Alignment explanation
Indices: 2969862--2969886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2969852 CATAAAATGT
2969862 TGTATCGATACAA
1 TGTATCGATACAA
2969875 TGTATCGATACA
1 TGTATCGATACA
2969887 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2969970 original size:13 final size:13
Alignment explanation
Indices: 2969952--2969979 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2969942 ATTACTCACA
2969952 TGTATCGATACAT
1 TGTATCGATACAT
2969965 TGTATCGATACAT
1 TGTATCGATACAT
2969978 TG
1 TG
2969980 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2970029 original size:52 final size:50
Alignment explanation
Indices: 2969965--2970105 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 50
2969955 ATCGATACAT
*
2969965 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2970017 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2970069 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATTATT--ATGTATCGATACATGCAG
2970106 ATAAATTTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2970113 original size:52 final size:52
Alignment explanation
Indices: 2969985--2970105 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2969975 CATTGATCTT
*
2969985 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2970037 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2970089 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2970106 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2977405 original size:1 final size:1
Alignment explanation
Indices: 2977399--2977426 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
2977389 AATCTTCACG
2977399 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
2977427 CCCCTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2978400 original size:30 final size:31
Alignment explanation
Indices: 2978364--2978445 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
2978354 ATACCTTTTT
2978364 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
2978394 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
2978425 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
2978446 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:2978529 original size:34 final size:33
Alignment explanation
Indices: 2978399--2979408 Score: 781
Period size: 34 Copynumber: 30.7 Consensus size: 33
2978389 GTCTCAAAGT
* * *
2978399 CCACGACTCAGTGGCA-TTTTTTCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
2978430 CCACAACTCCGTGGCACCTTGTTC-CTTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
*
2978463 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2978491 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
2978525 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
2978553 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
2978587 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2978615 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
2978649 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2978677 CCACAATTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
*
2978711 CCACAACTCCGTGGCAC-----CCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* * *
2978739 CCACAATTCTGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACTTTTTTC-TCTTTAAGC
2978773 CCACAACTCCGTGGCAC------C-CGTTTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTC-TTTAAGC
* *
2978800 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
2978834 CCACAACTCCGTGGCACCTTTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2978867 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
2978904 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
*
2978938 CCACAACTCTGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
2978975 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
2979009 CCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
2979046 CCACGACTCCGTGGCAC-----TCT-TTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
* * *
2979073 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCAC-TTTTTTCTCTTT-AAGC
* *
2979108 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
* *
2979145 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2979179 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTT--AAGC
*
2979216 CCACAACTCCGTGGCACTCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2979249 CCACAACTACGTGGCACTCTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTT-TAAGC
*
2979282 CCACAACTCTGTGGCACTATTTTTC-CTTCTAAGC
1 CCACAACTCCGTGGCACT-TTTTTCTCTT-TAAGC
*
2979316 CCACAACTCCGTGGCACTTGTTTCT-TTTAAAGC
1 CCACAACTCCGTGGCACTTTTTTCTCTTT-AAGC
* *
2979349 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACT-TTTTTCTC-TTTAAGC
2979384 CCACAACTCCGTGGCATCTTTTTTC
1 CCACAACTCCGTGGCA-CTTTTTTC
2979409 CTTCCCAAAG
Statistics
Matches: 810, Mismatches: 84, Indels: 166
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.00
27 57 0.07
28 99 0.12
29 6 0.01
31 17 0.02
32 6 0.01
33 138 0.17
34 239 0.30
35 97 0.12
36 44 0.05
37 106 0.13
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACTTTTTTCTCTTTAAGC
Found at i:2978804 original size:27 final size:27
Alignment explanation
Indices: 2978766--2978817 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2978756 TTTTTTCATC
*
2978766 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
2978793 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
