Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 28 of 74
Found at i:6377402 original size:8 final size:9
Alignment explanation
Indices: 6377377--6377401 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6377367 AATATCAGAT
6377377 TTTTTTTTC
1 TTTTTTTTC
6377386 TTTTTTTTC
1 TTTTTTTTC
6377395 TTTTTTT
1 TTTTTTT
6377402 CCCCCTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6385446 original size:52 final size:53
Alignment explanation
Indices: 6385379--6385535 Score: 212
Period size: 52 Copynumber: 3.0 Consensus size: 53
6385369 TGGACAAGAA
* * *
6385379 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGCAAGTTT
* *
6385431 GACTTACAAGAGAAGAATTCTAAAATGAAAGA-GATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGCAAGTTT
* * * *
6385483 GACTTACAGGAAAAGAATTCTAAGAGGAAA-AGAATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGCAAGTTT
6385535 G
1 G
6385536 TATGATTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 1 0.01
52 86 0.92
53 6 0.06
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (53 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:6386055 original size:31 final size:31
Alignment explanation
Indices: 6386020--6386088 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
6386010 AGGCTTTTAG
*
6386020 CCCAACAAATGGTATCAGAGCTGCGGTGTTT
1 CCCAACAAATGGTATCAGAGCTGCGGTGTTC
* *
6386051 CCCAATAAATGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGCGGTGTTC
6386082 CCCAACA
1 CCCAACA
6386089 GATTAATACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGCGGTGTTC
Found at i:6390398 original size:39 final size:39
Alignment explanation
Indices: 6390355--6390432 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
6390345 ATATTTGCGA
*
6390355 CCCAATATTACTTTGTCTGTGCTGATGTGATCAATTGAT
1 CCCAATATTACTTTATCTGTGCTGATGTGATCAATTGAT
* *
6390394 CCCAATGTTACTTTATTTGTGCTGATGTGATCAATTGAT
1 CCCAATATTACTTTATCTGTGCTGATGTGATCAATTGAT
6390433 TTATCTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (39 bp):
CCCAATATTACTTTATCTGTGCTGATGTGATCAATTGAT
Found at i:6390653 original size:2 final size:2
Alignment explanation
Indices: 6390646--6390679 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6390636 GGCTTTGGTA
6390646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6390680 CTATGCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6390955 original size:9 final size:8
Alignment explanation
Indices: 6390931--6391050 Score: 82
Period size: 9 Copynumber: 13.8 Consensus size: 8
6390921 TTAGCATTAG
6390931 AAAAAATT
1 AAAAAATT
*
6390939 CAAGAAATCT
1 -AAAAAAT-T
6390949 AAAAAATTTT
1 AAAAAA--TT
6390959 AAAAAATTTT
1 AAAAAA--TT
6390969 AAAAAATT
1 AAAAAATT
6390977 AAAAATATTT
1 AAAAA-A-TT
*
6390987 TAAAAATT
1 AAAAAATT
6390995 -AAAAATT
1 AAAAAATT
6391002 CAAAAAATT
1 -AAAAAATT
6391011 AAAACAAATT
1 -AAA-AAATT
*
6391021 -AAAATTT
1 AAAAAATT
*
6391028 AAAAAATC
1 AAAAAATT
6391036 ATAAAAATT
1 A-AAAAATT
6391045 AAAAAA
1 AAAAAA
6391051 AATATAAATT
Statistics
Matches: 93, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
7 11 0.12
8 22 0.24
9 30 0.32
10 29 0.31
11 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (8 bp):
AAAAAATT
Found at i:6390963 original size:10 final size:10
Alignment explanation
Indices: 6390948--6390992 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
6390938 TCAAGAAATC
6390948 TAAAAAATTT
1 TAAAAAATTT
6390958 TAAAAAATTT
1 TAAAAAATTT
6390968 TAAAAAA--T
1 TAAAAAATTT
6390976 TAAAAATATTT
1 TAAAAA-ATTT
6390987 TAAAAA
1 TAAAAA
6390993 TTAAAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 17 0.53
11 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:6391006 original size:25 final size:25
Alignment explanation
Indices: 6390970--6391049 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
6390960 AAAAATTTTA
* *
6390970 AAAAATTAAAAATATTTTAAAAATT
1 AAAAATTAAAAAAATTATAAAAATT
* *
6390995 AAAAATTCAAAAAATTAAAACAAATT
1 AAAAATTAAAAAAATTATAA-AAATT
* *
6391021 -AAAATTTAAAAAATCATAAAAATT
1 AAAAATTAAAAAAATTATAAAAATT
6391045 AAAAA
1 AAAAA
6391050 AAATATAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 5 0.11
25 36 0.78
26 5 0.11
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAATTAAAAAAATTATAAAAATT
Found at i:6391042 original size:18 final size:17
Alignment explanation
Indices: 6390970--6391050 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
6390960 AAAAATTTTA
**
6390970 AAAAATTAAAAATATTTT
1 AAAAATTAAAAA-ATCAT
*
6390988 AAAAATTAAAAATTCA-
1 AAAAATTAAAAAATCAT
6391004 AAAAATTAAAACAA--ATT
1 AAAAATTAAAA-AATCA-T
*
6391021 AAAATTTAAAAAATCAT
1 AAAAATTAAAAAATCAT
6391038 AAAAATTAAAAAA
1 AAAAATTAAAAAA
6391051 AATATAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 13 0.25
17 25 0.48
18 13 0.25
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATTAAAAAATCAT
Found at i:6391061 original size:34 final size:34
Alignment explanation
Indices: 6390951--6391058 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
6390941 AGAAATCTAA
** **
6390951 AAAATTTTAAAAAATTTTAAAAAATTAAAAATATTTT
1 AAAA-TTTAAAAAATCAT-AAAAATTAAAAA-AAATT
* * *
6390988 AAAAATTAAAAATTCA-AAAAATTAAAACAAATT
1 AAAATTTAAAAAATCATAAAAATTAAAAAAAATT
6391021 AAAATTTAAAAAATCATAAAAATTAAAAAAAATAT
1 AAAATTTAAAAAATCATAAAAATTAAAAAAAAT-T
6391056 AAA
1 AAA
6391059 TTTTTGAAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 17 0.29
34 26 0.44
35 4 0.07
36 8 0.14
37 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (34 bp):
AAAATTTAAAAAATCATAAAAATTAAAAAAAATT
Found at i:6391289 original size:24 final size:25
Alignment explanation
Indices: 6391262--6391309 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6391252 AACATTAAAA
6391262 TTTTAAAAAT-AAAAATTTGGAAAT
1 TTTTAAAAATCAAAAATTTGGAAAT
* * *
6391286 TTTTAAGAATCCAAAATTTTGAAA
1 TTTTAAAAATCAAAAATTTGGAAA
6391310 AATATGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (25 bp):
TTTTAAAAATCAAAAATTTGGAAAT
Found at i:6391531 original size:24 final size:24
Alignment explanation
Indices: 6391480--6391541 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
6391470 CATATGCAAC
* ** *
6391480 TTTTTCAATTTTTTATTTTTCAGA
1 TTTTTAAATTTTTTAAATTTAAGA
6391504 TTTTTAAATTTTTTAAATTTAAG-
1 TTTTTAAATTTTTTAAATTTAAGA
*
6391527 TTTTTAGATTGTTTT
1 TTTTTAAATT-TTTT
6391542 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 9 0.28
24 23 0.72
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTTTAAATTTTTTAAATTTAAGA
Found at i:6391798 original size:21 final size:21
Alignment explanation
Indices: 6391774--6391828 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
6391764 TTTTAGAAAA
**
6391774 TTTTAGAATTTTTTTTTAATT
1 TTTTAGAATTTTTTAATAATT
* **
6391795 TTTTATAATTTTACAATAATT
1 TTTTAGAATTTTTTAATAATT
6391816 TTTT-GAATTTTTT
1 TTTTAGAATTTTTT
6391829 GAATTTTTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTAGAATTTTTTAATAATT
Found at i:6391838 original size:10 final size:9
Alignment explanation
Indices: 6391812--6391837 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6391802 ATTTTACAAT
6391812 AATTTTTTG
1 AATTTTTTG
6391821 AATTTTTTG
1 AATTTTTTG
6391830 AATTTTTT
1 AATTTTTT
6391838 TCTTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
AATTTTTTG
Found at i:6391861 original size:18 final size:18
Alignment explanation
Indices: 6391840--6391889 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
6391830 AATTTTTTTC
6391840 TTTTTTAGATTTTAGATA
1 TTTTTTAGATTTTAGATA
* * * *
6391858 TTTTTAAAATTTTTGTTA
1 TTTTTTAGATTTTAGATA
6391876 TTTTTTGAGATTTT
1 TTTTTT-AGATTTT
6391890 GAGGTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (18 bp):
TTTTTTAGATTTTAGATA
Found at i:6391890 original size:18 final size:18
Alignment explanation
Indices: 6391822--6391890 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 18
6391812 AATTTTTTGA
*
6391822 ATTTTTTGA-ATTTTTTT
1 ATTTTTTGAGATTTTGTT
* *
6391839 CTTTTTT-AGATTTTAGAT
1 ATTTTTTGAGATTTT-GTT
* *
6391857 A-TTTTTAAAATTTTTGTT
1 ATTTTTTGAGA-TTTTGTT
6391875 ATTTTTTGAGATTTTG
1 ATTTTTTGAGATTTTG
6391891 AGGTTTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.03
17 16 0.41
18 11 0.28
19 11 0.28
ACGTcount: A:0.22, C:0.01, G:0.10, T:0.67
Consensus pattern (18 bp):
ATTTTTTGAGATTTTGTT
Found at i:6391938 original size:24 final size:25
Alignment explanation
Indices: 6391893--6391940 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6391883 AGATTTTGAG
* * *
6391893 GTTTTTTTTTTTGTTTAGATTTTTA
1 GTTTTTTTATTTGTTCACATTTTTA
6391918 GTTTTTTTATTT-TTCACATTTTT
1 GTTTTTTTATTTGTTCACATTTTT
6391941 GAAAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.75
Consensus pattern (25 bp):
GTTTTTTTATTTGTTCACATTTTTA
Found at i:6394094 original size:62 final size:62
Alignment explanation
Indices: 6394028--6394148 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
6394018 ATGAGAAATG
* * * *
6394028 TAAAATTAGTATCATTTAATGTAAAATGGGTATGAATTGTCATAATACACTAAAAAAAACTA
1 TAAAATTAATATCATTTAACGTAAAATGAGTATAAATTGTCATAATACACTAAAAAAAACTA
**
6394090 TAAAATTAATATCATTTAACGTAAAATGAGTATAAATTGTTGTAATACACTAAAAAAAA
1 TAAAATTAATATCATTTAACGTAAAATGAGTATAAATTGTCATAATACACTAAAAAAAA
