Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 24 of 160
Found at i:6395041 original size:10 final size:9
Alignment explanation
Indices: 6395026--6395076 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
6395016 AAAAAATTAT
6395026 GAAAAAAAA
1 GAAAAAAAA
6395035 GAGAAAAAAA
1 GA-AAAAAAA
*
6395045 TAAAAAAAA
1 GAAAAAAAA
*
6395054 TAAAAAAAA
1 GAAAAAAAA
6395063 TGAAAAATAAA
1 -GAAAAA-AAA
6395074 GAA
1 GAA
6395077 GAAATTGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 18 0.49
10 16 0.43
11 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:6395050 original size:9 final size:9
Alignment explanation
Indices: 6395027--6395069 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
6395017 AAAAATTATG
*
6395027 AAAAAAAAG
1 AAAAAAAAT
6395036 AGAAAAAAAT
1 A-AAAAAAAT
6395046 AAAAAAAAT
1 AAAAAAAAT
6395055 AAAAAAAAT
1 AAAAAAAAT
*
6395064 GAAAAA
1 AAAAAA
6395070 TAAAGAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6395058 original size:16 final size:17
Alignment explanation
Indices: 6395028--6395061 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6395018 AAAATTATGA
*
6395028 AAAAAAAGAGAAAAAAAT
1 AAAAAAA-ATAAAAAAAT
6395046 AAAAAAAATAAAAAAA
1 AAAAAAAATAAAAAAA
6395062 ATGAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAT
Found at i:6395062 original size:18 final size:20
Alignment explanation
Indices: 6395024--6395080 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
6395014 TTAAAAAATT
6395024 ATGAAAAAAAAGAGAAAAAA
1 ATGAAAAAAAAGAGAAAAAA
*
6395044 AT-AAAAAAAATA-AAAAAA
1 ATGAAAAAAAAGAGAAAAAA
6395062 ATGAAAAATAAAGAAGAAA
1 ATGAAAAA-AAAG-AGAAA
6395081 TTGATGGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 8 0.26
19 14 0.45
20 5 0.16
21 1 0.03
22 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (20 bp):
ATGAAAAAAAAGAGAAAAAA
Found at i:6395408 original size:31 final size:30
Alignment explanation
Indices: 6395350--6395408 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
6395340 AAAGGTGTGC
* *
6395350 AAAAAAAAAAGAGAAGAAATTACAAAAATT
1 AAAAAAAAAAGAGAAAAAATAACAAAAATT
* *
6395380 AAAAAAAAAGAGTGAAAAAATAAGAAAAA
1 AAAAAAAAA-AGAGAAAAAATAACAAAAA
6395409 GAGAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (30 bp):
AAAAAAAAAAGAGAAAAAATAACAAAAATT
Found at i:6396433 original size:17 final size:17
Alignment explanation
Indices: 6396411--6396463 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
6396401 CTGAAAGTGC
6396411 TTGTGAACTTGGAATCT
1 TTGTGAACTTGGAATCT
* * *
6396428 TTGTGAACCTAGAACCT
1 TTGTGAACTTGGAATCT
* *
6396445 TTGTAAAACTTGAAATCT
1 TTGT-GAACTTGGAATCT
6396463 T
1 T
6396464 ACGAATCTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (17 bp):
TTGTGAACTTGGAATCT
Found at i:6396514 original size:17 final size:18
Alignment explanation
Indices: 6396479--6396515 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6396469 TCTTTCTTTC
6396479 TTGTAAATCTGAAAGTCT
1 TTGTAAATCTGAAAGTCT
6396497 TTGTAAA-CTTGAAA-TCT
1 TTGTAAATC-TGAAAGTCT
6396514 TT
1 TT
6396516 ACGAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (18 bp):
TTGTAAATCTGAAAGTCT
Found at i:6396612 original size:170 final size:172
Alignment explanation
Indices: 6396355--6396712 Score: 429
Period size: 170 Copynumber: 2.1 Consensus size: 172
6396345 TTTTTTTCTG
** * ** *
6396355 ACCTTTGCGAAACTTGAAATCTTGCAAATCTTTATTTCTTACAAATCTGAAAGTGCTTGTGAACT
1 ACCTTTGCGAAACTTGAAATCTTAAAAATCTTTATTTCCTACAAATCTGAAAGTGCTTACGAACC
* **
6396420 TGGAATCTTTGTGAACCTAGAACCTTTGTAAAAC-TTGAAATCTT-ACGAATCTTTCTTTCTTGT
66 TGAAATCTTTGTGAACCTAGAACCTTTACAAAACTTTG-AATCTTGA-GAATCTTTCTTTCTTGT
6396483 AAATCTGAAAGTCTTTGTAAACTTGAAATCTTTACGAATTTAGA
129 AAATCTGAAAGTCTTTGTAAACTTGAAATCTTTACGAATTTAGA
* * * * *
6396527 ACCTTTGCG-AACTTGGAATCTTAAAAATTTTTCTTTCCTACGAATTTGAAAGT-CTTACGAACC
1 ACCTTTGCGAAACTTGAAATCTTAAAAATCTTTATTTCCTACAAATCTGAAAGTGCTTACGAACC
* *
6396590 TGAAATCTTTGTGAACCTAGAACCTTTACGAAACTTTGAATCTTGAGAATCTTTCTTTCTTGTGA
66 TGAAATCTTTGTGAACCTAGAACCTTTACAAAACTTTGAATCTTGAGAATCTTTCTTTCTTGTAA
* * ** ** * *
6396655 ATCTGAAAATCCTTACAAAC-CCAAGATCTTTGCGAATCTAGA
131 ATCTGAAAGTCTTTGTAAACTTGAA-ATCTTTACGAATTTAGA
*
6396697 ACCTTTGTGAAACTTG
1 ACCTTTGCGAAACTTG
6396713 GAGTCTTGTG
Statistics
Matches: 157, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
169 2 0.01
170 100 0.64
171 46 0.29
172 9 0.06
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (172 bp):
ACCTTTGCGAAACTTGAAATCTTAAAAATCTTTATTTCCTACAAATCTGAAAGTGCTTACGAACC
TGAAATCTTTGTGAACCTAGAACCTTTACAAAACTTTGAATCTTGAGAATCTTTCTTTCTTGTAA
ATCTGAAAGTCTTTGTAAACTTGAAATCTTTACGAATTTAGA
Found at i:6396709 original size:86 final size:85
Alignment explanation
Indices: 6396355--6396759 Score: 307
Period size: 86 Copynumber: 4.7 Consensus size: 85
6396345 TTTTTTTCTG
* * ** * * ***
6396355 ACCTTTGCGAAACTTGAAATCTTGCA-AATCTTTATTTCTTACAAATCTGAAAGTGCTTGTGAAC
1 ACCTTTGCGAAACTTGGAATCTTG-AGAATCTTTCTTTCTTATGAATCTGAAAATCCTTACAAAC
* * *
6396419 TTGGAATCTTTGTGAACCTAGA
65 -CGAAATCTTTGCGAACCTAGA
** * * * * * **
6396441 ACCTTTGTAAAACTTGAAATCTT-ACGAATCTTTCTTTCTTGTAAATCTGAAAGTCTTTGTAAAC
1 ACCTTTGCGAAACTTGGAATCTTGA-GAATCTTTCTTTCTTATGAATCTGAAAATCCTTACAAAC
* * **
6396505 TTGAAATCTTTACGAATTTAGA
65 -CGAAATCTTTGCGAACCTAGA
* * * * * * * *
6396527 ACCTTTGCG-AACTTGGAATCTTAAAAATTTTTCTTTCCTACGAATTTGAAAGT-CTTACGAACC
1 ACCTTTGCGAAACTTGGAATCTTGAGAATCTTTCTTTCTTATGAATCTGAAAATCCTTACAAACC
*
6396590 TGAAATCTTTGTGAACCTAGA
66 -GAAATCTTTGCGAACCTAGA
* * *
6396611 ACCTTTACGAAACTTTGAATCTTGAGAATCTTTCTTTCTTGTGAATCTGAAAATCCTTACAAACC
1 ACCTTTGCGAAACTTGGAATCTTGAGAATCTTTCTTTCTTATGAATCTGAAAATCCTTACAAACC
* *
6396676 CAAGATCTTTGCGAATCTAGA
66 GAA-ATCTTTGCGAACCTAGA
* * * * * *
6396697 ACCTTTGTGAAACTTGGAGTCTTGTGAATCTTTCATGCTTATGAATATGAAAA-CCTTTACAAA
1 ACCTTTGCGAAACTTGGAATCTTGAGAATCTTTCTTTCTTATGAATCTGAAAATCC-TTACAAA
6396760 TCTTAAATTT
Statistics
Matches: 256, Mismatches: 55, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
84 30 0.12
85 73 0.29
86 153 0.60
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (85 bp):
ACCTTTGCGAAACTTGGAATCTTGAGAATCTTTCTTTCTTATGAATCTGAAAATCCTTACAAACC
GAAATCTTTGCGAACCTAGA
Found at i:6397254 original size:3 final size:3
Alignment explanation
Indices: 6397240--6397300 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
6397230 ATCAATTTTC
* *
6397240 ATT ATT ACT ATT ATT ATT CTTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
6397286 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
6397301 TGTATTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 51 0.96
4 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6397316 original size:6 final size:6
Alignment explanation
Indices: 6397307--6397336 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6397297 TATTTGTATT
6397307 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
6397337 CATTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:6397342 original size:18 final size:18
Alignment explanation
Indices: 6397307--6397342 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6397297 TATTTGTATT
**
6397307 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTCCATTTC
6397325 TTTTTCTTTTTCCATTTC
1 TTTTTCTTTTTCCATTTC
6397343 CTTTCTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTCCATTTC
Found at i:6397442 original size:17 final size:16
Alignment explanation
Indices: 6397404--6397445 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
6397394 ATAGTCAAAG
*
6397404 GTTTTAATTCATTTTC
1 GTTTTAATTCATTTTA
6397420 GATTTTAATTCATTTTTA
1 G-TTTTAATTCA-TTTTA
6397438 GTTTTAAT
1 GTTTTAAT
6397446 CCAGACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 17 0.74
18 5 0.22
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (16 bp):
GTTTTAATTCATTTTA
Found at i:6397783 original size:20 final size:20
Alignment explanation
Indices: 6397760--6397799 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6397750 GATTCTGGAT
*
6397760 TTAGATTTAGATTTCTGGGA
1 TTAGATTTAGACTTCTGGGA
* *
6397780 TTAGGTTTAGGCTTCTGGGA
1 TTAGATTTAGACTTCTGGGA
6397800 GGTTTCTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.42
Consensus pattern (20 bp):
TTAGATTTAGACTTCTGGGA
Found at i:6400013 original size:14 final size:14
Alignment explanation
Indices: 6399996--6400029 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6399986 TTAAAATTGA
6399996 AAATTATAAATCAT
1 AAATTATAAATCAT
*
6400010 AAATTATAAGTCAT
1 AAATTATAAATCAT
6400024 AAATTA
1 AAATTA
6400030 AAAAGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
AAATTATAAATCAT
Found at i:6401084 original size:21 final size:21
Alignment explanation
Indices: 6401035--6401091 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
6401025 ATTTTACTTC
* *
6401035 AAAATAAAAATAAATTATCTT
1 AAAATTAAAATATATTATCTT
*
6401056 ATAAATTAAAATATATTATTTT
1 A-AAATTAAAATATATTATCTT
6401078 AAAATTAAAATATA
1 AAAATTAAAATATA
6401092 AAGATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATTAAAATATATTATCTT
Found at i:6401567 original size:15 final size:15
Alignment explanation
Indices: 6401547--6401576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6401537 ACAAAATTAA
*
6401547 TATATAATATATATT