2978818 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:2978968 original size:71 final size:69
Alignment explanation
Indices: 2978394--2979406 Score: 1032
Period size: 62 Copynumber: 15.4 Consensus size: 69
2978384 ATTTTGTCTC
* * * * *
2978394 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC-C
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
2978455 TTTT
66 TTTT
* *
2978459 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
2978517 C-TTT
65 CTTTT
* * *
2978521 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
2978579 C-TTT
65 CTTTT
* *
2978583 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
2978641 C-TTT
65 CTTTT
* *
2978645 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
2978703 C-TTT
65 CTTTT
* * *
2978707 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-T
2978765 C-TTT
65 CTTTT
* *
2978769 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCT-
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
2978825 TTTT
66 TTTT
* *
2978829 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
2978894 TTTT
66 TTTT
*
2978898 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2978963 TCTTTT
64 TCTTTT
2978969 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2979034 TCTTTT
64 TCTTTT
* * *
2979040 CAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCTGTGGCACACTTTTTCT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT
2979099 -TTTT
65 CTTTT
*
2979103 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
2979167 TCT-TTTT
62 TCTCTTTT
*
2979174 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTT
2979238 TC-C-TTT
62 TCTCTTTT
* * * * *
2979244 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCTGTGGCACTATTTTTC-
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT
*
2979307 CTTCT
65 CTTTT
*
2979312 -AAGCCCACAACTCCGTGGCA-CTTGTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT
2979375 CTTTT
65 CTTTT
* *
2979380 -AAGTCCACAACTCCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT
2979407 TCCTTCCCAA
Statistics
Matches: 875, Mismatches: 37, Indels: 69
0.89 0.04 0.07
Matches are distributed among these distances:
60 5 0.01
61 75 0.09
62 293 0.33
63 5 0.01
64 51 0.06
65 3 0.00
66 33 0.04
67 72 0.08
68 40 0.05
69 7 0.01
70 61 0.07
71 208 0.24
72 22 0.03
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
TTTT
Found at i:2979071 original size:27 final size:27
Alignment explanation
Indices: 2979041--2979094 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2979031 TTCTCTTTTC
* *
2979041 AAAGCCCACGACTCCGTGGCACTCTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
*
2979068 AAAGCCCACAACTCTGTGGCACACTTT
1 AAAGCCCACAACTCCGTGGCACACTTT
2979095 TTCTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAGCCCACAACTCCGTGGCACACTTT
Found at i:2979111 original size:35 final size:35
Alignment explanation
Indices: 2979065--2979406 Score: 416
Period size: 33 Copynumber: 9.9 Consensus size: 35
2979055 CGTGGCACTC
* *
2979065 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
2979100 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTT
*
2979137 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
2979171 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTT
* *
2979208 TTCAAAGCCCACAACTCCGTGGCACTC-TTTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
2979241 TTTAAAGCCCACAACTACGTGGCACTC-TTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * * *
2979275 TCT-AAGCCCACAACTCTGTGGCACTATTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
2979309 TCT-AAGCCCACAACTCCGTGGCACT-TGTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
2979341 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CTT
*
2979377 TTT-AAGTCCACAACTCCGTGGCA-TCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
2979407 TCCTTCCCAA
Statistics
Matches: 276, Mismatches: 20, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
32 3 0.01
33 77 0.28
34 71 0.26
35 57 0.21
36 14 0.05
37 54 0.20
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
Found at i:2979424 original size:241 final size:237
Alignment explanation
Indices: 2978394--2979406 Score: 1003
Period size: 241 Copynumber: 4.4 Consensus size: 237
2978384 ATTTTGTCTC
* * * * * *
2978394 AAAGTCCACGACTCAGTGGCATTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTT-CCT
1 AAAGCCCACAACTCCGTGGCACTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
* * *
2978456 TTT-AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTT
66 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
* * * *
2978514 -CATCTTT--AAGTCCACAACTCCGTGGCAC-C----CT-TTTAAAGCCCACAATTCTGTGGCAC
131 CCCT-TTTCAAAGCCCACAACTCCGTGGCACTCTTTTCTCTTTAAAGCCCACAACTCCGTGGCAC
* *
2978570 TTTTTTCATCTT-TAAGTCCACAACTCCGTGGCAC-----CCTTTT
195 TCTTTTC--CTTCTAAGCCCACAACTCCGTGGCACTTTTTCC-TTT
* * *
2978610 AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA--------C
1 AAAGCCCACAACTCCGTGGCAC-TTTTTC-T-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
* * * *
2978666 CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA---
63 CCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCTGTGGCACTC
* * * *
2978727 -----CCCTTTT-AAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGT
126 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTC-TCTTTAAAGCCCACAACTCCGT
* *
2978785 GGCAC-C----CGTT-TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
190 GGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CTTTTTC-CTTT