6394149 TTATGACAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (62 bp):
TAAAATTAATATCATTTAACGTAAAATGAGTATAAATTGTCATAATACACTAAAAAAAACTA
Found at i:6396890 original size:13 final size:13
Alignment explanation
Indices: 6396872--6396896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6396862 GAAAAATTAT
6396872 TAAATAATAAAAA
1 TAAATAATAAAAA
6396885 TAAATAATAAAA
1 TAAATAATAAAA
6396897 TATTAATAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:6397069 original size:13 final size:13
Alignment explanation
Indices: 6397051--6397085 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
6397041 TAAATTTATA
6397051 AAATTAAAACCTT
1 AAATTAAAACCTT
6397064 AAATT-AAACCTT
1 AAATTAAAACCTT
*
6397076 AAAATAAAAC
1 AAATTAAAAC
6397086 TCCAAAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATTAAAACCTT
Found at i:6397195 original size:14 final size:13
Alignment explanation
Indices: 6397154--6397196 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
6397144 CCCTAAGTGG
6397154 AATGTAAACTCTAA
1 AATGTAAAC-CTAA
6397168 AAT-TAAACCTTAA
1 AATGTAAACC-TAA
6397181 AATGTAAATCCTAA
1 AATGTAAA-CCTAA
6397195 AA
1 AA
6397197 CAAAACCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.04
13 11 0.42
14 12 0.46
15 2 0.08
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (13 bp):
AATGTAAACCTAA
Found at i:6397235 original size:20 final size:20
Alignment explanation
Indices: 6397197--6397235 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6397187 AATCCTAAAA
*
6397197 CAAAACCCTAAGTGAAAACC
1 CAAAACCCTAAATGAAAACC
*
6397217 CAAAACCCTAAATGTAAAC
1 CAAAACCCTAAATGAAAAC
6397236 ATTAAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.28, G:0.08, T:0.13
Consensus pattern (20 bp):
CAAAACCCTAAATGAAAACC
Found at i:6399637 original size:3 final size:3
Alignment explanation
Indices: 6399609--6399653 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
6399599 GCAAATTAAC
* * * *
6399609 AAT AAT ACT AAT ACT AAT ACT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6399654 GATTATACTA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6403057 original size:68 final size:69
Alignment explanation
Indices: 6402980--6403153 Score: 178
Period size: 68 Copynumber: 2.6 Consensus size: 69
6402970 AAGTTGGCTA
* * * *
6402980 GCACCCAATGAAAATTTAAATCTAGTTTAATTGACACCT-TATG-AGGAGATTTAAG-CCTAGCT
1 GCACTCAATGAAAATTTAAACCTAGTTTAATTGGCACCTCTATGAAAGA-ATTTAAGACC-AGCT
6403042 TAGTTG
64 TAGTTG
* * * * *
6403048 GCACTCAATGAAGATTTAACCCCAGTTTAATTGGCA-CTCTATGAAAGAATTTAAGACCGGTTTA
1 GCACTCAATGAAAATTTAAACCTAGTTTAATTGGCACCTCTATGAAAGAATTTAAGACCAGCTTA
6403112 GTTG
66 GTTG
* * *
6403116 ACACTCAATGAAAGATTT-AAGCTAGTTTAGTTGGCACC
1 GCACTCAATGAAA-ATTTAAACCTAGTTTAATTGGCACC
6403154 AAGGCAAATT
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
67 2 0.02
68 74 0.86
69 10 0.12
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (69 bp):
GCACTCAATGAAAATTTAAACCTAGTTTAATTGGCACCTCTATGAAAGAATTTAAGACCAGCTTA
GTTG
Found at i:6403064 original size:33 final size:34
Alignment explanation
Indices: 6402864--6403280 Score: 257
Period size: 35 Copynumber: 12.3 Consensus size: 34
6402854 AGAATTTAGT
* * * *
6402864 CTAGTTTAGCTAGCACTC-TTGAAAAGATGTAAGC
1 CTAGTTTAGTTGGCACTCAATG-AAAGATTTAAGC
* * * *
6402898 TTTGTTTAGTTGGCACCCTATGAAAGAATTTAAGC
1 CTAGTTTAGTTGGCACTCAATGAAAG-ATTTAAGC
* * * * *
6402933 TTAGCTTAGTTGGCACCCAATAAGAAGACTTAAGCC
1 CTAGTTTAGTTGGCACTCAATGA-AAGATTTAAG-C
* * * * * **
6402969 CAAG-TTGGCTAGCACCCAATGAAA-ATTTAAAT
1 CTAGTTTAGTTGGCACTCAATGAAAGATTTAAGC
* * * *
6403001 CTAGTTTAATTGACAC-CTTATGAGGAGATTTAAGC
1 CTAGTTTAGTTGGCACTC-AATGA-AAGATTTAAGC
* *
6403036 CTAGCTTAGTTGGCACTCAATG-AAGATTTAACC
1 CTAGTTTAGTTGGCACTCAATGAAAGATTTAAGC
* * *
6403069 CCAGTTTAATTGGCACTCTATGAAAGAATTTAAGAC
1 CTAGTTTAGTTGGCACTCAATGAAAG-ATTTAAG-C
* *
6403105 C-GGTTTAGTTGACACTCAATGAAAGATTTAAG-
1 CTAGTTTAGTTGGCACTCAATGAAAGATTTAAGC
* *
6403137 CTAGTTTAGTTGGCAC-CAAGGCAA-ATTTAAGC
1 CTAGTTTAGTTGGCACTCAATGAAAGATTTAAGC
* * *
6403169 CCAGTTTAG-TGGCACT-TATGAAAAGATATAAGC
1 CTAGTTTAGTTGGCACTCAATG-AAAGATTTAAGC
* *
6403202 CTAGTTTAATTGACA-TCCAATGAAAGATTTAAGC
1 CTAGTTTAGTTGGCACT-CAATGAAAGATTTAAGC
* * * * *
6403236 CTAGTGTAGCTAGTACT-TATGAAAAGATTTAAGC
1 CTAGTTTAGTTGGCACTCAATG-AAAGATTTAAGC
6403270 CTAGTTTAGTT
1 CTAGTTTAGTT
6403281 AGCAACTAGG
Statistics
Matches: 292, Mismatches: 69, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
31 15 0.05
32 21 0.07
33 72 0.25
34 75 0.26
35 100 0.34
36 9 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (34 bp):
CTAGTTTAGTTGGCACTCAATGAAAGATTTAAGC
Found at i:6403111 original size:35 final size:34
Alignment explanation
Indices: 6403026--6403234 Score: 157
Period size: 33 Copynumber: 6.3 Consensus size: 34
6403016 CCTTATGAGG
* *
6403026 AGATTTAAG-CCTAGCTTAGTTGGCACTCAATG-A
1 AGATTTAAGACC-AGTTTAATTGGCACTCAATGAA
** *
6403059 AGATTTAACCCCAGTTTAATTGGCACTCTATGAA
1 AGATTTAAGACCAGTTTAATTGGCACTCAATGAA
* * *
6403093 AGAATTTAAGACCGGTTTAGTTGACACTCAATGAA
1 AG-ATTTAAGACCAGTTTAATTGGCACTCAATGAA
* * * *
6403128 AGATTTAAG-CTAGTTTAGTTGGCAC-CAAGGCA
1 AGATTTAAGACCAGTTTAATTGGCACTCAATGAA
* * *
6403160 A-ATTTAAGCCCAGTTT-AGTGGCACT-TATGAAA
1 AGATTTAAGACCAGTTTAATTGGCACTCAATG-AA
* *
6403192 AGATATAAG-CCTAGTTTAATTGACA-TCCAATGAA
1 AGATTTAAGACC-AGTTTAATTGGCACT-CAATGAA
6403226 AGATTTAAG
1 AGATTTAAG
6403235 CCTAGTGTAG
Statistics
Matches: 139, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
31 15 0.11
32 16 0.12
33 50 0.36
34 27 0.19
35 31 0.22
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (34 bp):
AGATTTAAGACCAGTTTAATTGGCACTCAATGAA
Found at i:6403167 original size:31 final size:34
Alignment explanation
Indices: 6403026--6403280 Score: 180
Period size: 34 Copynumber: 7.6 Consensus size: 34
6403016 CCTTATGAGG
* * *
6403026 AGATTTAAGCCTAGCTTAGTTGGCACTCAATG-A
1 AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
* * * *
6403059 AGATTTAACCCCAGTTTAATTGGCACTCTATGAA
1 AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
* * * *
6403093 AGAATTTAAGACCGGTTTAGTTGACACTCAATGAA
1 AG-ATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
* *
6403128 AGATTTAAG-CTAGTTTAGTTGGCAC-CAAGGCA
1 AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
* * *
6403160 A-ATTTAAGCCCAGTTTAG-TGGCACTTATGAAA
1 AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
* * * * *
6403192 AGATATAAGCCTAGTTTAATTGACA-TCCAATGAA
1 AGATTTAAGCCCAGTTTAGTTGGCACT-CAAGGAA
* * * * * * * *
6403226 AGATTTAAGCCTAGTGTAGCTAGTACTTATGAAA
1 AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
*
6403260 AGATTTAAGCCTAGTTTAGTT
1 AGATTTAAGCCCAGTTTAGTT
6403281 AGCAACTAGG
Statistics
Matches: 172, Mismatches: 42, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
31 13 0.08
32 18 0.10
33 55 0.32
34 57 0.33
35 29 0.17
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (34 bp):
AGATTTAAGCCCAGTTTAGTTGGCACTCAAGGAA
Found at i:6403397 original size:34 final size:34
Alignment explanation
Indices: 6403311--6403397 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
6403301 AACTTGGCTT
6403311 GCACCTAATGAAAA-TTTAAGTCTAGTTTAGCTA
1 GCACCTAATGAAAAGTTTAAGTCTAGTTTAGCTA
* * *
6403344 GTACC-AATGAAAAGATTTAAGT-TCAGTTTATCTG
1 GCACCTAATGAAAAG-TTTAAGTCT-AGTTTAGCTA
*
6403378 GCACCTCATGAAAAGTTTAA
1 GCACCTAATGAAAAGTTTAA
6403398 ACCCAGTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 8 0.18
33 5 0.11
34 24 0.53
35 8 0.18
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (34 bp):
GCACCTAATGAAAAGTTTAAGTCTAGTTTAGCTA
Found at i:6404399 original size:19 final size:19
Alignment explanation
Indices: 6404375--6404420 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6404365 GTAATAAAAT
*
6404375 AAAAT-AAAATAAAAATTAA
1 AAAATAAAAAT-AAAATGAA
6404394 AAAATAAAAATAAAATGAA
1 AAAATAAAAATAAAATGAA
6404413 AAAA-AAAA
1 AAAATAAAA
6404421 CCTGCGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 16 0.64
20 5 0.20
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAATAAAAATAAAATGAA
Found at i:6405271 original size:3 final size:3
Alignment explanation
Indices: 6405265--6405323 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
6405255 AAAGAATAAT
* *
6405265 AAC AAC AAC AAC GAC AAC AAC AAC AAC AAT AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
6405313 AAC AAC AAC AA
1 AAC AAC AAC AA
6405324 TAATAATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.66, C:0.31, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:6405328 original size:3 final size:3
Alignment explanation
Indices: 6405322--6405356 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6405312 CAACAACAAC
6405322 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6405357 ACAAGTTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6405816 original size:89 final size:89
Alignment explanation
Indices: 6405699--6406093 Score: 370
Period size: 89 Copynumber: 4.4 Consensus size: 89
6405689 GTCGAGGTAA
* * * * ** *
6405699 AAAATAAATGATCAAGG-CGAGACTACGAATCATATGATTTGGATGAAACCACGAGTCAAAATAG
1 AAAATAAATGATC-AGGATGAAACCACGAATCATATGATCTGGACAAAACCACGAGTCAAAATAA
* * * * *
6405763 AGGGATTAGGATCGAGTCGAGGTTG
65 AGCGACTAAGATCGAGTCGAGATCG
* *