1 TATATAAAATATATT
6401562 TATATAAAATATATT
1 TATATAAAATATATT
6401577 ATTAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATAAAATATATT
Found at i:6402494 original size:16 final size:15
Alignment explanation
Indices: 6402453--6402491 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6402443 AATTTTTTTT
6402453 AAAAAATTCTTTAAA
1 AAAAAATTCTTTAAA
**
6402468 AAAAAACTTCTTTTCA
1 AAAAAA-TTCTTTAAA
6402484 AAAAAATT
1 AAAAAATT
6402492 TCTAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAATTCTTTAAA
Found at i:6411865 original size:23 final size:24
Alignment explanation
Indices: 6411823--6411870 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6411813 CGATTAAATT
*
6411823 TATTATATCTTTAATTAAATTTAAA
1 TATTATATCTTTAATGAAA-TTAAA
6411848 TATTA-AT-TTTAATGAAATTAAA
1 TATTATATCTTTAATGAAATTAAA
6411870 T
1 T
6411871 TAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 2 0.09
25 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTATATCTTTAATGAAATTAAA
Found at i:6411944 original size:24 final size:24
Alignment explanation
Indices: 6411890--6411944 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
6411880 TTTTTTATTA
* *
6411890 AAATTTTTTAATCATAATTATAAT
1 AAATTTTTCAATCATAATTACAAT
** *
6411914 ATTTTTTTCAATCGTAATTACAAT
1 AAATTTTTCAATCATAATTACAAT
6411938 AAATTTT
1 AAATTTT
6411945 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTTTCAATCATAATTACAAT
Found at i:6411965 original size:33 final size:34
Alignment explanation
Indices: 6411913--6411983 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
6411903 ATAATTATAA
* * *
6411913 TATTTTTTTCAATCGTAATTACAATAAATTTTAT
1 TATTTTTTTCAATCATAATTAAAATAAATCTTAT
* *
6411947 TATTTTTTTTAAT-ATAATTAAAATTAATCTTAT
1 TATTTTTTTCAATCATAATTAAAATAAATCTTAT
6411980 TATT
1 TATT
6411984 CATCCAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (34 bp):
TATTTTTTTCAATCATAATTAAAATAAATCTTAT
Found at i:6412875 original size:2 final size:2
Alignment explanation
Indices: 6412868--6412902 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6412858 TTCTTTCACC
6412868 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6412903 AACCACTCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6417188 original size:21 final size:21
Alignment explanation
Indices: 6417155--6417194 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6417145 GTTAATATAA
6417155 ATTTGTATGTTTTAATTTTTT
1 ATTTGTATGTTTTAATTTTTT
6417176 ATTT-TATGTTTTTAATTTT
1 ATTTGTATG-TTTTAATTTT
6417195 AGAATTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (21 bp):
ATTTGTATGTTTTAATTTTTT
Found at i:6424462 original size:51 final size:51
Alignment explanation
Indices: 6424395--6424495 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
6424385 TTACAAAAGG
*
6424395 CGCCTCACAAGGAAGAGATGGTGTGAACACTTTTATACCCCAGTGACCCTA
1 CGCCTCACAAGAAAGAGATGGTGTGAACACTTTTATACCCCAGTGACCCTA
* * *
6424446 CGCCTCACGAGAAAGAGATGGTGTGAACCCTTTTATACCTCAGTGACCCT
1 CGCCTCACAAGAAAGAGATGGTGTGAACACTTTTATACCCCAGTGACCCT
6424496 CTTATTATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (51 bp):
CGCCTCACAAGAAAGAGATGGTGTGAACACTTTTATACCCCAGTGACCCTA
Found at i:6428901 original size:18 final size:18
Alignment explanation
Indices: 6428874--6428908 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6428864 GTTATTGTCT
*
6428874 GGCTTTGACTTTGGCTTC
1 GGCTTCGACTTTGGCTTC
6428892 GGCTTCGACTTTGGCTT
1 GGCTTCGACTTTGGCTT
6428909 TGATTTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.29, T:0.43
Consensus pattern (18 bp):
GGCTTCGACTTTGGCTTC
Found at i:6429680 original size:131 final size:131
Alignment explanation
Indices: 6429537--6429795 Score: 403
Period size: 131 Copynumber: 2.0 Consensus size: 131
6429527 TGAATATTAA
* *
6429537 TTTTTTTCATTATCAAATACGATGTTTG-TAGAAAACTAAATACCCTAATTATTAATTAATTTTT
1 TTTTTTTCATTATCAAATACGATGTTTGCAAG-AAACTAAACACCCTAATTATTAATTAATTTTT
* *
6429601 TATCATGAACAAAACAATCAACCAAGATATCTTTTATGAGCAAAACATCGTAATTACATTCAACC
65 TACCATAAACAAAACAATCAACCAAGATATCTTTTATGAGCAAAACATCGTAATTACATTCAACC
6429666 TT
130 TT
* * *
6429668 TTTTTTTTATTATCAAATACGATGTTTGCAAGGAACTAAACACCCTAATTATTAATTAGTTTTTT
1 TTTTTTTCATTATCAAATACGATGTTTGCAAGAAACTAAACACCCTAATTATTAATTAATTTTTT
* * * *
6429733 ACCATAAACAAAACAATCATCCAAGATATTTTTTATGAGCAAAACGTGGTAATTACATTCAAC
66 ACCATAAACAAAACAATCAACCAAGATATCTTTTATGAGCAAAACATCGTAATTACATTCAAC
6429796 TACAACTTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
131 114 0.98
132 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (131 bp):
TTTTTTTCATTATCAAATACGATGTTTGCAAGAAACTAAACACCCTAATTATTAATTAATTTTTT
ACCATAAACAAAACAATCAACCAAGATATCTTTTATGAGCAAAACATCGTAATTACATTCAACCT
T
Found at i:6435718 original size:12 final size:13
Alignment explanation
Indices: 6435695--6435732 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6435685 TAATCTTAAA
6435695 ATATTATTTTTAT
1 ATATTATTTTTAT
* *
6435708 TTATT-TTTTTAA
1 ATATTATTTTTAT
6435720 ATATTATTTTTAT
1 ATATTATTTTTAT
6435733 CTAATTAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATATTATTTTTAT
Found at i:6435729 original size:13 final size:13
Alignment explanation
Indices: 6435693--6435731 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6435683 ATTAATCTTA
6435693 AAATATTATTTTT
1 AAATATTATTTTT
**
6435706 ATTTATT-TTTTT
1 AAATATTATTTTT
6435718 AAATATTATTTTT
1 AAATATTATTTTT
6435731 A
1 A
6435732 TCTAATTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AAATATTATTTTT
Found at i:6436650 original size:155 final size:156
Alignment explanation
Indices: 6436318--6436940 Score: 1106
Period size: 155 Copynumber: 4.0 Consensus size: 156
6436308 GTCTGCATGG
* * * * *
6436318 TATTATCCATTATGAGTTAAATACTCACCCACTAATTATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
* * *
6436383 CTTACATTCTAGAAGTCTTAGCTTAAACATAGTAATAATTTAAAAATCATCATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATAATTATTAAATAGAT
6436448 TTATATGTTTTAATTACAGCTGTATA
131 TTATATGTTTTAATTACAGCTGTATA
6436474 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
*
6436539 CTTACATTCTAGAAGTCTTAGCTTAAGCAT-TTAATAATTTTAAAATCATAATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATAATTATTAAATAGAT
6436603 TTATATGTTTTAATTACAGCTGTATA
131 TTATATGTTTTAATTACAGCTGTATA
6436629 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
*
6436694 CTTACATTCTAGAAGTCTTAGCCTAAACAT-TTAATAATTTTAAAATCATAATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATAATTATTAAATAGAT
6436758 TTATATGTTTTAATTACAGCTGTATA
131 TTATATGTTTTAATTACAGCTGTATA
* * *
6436784 TATTATCCATTATGAGTTAAATACTCACCCACTCATCATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
*
6436849 CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATCATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATAATTATTAAATAGAT
6436914 TTATATGTTTTAATTACAGCTGTATA
131 TTATATGTTTTAATTACAGCTGTATA
6436940 T
1 T
6436941 GAGATAAATT
Statistics
Matches: 450, Mismatches: 16, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
155 301 0.67
156 149 0.33
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (156 bp):
TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
CTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAATTTTAAAATCATAATTATTAAATAGAT
TTATATGTTTTAATTACAGCTGTATA
Found at i:6436895 original size:311 final size:311
Alignment explanation
Indices: 6436318--6436940 Score: 1104
Period size: 311 Copynumber: 2.0 Consensus size: 311
6436308 GTCTGCATGG
* * * *
6436318 TATTATCCATTATGAGTTAAATACTCACCCACTAATTATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTAATCATCTTACCAATTTATTATCATATATATA
* *
6436383 CTTACATTCTAGAAGTCTTAGCTTAAACATAGTAATAATTTAAAAATCATCATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCCTAAACATAGTAATAATTTAAAAATCATAATTATTAAATAGAT
6436448 TTATATGTTTTAATTACAGCTGTATATATTATCCATTATGAGTTAAAAAATCACACACTCATCAT
131 TTATATGTTTTAATTACAGCTGTATATATTATCCATTATGAGTTAAAAAATCACACACTCATCAT
*
6436513 CTTACCAATTTATTATCATATATATACTTACATTCTAGAAGTCTTAGCTTAAGCATTTAATAATT
196 CTTACCAATTTATTATCATATATATACTTACATTCTAGAAGTCTTAGCTTAAACATTTAATAATT
6436578 TTAAAATCATAATTATTAAATAGATTTATATGTTTTAATTACAGCTGTATA
261 TTAAAATCATAATTATTAAATAGATTTATATGTTTTAATTACAGCTGTATA
*
6436629 TATTATCCATTATGAGTTAAAAAATCACACACTCATCATCTTACCAATTTATTATCATATATATA
1 TATTATCCATTATGAGTTAAAAAATCACACACTAATCATCTTACCAATTTATTATCATATATATA
* *
6436694 CTTACATTCTAGAAGTCTTAGCCTAAACAT-TTAATAATTTTAAAATCATAATTATTAAATAGAT
66 CTTACATTCTAGAAGTCTTAGCCTAAACATAGTAATAATTTAAAAATCATAATTATTAAATAGAT
* * *
6436758 TTATATGTTTTAATTACAGCTGTATATATTATCCATTATGAGTTAAATACTCACCCACTCATCAT
131 TTATATGTTTTAATTACAGCTGTATATATTATCCATTATGAGTTAAAAAATCACACACTCATCAT
6436823 CTTACCAATTTATTATCATATATATACTTACATTCTAGAAGTCTTAGCTTAAACATATTAATAAT
196 CTTACCAATTTATTATCATATATATACTTACATTCTAGAAGTCTTAGCTTAAACAT-TTAATAAT
*
6436888 TTTAAAATCATCATTATTAAATAGATTTATATGTTTTAATTACAGCTGTATA
260 TTTAAAATCATAATTATTAAATAGATTTATATGTTTTAATTACAGCTGTATA
6436940 T
1 T
6436941 GAGATAAATT
Statistics
Matches: 297, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
310 148 0.50
311 149 0.50
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (311 bp):
TATTATCCATTATGAGTTAAAAAATCACACACTAATCATCTTACCAATTTATTATCATATATATA