2978829 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCA-CTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
2978894 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACTCTT
65 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTCTT
* *
2978959 TTTCTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGTTTAAAGCCCACAACTCCGTGG
128 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTTTCTCTTTAAAGCCCACAACTCCGTGG
* *
2979023 CACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCAC----T-CTTT
192 CACTC-TTTTC-C--TTCTAAGCCCACAACTCCGTGGCACTTTTTCCTTT
*
2979068 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGG--CACTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
2979133 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
63 CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCTGTGGCACTC
*
2979198 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTC-CTTTAAAGCCCACAACTACGTG
126 TTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTCTCTTTAAAGCCCACAACTCCGTG
*
2979262 GCACTCTTTTCCTTCTAAGCCCACAACTCTGTGGCACTATTTTTCCTTCT
191 GCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCAC--TTTTTCCTT-T
*
2979312 -AAGCCCACAACTCCGTGGCACTTGTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACTT-TTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
* *
2979376 TTTT-AAGTCCACAACTCCGTGGCATCTTTTT
65 TTTTAAAGCCCACAACTCCGTGGCACCTTTTT
2979407 TCCTTCCCAA
Statistics
Matches: 669, Mismatches: 52, Indels: 129
0.79 0.06 0.15
Matches are distributed among these distances:
213 31 0.05
214 40 0.06
215 1 0.00
216 17 0.03
217 9 0.01
218 19 0.03
219 51 0.08
220 42 0.06
221 6 0.01
226 11 0.02
227 45 0.07
235 10 0.01
236 67 0.10
237 1 0.00
238 1 0.00
239 51 0.08
240 33 0.05
241 183 0.27
242 8 0.01
243 20 0.03
244 1 0.00
245 3 0.00
246 19 0.03
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (237 bp):
AAAGCCCACAACTCCGTGGCACTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
CCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTCTCTTTAAAGCCCACAACTCCGTGGCACT
CTTTTCCTTCTAAGCCCACAACTCCGTGGCACTTTTTCCTTT
Found at i:2979596 original size:49 final size:49
Alignment explanation
Indices: 2979478--2980137 Score: 825
Period size: 49 Copynumber: 13.7 Consensus size: 49
2979468 GCAACCCCTC
* * *
2979478 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGAACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2979530 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2979579 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2979631 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2979680 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2979729 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2979778 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2979827 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2979870 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2979919 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2979962 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2980011 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
2980054 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
2980106 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
2980138 GTTGACATCC
Statistics
Matches: 532, Mismatches: 52, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
43 116 0.22
45 3 0.01
47 2 0.00
49 292 0.55
50 5 0.01
51 2 0.00
52 112 0.21
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2979797 original size:98 final size:98
Alignment explanation
Indices: 2979478--2980203 Score: 1020
Period size: 92 Copynumber: 7.4 Consensus size: 98
2979468 GCAACCCCTC
* * * *
2979478 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGAACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATGTA
2979543 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2979579 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
2979644 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
2979680 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
2979745 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
2979778 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
2979843 GGCCTTGACTCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
2979870 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
2979935 GGCCTTGACTCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
2979962 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
2980027 GGCCTTGAATCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
2980054 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATGTA
* * *
2980119 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTT
* * * * *
2980161 TAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
2980204 TATCACTTTT
Statistics
Matches: 589, Mismatches: 19, Indels: 30
0.92 0.03 0.05
Matches are distributed among these distances:
92 222 0.38
94 6 0.01
95 42 0.07
98 142 0.24
99 4 0.01
101 133 0.23
105 6 0.01
107 34 0.06
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2981100 original size:33 final size:33
Alignment explanation
Indices: 2981063--2981129 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2981053 TTCAACGATC
2981063 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2981096 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2981129 T
1 T