6405788 AAAATAAAAT-ATCAGGATGAAACCACGAATCATATGA-CTGAGATAAAACCACAAGTCAAAATA
1 AAAAT-AAATGATCAGGATGAAACCACGAATCATATGATCTG-GACAAAACCACGAGTCAAAATA
* *
6405851 AAGCGACGAAGATCGAGTCGAGGTCG
64 AAGCGACTAAGATCGAGTCGAGATCG
* ** * * *
6405877 AAAATAAATGATCCA-GAT-AAAGCTACGAATCATATGATCAAGACGAAATCATGAGTCAAAATA
1 AAAATAAATGAT-CAGGATGAAA-CCACGAATCATATGATCTGGACAAAACCACGAGTCAAAATA
* *
6405940 AAACGACTAAGATCGAGTCGAGATTG
64 AAGCGACTAAGATCGAGTCGAGATCG
** * * * *
6405966 AAAATAAATGATTGGGATGAAACCATGGATCATATGATCGGGACAAAACCACGAGTTAAAATAAA
1 AAAATAAATGATCAGGATGAAACCACGAATCATATGATCTGGACAAAACCACGAGTCAAAATAAA
* * * *
6406031 GTGA-TCAAGATTGAGTCGATATCA
66 GCGACT-AAGATCGAGTCGAGATCG
* *
6406055 AAAATAAATGATCGGGATGAAATCACGAATCATATGATC
1 AAAATAAATGATCAGGATGAAACCACGAATCATATGATC
6406094 AAGACGAAAT
Statistics
Matches: 251, Mismatches: 45, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
88 13 0.05
89 228 0.91
90 10 0.04
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (89 bp):
AAAATAAATGATCAGGATGAAACCACGAATCATATGATCTGGACAAAACCACGAGTCAAAATAAA
GCGACTAAGATCGAGTCGAGATCG
Found at i:6405956 original size:178 final size:179
Alignment explanation
Indices: 6405687--6406103 Score: 459
Period size: 178 Copynumber: 2.3 Consensus size: 179
6405677 ATCGAGGATA
* * * ** * *** * *
6405687 GAGTCGAGGTAAAAAATAAATGATCAAGGCGAGA-CTACGAATCATATGATTTGGATGAAACCAC
1 GAGTCGAGATCAAAAATAAATGATCCAGATGAAAGCTACGAATCATATGATCAAGACGAAATCAC
* ** * * *
6405751 GAGTCAAAATAGAGGGATTAGGATCGAGTCGAGGTTGAAAATAAAAT-ATCAGGATGAAACCACG
66 GAGTCAAAATAAAACGACTAAGATCGAGTCGAGATTGAAAAT-AAATGATCAGGATGAAACCACG
*
6405815 AATCATATGA-CTGAGATAAAACCACAAGTCAAAATAAAGCGA-CGAAGATC
130 AATCATATGATC-GAGACAAAACCACAAGTCAAAATAAAGCGATC-AAGATC
* * *
6405865 GAGTCGAGGTCGAAAATAAATGATCCAGAT-AAAGCTACGAATCATATGATCAAGACGAAATCAT
1 GAGTCGAGATCAAAAATAAATGATCCAGATGAAAGCTACGAATCATATGATCAAGACGAAATCAC
** * *
6405929 GAGTCAAAATAAAACGACTAAGATCGAGTCGAGATTGAAAATAAATGATTGGGATGAAACCATGG
66 GAGTCAAAATAAAACGACTAAGATCGAGTCGAGATTGAAAATAAATGATCAGGATGAAACCACGA
* * * * *
6405994 ATCATATGATCGGGACAAAACCACGAGTTAAAATAAAGTGATCAAGATT
131 ATCATATGATCGAGACAAAACCACAAGTCAAAATAAAGCGATCAAGATC
* ** *
6406043 GAGTCGATATCAAAAATAAATGATCGGGATGAAATC-ACGAATCATATGATCAAGACGAAAT
1 GAGTCGAGATCAAAAATAAATGATCCAGATGAAAGCTACGAATCATATGATCAAGACGAAAT
6406104 GATCAAGGTA
Statistics
Matches: 200, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
177 6 0.03
178 188 0.94
179 6 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (179 bp):
GAGTCGAGATCAAAAATAAATGATCCAGATGAAAGCTACGAATCATATGATCAAGACGAAATCAC
GAGTCAAAATAAAACGACTAAGATCGAGTCGAGATTGAAAATAAATGATCAGGATGAAACCACGA
ATCATATGATCGAGACAAAACCACAAGTCAAAATAAAGCGATCAAGATC
Found at i:6413545 original size:5 final size:5
Alignment explanation
Indices: 6413535--6413560 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6413525 AAATGCATGA
6413535 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
6413561 TTTACCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:6416107 original size:22 final size:22
Alignment explanation
Indices: 6416082--6416127 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6416072 TACAATAAAT
*
6416082 AAATAATTAAGCAAATATGAAC
1 AAATAAATAAGCAAATATGAAC
* *
6416104 AAATAAATAAGCAAGTATGCAC
1 AAATAAATAAGCAAATATGAAC
6416126 AA
1 AA
6416128 GGGAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (22 bp):
AAATAAATAAGCAAATATGAAC
Found at i:6416774 original size:28 final size:28
Alignment explanation
Indices: 6416722--6416776 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
6416712 TTAAAAGGAT
6416722 TTTTCATTTTTTTGTAGAATTATTTTTCA
1 TTTTCATTTTTTTG-AGAATTATTTTTCA
6416751 TTTT-ATTTTTTTG-GAACTTCATTTTT
1 TTTTCATTTTTTTGAGAA-TT-ATTTTT
6416777 TTTACTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.12
27 2 0.08
28 15 0.62
29 4 0.17
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.67
Consensus pattern (28 bp):
TTTTCATTTTTTTGAGAATTATTTTTCA
Found at i:6416875 original size:5 final size:5
Alignment explanation
Indices: 6416867--6416905 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
6416857 AAATAGGTTA
6416867 AAAAT AAAAT AAAAT AAAAAT AAAA- AAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
6416906 GGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 8 0.26
5 18 0.58
6 5 0.16
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:6416902 original size:16 final size:16
Alignment explanation
Indices: 6416865--6416901 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
6416855 AAAAATAGGT
6416865 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
6416881 TAAAAATAAAA-AAAA
1 TAAAAATAAAATAAAA
6416896 TAAAAA
1 TAAAAA
6416902 AAATGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:6416911 original size:11 final size:9
Alignment explanation
Indices: 6416867--6416915 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 9
6416857 AAATAGGTTA
6416867 AAAATAAAAT
1 AAAA-AAAAT
6416877 AAAATAAAAAT
1 -AAA-AAAAAT
6416888 AAAAAAAAT
1 AAAAAAAAT
6416897 AAAAAAAAT
1 AAAAAAAAT
6416906 GGAAAAAAAA
1 --AAAAAAAA
6416916 AACTACGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 15 0.43
10 3 0.09
11 16 0.46
12 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6416911 original size:25 final size:24
Alignment explanation
Indices: 6416866--6416917 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
6416856 AAAATAGGTT
6416866 AAAAATAAAATAAAATAAAAATAAA
1 AAAAATAAAATAAAATAAAAA-AAA
**
6416891 AAAAATAAAA-AAAATGGAAAAAA
1 AAAAATAAAATAAAATAAAAAAAA
6416914 AAAA
1 AAAA
6416918 CTACGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 8 0.32
25 10 0.40
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.12
Consensus pattern (24 bp):
AAAAATAAAATAAAATAAAAAAAA
Found at i:6417745 original size:3 final size:3
Alignment explanation
Indices: 6417737--6417780 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6417727 ACAAAAAAGG
6417737 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6417781 AAAACAAGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6418484 original size:32 final size:33
Alignment explanation
Indices: 6418443--6418512 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
6418433 TCAATGGAAT
*
6418443 TTTAAACCTAAATTATCTAACCTTAAT-AAAAA
1 TTTAAACCTAAATTACCTAACCTTAATGAAAAA
** * *
6418475 TTTAAACCTAGTTTACCTGACCTTTATGAAAAA
1 TTTAAACCTAAATTACCTAACCTTAATGAAAAA
6418508 TTTAA
1 TTTAA
6418513 GCCCACTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (33 bp):
TTTAAACCTAAATTACCTAACCTTAATGAAAAA
Found at i:6418545 original size:98 final size:97
Alignment explanation
Indices: 6418270--6418545 Score: 268
Period size: 98 Copynumber: 2.8 Consensus size: 97
6418260 TAACTAGTAC
* * * * * *
6418270 CAATAAAAATTTAAGTCTAGTTTACCTAGCTTTTATGAAAAATATAAACTTAGTTTAGTTGGCAC
1 CAATAAAAATTTAAGCCTAGTTTACCTA-CCTTTATGAAAAATTTAAGCCTAATTTAGTTGGCAC
* * * *
6418335 TCAAT-ACAAATTTAAGCCTAGATTATTTGACCT
65 TCAATGA-AAATTTAAACCTAAATTATCTAACCT
* * * * * * * *
6418368 CGATGAAAATTTAAGCCCAGTTTACCTAGCTCTTATGAAAAATTTAAGCCTAAATCA-ATGTGTA
1 CAATAAAAATTTAAGCCTAGTTTACCTACCT-TTATGAAAAATTTAAGCCTAATTTAGTTG-GCA
* *
6418432 CTCAATGGAATTTTAAACCTAAATTATCTAACCT
64 CTCAATGAAAATTTAAACCTAAATTATCTAACCT
* * * *
6418466 TAATAAAAATTTAAACCTAGTTTACCTGACCTTTATGAAAAATTTAAGCCCACTTTAGTTGGCAC
1 CAATAAAAATTTAAGCCTAGTTTACCT-ACCTTTATGAAAAATTTAAGCCTAATTTAGTTGGCAC
*
6418531 TCAGTGAAAATTTAA
65 TCAATGAAAATTTAA
6418546 GTTCAATTTA
Statistics
Matches: 138, Mismatches: 35, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
97 3 0.02
98 130 0.94
99 5 0.04
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (97 bp):
CAATAAAAATTTAAGCCTAGTTTACCTACCTTTATGAAAAATTTAAGCCTAATTTAGTTGGCACT
CAATGAAAATTTAAACCTAAATTATCTAACCT
Found at i:6418748 original size:36 final size:36
Alignment explanation
Indices: 6418708--6418874 Score: 92
Period size: 36 Copynumber: 4.7 Consensus size: 36
6418698 CACCTTATGA
6418708 TGTTGTCCCAGTCGCTCCTTTATTTCTGACTTATAG
1 TGTTGTCCCAGTCGCTCCTTTATTTCTGACTTATAG
** * * * *
6418744 TGTTGTCCTGGTCGTTCC-TTATTTTTTGACTTGTGG
1 TGTTGTCCCAGTCGCTCCTTTA-TTTCTGACTTATAG
* * * *
6418780 TGTTATCCCTGTCG-T-TTGTTATTTCTGACTTGTAG
1 TGTTGTCCCAGTCGCTCCT-TTATTTCTGACTTATAG
* * * *** * *
6418815 TGCTATCCCAATTATTCC-TTATTTTTCAACTTATAG
1 TGTTGTCCCAGTCGCTCCTTTATTTCT-GACTTATAG
* *
6418851 TGTTGTCCTAGTC-CTTCTTTATTT
1 TGTTGTCCCAGTCGCTCCTTTATTT
6418875 AAAAAAAACT
Statistics
Matches: 96, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
35 34 0.35
36 62 0.65
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.50
Consensus pattern (36 bp):
TGTTGTCCCAGTCGCTCCTTTATTTCTGACTTATAG
Found at i:6418822 original size:35 final size:36
Alignment explanation
Indices: 6418718--6418823 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 36
6418708 TGTTGTCCCA
* * *
6418718 GTCGCTCCTTTATTTCTGACTTATAGTGTTGT-CCTG
1 GTCGTTCC-TTATTTCTGACTTGTAGTGTTATCCCTG
* *
6418754 GTCGTTCCTTATTTTTTGACTTGTGGTGTTATCCCT-
1 GTCGTTCCTTA-TTTCTGACTTGTAGTGTTATCCCTG
** *
6418790 GTCGTTTGTTATTTCTGACTTGTAGTGCTATCCC
1 GTCGTTCCTTATTTCTGACTTGTAGTGTTATCCC
6418824 AATTATTCCT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