CTTACATTCTAGAAGTCTTAGCCTAAACATAGTAATAATTTAAAAATCATAATTATTAAATAGAT
TTATATGTTTTAATTACAGCTGTATATATTATCCATTATGAGTTAAAAAATCACACACTCATCAT
CTTACCAATTTATTATCATATATATACTTACATTCTAGAAGTCTTAGCTTAAACATTTAATAATT
TTAAAATCATAATTATTAAATAGATTTATATGTTTTAATTACAGCTGTATA
Found at i:6450680 original size:12 final size:12
Alignment explanation
Indices: 6450663--6450688 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6450653 GAAATAGATG
6450663 CATTGAGATGGA
1 CATTGAGATGGA
6450675 CATTGAGATGGA
1 CATTGAGATGGA
6450687 CA
1 CA
6450689 AACAAGGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (12 bp):
CATTGAGATGGA
Found at i:6450833 original size:24 final size:24
Alignment explanation
Indices: 6450806--6450853 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6450796 TTTTCATCCT
*
6450806 TATTAT-TGTCGCCTTTATTTTTTC
1 TATTATCT-TCGCCATTATTTTTTC
6450830 TATTATCTTCGCCATTATTTTTTC
1 TATTATCTTCGCCATTATTTTTTC
6450854 CATTGCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTATCTTCGCCATTATTTTTTC
Found at i:6452050 original size:27 final size:28
Alignment explanation
Indices: 6452019--6452073 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
6452009 GTTTGATTTG
* * *
6452019 AGAAAATATTTTTTG-TTTTTATTTTTT
1 AGAAAAAAGTTTTTGATTTTGATTTTTT
6452046 AGAAAAAAGTTTTTGATTTTGATTTTTT
1 AGAAAAAAGTTTTTGATTTTGATTTTTT
6452074 GTTTTTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (28 bp):
AGAAAAAAGTTTTTGATTTTGATTTTTT
Found at i:6453375 original size:6 final size:6
Alignment explanation
Indices: 6453364--6453410 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
6453354 ATAATACCCA
* *
6453364 TAATTT TAATTT TAACTT GAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATT
6453411 CTGATCTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (6 bp):
TAATTT
Found at i:6454398 original size:17 final size:18
Alignment explanation
Indices: 6454371--6454404 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6454361 GAGAACCTTA
*
6454371 TAAATTTTTAATAAAAAT
1 TAAATTTTTAAGAAAAAT
6454389 TAAA-TTTTAAGAAAAA
1 TAAATTTTTAAGAAAAA
6454405 AAATACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAATTTTTAAGAAAAAT
Found at i:6454592 original size:37 final size:37
Alignment explanation
Indices: 6454551--6454641 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 37
6454541 AAAATCCTAT
* * * * *
6454551 CAACATATTCGAGAATAATTTTGATAGAAAATATTAC
1 CAACATATTAGAGAATAATCTTAACAAAAAATATTAC
* * *
6454588 CAACATATTAAAGGATAATCTTAACAAAAAATCTTAC
1 CAACATATTAGAGAATAATCTTAACAAAAAATATTAC
*
6454625 CAATATATTAGAGAATA
1 CAACATATTAGAGAATA
6454642 TTTCTTACTA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (37 bp):
CAACATATTAGAGAATAATCTTAACAAAAAATATTAC
Found at i:6458111 original size:86 final size:86
Alignment explanation
Indices: 6457957--6458130 Score: 321
Period size: 86 Copynumber: 2.0 Consensus size: 86
6457947 ATACTAAGCT
* *
6457957 ATTCTCAAAATTGGTCAAGAATGACTTGGAATCCCCAATTCTTTTAGAACCATTGAAGCTACCTT
1 ATTCCCAAAATTGGTCAAGAATGACTTGGAATCCCCAATTCTTTTAGAACCATTGAAGCTACCCT
6458022 ATCCCAAATGGTATAATGTTA
66 ATCCCAAATGGTATAATGTTA
*
6458043 ATTCCCAAAATTGGTCAAGAATGACTTGGAATCTCCAATTCTTTTAGAACCATTGAAGCTACCCT
1 ATTCCCAAAATTGGTCAAGAATGACTTGGAATCCCCAATTCTTTTAGAACCATTGAAGCTACCCT
6458108 ATCCCAAATGGTATAATGTTA
66 ATCCCAAATGGTATAATGTTA
6458129 AT
1 AT
6458131 GTCACATGTG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (86 bp):
ATTCCCAAAATTGGTCAAGAATGACTTGGAATCCCCAATTCTTTTAGAACCATTGAAGCTACCCT
ATCCCAAATGGTATAATGTTA
Found at i:6458986 original size:13 final size:14
Alignment explanation
Indices: 6458967--6458999 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6458957 GAAAAATGAT
6458967 GAAAAATGTAAAAA
1 GAAAAATGTAAAAA
*
6458981 -AAAAATTTAAAAA
1 GAAAAATGTAAAAA
6458994 GAAAAA
1 GAAAAA
6459000 AAATTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
GAAAAATGTAAAAA
Found at i:6460904 original size:18 final size:17
Alignment explanation
Indices: 6460881--6460944 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
6460871 CTTATCTGAA
6460881 AATCTTTGTGAAACTTAG
1 AATCTTTGTGAAA-TTAG
*
6460899 AATC-TTG-CAAATCTAG
1 AATCTTTGTGAAAT-TAG
*
6460915 AATCTCTGTGAAATTTAG
1 AATCTTTGTGAAA-TTAG
6460933 AATCTTTGTGAA
1 AATCTTTGTGAA
6460945 TCTGAAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 10 0.26
17 5 0.13
18 21 0.55
19 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (17 bp):
AATCTTTGTGAAATTAG
Found at i:6461081 original size:17 final size:17
Alignment explanation
Indices: 6461059--6461114 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
6461049 GAATCTGAAT
6461059 TCTTGCAAATATGAAAA
1 TCTTGCAAATATGAAAA
* **
6461076 TCTTGCGAACCTGAAAA
1 TCTTGCAAATATGAAAA
*
6461093 TTCTTGCAAATTTGAAAA
1 -TCTTGCAAATATGAAAA
6461111 TCTT
1 TCTT
6461115 ATGAACATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (17 bp):
TCTTGCAAATATGAAAA
Found at i:6461108 original size:18 final size:18
Alignment explanation
Indices: 6461056--6461111 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
6461046 TGTGAATCTG
6461056 AATTCTTGCAAATATGAA
1 AATTCTTGCAAATATGAA
* **
6461074 AA-TCTTGCGAACCTGAA
1 AATTCTTGCAAATATGAA
*
6461091 AATTCTTGCAAATTTGAA
1 AATTCTTGCAAATATGAA
6461109 AAT
1 AAT
6461112 CTTATGAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (18 bp):
AATTCTTGCAAATATGAA
Found at i:6461126 original size:35 final size:35
Alignment explanation
Indices: 6461056--6461126 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
6461046 TGTGAATCTG
* *
6461056 AATTCTTGCAAATATGAAAATCTTGCGAACCTGAA
1 AATTCTTGCAAATATGAAAATCTTACGAACATGAA
* *
6461091 AATTCTTGCAAATTTGAAAATCTTATGAACATGAA
1 AATTCTTGCAAATATGAAAATCTTACGAACATGAA
6461126 A
1 A
6461127 TTCAAATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (35 bp):
AATTCTTGCAAATATGAAAATCTTACGAACATGAA
Found at i:6461388 original size:36 final size:36
Alignment explanation
Indices: 6461307--6461388 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
6461297 TCATATGAAC
* *
6461307 TTTTGAAATTTTTGCAAAACTTAGTATTCTTGCGAA
1 TTTTGAAATCTTTGCAAAACTTAGAATTCTTGCGAA
* * *
6461343 -TTTGAAAATCTTTGCAAATCTT-GAATCTTTTGCTAA
1 TTTTG-AAATCTTTGCAAAACTTAGAAT-TCTTGCGAA
6461379 TTTTGAAATC
1 TTTTGAAATC
6461389 ATTAAGATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 7 0.18
36 27 0.71
37 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTTGAAATCTTTGCAAAACTTAGAATTCTTGCGAA
Found at i:6461957 original size:23 final size:23
Alignment explanation
Indices: 6461908--6461964 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
6461898 AACCCATAAT
*
6461908 TTTAATTTTAATGTGATGTTAAT
1 TTTAATTTTAATGTGATGTTAAA
6461931 TTTAATTTTAACT-TGGAT-TTAAA
1 TTTAATTTTAA-TGT-GATGTTAAA
*
6461954 TTTAAATTTAA
1 TTTAATTTTAA
6461965 ATTTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (23 bp):
TTTAATTTTAATGTGATGTTAAA
Found at i:6462509 original size:14 final size:14
Alignment explanation
Indices: 6462490--6462520 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6462480 AGATCATACA
*
6462490 ATGCAATAATCATC
1 ATGCAAAAATCATC
6462504 ATGCAAAAATCATC
1 ATGCAAAAATCATC
6462518 ATG
1 ATG
6462521 TAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (14 bp):
ATGCAAAAATCATC
Found at i:6462596 original size:24 final size:24
Alignment explanation
Indices: 6462529--6462596 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
6462519 TGTAAATATA
* *
6462529 TAATAA-ATCATACCAAATATCATG
1 TAATAATATCATGCC-AAGATCATG
*
6462553 TAATAATATCATGCCTAGATCATG
1 TAATAATATCATGCCAAGATCATG
6462577 CTAA-AATATTCATG-CAAGAT
1 -TAATAATA-TCATGCCAAGAT
6462597 TGTCATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 22 0.59
25 15 0.41
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (24 bp):
TAATAATATCATGCCAAGATCATG
Found at i:6463015 original size:25 final size:21
Alignment explanation
Indices: 6462964--6463015 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6462954 ATTTAGCCAG
*
6462964 GAGATCGATTGACTAAGAAAA
1 GAGATCGATCGACTAAGAAAA
6462985 GAGATCGATCGACTAAG-AAA
1 GAGATCGATCGACTAAGAAAA
6463005 GAGGATCGATC
1 GA-GATCGATC
6463016 CTTTCTATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.17
Consensus pattern (21 bp):
GAGATCGATCGACTAAGAAAA
Found at i:6463431 original size:48 final size:48
Alignment explanation
Indices: 6463292--6463554 Score: 155
Period size: 49 Copynumber: 5.4 Consensus size: 48
6463282 TTCTCTAAAA
* ** *
6463292 AAAAAGTTATTAAAAGGAATAGGTAATAAAAATG-TTTCTAGAAAAAATACG
1 AAAAA-TTATTAAAAGGAATAGATAAT-GGAATGTTTTCT-TAAAAAATA-G
* * * *
6463343 -AAAATTATTAAGAGGAATAGA-AAAGGAATGTTTCCCTAAAAAATAG
1 AAAAATTATTAAAAGGAATAGATAATGGAATGTTTTCTTAAAAAATAG
* *
6463389 AAAAATTATTAAAAGGAATAGATAATGGATTGTTTTCTTAAAATATAG
1 AAAAATTATTAAAAGGAATAGATAATGGAATGTTTTCTTAAAAAATAG
* * * * * *
6463437 AAGAAA-TGTTAAAAGGAACACAACTAAT-AAAAGTGTTTCTCTAAACAATA-
1 AA-AAATTATTAAAAGGAATA-GA-TAATGGAATGT-TTTCT-TAAAAAATAG
* * * *
6463487 AAAGAATTATCAAAAGGAACA-ACT-ATTGAAAGTGTTTCTCTAAAAAATAG
1 AAA-AATTATTAAAAGGAATAGA-TAATGGAATGT-TTTCT-TAAAAAATAG
* *
6463537 AATAATTATAAAAAGGAA
1 AAAAATTATTAAAAGGAA
6463555 CAACTTTTAG
Statistics
Matches: 172, Mismatches: 28, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