2981130 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2981101 original size:13 final size:13
Alignment explanation
Indices: 2981083--2981107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2981073 CATAAAATGT
2981083 TGTATCGATACAA
1 TGTATCGATACAA
2981096 TGTATCGATACA
1 TGTATCGATACA
2981108 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2981191 original size:13 final size:13
Alignment explanation
Indices: 2981173--2981200 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2981163 ATTACTCACA
2981173 TGTATCGATACAT
1 TGTATCGATACAT
2981186 TGTATCGATACAT
1 TGTATCGATACAT
2981199 TG
1 TG
2981201 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2981250 original size:52 final size:50
Alignment explanation
Indices: 2981186--2981326 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 50
2981176 ATCGATACAT
*
2981186 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2981238 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
2981290 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATTATT--ATGTATCGATACATGCAG
2981327 ATAAATTTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2981334 original size:52 final size:52
Alignment explanation
Indices: 2981206--2981326 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2981196 CATTGATCTT
*
2981206 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2981258 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2981310 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2981327 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2984855 original size:10 final size:11
Alignment explanation
Indices: 2984827--2984857 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2984817 TACGGGAATG
2984827 GAGTTTTTGTT
1 GAGTTTTTGTT
2984838 GAGTTTTTGTT
1 GAGTTTTTGTT
2984849 GAGTTTTTG
1 GAGTTTTTG
2984858 GTGTTGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.61
Consensus pattern (11 bp):
GAGTTTTTGTT
Found at i:2986516 original size:22 final size:22
Alignment explanation
Indices: 2986491--2986535 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2986481 GATGACGATG
2986491 AGTATGATGAAATAATGAATGC
1 AGTATGATGAAATAATGAATGC
2986513 AGTATGATGAAATAATGAATGC
1 AGTATGATGAAATAATGAATGC
2986535 A
1 A
2986536 TGATAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (22 bp):
AGTATGATGAAATAATGAATGC
Found at i:2989056 original size:51 final size:51
Alignment explanation
Indices: 2988997--2989107 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
2988987 AACGGGGTTG
* *
2988997 GAGTATCCCCGATTGTGAGAAA-TTAGTGTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTGA-AAATTTAGTATTTTAGAAATAAAATCGGAGTTA
* * *
2989048 GAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTGTGAAAATTTAGTATTTTAGAAATAAAATCGGAGTTA
2989099 GAGTA-CCCC
1 GAGTATCCCC
2989108 TTAGAAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 7 0.13
51 47 0.87
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAATTTAGTATTTTAGAAATAAAATCGGAGTTA
Found at i:2989058 original size:79 final size:78
Alignment explanation
Indices: 2988673--2989057 Score: 420
Period size: 79 Copynumber: 4.9 Consensus size: 78
2988663 GGAGATAACC
* * * * * * *
2988673 ACGGGGCTGGAGTATCCCCGATTATGGAAAATCGATGTTTTGGAAGTAAAATC-GAGGTTGAAGT
1 ACGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCGGA-GTTGGAGT
2988737 ATCCCCTCAAAATA
65 ATCCCCTCAAAATA
* * * **
2988751 ACAGGGTTGGAGTATCCCTGATTATAGAAAATCGGTATTTTCAAAATAAAATC-GAGGTTGGAGT
1 ACGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCGGA-GTTGGAGT
2988815 ATCCCCTCAGAAATA
65 ATCCCCTCA-AAATA
* * *
2988830 ACAGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGG-GTTGGAAT
1 ACGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAGT
2988894 ATCCCCTCAAAAATA
65 ATCCCCTC-AAAATA
* * * * ** *
2988909 ACGAGGTTGGAGTATCCCTGATTATAGAAAATTGATGCTTTAGAAAT-AAGGCAGGGGTTGGAGT
1 ACGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAGT
*
2988973 ATCCCCGTGAAAATA
65 ATCCCC-TCAAAATA
* * * *
2988988 ACGGGGTTGGAGTATCCCCGATTGT-GAGAAATTAGTGTTTTGGAAATAAAATCGGAGTTAGAGT
1 ACGGGGTTGGAGTATCCCTGATTATAGA-AAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGT
2989052 ATCCCC
65 ATCCCC
2989058 GATTGTGAAA
Statistics
Matches: 264, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
78 71 0.27
79 187 0.71
80 5 0.02
81 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
ACGGGGTTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTA
TCCCCTCAAAATA
Found at i:2989239 original size:28 final size:28
Alignment explanation
Indices: 2989199--2989270 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
2989189 TATAAAGCCG
*
2989199 GGGTTGGAGTATCCCCTCA-GAAATAACA
1 GGGTTGGAGTATCCCC-CATGAAAAAACA
* *
2989227 GGGTTGGAGTATCCCCGATGAAAAAATA
1 GGGTTGGAGTATCCCCCATGAAAAAACA
*
2989255 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
2989271 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCATGAAAAAACA
Found at i:2989301 original size:107 final size:107
Alignment explanation
Indices: 2989035--2989321 Score: 335
Period size: 107 Copynumber: 2.7 Consensus size: 107
2989025 TTTTGGAAAT
* *
2989035 AAAATCGGAGTTAGAGTATCCCCGATTGTGAAAATTTGGTATTTTAGAAATAAAATCGGGGTTGG
1 AAAATAGG-GTTAGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGG
* *
2989100 AGTA-CCCCTTAGAAATAACGGGATTGGAGTATCCCCGATGAC
65 AGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATGAA
* ** * * ** * *** * **