35 23 0.40
36 32 0.55
37 3 0.05
ACGTcount: A:0.10, C:0.21, G:0.20, T:0.49
Consensus pattern (36 bp):
GTCGTTCCTTATTTCTGACTTGTAGTGTTATCCCTG
Found at i:6420663 original size:21 final size:21
Alignment explanation
Indices: 6420639--6420679 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6420629 TAGATGTTAA
* *
6420639 AAAATTATTAAATAATAAAAT
1 AAAATAATAAAATAATAAAAT
*
6420660 AAAATAATAAAATATTAAAA
1 AAAATAATAAAATAATAAAA
6420680 ATTATAATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATAATAAAATAATAAAAT
Found at i:6420666 original size:13 final size:13
Alignment explanation
Indices: 6420648--6420673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6420638 AAAAATTATT
6420648 AAATAATAAAATA
1 AAATAATAAAATA
6420661 AAATAATAAAATA
1 AAATAATAAAATA
6420674 TTAAAAATTA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:6420852 original size:14 final size:14
Alignment explanation
Indices: 6420812--6420853 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
6420802 CCCAAGCAAT
*
6420812 ATGTAAACTTTAAA
1 ATGTAAACCTTAAA
*
6420826 AT-TAAAACTTAAA
1 ATGTAAACCTTAAA
*
6420839 ATGTAAACCCTAAA
1 ATGTAAACCTTAAA
6420853 A
1 A
6420854 CAAAATCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.29
Consensus pattern (14 bp):
ATGTAAACCTTAAA
Found at i:6426993 original size:236 final size:234
Alignment explanation
Indices: 6426566--6427148 Score: 551
Period size: 236 Copynumber: 2.5 Consensus size: 234
6426556 TAGTGAAAAT
* *
6426566 AGCTAAAAATTAAAAACCAAATTGATGATGTAAACAAGTGAAAAATATGAAATTAATATATTTTG
1 AGCTAAAAATTAAAAACCAAATTGATAATCTAAACAAGTGAAAAATATGAAATTAATATATTTTG
** *
6426631 GTGTAAAATGGGTAAGAAGTGTCATAACACACTAAAAAAGAGTTATGATAATTTTAAACATAATG
66 GCATAAAATGGGTAAGAAGTGTCATAACACACTAAAAAAGAGTTATGATAATTTTAAACAAAATG
* * * * * ** *
6426696 AAAATTAAAAATAATTGTAAAAATATATTATTATAATATAAATAATTGTGATGAAAATGTAAATT
131 AAAAGTAAAAACAACTATAAAAATATATTATTATAACATAAATAATTGACATGAAAATGTAAAAT
6426761 TTTAATTAATTATTATTTTGTATATATATATATATATAA
196 TTTAATTAATTATTATTTTGTATATATATATATATATAA
* *
6426800 AGCTAAAAATTAAAATA-TAAATTGATAATCTAAACAAGTGAGAAAA-ATGCAAAATT-GTCATC
1 AGCTAAAAATTAAAA-ACCAAATTGATAATCTAAACAAGTGA-AAAATATG--AAATTAAT-AT-
* * **
6426862 A-TTTGGCATAAAATGGGTAAGAAGTGTCATAATATACTAAGGAAGAGTTATGATAATTTTAAAC
60 ATTTTGGCATAAAATGGGTAAGAAGTGTCATAACACACTAAAAAAGAGTTATGATAATTTTAAAC
* * * * * * *
6426926 AAAATGGAAGGTAAGAACAACTATATGAAA-ATATTATTATAACATAAATTATT-ACATTAGTAA
125 AAAATGAAAAGTAAAAACAACTATA-AAAATATATTATTATAACATAAATAATTGACATGA-AAA
* * * *
6426989 TGTAAAATTTTAATTAATTATTGTTTT-TA-AAATATATA-AGAAAAA
188 TGTAAAATTTTAATTAATTATTATTTTGTATATATATATATA-TATAA
* * * * * * *
6427034 TAGTTAAAAATTAAAAAACAAATTAATAA-CATAAAAAAAGTGAGAAAAAAAT-AAAATAGTATA
1 -AGCTAAAAATTAAAAACCAAATTGATAATC-T-AAACAAGT--GAAAAATATGAAATTAATATA
* * * * * ** *
6427097 ATTTGACGTAAAATAGGTAAAAAGTGTTGTAACACAATAAAAAAG-GTTATGA
61 TTTTGGCATAAAATGGGTAAGAAGTGTCATAACACACTAAAAAAGAGTTATGA
6427149 CATTCTAAAC
Statistics
Matches: 285, Mismatches: 46, Indels: 36
0.78 0.13 0.10
Matches are distributed among these distances:
233 1 0.00
234 60 0.21
235 74 0.26
236 138 0.48
237 8 0.03
238 4 0.01
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (234 bp):
AGCTAAAAATTAAAAACCAAATTGATAATCTAAACAAGTGAAAAATATGAAATTAATATATTTTG
GCATAAAATGGGTAAGAAGTGTCATAACACACTAAAAAAGAGTTATGATAATTTTAAACAAAATG
AAAAGTAAAAACAACTATAAAAATATATTATTATAACATAAATAATTGACATGAAAATGTAAAAT
TTTAATTAATTATTATTTTGTATATATATATATATATAA
Found at i:6430165 original size:10 final size:10
Alignment explanation
Indices: 6430152--6430182 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6430142 GATTTATCGA
6430152 TTTTTAATTT
1 TTTTTAATTT
6430162 TTTTTAA-TT
1 TTTTTAATTT
6430171 TTTTTAATTT
1 TTTTTAATTT
6430181 TT
1 TT
6430183 ATATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:6430172 original size:9 final size:9
Alignment explanation
Indices: 6430152--6430197 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
6430142 GATTTATCGA
6430152 TTTTTAATTT
1 TTTTTAA-TT
6430162 TTTTTAATT
1 TTTTTAATT
6430171 TTTTTAATT
1 TTTTTAATT
*
6430180 TTTATATATT
1 TTTTTA-ATT
*
6430190 ATTTTAAT
1 TTTTTAAT
6430198 ATATATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 18 0.56
10 14 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:6430194 original size:19 final size:19
Alignment explanation
Indices: 6430153--6430197 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6430143 ATTTATCGAT
* *
6430153 TTTTAATTTTTTTTAATTT
1 TTTTAATTTTTTATAATTA
6430172 TTTTAA-TTTTTATATATTA
1 TTTTAATTTTTTATA-ATTA
6430191 TTTTAAT
1 TTTTAAT
6430198 ATATATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTTTATAATTA
Found at i:6435297 original size:39 final size:37
Alignment explanation
Indices: 6435246--6435322 Score: 84
Period size: 37 Copynumber: 2.0 Consensus size: 37
6435236 ATATTAACAC
*
6435246 TAAAATATAATTTCGATATATATATATATATATATCTTT
1 TAAAATATAATTTCGA-ATA-ATATAAATATATATCTTT
** *
6435285 TAAAAT-TGAATTTTTAATAATATAAATATATCTCTTT
1 TAAAATAT-AATTTCGAATAATATAAATATATATCTTT
6435322 T
1 T
6435323 TTAAATTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
37 17 0.52
38 4 0.12
39 12 0.36
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (37 bp):
TAAAATATAATTTCGAATAATATAAATATATATCTTT
Found at i:6437063 original size:17 final size:17
Alignment explanation
Indices: 6437043--6437075 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6437033 ATATTTAAGA
6437043 TCCCATTTTATTATTAT
1 TCCCATTTTATTATTAT
*
6437060 TCCCTTTTTATTATTA
1 TCCCATTTTATTATTA
6437076 AACAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (17 bp):
TCCCATTTTATTATTAT
Found at i:6437345 original size:15 final size:15
Alignment explanation
Indices: 6437322--6437353 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6437312 TTTTCAGAAA
6437322 TTTGAATTTTAAGGT
1 TTTGAATTTTAAGGT
*
6437337 TTTGGATTTTAAGGT
1 TTTGAATTTTAAGGT
6437352 TT
1 TT
6437354 CAGTTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (15 bp):
TTTGAATTTTAAGGT
Found at i:6437359 original size:21 final size:21
Alignment explanation
Indices: 6437335--6437395 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
6437325 GAATTTTAAG
*
6437335 GTTTTGGATTTTAAGGTTT-CA
1 GTTTTGG-TTTTAAGGTTTGAA
* *
6437356 GTTTTAGGGTTTGAGGTTTGAA
1 GTTTT-GGTTTTAAGGTTTGAA
*
6437378 GTTTTGGTTTTAGGGTTT
1 GTTTTGGTTTTAAGGTTT
6437396 AAAGAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 24 0.75
22 8 0.25
ACGTcount: A:0.15, C:0.02, G:0.31, T:0.52
Consensus pattern (21 bp):
GTTTTGGTTTTAAGGTTTGAA
Found at i:6437395 original size:14 final size:14
Alignment explanation
Indices: 6437328--6437395 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
6437318 GAAATTTGAA
6437328 TTTTAAGGTTTTGG
1 TTTTAAGGTTTTGG
**
6437342 ATTTTAAGGTTTCAG
1 -TTTTAAGGTTTTGG
* *
6437357 TTTTAGGGTTTGAGG
1 TTTTAAGGTTT-TGG
*
6437372 TTTGAA-GTTTTGG
1 TTTTAAGGTTTTGG
*
6437385 TTTTAGGGTTT
1 TTTTAAGGTTT
6437396 AAAGAATTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
13 6 0.15
14 18 0.44
15 17 0.41
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (14 bp):
TTTTAAGGTTTTGG
Found at i:6439038 original size:21 final size:21
Alignment explanation
Indices: 6439014--6439055 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6439004 AATCGATATT
*
6439014 ATTATTAATATTATTATTAAA
1 ATTATTAATATTAATATTAAA
*
6439035 ATTATTACTATTAATATTAAA
1 ATTATTAATATTAATATTAAA
6439056 CTAGAACTGA
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:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATATTAATATTAAA
Found at i:6439053 original size:12 final size:12
Alignment explanation
Indices: 6439009--6439041 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6438999 AATTAAATCG
6439009 ATATTATTATTA
1 ATATTATTATTA
6439021 ATATTATTATTA
1 ATATTATTATTA
*
6439033 AAATTATTA
1 ATATTATTA
6439042 CTATTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:6439597 original size:135 final size:136
Alignment explanation
Indices: 6439350--6439987 Score: 460
Period size: 135 Copynumber: 4.6 Consensus size: 136
6439340 ATCAGGAATG
* * *
6439350 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACCGGGACTAAACCATGAGTTAGAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTTAGAGAATAA
* * ** * *
6439415 CAACGATCTG-GATTAAA-TCGCGA-CGTGAAAGTAAAGAGATCGAGATTGAATCGCGAGTC-AG
66 CAACAATC-GAGATTAAACT-ACGATTTTG-AAGTAAAAAGATCGAGATTGAACCGCGAGTCAAG
6439476 AATAATGTC
128 AATAATGTC
* * *
6439485 AACTTGGATTGAATCACAAGTCAAAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTTAGAGAATAA
* *
6439550 CAACAATTGAGATTAAACTACGATTTTGAATTAAAAAGATC-AGGATTGAACCGCGAGTCAGAGA
66 CAACAATCGAGATTAAACTACGATTTTGAAGTAAAAAGATCGA-GATTGAACCGCGAGTCA-AGA
*
6439614 ATAAAG--
129 ATAATGTC
* * * * * *
6439620 AGA-TTGGGATTGAATTACAAGTCAGAGAAAGAATGAGGA-TCGGGATTAAACCATGACTTA-A-
1 A-ACTT-GGATTGAATCACAAGTCA-AAAAATAAAGA-GACT-GGGATTAAACCACGAGTTAGAG
* ** * **** * * * **
6439681 AA-AGA-AAGAGATCGAGATTGTACCACGAGTAACAAAATAAAAAGATCGAGATTAAACTGTAAG
61 AATA-ACAACA-ATCGAGATTAAACTACGA-TTTTGAAGTAAAAAGATCGAGATTGAACCGCGAG
*
6439744 TCAAGCAATAACAAGATCAGGATTG
123 TCAAG-AAT----A-AT---G--TC
* * * * * *