46 1 0.01
47 32 0.19
48 41 0.24
49 60 0.35
50 19 0.11
51 19 0.11
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.27
Consensus pattern (48 bp):
AAAAATTATTAAAAGGAATAGATAATGGAATGTTTTCTTAAAAAATAG
Found at i:6463492 original size:51 final size:49
Alignment explanation
Indices: 6463422--6463583 Score: 148
Period size: 49 Copynumber: 3.3 Consensus size: 49
6463412 AATGGATTGT
* * * *
6463422 TTTCT-TAAAATATAGAAGAAATGTTAAAAGGAACACAACTAATAAAAGTG
1 TTTCTCTAAAAAATAAAAGAAATATCAAAAGG-A-ACAACTAATAAAAGTG
* * * *
6463472 TTTCTCTAAACAATAAAAGAATTATCAAAAGGAACAACTATTGAAAGTG
1 TTTCTCTAAAAAATAAAAGAAATATCAAAAGGAACAACTAATAAAAGTG
* * * * * * * *
6463521 TTTCTCTAAAAAATAGAATAATTATAAAAAGGAACAACT-TTTAGAGCG
1 TTTCTCTAAAAAATAAAAGAAATATCAAAAGGAACAACTAATAAAAGTG
6463569 TTTCTCTAAAAAATA
1 TTTCTCTAAAAAATA
6463584 TGAGAATAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
48 21 0.22
49 49 0.51
50 6 0.06
51 20 0.21
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.28
Consensus pattern (49 bp):
TTTCTCTAAAAAATAAAAGAAATATCAAAAGGAACAACTAATAAAAGTG
Found at i:6463525 original size:49 final size:49
Alignment explanation
Indices: 6463447--6463583 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
6463437 AAGAAATGTT
* * *
6463447 AAAAGGAACACAACTAATAAAAGTGTTTCTCTAAACAATAAAAGAATTATC
1 AAAAGG-A-ACAACTATTAAAAGTGTTTCTCTAAAAAATAAAAGAATTATA
* * *
6463498 AAAAGGAACAACTATTGAAAGTGTTTCTCTAAAAAATAGAATAATTATA
1 AAAAGGAACAACTATTAAAAGTGTTTCTCTAAAAAATAAAAGAATTATA
* * *
6463547 AAAAGGAACAACT-TTTAGAGCGTTTCTCTAAAAAATA
1 AAAAGGAACAACTATTAAAAGTGTTTCTCTAAAAAATA
6463584 TGAGAATAAG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
48 21 0.27
49 49 0.64
50 1 0.01
51 6 0.08
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (49 bp):
AAAAGGAACAACTATTAAAAGTGTTTCTCTAAAAAATAAAAGAATTATA
Found at i:6465369 original size:35 final size:35
Alignment explanation
Indices: 6465299--6465369 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
6465289 ACTACAAAGA
* ** * *
6465299 TTAATTTTCTTTTTGAAATATTTTATATCTTATAG
1 TTAATTTGCTTTTCAAAATATTTTATATATGATAG
6465334 TTAATTTGCTTTTCAAAATATTTTATATATGATAG
1 TTAATTTGCTTTTCAAAATATTTTATATATGATAG
6465369 T
1 T
6465370 GACAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (35 bp):
TTAATTTGCTTTTCAAAATATTTTATATATGATAG
Found at i:6471605 original size:76 final size:77
Alignment explanation
Indices: 6471468--6471624 Score: 262
Period size: 76 Copynumber: 2.1 Consensus size: 77
6471458 GATTTAACCT
* * *
6471468 TAAAAGCTAATTAATTTAAAATAAAAATTTATAATATTGAATAAAAATTTTATTTATTAATTATA
1 TAAAAGCTAATTAATTTAAAATAAAAAGTTATAATATTAAATAAAAATTTTATTTACTAATTATA
6471533 AATAATTATATA
66 AATAATTATATA
6471545 TAAAA-CTAATTAATTTAAAATAAAAAGTTATAATATTAAATAAAAATTTTATTTACTAATTATA
1 TAAAAGCTAATTAATTTAAAATAAAAAGTTATAATATTAAATAAAAATTTTATTTACTAATTATA
* *
6471609 TATAATTATATG
66 AATAATTATATA
6471621 TAAA
1 TAAA
6471625 TATATTAGGC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 70 0.93
77 5 0.07
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (77 bp):
TAAAAGCTAATTAATTTAAAATAAAAAGTTATAATATTAAATAAAAATTTTATTTACTAATTATA
AATAATTATATA
Found at i:6473522 original size:2 final size:2
Alignment explanation
Indices: 6473517--6473547 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6473507 ATTTGAAAAA
*
6473517 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6473548 AATTAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6476079 original size:11 final size:11
Alignment explanation
Indices: 6476063--6476087 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6476053 TTAAAAATTA
6476063 AAAATTATTTT
1 AAAATTATTTT
6476074 AAAATTATTTT
1 AAAATTATTTT
6476085 AAA
1 AAA
6476088 TTGAGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:6480907 original size:17 final size:17
Alignment explanation
Indices: 6480881--6480914 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6480871 GATTAATTTG
*
6480881 TTTTTTCTTGTTTGCTC
1 TTTTTCCTTGTTTGCTC
6480898 TTTTTCCTTGTTTGCTC
1 TTTTTCCTTGTTTGCTC
6480915 ATGTTCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.12, T:0.68
Consensus pattern (17 bp):
TTTTTCCTTGTTTGCTC
Found at i:6481482 original size:2 final size:2
Alignment explanation
Indices: 6481475--6481501 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6481465 TAAATACACA
6481475 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6481502 TTGGTAGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6484005 original size:2 final size:2
Alignment explanation
Indices: 6483998--6484038 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
6483988 CAAACTCATA
* *
6483998 AT AT AT AT A- AA AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6484039 TTGTCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6484391 original size:55 final size:57
Alignment explanation
Indices: 6484332--6484448 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 57
6484322 TATCTTTTGT
* * *
6484332 AAAAATGAAACTGTAATAATAATAAAATATATCTT-AAAAGAAATTA-TAAACAAAA-A
1 AAAAAT-AAACTGCAATAATAATAAAATATACCTTGAAAA-AAATTACTAAAAAAAATA
* * *
6484388 AAAAATAAATTGCAATAGTAATAGAATATACCTTGAAAAAAATTACT-AAAAAAATA
1 AAAAATAAACTGCAATAATAATAAAATATACCTTGAAAAAAATTACTAAAAAAAATA
6484444 AAAAA
1 AAAAA
6484449 ATTGATGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
55 35 0.67
56 17 0.33
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (57 bp):
AAAAATAAACTGCAATAATAATAAAATATACCTTGAAAAAAATTACTAAAAAAAATA
Found at i:6496711 original size:9 final size:9
Alignment explanation
Indices: 6496693--6496754 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
6496683 CCTCATTTAC
6496693 AAAAAT-TT
1 AAAAATATT
6496701 AAAAATATT
1 AAAAATATT
6496710 AAAAATATTT
1 AAAAATA-TT
*
6496720 ATTAAATATT
1 A-AAAATATT
6496730 AAAAATATTT
1 AAAAATA-TT
*
6496740 ATTAAATATT
1 A-AAAATATT
6496750 AAAAA
1 AAAAA
6496755 AATAAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
8 6 0.13
9 17 0.38
10 12 0.27
11 10 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAAATATT
Found at i:6496728 original size:11 final size:11
Alignment explanation
Indices: 6496712--6496749 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6496702 AAAATATTAA
6496712 AAATATTTATT
1 AAATATTTATT
*
6496723 AAATA-TTA-A
1 AAATATTTATT
6496732 AAATATTTATT
1 AAATATTTATT
6496743 AAATATT
1 AAATATT
6496750 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 5 0.22
10 6 0.26
11 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATATTTATT
Found at i:6496728 original size:20 final size:20
Alignment explanation
Indices: 6496703--6496754 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6496693 AAAAATTTAA
6496703 AAATATTAAAAATATTTATT
1 AAATATTAAAAATATTTATT
6496723 AAATATTAAAAATATTTATT
1 AAATATTAAAAATATTTATT
6496743 AAATATTAAAAA
1 AAATATTAAAAA
6496755 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATTAAAAATATTTATT
Found at i:6496776 original size:23 final size:23
Alignment explanation
Indices: 6496750--6496794 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6496740 ATTAAATATT
6496750 AAAAAA-ATAAAAAAAGTAAATAG
1 AAAAAAGATAAAAAAAG-AAATAG
*
6496773 AAAAAAGATAATAAAAGAAATA
1 AAAAAAGATAAAAAAAGAAATA
6496795 ATAAGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAAAAGATAAAAAAAGAAATAG
Found at i:6496777 original size:24 final size:23
Alignment explanation
Indices: 6496750--6496794 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
6496740 ATTAAATATT
6496750 AAAAAAATAAAAAAAGTAAATAGA
1 AAAAAAATAAAAAAAG-AAATAGA
* *
6496774 AAAAAGATAATAAAAGAAATA
1 AAAAAAATAAAAAAAGAAATA
6496795 ATAAGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
AAAAAAATAAAAAAAGAAATAGA
Found at i:6496986 original size:22 final size:20
Alignment explanation
Indices: 6496938--6496992 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
6496928 AAAAAAATTT
*
6496938 ATAAAAAGAAAAAAATGAAA
1 ATAAAAAGAAAAAAAAGAAA
*
6496958 ATGAAAAACAAAAAAAAGTAAA
1 AT-AAAAAGAAAAAAAAG-AAA
6496980 AGTAAAAAGAAAA
1 A-TAAAAAGAAAA
6496993 TTCAATGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 13 0.45
23 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
ATAAAAAGAAAAAAAAGAAA
Found at i:6497631 original size:19 final size:20
Alignment explanation
Indices: 6497607--6497645 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6497597 CAAGAAAATG
6497607 AAAAAAAATTGA-ATTTTTT
1 AAAAAAAATTGAGATTTTTT
*
6497626 AAAAAAAATTTAGATTTTTT
1 AAAAAAAATTGAGATTTTTT
6497646 TATTTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAAAAAATTGAGATTTTTT
Found at i:6497632 original size:20 final size:21
Alignment explanation
Indices: 6497607--6497647 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6497597 CAAGAAAATG
6497607 AAAAAAAATT-GAATTTTTTA
1 AAAAAAAATTAGAATTTTTTA
* *
6497627 AAAAAAATTTAGATTTTTTTA
1 AAAAAAAATTAGAATTTTTTA
6497648 TTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAAAAAATTAGAATTTTTTA
Found at i:6497776 original size:20 final size:19
Alignment explanation
Indices: 6497753--6497796 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6497743 TAGTTTTTGG
*
6497753 GATTTTTATTAAAATTTTAA
1 GATTTTT-TGAAAATTTTAA