2989142 ATAACGGGGTTGGACTCCCCCCGATTATGAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGA
1 AAAATAGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGA
2989207 GTATCCCCTCAGAAATAACAGGG-TTGGAGTATCCCCGATGAA
66 GTATCCCCTCAGAAATAAC-GGGATTGGAGTATCCCCGATGAA
* * * * *
2989249 AAAATAGGGTTAGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGAA
1 AAAATAGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGA
2989314 GTATCCCC
66 GTATCCCC
2989322 GATTGCGGTA
Statistics
Matches: 142, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
106 48 0.34
107 91 0.64
108 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (107 bp):
AAAATAGGGTTAGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGA
GTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATGAA
Found at i:2989425 original size:51 final size:51
Alignment explanation
Indices: 2989262--2989400 Score: 188
Period size: 51 Copynumber: 2.7 Consensus size: 51
2989252 ATAGGGTTAG
* * *
2989262 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGA
1 AGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGA
* ** * * *
2989313 AGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGAGTTGA
1 AGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGA
*
2989364 AGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 AGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAAT
2989401 GGAACTGGGA
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (51 bp):
AGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGA
Found at i:2999007 original size:28 final size:27
Alignment explanation
Indices: 2998944--2999009 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
2998934 TTCTTATGGT
2998944 ATTTTAATTAGAATTTTGCATGATTAA
1 ATTTTAATTAGAATTTTGCATGATTAA
*
2998971 ATTGATAATT-GAATTTTGTCAT-ATGTAAA
1 ATT-TTAATTAGAATTTTG-CATGAT-T-AA
2999000 ATTTTAATTA
1 ATTTTAATTA
2999010 ACTCCTTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
27 13 0.41
28 14 0.44
29 5 0.16
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (27 bp):
ATTTTAATTAGAATTTTGCATGATTAA
Found at i:3001747 original size:13 final size:13
Alignment explanation
Indices: 3001729--3001754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3001719 TACAGCAAGT
3001729 ATGTATCGATACA
1 ATGTATCGATACA
3001742 ATGTATCGATACA
1 ATGTATCGATACA
3001755 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:3004006 original size:21 final size:21
Alignment explanation
Indices: 3003973--3004017 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3003963 TTGCAAGTTG
*
3003973 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3003995 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3004015 AAA
1 AAA
3004018 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3005841 original size:15 final size:15
Alignment explanation
Indices: 3005821--3005851 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3005811 TAAAAATGTC
*
3005821 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3005836 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3005851 C
1 C
3005852 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:3007940 original size:20 final size:20
Alignment explanation
Indices: 3007861--3007940 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
3007851 AATGTCCAAA
*
3007861 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
3007881 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
3007906 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
3007926 TTGTATCGATACATT
1 ATGTATCGATACATT
3007941 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:3007944 original size:13 final size:13
Alignment explanation
Indices: 3007926--3007964 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3007916 ACATTTTTCT
3007926 TTGTATCGATACA
1 TTGTATCGATACA
3007939 TTGTATCGATACA
1 TTGTATCGATACA
*
3007952 CTGTATCGATACA
1 TTGTATCGATACA
3007965 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3008109 original size:21 final size:21
Alignment explanation
Indices: 3008085--3008131 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3008075 AAATCTTTTG
3008085 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
3008106 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
3008126 CAAAAT
1 CAAAAT
3008132 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:3008128 original size:20 final size:19
Alignment explanation
Indices: 3008087--3008129 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
3008077 ATCTTTTGCA
3008087 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
3008107 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
3008127 AAA
1 AAA
3008130 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:3010526 original size:13 final size:13
Alignment explanation
Indices: 3010508--3010533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3010498 TACAGCAAGT
3010508 ATGTATCGATACA
1 ATGTATCGATACA
3010521 ATGTATCGATACA
1 ATGTATCGATACA
3010534 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:3013306 original size:20 final size:20
Alignment explanation
Indices: 3013281--3013333 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3013271 TCTAGAAAGG
3013281 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATAAGT
3013301 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATAAGT
*
3013321 AAATGTATTGATA
1 AAATGTATCGATA
3013334 AATTTATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Done.