6439769 AACTTGGATTGAATCATAAGTCAAAAAATAAAGAGACCGGGACTAAACAACAAGTCAGAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTTAGAGAATAA
* * * * * *
6439834 CAACGATCGAGATTAAACCACGACTTGGAAGTAAAGATATCTG-GATTGAACCGCGAGTC-AGAA
66 CAACAATCGAGATTAAACTACGATTTTGAAGTAAAAAGATC-GAGATTGAACCGCGAGTCAAGAA
*
6439897 TAACGTC
130 TAATGTC
* * * * *
6439904 AACTTGGATTGAATCATAAGTTAGAAAATAAGGAGACTGGGATTAAACCACGAGTTAAAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTTAGAGAATAA
*
6439969 CAATAATCGAGATTAAACT
66 CAACAATCGAGATTAAACT
6439988 GCAATTGAAA
Statistics
Matches: 388, Mismatches: 80, Indels: 70
0.72 0.15 0.13
Matches are distributed among these distances:
134 2 0.01
135 181 0.47
136 40 0.10
137 48 0.12
138 18 0.05
140 1 0.00
141 2 0.01
142 1 0.00
145 4 0.01
146 17 0.04
147 31 0.08
148 37 0.10
149 6 0.02
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (136 bp):
AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTTAGAGAATAA
CAACAATCGAGATTAAACTACGATTTTGAAGTAAAAAGATCGAGATTGAACCGCGAGTCAAGAAT
AATGTC
Found at i:6439958 original size:67 final size:64
Alignment explanation
Indices: 6439927--6440054 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 64
6439917 TCATAAGTTA
*
6439927 GAAAATAAGGAGACTGGGATTAAACCACGAGTTAAAGAATAACAATAATCGAGATTAAACTGCAA
1 GAAAATAAGGAGACTGGGATTAAACCACGAG-T-CAGAATAACAATAATCGAGATTAAACT-CAA
6439992 TT
63 TT
* * *
6439994 GAAAATAAGGAGACTGGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACT
1 GAAAATAAGGAGACTGGGATTAAACCACGAGTC--AGAATAACAATAATCGAGATTAAACT
6440055 ATGATTTTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (64 bp):
GAAAATAAGGAGACTGGGATTAAACCACGAGTCAGAATAACAATAATCGAGATTAAACTCAATT
Found at i:6439960 original size:34 final size:34
Alignment explanation
Indices: 6439922--6440035 Score: 99
Period size: 34 Copynumber: 3.4 Consensus size: 34
6439912 TTGAATCATA
6439922 AGTTAGAAAATAAGGAGACTGGGATTAAACCACG
1 AGTTAGAAAATAAGGAGACTGGGATTAAACCACG
** * * * **
6439956 AGTTA-AAGAATAACAATAATCGAGATTAAACTGC-
1 AGTTAGAA-AATAAGGAGACT-GGGATTAAACCACG
*
6439990 AATT-GAAAATAAGGAGACTGGGATTAAACCACG
1 AGTTAGAAAATAAGGAGACTGGGATTAAACCACG
* *
6440023 AGTCAGAGAATAA
1 AGTTAGAAAATAA
6440036 CAACAATCAA
Statistics
Matches: 57, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
32 10 0.18
33 12 0.21
34 25 0.44
35 10 0.18
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (34 bp):
AGTTAGAAAATAAGGAGACTGGGATTAAACCACG
Found at i:6440129 original size:34 final size:33
Alignment explanation
Indices: 6440067--6440253 Score: 112
Period size: 34 Copynumber: 5.5 Consensus size: 33
6440057 GATTTTGAAT
* * * * *
6440067 TAAAAAGATCGTGATTGAATCGTGAGTCAGAGAA
1 TAAAGAGATCGGGATTAAACCGTAAGTCA-AGAA
*
6440101 TAAAGAGATTGGGATTAAACCGTAAGTCAAAGAA
1 TAAAGAGATCGGGATTAAACCGTAAGTC-AAGAA
* * * * *
6440135 -AGAATGAGGATCGAGATTAAATCGTGACTTAA-AA
1 TA-AA-GA-GATCGGGATTAAACCGTAAGTCAAGAA
* ***
6440169 GTAAAGAGATCGTGATTAAACCACGAGT-AAGAAAA
1 -TAAAGAGATCGGGATTAAACCGTAAGTCAAG--AA
6440204 TAAAGAGATCGGGATTAAACCGTAAGTCAAGGAA
1 TAAAGAGATCGGGATTAAACCGTAAGTCAA-GAA
*
6440238 TAACA-AGATCAGGATT
1 TAA-AGAGATCGGGATT
6440254 GAACTTGGAT
Statistics
Matches: 119, Mismatches: 22, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
32 2 0.02
33 17 0.14
34 70 0.59
35 12 0.10
36 18 0.15
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (33 bp):
TAAAGAGATCGGGATTAAACCGTAAGTCAAGAA
Found at i:6440420 original size:486 final size:486
Alignment explanation
Indices: 6439509--6440473 Score: 1407
Period size: 486 Copynumber: 2.0 Consensus size: 486
6439499 CACAAGTCAA
** *
6439509 AAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATTGAGATTAAACTACGAT
1 AAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTACGAT
* **
6439574 TTTGAATTAAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTGAATTACA
66 TTTGAATTAAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACA
* * **
6439639 AGTCAGAGAAAGAATGAGGATCGGGATTAAACCATGACTTAAAAAGAAAGAGATCGAGATTGTAC
131 AGTCAAAGAAAGAATGAGGATCGAGATTAAACCATGACTTAAAAAGAAAGAGATCGAGATTAAAC
*
6439704 CACGAGTAACAAAATAAAAAGATCGAGATTAAACTGTAAGTCAAGCAATAACAAGATCAGGATTG
196 CACGAGTAACAAAATAAAAAGATCGAGATTAAACCGTAAGTCAAGCAATAACAAGATCAGGATTG
* * * * * *
6439769 AACTTGGATTGAATCATAAGTCAAAAAATAAAGAGACCGGGACTAAACAACAAGTCAGAGAATAA
261 AACTTGGATTGAATCACAAGTAAAAAAATAAAGAAACAGGGACTAAACAACAAGTCAAAAAATAA
* * * * *
6439834 CAACGATCGAGATTAAACCACGACTTGGAAGTAAAGATATCTGGATTGAACCGCGAGTCAGAATA
326 CAACGATCGAGATTAAACCACAACTTGGAAGTAAAAAGATCTGGATTGAACCACGAGTCAAAATA
* * * *
6439899 ACGTCAACTTGGATTGAATCATAAGTTAGAAAATAAGGAGACTGGGATTAAACCACGAGTTAAAG
391 ACGTCAACTTGGATTGAATCATAAGTCAGAAAATAAGAAGACTAGGATTAAACCACGAGTCAAAG
*
6439964 AATAACAATAATCGAGATTAAACTGCAATTG
456 AATAACAACAATCGAGATTAAACTGCAATTG
* *
6439995 AAAATAAGGAGACTGGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTATGAT
1 AAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTACGAT
* * **
6440060 TTTGAATTAAAAAGATC-GTGATTGAATCGTGAGTCAGAGAATAAAGAGATTGGGATTAAACCGT
66 TTTGAATTAAAAAGATCAG-GATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCAC
* * *
6440124 AAGTCAAAGAAAGAATGAGGATCGAGATTAAATCGTGACTT-AAAAGTAAAGAGATCGTGATTAA
130 AAGTCAAAGAAAGAATGAGGATCGAGATTAAACCATGACTTAAAAAG-AAAGAGATCGAGATTAA
* * * *
6440188 ACCACGAGTAAGAAAATAAAGAGATCGGGATTAAACCGTAAGTCAAGGAATAACAAGATCAGGAT
194 ACCACGAGTAACAAAATAAAAAGATCGAGATTAAACCGTAAGTCAAGCAATAACAAGATCAGGAT
*
6440253 TGAACTTGGATTGAATCACAAGTAAAAAAAT-AAGAAAACAGGGACTAAACCACAAGTCAAAAAA
259 TGAACTTGGATTGAATCACAAGTAAAAAAATAAAG-AAACAGGGACTAAACAACAAGTCAAAAAA
* * *** * *
6440317 TAACAACGATCGGGATTGAACTGTAACTTGGAAGTAAAAAGAT-TGGGATTGAATCATGAGTCAA
323 TAACAACGATCGAGATTAAACCACAACTTGGAAGTAAAAAGATCT-GGATTGAACCACGAGTCAA
6440381 AATAACGTCAACTTGGATTGAATCATAAGTCAGAAAATAAGAAGACTAGGATTAAACCACGAGTC
387 AATAACGTCAACTTGGATTGAATCATAAGTCAGAAAATAAGAAGACTAGGATTAAACCACGAGTC
* * *
6440446 AGAGAGTAATAACAATCGAGATTAAACT
452 AAAGAATAACAACAATCGAGATTAAACT
6440474 ATGATTTTGA
Statistics
Matches: 424, Mismatches: 51, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
485 10 0.02
486 414 0.98
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (486 bp):
AAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTACGAT
TTTGAATTAAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACA
AGTCAAAGAAAGAATGAGGATCGAGATTAAACCATGACTTAAAAAGAAAGAGATCGAGATTAAAC
CACGAGTAACAAAATAAAAAGATCGAGATTAAACCGTAAGTCAAGCAATAACAAGATCAGGATTG
AACTTGGATTGAATCACAAGTAAAAAAATAAAGAAACAGGGACTAAACAACAAGTCAAAAAATAA
CAACGATCGAGATTAAACCACAACTTGGAAGTAAAAAGATCTGGATTGAACCACGAGTCAAAATA
ACGTCAACTTGGATTGAATCATAAGTCAGAAAATAAGAAGACTAGGATTAAACCACGAGTCAAAG
AATAACAACAATCGAGATTAAACTGCAATTG
Found at i:6440501 original size:135 final size:135
Alignment explanation
Indices: 6440255--6440504 Score: 304
Period size: 135 Copynumber: 1.9 Consensus size: 135
6440245 ATCAGGATTG
6440255 AACTTGGATTGAATCACAAGTAAAAAAATAAGAAAACAGGGACTAAACCACAAGTCAAAAAATAA
1 AACTTGGATTGAATCACAAGTAAAAAAATAAGAAAACAGGGACTAAACCACAAGTCAAAAAATAA
* * * * **
6440320 CAACGATCGGGATTGAACTGTAACTTGGAAGTAAAAAGATTGGGATTGAATCATGAGTCAAAATA
66 CAACAATCGAGATTAAACTATAACTTGGAAGTAAAAAGATCAGGATTGAATCATGAGTCAAAATA
6440385 ACGTC
131 ACGTC
* * * * * * * * *
6440390 AACTTGGATTGAATCATAAGTCAGAAAATAAGAAGACTA-GGATTAAACCACGAGTCAGAGAGTA
1 AACTTGGATTGAATCACAAGTAAAAAAATAAGAAAAC-AGGGACTAAACCACAAGTCAAAAAATA
* * * * *
6440454 ATAACAATCGAGATTAAACTATGATTTTGAATTAAAAAGATCAGGATTGAA
65 ACAACAATCGAGATTAAACTATAACTTGGAAGTAAAAAGATCAGGATTGAA
6440505 CTGCGAGTCA
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
135 93 0.99
136 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (135 bp):
AACTTGGATTGAATCACAAGTAAAAAAATAAGAAAACAGGGACTAAACCACAAGTCAAAAAATAA
CAACAATCGAGATTAAACTATAACTTGGAAGTAAAAAGATCAGGATTGAATCATGAGTCAAAATA
ACGTC
Found at i:6440504 original size:419 final size:419
Alignment explanation
Indices: 6439994--6440898 Score: 1298
Period size: 419 Copynumber: 2.2 Consensus size: 419
6439984 AACTGCAATT
* * *
6439994 GAAAATAAGGAGACTGGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTATGA
1 GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
* *
6440059 TTTTGAATTAAAAAGATCGTGATTGAA-TCGTGAGTCAGAGAATAAAGAGATTGGGATTAAACCG
66 TTTTGAATTAAAAAGATCGTGATTGAACT-GCGAGTCAGAGAATAAAGAGATTGGGATTAAACCA
* * * * *
6440123 TAAGTCAAAGAAAGAATGAGGATC-GAGATTAAATCGTGACTTAAAAGTAAAGAGATCGTGATTA
130 CAAGTCAAAGAAAGAATGAGGATCAG-GATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTA
* ** *
6440187 AACCACGAGTAAGAAAATAAAGAGATCGGGATTAAACCGTAAGTCAAGGAATAACAAGATCAGGA
194 AACCACGAGTAAGAAAATAAAGAGATCAGGATTAAACCACAAGTCAAAGAATAACAAGATCAGGA
*
6440252 TTGAACTTGGATTGAATCACAAGTAAAAAAAT-AAGAAAACAGGGACTAAACCACAAGTCAAAAA
259 TTGAACTTGGATTGAATCACAAGTAAAAAAATAAAG-AAACAGAGACTAAACCACAAGTCAAAAA
* * * * * *
6440316 ATAACAACGATCGGGATTGAA-CTGTAACTTGGAAGTAAAAAGATTGGGATTGAATCATGAGTCA
323 ATAACAACGATCAGGATTAAATC-GTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCA
*
6440380 AAATAACGTCAACTTGGATTGAATCATAAGTCA
387 AAATAACGTCAACTTGGATTGAATCACAAGTCA
* * *
6440413 GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAGTAATAACAATCGAGATTAAACTATGA