6497773 GATTTTTTGAAAATTTTAA
1 GATTTTTTGAAAATTTTAA
6497792 G-TTTT
1 GATTTT
6497797 CATACATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
GATTTTTTGAAAATTTTAA
Found at i:6499562 original size:29 final size:29
Alignment explanation
Indices: 6499508--6499567 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
6499498 AACATATAAT
* * *
6499508 AAAATATTTAATGTGATATTTAAATTTTA
1 AAAATATTTAATATGATATATAAATTATA
* *
6499537 AAAATGTTTAATATGATATATGAATTATA
1 AAAATATTTAATATGATATATAAATTATA
6499566 AA
1 AA
6499568 TTTATTAACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.43
Consensus pattern (29 bp):
AAAATATTTAATATGATATATAAATTATA
Found at i:6503065 original size:2 final size:2
Alignment explanation
Indices: 6503053--6503099 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
6503043 TGCTTTATCC
* * *
6503053 TA TA AA TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
6503096 TA TA
1 TA TA
6503100 GGATAATCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6503308 original size:2 final size:2
Alignment explanation
Indices: 6503301--6503339 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6503291 CAAAACCACC
* *
6503301 TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6503340 ACTTATAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6503728 original size:2 final size:2
Alignment explanation
Indices: 6503721--6503757 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6503711 TTTCCACTGA
*
6503721 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6503758 CCATTTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6506904 original size:20 final size:21
Alignment explanation
Indices: 6506867--6506906 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6506857 GAGGCAATTA
*
6506867 ATCAGCTATATCAGATCTCAT
1 ATCAGCTATATAAGATCTCAT
*
6506888 ATCAGC-ATATAATATCTCA
1 ATCAGCTATATAAGATCTCA
6506907 AGCTTATCGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (21 bp):
ATCAGCTATATAAGATCTCAT
Found at i:6510123 original size:24 final size:24
Alignment explanation
Indices: 6510078--6510139 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
6510068 TTCGTAAGTT
** * *
6510078 TTTTTA-TTTTATTTTATTTTTTG
1 TTTTTATTTTTATTAGATATTTTA
6510101 TTTTTATTTTTATTAGATATTTTA
1 TTTTTATTTTTATTAGATATTTTA
* *
6510125 TCTTTATTATTATTA
1 TTTTTATTTTTATTA
6510140 TTATTATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 6 0.19
24 26 0.81
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (24 bp):
TTTTTATTTTTATTAGATATTTTA
Found at i:6514337 original size:19 final size:19
Alignment explanation
Indices: 6514313--6514357 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
6514303 ACAAGACCTC
*
6514313 ATCAGTTGCTAAACTCAGA
1 ATCAGTCGCTAAACTCAGA
* *
6514332 ATCAGTCGCTCAGCTCAGA
1 ATCAGTCGCTAAACTCAGA
6514351 ATCAGTC
1 ATCAGTC
6514358 ACGGCAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (19 bp):
ATCAGTCGCTAAACTCAGA
Found at i:6516085 original size:30 final size:30
Alignment explanation
Indices: 6516049--6516105 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6516039 TTAATTCACG
*
6516049 GAAGATTTCAATAGCATCAAAACTATGACA
1 GAAGATTACAATAGCATCAAAACTATGACA
*
6516079 GAAGATTACAATAGCATCTAAACTATG
1 GAAGATTACAATAGCATCAAAACTATG
6516106 TAAAAAGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (30 bp):
GAAGATTACAATAGCATCAAAACTATGACA
Found at i:6517211 original size:22 final size:22
Alignment explanation
Indices: 6517183--6517233 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
6517173 ATGTCAATGT
6517183 TCATGCATCCAATGAATTATGC
1 TCATGCATCCAATGAATTATGC
*
6517205 TTATGCATCCAATGAATTATGC
1 TCATGCATCCAATGAATTATGC
6517227 TCATGCA
1 TCATGCA
6517234 AAATTCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (22 bp):
TCATGCATCCAATGAATTATGC
Found at i:6518923 original size:27 final size:26
Alignment explanation
Indices: 6518893--6518947 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
6518883 GCTGCACAAA
6518893 ATTATAAATAAGA-TAAAATAATATAAT
1 ATTATAAATAA-ATTAAAATAA-ATAAT
* *
6518920 ATTATGAATAAATTAAAGTAAATAAT
1 ATTATAAATAAATTAAAATAAATAAT
6518946 AT
1 AT
6518948 CATTAAATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (26 bp):
ATTATAAATAAATTAAAATAAATAAT
Found at i:6521868 original size:12 final size:12
Alignment explanation
Indices: 6521853--6521904 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
6521843 ATTTTTAATA
6521853 TAAATATAAAAT
1 TAAATATAAAAT
6521865 TAAATA-AAAAT
1 TAAATATAAAAT
6521876 GTATAATAT-AAA-
1 -TA-AATATAAAAT
6521888 -AAATATAAAAT
1 TAAATATAAAAT
6521899 TAAATA
1 TAAATA
6521905 AATAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 5 0.15
12 13 0.38
13 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:6521907 original size:16 final size:16
Alignment explanation
Indices: 6521847--6521914 Score: 66
Period size: 16 Copynumber: 4.0 Consensus size: 16
6521837 AATATTATTT
6521847 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
* *
6521864 TTAAATAAAAATGTATAA
1 TTAAAT--AAATATAAAA
6521882 TATAAA-AAATATAAAA
1 T-TAAATAAATATAAAA
6521898 TTAAATAAATAATAAAA
1 TTAAATAAAT-ATAAAA
6521915 AATAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.10
16 15 0.36
17 10 0.24
18 9 0.21
19 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:6522019 original size:16 final size:17
Alignment explanation
Indices: 6521998--6522030 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6521988 GATCCAACCT
*
6521998 AAAAATTAATT-TAAAA
1 AAAAATCAATTCTAAAA
6522014 AAAAATCAATTCTAAAA
1 AAAAATCAATTCTAAAA
6522031 TATCAAATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATCAATTCTAAAA
Found at i:6524461 original size:21 final size:22
Alignment explanation
Indices: 6524423--6524463 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
6524413 TATAAAATAA
6524423 AAATACAATATTTGTAAAAATT
1 AAATACAATATTTGTAAAAATT
6524445 AAATA-AATAATTT-TAAAAA
1 AAATACAAT-ATTTGTAAAAA
6524464 CATAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATACAATATTTGTAAAAATT
Found at i:6524695 original size:35 final size:35
Alignment explanation
Indices: 6524655--6524724 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
6524645 ATTGAAATAT
* *
6524655 TTATAAATTTTTGTTTGAAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTTGAAAAAATAAAATATAAAA
*
6524690 TTATAAACTTTGGTTTGAAAAAATAAAGTATAAAA
1 TTATAAACTTTGGTTTGAAAAAATAAAATATAAAA
6524725 AAAATAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (35 bp):
TTATAAACTTTGGTTTGAAAAAATAAAATATAAAA
Found at i:6525212 original size:2 final size:2
Alignment explanation
Indices: 6525205--6525234 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6525195 GACCTAACAA
6525205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6525235 CATGTTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6526058 original size:2 final size:2
Alignment explanation
Indices: 6526051--6526079 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6526041 TTTTCCACTA
6526051 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6526080 CCATTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6529028 original size:6 final size:6
Alignment explanation
Indices: 6529019--6529082 Score: 74
Period size: 6 Copynumber: 9.8 Consensus size: 6
6529009 TCATTTTGTA
*
6529019 TTATTT TTATTT TTATTT TTATTT TTATTT TGTATTTT TTGTATT TTATTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TA-TTT TTAT-TT TTATT-T
6529071 TTATTT ATTATT
1 TTATTT -TTATT
6529083 ATGTATTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
6 28 0.55
7 19 0.37
8 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:6529049 original size:34 final size:35
Alignment explanation
Indices: 6529005--6529090 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 35
6528995 GTCCAATTCG
*
6529005 ATTTTCATTTTGTATTATTTT-TATTTTTATT-TTT
1 ATTTTTATTTTGTATTATTTTGTA-TTTTATTATTT
6529039 ATTTTTATTTTGTATT-TTTTGTATTTTATTATTT
1 ATTTTTATTTTGTATTATTTTGTATTTTATTATTT
*
6529073 ATTTATTATTATGTATTA
1 ATTT-TTATTTTGTATTA
6529091 ATATATGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 11 0.24
34 24 0.52
35 11 0.24
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.73
Consensus pattern (35 bp):
ATTTTTATTTTGTATTATTTTGTATTTTATTATTT
Found at i:6529113 original size:42 final size:42
Alignment explanation
Indices: 6529063--6529205 Score: 124
Period size: 42 Copynumber: 3.6 Consensus size: 42
6529053 TTTTTTGTAT
* *
6529063 TTTA-TTATTTATTTA-TTATTATGTATTAATATATGTATATC
1 TTTATTTATTTATTTAGTTATTATCTATTAATATAT-TATATA
* * *
6529104 TTTATTTATTTATTTATTTATT-TCTGTTAATAT-TTATATG
1 TTTATTTATTTATTTAGTTATTATCTATTAATATATTATATA
* * * *
6529144 TAT-TTTATTTATATAGTTATATATTTATTATTATATTATA-A
1 TTTATTTATTTATTTAGTTAT-TATCTATTAATATATTATATA
6529185 TTTATTT-TTTA-TTA-TTATTAT
1 TTTATTTATTTATTTAGTTATTAT
6529206 TTTTTTATCT
Statistics
Matches: 84, Mismatches: 12, Indels: 15
0.76 0.11 0.14
Matches are distributed among these distances:
38 3 0.04
39 19 0.23
40 10 0.12
41 19 0.23
42 28 0.33
43 5 0.06
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (42 bp):
TTTATTTATTTATTTAGTTATTATCTATTAATATATTATATA
Found at i:6529227 original size:34 final size:34