1 GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
6440478 TTTTGAATTAAAAAGATCAG-GATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCA
66 TTTTGAATTAAAAAGATC-GTGATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCA
* *
6440542 CAAGTCAAAGAAAGAATGGGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTGA
130 CAAGTCAAAGAAAGAATGAGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTAA
* * * *
6440607 ACCACGAGTAAGAAAATAAAGAGATCATGATTAAACCACAAGTGAAAGAATAACGAGATCATGAT
195 ACCACGAGTAAGAAAATAAAGAGATCAGGATTAAACCACAAGTCAAAGAATAACAAGATCAGGAT
* * * * * *
6440672 TGAACTTGGATTGAATCATAAGTCAAAAAATAAAGAAACTGAGACTAAACCACGAGTCAGAGAAT
260 TGAACTTGGATTGAATCACAAGTAAAAAAATAAAGAAACAGAGACTAAACCACAAGTCAAAAAAT
* * * * *
6440737 AACAATGATCAGGATTAAATCGTGACTTGTAAGTAAAAAGATCGAGATTGAACCGCGAGTCAGAA
325 AACAACGATCAGGATTAAATCGTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCAAAA
* ** *
6440802 TAATGTCAACTTGGATTGAATTGCAAGTTA
390 TAACGTCAACTTGGATTGAATCACAAGTCA
* *
6440832 GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAATAATCGAGATTAAACTACGA
1 GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
6440897 TT
66 TT
6440899 GAAAACAATG
Statistics
Matches: 430, Mismatches: 51, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
419 423 0.98
420 7 0.02
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (419 bp):
GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
TTTTGAATTAAAAAGATCGTGATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCAC
AAGTCAAAGAAAGAATGAGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTAAA
CCACGAGTAAGAAAATAAAGAGATCAGGATTAAACCACAAGTCAAAGAATAACAAGATCAGGATT
GAACTTGGATTGAATCACAAGTAAAAAAATAAAGAAACAGAGACTAAACCACAAGTCAAAAAATA
ACAACGATCAGGATTAAATCGTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCAAAAT
AACGTCAACTTGGATTGAATCACAAGTCA
Found at i:6440629 original size:34 final size:34
Alignment explanation
Indices: 6440590--6440676 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
6440580 ACATAAAAGG
** *
6440590 AAAGAGATCGGGATTGAACCACGAGT-AAGAAAAT
1 AAAGAGATCATGATTGAACCACAAGTGAA-AAAAT
* *
6440624 AAAGAGATCATGATTAAACCACAAGTGAAAGAAT
1 AAAGAGATCATGATTGAACCACAAGTGAAAAAAT
*
6440658 AACGAGATCATGATTGAAC
1 AAAGAGATCATGATTGAAC
6440677 TTGGATTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 43 0.96
35 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.22, T:0.17
Consensus pattern (34 bp):
AAAGAGATCATGATTGAACCACAAGTGAAAAAAT
Found at i:6440912 original size:67 final size:67
Alignment explanation
Indices: 6440832--6440957 Score: 164
Period size: 67 Copynumber: 1.9 Consensus size: 67
6440822 TTGCAAGTTA
* * * * *
6440832 GAAAATAAGGAGACT-AGGATTAAACCACGAGTCAGAGAATAACAATAATCGAGATTAAACTACG
1 GAAAACAAGGAGACTGA-GATTAAACCACAAGTCAAAGAATAACAACAATCAAGATTAAACTACG
6440896 ATT
65 ATT
* * *
6440899 GAAAACAATGAGACTGAGATTAAATCATAAGTCAAAGAATAACAACAATCAAGATTAAA
1 GAAAACAAGGAGACTGAGATTAAACCACAAGTCAAAGAATAACAACAATCAAGATTAAA
6440958 TTACAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
67 49 0.98
68 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.19
Consensus pattern (67 bp):
GAAAACAAGGAGACTGAGATTAAACCACAAGTCAAAGAATAACAACAATCAAGATTAAACTACGA
TT
Found at i:6441060 original size:419 final size:413
Alignment explanation
Indices: 6439994--6441061 Score: 980
Period size: 419 Copynumber: 2.5 Consensus size: 413
6439984 AACTGCAATT
* * * * *
6439994 GAAAATAAGGAGACTGGGATTAAACCACGAGTCAGAGAATAACAACAATCAAAATTAAACTATGA
1 GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTACGA
* * * * ***
6440059 TTTTGAATTAAAAAGATC-GTGATTGAA-TCGTGAGTCAGAGAATAAAGAGATTGGGATTAAACC
66 -TTTGAA-TAAAAAGATCAG-GATTAAACTC--AAGTCAAAGAATAAAGAAATCAAGATTAAACC
** * * * * *
6440122 GTAAGTCAAAGAAAGAATGAGGATC-GAGATTAAATCGTGAC-TTAAAAGTAAAGAGATCGTGAT
126 ACAAGTCAAAGAAAG-A--AGGATCAG-GATTAAACCGCGACATAAAAAG-AAAAAGATCGGGAT
* * * ** *
6440185 TAAACCACGAGTAAGAAAATAAAGAGATCGGGATTAAACCGTAAGTCAAGGAATAACAAGATCAG
186 TAAACCACAAGTAAGAAAAGAAAGAGATCGAGATTAAACCACAAGTCAAAGAATAACAAGATCAG
*
6440250 GATTGAACTTGGATTGAATCACAAGTAAAAAAATAAGAAAACAGGGACTAAACCACAAGTCAAAA
251 GATTGAACTTGGATTGAATCACAAGTAAAAAAATAAGAAAACAGAGACTAAACCACAAGTCAAAA
* * * * * *
6440315 AATAACAACGATCGGGATTGAACTGTAACTTGGAAGTAAAAAGATTGGGATTGAATCATGAGTCA
316 AATAACAACGATCAGGATTAAACTGTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCA
*
6440380 AAATAACGTCAACTTGGATTGAATCATAAGTCA
381 AAATAACGTCAACTTGGATTGAATCACAAGTCA
* * *
6440413 GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAGTAATAACAATCGAGATTAAACTATGA
1 GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTACGA
* * * * ***
6440478 TTTTGAATTAAAAAGATCAGGATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCAC
66 -TTTGAA-TAAAAAGATCAGGATTAAACT-CAAGTCAAAGAATAAAGAAATCAAGATTAAACCAC
* * * *
6440543 AAGTCAAAGAAAGAATGGGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTGAA
128 AAGTCAAAGAAAGAA---GGATCAGGATTAAACCGCGACATAAAAAGAAAAAGATCGGGATTAAA
* * * * *
6440608 CCACGAGTAAGAAAATAAAGAGATC-ATGATTAAACCACAAGTGAAAGAATAACGAGATCATGAT
190 CCACAAGTAAGAAAAGAAAGAGATCGA-GATTAAACCACAAGTCAAAGAATAACAAGATCAGGAT
* * * * * *
6440672 TGAACTTGGATTGAATCATAAGTCAAAAAATAA-AGAAACTGAGACTAAACCACGAGTCAGAGAA
254 TGAACTTGGATTGAATCACAAGTAAAAAAATAAGA-AAACAGAGACTAAACCACAAGTCAAAAAA
* * * * *
6440736 TAACAATGATCAGGATTAAA-TCGTGACTTGTAAGTAAAAAGATCGAGATTGAACCGCGAGTCAG
318 TAACAACGATCAGGATTAAACT-GTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCAA
* ** *
6440800 AATAATGTCAACTTGGATTGAATTGCAAGTTA
382 AATAACGTCAACTTGGATTGAATCACAAGTCA
* *
6440832 GAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATAACAATAATCGAGATTAAACTACGA
1 GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTACGA
*
6440897 -TTGAA-AACAATGAGA-CTGAGATTAAA-TCATAAGTCAAAGAATAACA-ACAATCAAGATTAA
66 TTTGAATAA-AA--AGATCAG-GATTAAACTC--AAGTCAAAGAATAA-AGA-AATCAAGATTAA
** * * ** * * *
6440957 ATTACAATTTTGAATTAAA-AA-GATTCA-GATTGAACCGCGAGTCA-AAAAATAAAAAGATTGG
123 ACCACAA--GTCAAAGAAAGAAGGA-TCAGGATTAAACCGCGA--CATAAAAAGAAAAAGATCGG
* * *
6441018 GATTAAATCACAAGTCAGAGAAAGAATGAGGATCGAGATTAAAC
183 GATTAAACCACAAGTAAGA-AAAGAAAGA-GATCGAGATTAAAC
6441062 TGTGACTTAA
Statistics
Matches: 548, Mismatches: 74, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
415 2 0.00
416 17 0.03
417 39 0.07
418 34 0.06
419 438 0.80
420 11 0.02
421 7 0.01
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (413 bp):
GAAAATAAGAAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTACGA
TTTGAATAAAAAGATCAGGATTAAACTCAAGTCAAAGAATAAAGAAATCAAGATTAAACCACAAG
TCAAAGAAAGAAGGATCAGGATTAAACCGCGACATAAAAAGAAAAAGATCGGGATTAAACCACAA
GTAAGAAAAGAAAGAGATCGAGATTAAACCACAAGTCAAAGAATAACAAGATCAGGATTGAACTT
GGATTGAATCACAAGTAAAAAAATAAGAAAACAGAGACTAAACCACAAGTCAAAAAATAACAACG
ATCAGGATTAAACTGTAACTTGGAAGTAAAAAGATCGAGATTGAACCACGAGTCAAAATAACGTC
AACTTGGATTGAATCACAAGTCA
Found at i:6441060 original size:486 final size:484
Alignment explanation
Indices: 6440413--6441628 Score: 1602
Period size: 486 Copynumber: 2.5 Consensus size: 484
6440403 TCATAAGTCA
* * * * *
6440413 GAAAATAAGAAGACT-AGGATTAAACCACGAGTCAGAGAGTAATAACAATCGAGATTAAACTATG
1 GAAAACAAGGAGACTGA-GATTAAACCACAAGTCAGAGAATAACAACAATCGAGATTAAACTATG
* * *
6440477 ATTTTGAATTAAAAAGATCAGGATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCA
65 ATTTTGAATTAAAAAGATCAGGATTGAACCGCGAGTCAAAGAATAAAGAGATTGGGATTAAATCA
* * *
6440542 CAAGTCAAAGAAAGAATGGGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTGA
130 CAAGTCAAAGAAAGAATGAGGATCAGGATTAAACCGTGACTTAAAAGTAAAGAGATCGGGATTGA
* * *
6440607 ACCACGAGTAAGAAAATAAAGAGATCATGATTAAACCACAAGTGAAAGAATAACGAGATCATGAT
195 ACCACGAGTAAGAAAATAAAGAGA-CATGATTAAACCACAAGTCAAAGAATAACAAGATCAGGAT
*
6440672 TGA-ACTTGGATTGAATCATAAGTCAAAAAATAAAGAA-A-CTGAGACTAAACCACGAGTCAGAG
259 T-ACACTTGGATTGAATCATAAGTCAAAAAAT-AAGAAGATC-GAGACTAAACCACAAGTCAGAG
* * * *
6440734 AATAACAATGATCAGGATTAAATCGTGACTTGTAAGTAAAAAGATCGAGATTGAACCGCGAGTCA
321 AATAACAACGATCAGGATTAAACCATGACTTGGAAGTAAAAAGAT-GAGATTGAACCGCGAGTCA
** ** * * *
6440799 GAATAATGTCAACTTGGATTGAATTGCAAGTTAGAAAATAAGGAGACTAGGATTAAACCACGAGT
385 GAATAACATCAACTTGGATTGAATCACAAGTCAGAAAATAAGAAGACTAAGATTAAACCACGAGT
*
6440864 CAGAGAATAACAATAATCGAGATTAAACTACGATT
450 CAAAGAATAACAATAATCGAGATTAAACTACGATT
* * * * * * **
6440899 GAAAACAATGAGACTGAGATTAAATCATAAGTCAAAGAATAACAACAATCAAGATTAAATTACAA
1 GAAAACAAGGAGACTGAGATTAAACCACAAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
* *
6440964 TTTTGAATTAAAAAGATTCA-GATTGAACCGCGAGTCAAAAAATAAAAAGATTGGGATTAAATCA
66 TTTTGAATTAAAAAGA-TCAGGATTGAACCGCGAGTCAAAGAATAAAGAGATTGGGATTAAATCA
* * *
6441028 CAAGTCAGAGAAAGAATGAGGATC-GAGATTAAACTGTGACTTAAAAGTAAAGAGATCGAGATTG
130 CAAGTCAAAGAAAGAATGAGGATCAG-GATTAAACCGTGACTTAAAAGTAAAGAGATCGGGATTG
** * * *
6441092 AACCATAAGTAAGAAAATAAAGAGAC-TGGGATTAAACCGCTAGTCAAGGAATAACAAGATCAGG
194 AACCACGAGTAAGAAAATAAAGAGACAT--GATTAAACCACAAGTCAAAGAATAACAAGATCAGG
*
6441156 ATTACACTTTGATTGAATCATAAGTCAAAAAATAAGAAGATCGAGACTAAACCACAAGTCAGAGA
257 ATTACACTTGGATTGAATCATAAGTCAAAAAATAAGAAGATCGAGACTAAACCACAAGTCAGAGA
* * * * **
6441221 ATAACAACGATCGGGATTAAACCATGATTTGGAAGTAAAGAGATGGGATTGAATTGCGAGTCAGA
322 ATAACAACGATCAGGATTAAACCATGACTTGGAAGTAAAAAGATGAGATTGAACCGCGAGTCAGA
*
6441286 ATAACATCAACTTGGATTGAATCACAAGTCAGACAATAAGAAGACTAAGATTAAACCACGAGTCA
387 ATAACATCAACTTGGATTGAATCACAAGTCAGAAAATAAGAAGACTAAGATTAAACCACGAGTCA
**
6441351 AAGAATAACAATAATCGAGATTAAACTGTGATT
452 AAGAATAACAATAATCGAGATTAAACTACGATT
* * * * * *
6441384 GAAAATAAGGAGATTGGGATTACACCACGAGTCAGAGAATAACAACAATTGAGATTAAACTATGA
1 GAAAACAAGGAGACTGAGATTAAACCACAAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
* *
6441449 TTTTGAATTAAAAAAGAAT-AGGATTGAACCACGAGTCAAAGAATAAAGAGATTAGGATTAAATC
66 TTTTGAATT-AAAAAG-ATCAGGATTGAACCGCGAGTCAAAGAATAAAGAGATTGGGATTAAATC
** * * * * *
6441513 GTAAGTTAAAGAAAGAATAAGGATTAGGATTAAATCGCGACTTAAAAGTAAAGAGATCGGGATTG
129 ACAAGTCAAAGAAAGAATGAGGATCAGGATTAAACCGTGACTTAAAAGTAAAGAGATCGGGATTG
* * *
6441578 AACCACGAGTAAAAAAATAAAGAGACCAAGATTAAACCACAGGTCAAAGAA
194 AACCACGAGTAAGAAAATAAAGAGA-CATGATTAAACCACAAGTCAAAGAA
6441629 ATATGAGGAT
Statistics
Matches: 625, Mismatches: 91, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
484 1 0.00
485 174 0.28
486 442 0.71
487 8 0.01
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (484 bp):
GAAAACAAGGAGACTGAGATTAAACCACAAGTCAGAGAATAACAACAATCGAGATTAAACTATGA
TTTTGAATTAAAAAGATCAGGATTGAACCGCGAGTCAAAGAATAAAGAGATTGGGATTAAATCAC
AAGTCAAAGAAAGAATGAGGATCAGGATTAAACCGTGACTTAAAAGTAAAGAGATCGGGATTGAA
CCACGAGTAAGAAAATAAAGAGACATGATTAAACCACAAGTCAAAGAATAACAAGATCAGGATTA
CACTTGGATTGAATCATAAGTCAAAAAATAAGAAGATCGAGACTAAACCACAAGTCAGAGAATAA
CAACGATCAGGATTAAACCATGACTTGGAAGTAAAAAGATGAGATTGAACCGCGAGTCAGAATAA
CATCAACTTGGATTGAATCACAAGTCAGAAAATAAGAAGACTAAGATTAAACCACGAGTCAAAGA
ATAACAATAATCGAGATTAAACTACGATT
Found at i:6441072 original size:905 final size:904
Alignment explanation
Indices: 6439322--6441383 Score: 2931
Period size: 905 Copynumber: 2.3 Consensus size: 904
6439312 ATAACATTAC
* * * *
6439322 AAGTCAAAGAATAACAAGATCAGGAATGAACTTGGATTGAATCACAAGTCAAAAAATAAAGAGAC
1 AAGTCAAGGAATAACAAGATCAGGATTGAACTTGGATTGAATCACAAGTCAAAAAAT-AAGAAAA
** * * * * * *
6439387 CGGGACTAAACCATGAGTTAGAGAATAACAACGATCTGGATTAAATCGCGACGTGAAAGTAAAGA
65 CGGGACTAAACCACAAGTCAGAGAATAACAACGATCGGGATTAACT-GTGACTTGGAAGTAAAGA
* * * *
6439452 GATCGAGATTGAATCGCGAGTCAGAATAATGTCAACTTGGATTGAATCACAAGTCAAAAAATAAG
129 GATTGGGATTGAATCGCGAGTCAGAATAACGTCAACTTGGATTGAATCACAAGTCAGAAAATAAG
* * *
6439517 GAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATTGAGATTAAACTACGATTTTGAATT
194 AAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGATTTTGAATT
* ** *
6439582 AAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTGAATTACAAGTCAGAG
259 AAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACAAGTCAAAG
* * *
6439647 AAAGAATGAGGATCGGGATTAAACCATGACTTAAAAAGAAAGAGATCGAGATTGTACCACGAGTA
324 AAAGAATGAGGATCAGGATTAAACCATGACATAAAAAGAAAGAGATCGAGATTGAACCACGAGTA
*** *
6439712 ACAAAATAAAAAGATCGAGATTAAACTGTAAGTCAAGCAATAACAAGATCAGGATTGAACTTGGA
389 ACAAAATAAAAAGATCGAGATTAAACCACAAGTAAAGCAATAACAAGATCAGGATTGAACTTGGA
* *
6439777 TTGAATCATAAGTCAAAAAATAAAGAGACCGGGACTAAACAACAAGTCAGAGAATAACAACGATC
454 TTGAATCATAAGTCAAAAAATAAAGAAACCGAGACTAAACAACAAGTCAGAGAATAACAACGATC
* *
6439842 GAGATTAAACCACGACTTGGAAGTAAAGATATCTGGATTGAACCGCGAGTCAGAATAACGTCAAC
519 GAGATTAAACCACGACTTGGAAGTAAAAAGATCTGGATTGAACCGCGAGTCAGAATAACGTCAAC
* * *
6439907 TTGGATTGAATCATAAGTTAGAAAATAAGGAGACTGGGATTAAACCACGAGTTAAAGAATAACAA
584 TTGGATTGAATCACAAGTTAGAAAATAAGGAGACTAGGATTAAACCACGAGTCAAAGAATAACAA
* * * * *
6439972 TAATCGAGATTAAACTGCAATTGAAAATAAGGAGACTGGGATTAAACCACGAGTCAGAGAATAAC
649 TAATCGAGATTAAACTACAATTGAAAACAAGGAGACTGAGATTAAACCACAAGTCAAAGAATAAC
** * * * * *
6440037 AACAATCAAAATTAAACTATGATTTTGAATTAAAAAGATCGTGATTGAATCGTGAGTCAGAGAAT
714 AACAATCAAAATTAAACTACAATTTTGAATTAAAAAGATCGAGATTGAACCGCGAGTCAAAAAAT
* **
6440102 AAAGAGATTGGGATTAAACCGTAAGTCAAAGAAAGAATGAGGATCGAGATTAAATCGTGACTTAA
779 AAAAAGATTGGGATTAAACCACAAGTCAAAGAAAGAATGAGGATCGAGATTAAATCGTGACTTAA
* *
6440167 AAGTAAAGAGATCGTGATTAAACCACGAGTAAGAAAATAAAGAGA-TCGGGATTAAACCG-T
844 AAGTAAAGAGATCGAGATTAAACCACAAGTAAGAAAATAAAGAGACT-GGGATTAAACCGCT
*
6440227 AAGTCAAGGAATAACAAGATCAGGATTGAACTTGGATTGAATCACAAGTAAAAAAATAAGAAAAC
1 AAGTCAAGGAATAACAAGATCAGGATTGAACTTGGATTGAATCACAAGTCAAAAAATAAGAAAAC
* * * *
6440292 AGGGACTAAACCACAAGTCAAAAAATAACAACGATCGGGATTGAACTGTAACTTGGAAGTAAAAA
66 -GGGACTAAACCACAAGTCAGAGAATAACAACGATCGGGATT-AACTGTGACTTGGAAGTAAAGA
** * *
6440357 GATTGGGATTGAATCATGAGTCAAAATAACGTCAACTTGGATTGAATCATAAGTCAGAAAATAAG
129 GATTGGGATTGAATCGCGAGTCAGAATAACGTCAACTTGGATTGAATCACAAGTCAGAAAATAAG
* *
6440422 AAGACTAGGATTAAACCACGAGTCAGAGAGTAATAACAATCGAGATTAAACTATGATTTTGAATT
194 AAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGATTTTGAATT
*
6440487 AAAAAGATCAGGATTGAACTGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACAAGTCAAAG
259 AAAAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACAAGTCAAAG
* * * *
6440552 AAAGAATGGGGATCAGGATTAAACCGTGACATAAAAGGAAAGAGATCGGGATTGAACCACGAGTA
324 AAAGAATGAGGATCAGGATTAAACCATGACATAAAAAGAAAGAGATCGAGATTGAACCACGAGTA
* * * *
6440617 AGAAAATAAAGAGATC-ATGATTAAACCACAAGTGAAAG-AATAACGAGATCATGATTGAACTTG
389 ACAAAATAAAAAGATCGA-GATTAAACCACAAGT-AAAGCAATAACAAGATCAGGATTGAACTTG
* * * *
6440680 GATTGAATCATAAGTCAAAAAATAAAGAAACTGAGACTAAACCACGAGTCAGAGAATAACAATGA
452 GATTGAATCATAAGTCAAAAAATAAAGAAACCGAGACTAAACAACAAGTCAGAGAATAACAACGA
* ** * *
6440745 TC-AGGATTAAATCGTGACTTGTAAGTAAAAAGATC-GAGATTGAACCGCGAGTCAGAATAATGT
517 TCGA-GATTAAACCACGACTTGGAAGTAAAAAGATCTG-GATTGAACCGCGAGTCAGAATAACGT
** *
6440808 CAACTTGGATTGAATTGCAAGTTAGAAAATAAGGAGACTAGGATTAAACCACGAGTCAGAGAATA
580 CAACTTGGATTGAATCACAAGTTAGAAAATAAGGAGACTAGGATTAAACCACGAGTCAAAGAATA
* * * *
6440873 ACAATAATCGAGATTAAACTACGATTGAAAACAATGAGACTGAGATTAAATCATAAGTCAAAGAA
645 ACAATAATCGAGATTAAACTACAATTGAAAACAAGGAGACTGAGATTAAACCACAAGTCAAAGAA
* *
6440938 TAACAACAATCAAGATTAAATTACAATTTTGAATTAAAAAGATTC-AGATTGAACCGCGAGTCAA
710 TAACAACAATCAAAATTAAACTACAATTTTGAATTAAAAAGA-TCGAGATTGAACCGCGAGTCAA
* *
6441002 AAAATAAAAAGATTGGGATTAAATCACAAGTCAGAGAAAGAATGAGGATCGAGATTAAA-CTGTG
774 AAAATAAAAAGATTGGGATTAAACCACAAGTCAAAGAAAGAATGAGGATCGAGATTAAATC-GTG
* *
6441066 ACTTAAAAGTAAAGAGATCGAGATTGAACCATAAGTAAGAAAATAAAGAGACTGGGATTAAACCG
838 ACTTAAAAGTAAAGAGATCGAGATTAAACCACAAGTAAGAAAATAAAGAGACTGGGATTAAACCG
6441131 CT
903 CT
* *
6441133 -AGTCAAGGAATAACAAGATCAGGATT-ACACTTTGATTGAATCATAAGTCAAAAAATAAGAAGA
1 AAGTCAAGGAATAACAAGATCAGGATTGA-ACTTGGATTGAATCACAAGTCAAAAAATAAGAA-A
* * ** *
6441196 TCGAGACTAAACCACAAGTCAGAGAATAACAACGATCGGGATTAAACCATGATTTGGAAGTAAAG
64 ACGGGACTAAACCACAAGTCAGAGAATAACAACGATCGGGATT-AACTGTGACTTGGAAGTAAAG
* * *
6441261 AGA-TGGGATTGAATTGCGAGTCAGAATAACATCAACTTGGATTGAATCACAAGTCAGACAATAA
128 AGATTGGGATTGAATCGCGAGTCAGAATAACGTCAACTTGGATTGAATCACAAGTCAGAAAATAA
* * * *
6441325 GAAGACTAAGATTAAACCACGAGTCAAAGAATAACAATAATCGAGATTAAACTGTGATT
193 GAAGACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGATT
6441384 GAAAATAAGG
Statistics
Matches: 1023, Mismatches: 122, Indels: 25
0.87 0.10 0.02
Matches are distributed among these distances:
904 118 0.12
905 893 0.87
906 12 0.01
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (904 bp):
AAGTCAAGGAATAACAAGATCAGGATTGAACTTGGATTGAATCACAAGTCAAAAAATAAGAAAAC
GGGACTAAACCACAAGTCAGAGAATAACAACGATCGGGATTAACTGTGACTTGGAAGTAAAGAGA
TTGGGATTGAATCGCGAGTCAGAATAACGTCAACTTGGATTGAATCACAAGTCAGAAAATAAGAA
GACTAGGATTAAACCACGAGTCAGAGAATAACAACAATCGAGATTAAACTATGATTTTGAATTAA
AAAGATCAGGATTGAACCGCGAGTCAGAGAATAAAGAGATTGGGATTAAACCACAAGTCAAAGAA
AGAATGAGGATCAGGATTAAACCATGACATAAAAAGAAAGAGATCGAGATTGAACCACGAGTAAC
AAAATAAAAAGATCGAGATTAAACCACAAGTAAAGCAATAACAAGATCAGGATTGAACTTGGATT
GAATCATAAGTCAAAAAATAAAGAAACCGAGACTAAACAACAAGTCAGAGAATAACAACGATCGA
GATTAAACCACGACTTGGAAGTAAAAAGATCTGGATTGAACCGCGAGTCAGAATAACGTCAACTT
GGATTGAATCACAAGTTAGAAAATAAGGAGACTAGGATTAAACCACGAGTCAAAGAATAACAATA
ATCGAGATTAAACTACAATTGAAAACAAGGAGACTGAGATTAAACCACAAGTCAAAGAATAACAA
CAATCAAAATTAAACTACAATTTTGAATTAAAAAGATCGAGATTGAACCGCGAGTCAAAAAATAA
AAAGATTGGGATTAAACCACAAGTCAAAGAAAGAATGAGGATCGAGATTAAATCGTGACTTAAAA
GTAAAGAGATCGAGATTAAACCACAAGTAAGAAAATAAAGAGACTGGGATTAAACCGCT
Found at i:6441224 original size:34 final size:35
Alignment explanation
Indices: 6441177--6441244 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
6441167 ATTGAATCAT
*
6441177 AAGTCAAAAAATAAGAA-GATCGAGACTAAACCAC
1 AAGTCAAAAAATAACAACGATCGAGACTAAACCAC
* * * *
6441211 AAGTCAGAGAATAACAACGATCGGGATTAAACCA
1 AAGTCAAAAAATAACAACGATCGAGACTAAACCA
6441245 TGATTTGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (35 bp):
AAGTCAAAAAATAACAACGATCGAGACTAAACCAC
Found at i:6441415 original size:134 final size:134
Alignment explanation
Indices: 6441161--6441419 Score: 299
Period size: 134 Copynumber: 1.9 Consensus size: 134
6441151 TCAGGATTAC
* * * *
6441161 ACTTTGATTGAATCATAAGTCAAAAAATAAGAAGATCGAGACTAAACCACAAGTCAGAGAATAAC
1 ACTTGGATTGAATCACAAGTCAAAAAATAAGAAGATCAAGACTAAACCACAAGTCAAAGAATAAC
* * * * ***
6441226 AACGATCGGGATTAAACCATGATTTGGAAGTAAAGAGATGGGATTGAATTGCGAGTCAGAATAAC
66 AACAATCGAGATTAAACCATGATTTGAAAATAAAGAGATGGGATTGAACCACGAGTCAGAATAAC
6441291 ATCA
131 ATCA
* * * *
6441295 ACTTGGATTGAATCACAAGTCAGACAATAAGAAGA-CTAAGATTAAACCACGAGTCAAAGAATAA