Alignment explanation
Indices: 6529189--6529280 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
6529179 TTATAATTTA
6529189 TTTTTTATTATTATTATTTTTTTATCT-TGTAATT
1 TTTTTTATTATTATTATTTTTTTATCTGT-TAATT
* *
6529223 TTTTTTATT-TATCTTATTTTATTATCTGTTAATT
1 TTTTTTATTAT-TATTATTTTTTTATCTGTTAATT
* *
6529257 TTTTATTTTTATTTTTATTTTTTT
1 TTTT-TTATTATTATTATTTTTTT
6529281 CGTTTATCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
33 1 0.02
34 32 0.65
35 15 0.31
36 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (34 bp):
TTTTTTATTATTATTATTTTTTTATCTGTTAATT
Found at i:6529233 original size:4 final size:4
Alignment explanation
Indices: 6529063--6529213 Score: 68
Period size: 4 Copynumber: 38.2 Consensus size: 4
6529053 TTTTTTGTAT
* * * * * *
6529063 TTTA -TTA TTTA TTTA -TTA -TTA TGTA TTAA TATA TGTA TATC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
6529108 TTTA TTTA TTTA TTTA TTTC TGTTA -ATA TTTA TATGTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA T-T-TA -TTTA TTTA
* * *
6529155 TATA GTTA TATA TTTA -TTA TTATA TTATAA TTTA TTT- TTTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA TTTA TTTA
*
6529202 -TTA TTTT TTTA T
1 TTTA TTTA TTTA T
6529214 CTTGTAATTT
Statistics
Matches: 113, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
3 26 0.23
4 68 0.60
5 12 0.11
6 6 0.05
7 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:6529243 original size:48 final size:46
Alignment explanation
Indices: 6529191--6529307 Score: 121
Period size: 48 Copynumber: 2.5 Consensus size: 46
6529181 ATAATTTATT
6529191 TTTTATTATTATTATTTTTTTATCTTGTAATTTTT-TTTATTTATC-TTA
1 TTTTATTATTATTATTTTTTTAT-TT-TAATTTTTATTT-TTT-TCGTTA
* * *
6529239 TTTTATTATCTGTTAATTTTTTATTTTTATTTTTATTTTTTTCGTTTA
1 TTTTATTAT-TATTATTTTTTTATTTTAATTTTTATTTTTTTCG-TTA
* *
6529287 TCTTATTATTATTTTTTTTTT
1 TTTTATTATTATTATTTTTTT
6529308 GGCGCTGTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
46 2 0.03
47 19 0.33
48 25 0.43
49 12 0.21
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (46 bp):
TTTTATTATTATTATTTTTTTATTTTAATTTTTATTTTTTTCGTTA
Found at i:6529264 original size:32 final size:33
Alignment explanation
Indices: 6529165--6529269 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 33
6529155 TATAGTTATA
* *
6529165 TATTTATTATTATATTA-TA-ATT-T-ATTTTT
1 TATTTATTATTATTTTATTATCTTGTAATTTTT
*
6529194 TA-TTATTATTATTTTTTTATCTTGTAATTTTTTT
1 TATTTATTATTATTTTATTATCTTGTAA--TTTTT
*
6529228 TATTTA-TCTTATTTTATTATC-TGTTAATTTTT
1 TATTTATTATTATTTTATTATCTTG-TAATTTTT
6529260 TATTT-TTATT
1 TATTTATTATT
6529270 TTTATTTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
28 12 0.20
29 4 0.07
30 2 0.03
31 1 0.02
32 14 0.23
33 2 0.03
34 23 0.38
35 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (33 bp):
TATTTATTATTATTTTATTATCTTGTAATTTTT
Found at i:6530064 original size:5 final size:5
Alignment explanation
Indices: 6530051--6530183 Score: 66
Period size: 5 Copynumber: 26.4 Consensus size: 5
6530041 CCGCTTCAGG
* *
6530051 TTTTT TTTTA TTTT- TTTTA -TTTA TTTTA -TTTA TTAGATTA GGTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT---TTA -TTTTA
* * *
6530097 TTTAATA TTCT- TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTT-
1 TTT--TA TTTTA TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA
* *
6530145 TTTTA -TTT- TTTTA TTTT- TTTTT TTTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
6530184 ATTCAATTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 32
0.69 0.08 0.22
Matches are distributed among these distances:
4 28 0.28
5 46 0.46
6 18 0.18
7 4 0.04
8 3 0.03
9 1 0.01
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:6530082 original size:22 final size:22
Alignment explanation
Indices: 6530052--6530183 Score: 62
Period size: 22 Copynumber: 5.9 Consensus size: 22
6530042 CGCTTCAGGT
*
6530052 TTTTTTTTATTTTTTTTATTTA
1 TTTTATTTATTTTTTTTATTTA
***
6530074 TTTTATTTA-TTAGATTAGGTTTA
1 TTTTATTTATTTTTTTTA--TTTA
* *
6530097 -TTTA-ATATTCTTTTTATCTTTA
1 TTTTATTTATT-TTTTT-TATTTA
6530119 TTTTATTT-TTATTTTTGT-TTTA
1 TTTTATTTATT-TTTTT-TATTTA
*
6530141 CTTTT-TTTA-TTTTTTTATTTTT
1 -TTTTATTTATTTTTTTTA-TTTA
*
6530163 TTTTTTTTATTTTGTTTTATT
1 TTTTATTTATTTT-TTTTATT
6530184 ATTCAATTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.01
21 16 0.19
22 32 0.39
23 27 0.33
24 7 0.08
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTATTTATTTTTTTTATTTA
Found at i:6530128 original size:6 final size:6
Alignment explanation
Indices: 6530107--6530175 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
6530097 TTTAATATTC
* * *
6530107 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTG TTTTACTT TTTTTA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA
6530155 TTATTT- TTTTT- TTTTTA TTTT
1 TT-TTTA TTTTTA TTTTTA TTTT
6530176 GTTTTATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
5 14 0.26
6 34 0.64
8 5 0.09
ACGTcount: A:0.12, C:0.03, G:0.01, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:6530129 original size:17 final size:15
Alignment explanation
Indices: 6530107--6530175 Score: 68
Period size: 17 Copynumber: 4.3 Consensus size: 15
6530097 TTTAATATTC
6530107 TTTTTATCTTTATTTTA
1 TTTTTAT-TTT-TTTTA
6530124 TTTTTATTTTTGTTTTA
1 TTTTTA-TTTT-TTTTA
*
6530141 CTTTTTTTATTTTTTTA
1 -TTTTTAT-TTTTTTTA
6530158 TTTTT-TTTTTTTTA
1 TTTTTATTTTTTTTA
6530172 TTTT
1 TTTT
6530176 GTTTTATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
14 12 0.26
15 1 0.02
16 5 0.11
17 20 0.43
18 9 0.19
ACGTcount: A:0.12, C:0.03, G:0.01, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:6530175 original size:9 final size:9
Alignment explanation
Indices: 6530052--6530170 Score: 73
Period size: 9 Copynumber: 12.6 Consensus size: 9
6530042 CGCTTCAGGT
6530052 TTTTTTTTA
1 TTTTTTTTA
6530061 TTTTTTTTA
1 TTTTTTTTA
*
6530070 TTTATTTTA
1 TTTTTTTTA
*
6530079 TTTATTAGATTA
1 TTT-TT--TTTA
*
6530091 GGTTTATTTAATA
1 --TTT-TTT-TTA
*
6530104 TTCTTTTTA
1 TTTTTTTTA
6530113 TCTTTATTTTA
1 T-TTT-TTTTA
*
6530124 TTTTTATT-
1 TTTTTTTTA
*
6530132 TTTGTTTTA
1 TTTTTTTTA
*
6530141 CTTTTTTTA
1 TTTTTTTTA
6530150 -TTTTTTTA
1 TTTTTTTTA
6530158 TTTTTTTT-
1 TTTTTTTTA
6530166 TTTTT
1 TTTTT
6530171 ATTTTGTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
8 19 0.22
9 40 0.46
10 9 0.10
11 8 0.09
12 3 0.03
13 2 0.02
14 6 0.07
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6530272 original size:58 final size:58
Alignment explanation
Indices: 6530210--6530514 Score: 373
Period size: 58 Copynumber: 5.1 Consensus size: 58
6530200 ATAAAAATAA
* * *
6530210 AAAAAAATCTTTTTGGGGAAAAGTTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
* * * *
6530268 AAAAAAAAGTTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATTAAAGTTTC
1 -AAAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTTC
6530330 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAATTTC
* *
6530387 AAAAAAATATTTTT-AGAAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTC
* * * *
6530446 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTC
1 AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA--ATTTC
6530508 AAAAAAA
1 AAAAAAA
6530515 ATTGAAAGTA
Statistics
Matches: 215, Mismatches: 19, Indels: 21
0.84 0.07 0.08
Matches are distributed among these distances:
57 19 0.09
58 67 0.31
59 28 0.13
60 43 0.20
61 35 0.16
62 23 0.11
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
Found at i:6530342 original size:119 final size:118
Alignment explanation
Indices: 6530186--6530516 Score: 397
Period size: 119 Copynumber: 2.8 Consensus size: 118
6530176 GTTTTATTAT
* ** * * *
6530186 TCAA-TTTTCTT-TAAATAAAAA-TAAAAAAAAATCTTTTTGGGGAAAAGTTGAAAGTGTCAATT
1 TCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATT
* * *
6530248 TTTCTTAAAAATAAAATTTCAAAAAAAAGTTTTTTTTGAGGAAAAGTT-AAAAGTA
66 TTTCTTAAAAATAAAATTTCAAAAAAAA-TATTTTTAGA-AAAAAGTTGAAAA-TA
* * *
6530303 TCAATTTTTCTTGAAAATTAAAGTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-T
1 TCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATT
6530366 TTTCTTTAAAAATAAAATTTC-AAAAAAATATTTTTAGAAAAAAGTTGAAAATA
66 TTTC-TTAAAAATAAAATTTCAAAAAAAATATTTTTAGAAAAAAGTTGAAAATA
*
6530419 TCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAAT
* * *
6530484 TTTCCTTGAAAATCAAAGTTTTTCAAAAAAAAT
65 TTTTCTTAAAAAT-AAA--ATTTCAAAAAAAAT
6530517 TGAAAGTATC
Statistics
Matches: 184, Mismatches: 18, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
116 33 0.18
117 23 0.12
118 53 0.29
119 62 0.34
120 1 0.01
121 4 0.02
122 8 0.04
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (118 bp):
TCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATT
TTTCTTAAAAATAAAATTTCAAAAAAAATATTTTTAGAAAAAAGTTGAAAATA
Found at i:6530502 original size:46 final size:46
Alignment explanation
Indices: 6530465--6530559 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
6530455 GTTTTTGAGG
*
6530465 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAA
1 AAAAATTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAA
* *
6530511 AAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAA-ATTTTCAAA
1 AAAAATTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAA
6530556 AAAA
1 AAAA
6530560 TATTTTTGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 12 0.26
46 34 0.74
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (46 bp):
AAAAATTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAA
Found at i:6530513 original size:106 final size:103
Alignment explanation
Indices: 6530403--6530731 Score: 335
Period size: 106 Copynumber: 3.0 Consensus size: 103
6530393 ATATTTTTAG
*
6530403 AAAAAAGTTGAAAATATCAATTTTTCTTAAAAAT-AAAAATTTCAAAAAAAAAGTTTTT-GAGGA
1 AAAAAAATTGAAAATATCAATTTTTCTTAAAAATCAAAAATTTCAAAAAAAAA-TTTTTGGA-GA
*
6530466 AAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCA
64 AAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA--TTTTCA
* * * *
6530509 AAAAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAAATATTTTTGGAGAAA
1 AAAAAAATTGAAAATATCAATTTTTCTTAAAAATCAAAAATTTCAAAAAAAAATTTTTGGAGAAA
*
6530574 AGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
66 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
* *
6530612 AAAAAATATTTTTGGGAAAAAATTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTCAAAAAA
1 AAAAAA-A---TT--G-----A---AAA-TATCAATTTTTCTTAAAAATCAAAAATTTCAAAAAA
* *
6530675 ATAA-TTTTAGAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCA
51 A-AATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
6530728 AAAA
1 AAAA
6530732 TATATTTTTA
Statistics
Matches: 191, Mismatches: 14, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
103 12 0.06
104 1 0.01
105 3 0.02
106 67 0.35
107 20 0.10
109 1 0.01
114 1 0.01
116 65 0.34
117 3 0.02
118 18 0.09
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (103 bp):
AAAAAAATTGAAAATATCAATTTTTCTTAAAAATCAAAAATTTCAAAAAAAAATTTTTGGAGAAA
AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
Found at i:6530638 original size:58 final size:58
Alignment explanation
Indices: 6530511--6530827 Score: 428
Period size: 58 Copynumber: 5.4 Consensus size: 58
6530501 GTTTTTCAAA
* *
6530511 AAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAAATATTTTTGGAG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT--AAATTTTCAAAAAAATATTTTTGGAG
6530571 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGG-G
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGAG
* * * *
6530628 AAAAAATTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAATAATTTTAGAG
1 -AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGAG
* *
6530687 AAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTCAAAAATATATTTTTAGAG
1 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAATTTTCAAAAAAATATTTTTGGAG
* *
6530745 AAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAAATTTC-AAAAAATCAATTTTTGG-G
1 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAAT-AAATTTTCAAAAAAAT--ATTTTTGGAG
6530804 AAAAAGTTGAAAGTATCAATTTTT
1 -AAAAGTTGAAAGTATCAATTTTT
6530828 TTCCTGTATA
Statistics
Matches: 235, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
57 5 0.02
58 162 0.69
59 9 0.04
60 55 0.23
61 4 0.02
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGAG
Found at i:6530811 original size:340 final size:342
Alignment explanation
Indices: 6530210--6530826 Score: 962
Period size: 340 Copynumber: 1.8 Consensus size: 342
6530200 ATAAAAATAA
* * *
6530210 AAAAAAATCTTTTTGGGGAAAAGTTGAAAGTGTCAATTTTTCTTAAAAATAAAATTTCAAAAAAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAA
* * * *
6530275 AGTTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATTAAAGTTTCAAAAAATATT
66 AG-TATTTTTGAGGAAAAATTAAAAGTATCAATTTTCCTTGAAAAATAAAGTTTCAAAAAATATT
*
6530340 TTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAATATTTTTAGAA
130 TTAGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAATATTTTTAGAA
6530405 AAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAAAGTTTTTGAGGAAAAG
195 AAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAAAGTTTTTGAGGAAAAG
6530470 TTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAAAAAAATTGAAAGTATCAATTTTTC
260 TTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAAAAAAATTGAAAGTATCAATTTTTC
6530535 TTGAAAATCAAAATTTTC
325 TTGAAAATCAAAATTTTC
*
6530553 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AAAAAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAA
* *
6530617 A-TATTTTTG-GGAAAAAATTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTCAAAAAAATAA
66 AGTATTTTTGAGG-AAAAATTAAAAGTATCAATTTTCCTTGAAAAATAAAGTTTC-AAAAAAT-A
* *
6530679 TTTTAGA-GAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAATATATTTTTAG
128 TTTTAGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAATATTTTTAG
* * * *
6530743 AGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAAATTTCAAAAAATCAA-TTTTTG-GGA
193 AAAAAAGTTGAAAATATCAATTTTTC-TTAAAAATAAAAATTTCAAAAAA-AAAGTTTTTGAGG-
6530805 AAAAGTTGAAAGTATCAATTTT
255 AAAAGTTGAAAGTATCAATTTT
6530827 TTTCCTGTAT
Statistics
Matches: 251, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
339 21 0.08
340 160 0.64
341 9 0.04
342 7 0.03
343 54 0.22
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (342 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAA
AGTATTTTTGAGGAAAAATTAAAAGTATCAATTTTCCTTGAAAAATAAAGTTTCAAAAAATATTT
TAGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTCAAAAAAATATTTTTAGAAA
AAAGTTGAAAATATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAAAAGTTTTTGAGGAAAAGT
TGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTTCAAAAAAAATTGAAAGTATCAATTTTTCT
TGAAAATCAAAATTTTC
Found at i:6534136 original size:18 final size:19
Alignment explanation
Indices: 6534113--6534174 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
6534103 ACTATGCTTG
6534113 AAAAAATAAAAAAAAT-AA
1 AAAAAATAAAAAAAATGAA
6534131 AAAAAATAAAAAAAATGAA
1 AAAAAATAAAAAAAATGAA
* *
6534150 AAAATGAT-GAAAAAATGAA
1 AAAA-AATAAAAAAAATGAA
6534169 AAAAAA
1 AAAAAA
6534175 AAGTGAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 17 0.44
19 20 0.51
20 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.11
Consensus pattern (19 bp):
AAAAAATAAAAAAAATGAA
Found at i:6534173 original size:9 final size:9
Alignment explanation
Indices: 6534113--6534153 Score: 73
Period size: 9 Copynumber: 4.4 Consensus size: 9
6534103 ACTATGCTTG
6534113 AAAAAATAA
1 AAAAAATAA
6534122 AAAAAATAA
1 AAAAAATAA
6534131 AAAAAATAA
1 AAAAAATAA
6534140 AAAAAATGAA
1 AAAAAAT-AA
6534150 AAAA
1 AAAA
6534154 TGATGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 25 0.81
10 6 0.19
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:6534187 original size:24 final size:22
Alignment explanation
Indices: 6534148--6534192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6534138 AAAAAAAATG
6534148 AAAAAATGATGAAAAAATGAAAA
1 AAAAAATGATGAAAAAA-GAAAA
6534171 AAAAAAGTGAATG-AAAAAGAAA
1 AAAAAA-TG-ATGAAAAAAGAAA
6534193 GACTCAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.50
24 7 0.35
25 3 0.15
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAATGATGAAAAAAGAAAA
Found at i:6535244 original size:41 final size:40
Alignment explanation
Indices: 6535199--6535450 Score: 226
Period size: 41 Copynumber: 6.0 Consensus size: 40
6535189 TGTCAATGAA
*
6535199 CAATTTATTTTTCAAAGTTTCGTTGCCTCTATTTAAAGGAG
1 CAATTTATTTTTCAAAG-TTCGTTGCCTCTATTTAGAGGAG
*
6535240 CAATTTACTTTTTC-AAG-TCGTGGTGCCTCTGTTTAGAGGAG
1 CAATTTA-TTTTTCAAAGTTCGT--TGCCTCTATTTAGAGGAG
* * * * *
6535281 CAATTTACTTTTCAAAAGTCGCGGTGCCTCTGTTTAGAGAAG
1 CAATTTATTTTTC-AAAGT-TCGTTGCCTCTATTTAGAGGAG
*
6535323 CAATTTACTTTTTCAAAAG-TCGTGGTGCCTTTATTTAGAGGAG
1 CAATTTA-TTTTTC-AAAGTTCGT--TGCCTCTATTTAGAGGAG
* *
6535366 CAATTTACTTTTCAAAG-TCATTGTGCCTCTATTTAGAGGAG
1 CAATTTATTTTTCAAAGTTC-GT-TGCCTCTATTTAGAGGAG
*
6535407 CAATTTATGTTCTTCAAAG-TCGTTGAGCCTCTGTTTAGAGGAG
1 CAATTTAT-TT-TTCAAAGTTCGTT--GCCTCTATTTAGAGGAG
6535450 C
1 C
6535451 TTTGGTCAAA
Statistics
Matches: 178, Mismatches: 18, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
39 4 0.02
40 5 0.03
41 67 0.38
42 42 0.24
43 58 0.33
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (40 bp):
CAATTTATTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAG
Found at i:6535350 original size:43 final size:42
Alignment explanation
Indices: 6535199--6535450 Score: 302
Period size: 43 Copynumber: 6.0 Consensus size: 42
6535189 TGTCAATGAA
*
6535199 CAATTTA-TTTTTCAAAGTTTCGT--TGCCTCTATTTAAAGGAG
1 CAATTTACTTTTTCAAAG--TCGTGGTGCCTCTATTTAGAGGAG
*
6535240 CAATTTACTTTTTC-AAGTCGTGGTGCCTCTGTTTAGAGGAG
1 CAATTTACTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAG
* * *
6535281 CAATTTAC-TTTTCAAAAGTCGCGGTGCCTCTGTTTAGAGAAG
1 CAATTTACTTTTTC-AAAGTCGTGGTGCCTCTATTTAGAGGAG
*
6535323 CAATTTACTTTTTCAAAAGTCGTGGTGCCTTTATTTAGAGGAG
1 CAATTTACTTTTTC-AAAGTCGTGGTGCCTCTATTTAGAGGAG
* *
6535366 CAATTTAC-TTTTCAAAGTCATTGTGCCTCTATTTAGAGGAG
1 CAATTTACTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAG
* * *
6535407 CAATTTA-TGTTCTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAG
1 CAATTTACT-TT-TTCAAAGTCGTGGTGCCTCTATTTAGAGGAG
6535450 C
1 C
6535451 TTTGGTCAAA
Statistics
Matches: 188, Mismatches: 14, Indels: 16
0.86 0.06 0.07
Matches are distributed among these distances:
39 4 0.02
40 5 0.03
41 66 0.35
42 46 0.24
43 67 0.36
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (42 bp):
CAATTTACTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAG
Found at i:6535365 original size:126 final size:124
Alignment explanation
Indices: 6535199--6535446 Score: 324
Period size: 126 Copynumber: 2.0 Consensus size: 124
6535189 TGTCAATGAA
*
6535199 CAATTTATTTTTCAAAGTTTCGTTGCCTCTATTTAAAGGAGCAATTTACTTTTTC-AAGTCGTGG
1 CAATTTATTTTTCAAAG-TTCGTTGCCTCTATTTAAAGGAGCAATTTAC-TTTTCAAAGTCATGG
* *
6535263 TGCCTCTGTTTAGAGGAGCAATTTA-CTT-TTCAAAAGTCGCGGTGCCTCTGTTTAGAGAAG
64 TGCCTCTATTTAGAGGAGCAATTTATCTTCTTC-AAAGTCGCGGAGCCTCTGTTTAGAGAAG
* *
6535323 CAATTTACTTTTTCAAAAG-TCGTGGTGCCTTTATTTAGAGGAGCAATTTACTTTTCAAAGTCAT
1 CAATTTA-TTTTTC-AAAGTTCGT--TGCCTCTATTTAAAGGAGCAATTTACTTTTCAAAGTCAT
* * **
6535387 TGTGCCTCTATTTAGAGGAGCAATTTATGTTCTTCAAAGTCGTTGAGCCTCTGTTTAGAG
62 GGTGCCTCTATTTAGAGGAGCAATTTATCTTCTTCAAAGTCGCGGAGCCTCTGTTTAGAG
6535447 GAGCTTTGGT
Statistics
Matches: 108, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
124 11 0.10
125 11 0.10
126 59 0.55
127 24 0.22
128 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (124 bp):
CAATTTATTTTTCAAAGTTCGTTGCCTCTATTTAAAGGAGCAATTTACTTTTCAAAGTCATGGTG
CCTCTATTTAGAGGAGCAATTTATCTTCTTCAAAGTCGCGGAGCCTCTGTTTAGAGAAG
Found at i:6535468 original size:1 final size:1
Alignment explanation
Indices: 6535458--6535564 Score: 52
Period size: 1 Copynumber: 107.0 Consensus size: 1
6535448 AGCTTTGGTC
* * * * * * * * * * * *
6535458 AAAAACAAAAAAAAAAACACAAAAAACACAAAAAACATAAAAAAACATAAAAAAACACAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
6535523 AAAAAACATAAAAAACATAAAAAAATAAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6535565 GACAATGTTG
Statistics
Matches: 70, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:6535481 original size:10 final size:10
Alignment explanation
Indices: 6535458--6535521 Score: 76
Period size: 10 Copynumber: 6.4 Consensus size: 10
6535448 AGCTTTGGTC
*
6535458 AAAAACAAAA
1 AAAAACACAA
*
6535468 AAAAAAACACA
1 AAAAACACA-A
6535479 AAAAACAC-A
1 AAAAACACAA
*
6535488 AAAAACATAA
1 AAAAACACAA
*
6535498 AAAAACATAA
1 AAAAACACAA
6535508 AAAAACACAA
1 AAAAACACAA
6535518 AAAA
1 AAAA
6535522 TAAAAAACAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
9 8 0.17
10 31 0.66
11 8 0.17
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAACACAA
Found at i:6535527 original size:36 final size:35
Alignment explanation
Indices: 6535468--6535564 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 35
6535458 AAAAACAAAA
*
6535468 AAAAAAACACAAAAAACACAAAAAACATAAAAAAACAT
1 AAAAAAACAC-AAAAA-ATAAAAAACAT-AAAAAACAT
6535506 AAAAAAACACAAAAAATAAAAAACATAAAAAACAT
1 AAAAAAACACAAAAAATAAAAAACATAAAAAACAT
* *
6535541 AAAAAAATAAAAAAAAATAAAAAA
1 AAAAAAA-CACAAAAAATAAAAAA
6535565 GACAATGTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
35 16 0.29
36 24 0.44
37 5 0.09
38 10 0.18
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.07
Consensus pattern (35 bp):
AAAAAAACACAAAAAATAAAAAACATAAAAAACAT
Found at i:6535536 original size:10 final size:10
Alignment explanation
Indices: 6535468--6535564 Score: 95
Period size: 9 Copynumber: 10.6 Consensus size: 10
6535458 AAAAACAAAA
6535468 AAAAAAACA-
1 AAAAAAACAT
*
6535477 CAAAAAACA-
1 AAAAAAACAT
*
6535486 CAAAAAACAT
1 AAAAAAACAT
6535496 AAAAAAACAT
1 AAAAAAACAT
6535506 AAAAAAAC--
1 AAAAAAACAT
*
6535514 ACAAAAA-AT
1 AAAAAAACAT
6535523 -AAAAAACAT
1 AAAAAAACAT
6535532 -AAAAAACAT
1 AAAAAAACAT
6535541 -AAAAAA-AT
1 AAAAAAACAT
*
6535549 AAAAAAAAAT
1 AAAAAAACAT
6535559 AAAAAA
1 AAAAAA
6535565 GACAATGTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
8 13 0.17
9 40 0.51
10 25 0.32
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAACAT
Found at i:6535538 original size:45 final size:43
Alignment explanation
Indices: 6535464--6535564 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 43
6535454 GGTCAAAAAC
* *
6535464 AAAAAAA-AAAACACAAAAAACACAAAAAACATAAAAAAACATAA
1 AAAAAAACAAAAAATAAAAAACACAAAAAACAT-AAAAAA-ATAA
* *
6535508 AAAAACACAAAAAATAAAAAACATAAAAAACATAAAAAAATAA
1 AAAAAAACAAAAAATAAAAAACACAAAAAACATAAAAAAATAA
*
6535551 AAAAAAATAAAAAA
1 AAAAAAACAAAAAA
6535565 GACAATGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 16 0.32
44 12 0.24
45 22 0.44
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (43 bp):
AAAAAAACAAAAAATAAAAAACACAAAAAACATAAAAAAATAA
Found at i:6535734 original size:10 final size:10
Alignment explanation
Indices: 6535719--6535788 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 10
6535709 AATTCGATTT
6535719 TTATTTTGTA
1 TTATTTTGTA
6535729 TTATTTT-TA
1 TTATTTTGTA
*
6535738 TTTTTTTGTA
1 TTATTTTGTA
*
6535748 TT-TTATGTA
1 TTATTTTGTA
*
6535757 TT-TTAT-TA
1 TTATTTTGTA
6535765 TTTATTTAT-TA
1 -TTATTT-TGTA
*
6535776 TTATTATGTA
1 TTATTTTGTA
6535786 TTA
1 TTA
6535789 ATATATGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
8 2 0.04
9 23 0.45
10 23 0.45
11 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (10 bp):
TTATTTTGTA
Found at i:6535766 original size:17 final size:18
Alignment explanation
Indices: 6535746--6535782 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
6535736 TATTTTTTTG
6535746 TATTTTATGTATT-TTAT
1 TATTTTATGTATTATTAT
*
6535763 TA-TTTATTTATTATTAT
1 TATTTTATGTATTATTAT
6535780 TAT
1 TAT
6535783 GTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TATTTTATGTATTATTAT
Found at i:6535796 original size:41 final size:39
Alignment explanation
Indices: 6535751--6535870 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 39
6535741 TTTTGTATTT
6535751 TATGTATTTTATTATTTATTTATTATTATTATGTATTAATA
1 TATGTATTTTATTATTTATTTATTATTATTAT-TATT-ATA
* * * *
6535792 TATGTATATCT-TTATTTATTTATTTTTGTTAATATT-TA
1 TATGTAT-TTTATTATTTATTTATTATTATTATTATTATA
* *
6535830 TATGTATTTTATTTATATAGTTATATATTTATTATTATTAT
1 TATGTATTTTA-TTATTTATTTAT-TA-TTATTATTATTAT
6535871 TATTTTTATC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
37 2 0.03
38 9 0.14
39 10 0.16
40 5 0.08
41 34 0.54
42 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (39 bp):
TATGTATTTTATTATTTATTTATTATTATTATTATTATA
Found at i:6535841 original size:31 final size:31
Alignment explanation
Indices: 6535806--6535938 Score: 85
Period size: 31 Copynumber: 4.1 Consensus size: 31
6535796 TATATCTTTA
6535806 TTTATTTATTTTTGTTAATATTTA-TATGTAT
1 TTTATTTATTTTTGTTAATATTTATTAT-TAT
* *
6535837 TTTATTTA-TATAGTTATATATTTATTATTAT
1 TTTATTTATTTTTGTTA-ATATTTATTATTAT
*
6535868 TATTATTT-TTATCTTG-TAATATTTTTTTGATTTAT
1 T-TTATTTATT-T-TTGTTAATA-TTTATT-A-TTAT
* * * *
6535903 CTTATTTTATTATCTGTTAATTTTTATTTTTAT
1 TTTA-TTTATT-TTTGTTAATATTTATTATTAT
6535936 TTT
1 TTT
6535939 TTTCGTTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
30 6 0.08
31 19 0.24
32 13 0.16
33 13 0.16
34 6 0.08
35 14 0.18
36 8 0.10
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (31 bp):
TTTATTTATTTTTGTTAATATTTATTATTAT
Found at i:6535875 original size:47 final size:50
Alignment explanation
Indices: 6535758--6535879 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 50
6535748 TTTTATGTAT
** *
6535758 TTTATTATTTATTTATTA-TTATTATGTATTAATATATGTATATCTTTATTTA
1 TTTATTA-TTA-TTATTATTTATTATGTATT-ATATATGTATATAGTTATATA
* * * *
6535810 TTTATTTTTGTTAATATTTA-TATGTATT-T-TATTTATATAGTTATATA
1 TTTATTATTATTATTATTTATTATGTATTATATATGTATATAGTTATATA
6535857 TTTATTATTATTATTATTT-TTAT
1 TTTATTATTATTATTATTTATTAT
6535880 CTTGTAATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
47 33 0.57
48 1 0.02
50 13 0.22
51 5 0.09
52 6 0.10
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.66
Consensus pattern (50 bp):
TTTATTATTATTATTATTTATTATGTATTATATATGTATATAGTTATATA
Found at i:6536773 original size:11 final size:10
Alignment explanation
Indices: 6536753--6536879 Score: 67
Period size: 11 Copynumber: 11.8 Consensus size: 10
6536743 GCCGTTCCAG
6536753 ATTTTTTTTT
1 ATTTTTTTTT
6536763 ATTTGTTTTTT
1 ATTT-TTTTTT
* *
6536774 A-TTTATTTG
1 ATTTTTTTTT
*
6536783 ATTTATTATATT
1 ATTT-TT-TTTT
* * *
6536795 AGGTTTATTTA
1 A-TTTTTTTTT
*
6536806 ATATTCTTTTT
1 AT-TTTTTTTT
*
6536817 ATCTTTATTTT
1 AT-TTTTTTTT
6536828 ATTTTTATTTTT
1 A-TTTT-TTTTT
6536840 ATTTTTGTTTT
1 ATTTTT-TTTT
*
6536851 ACTTTTTTTT
1 ATTTTTTTTT
*
6536861 ATTTTATTTT
1 ATTTTTTTTT
6536871 ATTTATTTT
1 ATTT-TTTT
6536880 GTTTTATTAT
Statistics
Matches: 86, Mismatches: 21, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
9 5 0.06
10 25 0.29
11 44 0.51
12 10 0.12
13 2 0.02
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:6536870 original size:10 final size:10
Alignment explanation
Indices: 6536813--6536887 Score: 73
Period size: 11 Copynumber: 7.2 Consensus size: 10
6536803 TTAATATTCT
6536813 TTTTATCTTTA
1 TTTTAT-TTTA
6536824 TTTTATTTTTA
1 TTTTA-TTTTA
*
6536835 TTTTTATTTTTG
1 -TTTTA-TTTTA
6536847 TTTTACTTTT-
1 TTTTA-TTTTA
6536857 TTTTATTTTA
1 TTTTATTTTA
6536867 TTTTA-TTTA
1 TTTTATTTTA
*
6536876 TTTTGTTTTA
1 TTTTATTTTA
6536886 TT
1 TT
6536888 ATTCAATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
9 12 0.21
10 16 0.28
11 18 0.32
12 11 0.19
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTATTTTA
Done.