1 ACTTGGATTGAATCACAAGTCAAAAAATAAGAAGATC-AAGACTAAACCACAAGTCAAAGAATAA
* ** *
6441359 CAATAATCGAGATTAAACTGTGA-TTGAAAATAAGGAGATTGGGATT-ACACCACGAGTCAGA
65 CAACAATCGAGATTAAACCATGATTTGAAAATAAAGAGA-TGGGATTGA-ACCACGAGTCAGA
6441420 GAATAACAAC
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
133 14 0.14
134 89 0.86
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.21
Consensus pattern (134 bp):
ACTTGGATTGAATCACAAGTCAAAAAATAAGAAGATCAAGACTAAACCACAAGTCAAAGAATAAC
AACAATCGAGATTAAACCATGATTTGAAAATAAAGAGATGGGATTGAACCACGAGTCAGAATAAC
ATCA
Found at i:6441492 original size:69 final size:66
Alignment explanation
Indices: 6441320--6441494 Score: 192
Period size: 67 Copynumber: 2.6 Consensus size: 66
6441310 CAAGTCAGAC
* * * *
6441320 AATAAGAAGACTAAGATTAAACCACGAGTCAAAGAATAACAATAATCGAGATTAAACTGTGATTG
1 AATAAGAAGAATAGGATT-AACCACGAGTCAAAGAATAACAACAATCGAGATTAAACTATGATTG
6441385 AA
65 AA
* * * * *
6441387 AATAAGGAGATTGGGATTACACCACGAGTCAGAGAATAACAACAATTGAGATTAAACTATGATTT
1 AATAAGAAGAATAGGATTA-ACCACGAGTCAAAGAATAACAACAATCGAGATTAAACTATGA--T
6441452 TGAA
63 TGAA
6441456 TTAA-AA-AAGAATAGGATTGAACCACGAGTCAAAGAATAA
1 --AATAAGAAGAATAGGATT-AACCACGAGTCAAAGAATAA
6441495 AGAGATTAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
66 1 0.01
67 52 0.58
69 32 0.36
70 3 0.03
71 2 0.02
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (66 bp):
AATAAGAAGAATAGGATTAACCACGAGTCAAAGAATAACAACAATCGAGATTAAACTATGATTGA
A
Found at i:6441566 original size:38 final size:38
Alignment explanation
Indices: 6441486--6441558 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 38
6441476 ACCACGAGTC
* *
6441486 AAAGAATAAAGAGATTAGGATTAAATCGTAAGTTAAAG
1 AAAGAATAAAGAGATTAGGATTAAATCGCAACTTAAAG
*
6441524 AAAGAAT-AAG-GATTAGGATTAAATCGCGACTTAAA
1 AAAGAATAAAGAGATTAGGATTAAATCGCAACTTAAA
6441559 AGTAAAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 22 0.69
37 3 0.09
38 7 0.22
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (38 bp):
AAAGAATAAAGAGATTAGGATTAAATCGCAACTTAAAG
Found at i:6453565 original size:17 final size:17
Alignment explanation
Indices: 6453545--6453577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6453535 ATATTTACGA
6453545 TCCCATTTTATTATTAT
1 TCCCATTTTATTATTAT
*
6453562 TCCCTTTTTATTATTA
1 TCCCATTTTATTATTA
6453578 AACAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (17 bp):
TCCCATTTTATTATTAT
Found at i:6453863 original size:15 final size:15
Alignment explanation
Indices: 6453829--6453885 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
6453819 AAAATTTTAA
*
6453829 ATTTTAAGGTTTTTGG
1 ATTTT-AGGGTTTTGG
*
6453845 ATTTTAGGGTTTAGG
1 ATTTTAGGGTTTTGG
**
6453860 A-TTTAGAATTTTGG
1 ATTTTAGGGTTTTGG
*
6453874 ATTTTAAGGTTT
1 ATTTTAGGGTTT
6453886 CAATTTTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 11 0.34
15 16 0.50
16 5 0.16
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
ATTTTAGGGTTTTGG
Found at i:6454423 original size:35 final size:34
Alignment explanation
Indices: 6454384--6454452 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
6454374 ATCATACATA
6454384 AATATAAGAAAAAAACTC-AAAATAACAAAAAAAAT
1 AATAT-AGAAAAAAACTCAAAAATAA-AAAAAAAAT
* * *
6454419 AATATATAAAAAAATTCAAAAATTAAAAAAAAAT
1 AATATAGAAAAAAACTCAAAAATAAAAAAAAAAT
6454453 TTACTTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 19 0.63
35 11 0.37
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (34 bp):
AATATAGAAAAAAACTCAAAAATAAAAAAAAAAT
Found at i:6454797 original size:19 final size:19
Alignment explanation
Indices: 6454773--6454816 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6454763 TCCAGATCTC
* *
6454773 CCGCCGTCTGGTCGTTGGA
1 CCGCCGTCCGATCGTTGGA
6454792 CCGCCGTCCGATCGTTGGA
1 CCGCCGTCCGATCGTTGGA
6454811 CCGCCG
1 CCGCCG
6454817 CATCAACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.39, G:0.34, T:0.20
Consensus pattern (19 bp):
CCGCCGTCCGATCGTTGGA
Found at i:6455103 original size:7 final size:6
Alignment explanation
Indices: 6455084--6455134 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
6455074 GGGAGGACTG
* *
6455084 TGTTTT TGTTTT TGTCTTT TGTTTGT TGTTTTT TTTTTT TGTTAT TGTTTT
1 TGTTTT TGTTTT TGT-TTT TGTTT-T TG-TTTT TGTTTT TGTTTT TGTTTT
6455135 AGTTGTGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 24 0.63
7 11 0.29
8 3 0.08
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (6 bp):
TGTTTT
Found at i:6455114 original size:20 final size:19
Alignment explanation
Indices: 6455084--6455134 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
6455074 GGGAGGACTG
6455084 TGTTTTTGTTTTTGTCTTT
1 TGTTTTTGTTTTTGTCTTT
* *
6455103 TGTTTGTTGTTTTTTTTTTT
1 TGTTT-TTGTTTTTGTCTTT
*
6455123 TGTTATTGTTTT
1 TGTTTTTGTTTT
6455135 AGTTGTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (19 bp):
TGTTTTTGTTTTTGTCTTT
Found at i:6455575 original size:21 final size:21
Alignment explanation
Indices: 6455551--6455592 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6455541 AACCGATATT
*
6455551 ATTATTAATATTATTATTAAA
1 ATTATTAATATTAATATTAAA
*
6455572 ATTATTACTATTAATATTAAA
1 ATTATTAATATTAATATTAAA
6455593 CTAGAACTGA
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:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATTAATATTAATATTAAA
Found at i:6455590 original size:12 final size:12
Alignment explanation
Indices: 6455546--6455578 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6455536 AATTAAACCG
6455546 ATATTATTATTA
1 ATATTATTATTA
6455558 ATATTATTATTA
1 ATATTATTATTA
*
6455570 AAATTATTA
1 ATATTATTA
6455579 CTATTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:6458302 original size:19 final size:19
Alignment explanation
Indices: 6458278--6458315 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6458268 AACTTTTAGC
6458278 CTTAAAAATTTATTAGGAT
1 CTTAAAAATTTATTAGGAT
6458297 CTTAAAAATTTATTAGGAT
1 CTTAAAAATTTATTAGGAT
6458316 AAATATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
CTTAAAAATTTATTAGGAT
Found at i:6459173 original size:8 final size:8
Alignment explanation
Indices: 6459160--6459200 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
6459150 AATAATTTTT
6459160 TATTTATA
1 TATTTATA
6459168 TATTTATA
1 TATTTATA
*
6459176 TAATTATA
1 TATTTATA
*
6459184 TATTTAAA
1 TATTTATA
6459192 TATTTATA
1 TATTTATA
6459200 T
1 T
6459201 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTATA
Found at i:6459178 original size:24 final size:24
Alignment explanation
Indices: 6459151--6459200 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6459141 AATTTTTAAA
* * *
6459151 ATAATTTTTTATTTATATATTTAT
1 ATAATTATATATTTAAATATTTAT
6459175 ATAATTATATATTTAAATATTTAT
1 ATAATTATATATTTAAATATTTAT
6459199 AT
1 AT
6459201 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATAATTATATATTTAAATATTTAT
Found at i:6459218 original size:21 final size:22
Alignment explanation
Indices: 6459190--6459241 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
6459180 TATATATTTA
6459190 AATA-TTTATA-TTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
*
6459210 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTAAAAAAAT
6459232 AATATTTTAT
1 AATATTTTAT
6459242 TAATTTCGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 19 0.66
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTTATATTTAAAAAAAT
Found at i:6468092 original size:19 final size:18
Alignment explanation
Indices: 6468061--6468096 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6468051 ATTGTTAGAA
*
6468061 AAAATAAATAAAAGAACG
1 AAAATAAAGAAAAGAACG
6468079 AAAATAATAGAAAAGAAC
1 AAAATAA-AGAAAAGAAC
6468097 TTTGGCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAATAAAGAAAAGAACG
Found at i:6477506 original size:21 final size:21
Alignment explanation
Indices: 6477459--6477507 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6477449 GATAGAGGTA
* *
6477459 AGATTGATTATTATAATGGTG
1 AGATTAATTATTATAATGATG
* *
6477480 ATATTAATTATTATAGTGATG
1 AGATTAATTATTATAATGATG
6477501 AGATTAA
1 AGATTAA
6477508 AATCAGTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (21 bp):
AGATTAATTATTATAATGATG
Found at i:6477723 original size:12 final size:12
Alignment explanation
Indices: 6477706--6477730 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6477696 ATTAAAAATG
6477706 AATAATAATAAA
1 AATAATAATAAA
6477718 AATAATAATAAA
1 AATAATAATAAA
6477730 A
1 A
6477731 TCAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:6479374 original size:21 final size:20
Alignment explanation
Indices: 6479350--6479397 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6479340 ATTTAATAAT
6479350 TAATCATTGAAAACTTAA-ATG
1 TAATCATT-AAAACTTAATA-G
* *
6479371 TAATCAGTACAACTTAATAG
1 TAATCATTAAAACTTAATAG
6479391 TAATCAT
1 TAATCAT
6479398 CGATAACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (20 bp):
TAATCATTAAAACTTAATAG
Found at i:6480821 original size:15 final size:15
Alignment explanation
Indices: 6480790--6480868 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
6480780 TTTGAATAAT
* *
6480790 TTTTAGG-TTTCGAA
1 TTTTAGGATTTAGGA
6480804 TTTTAGGATTTAGGA
1 TTTTAGGATTTAGGA
* *
6480819 -TTTAAGATTTTAGGG
1 TTTTAGGA-TTTAGGA
*
6480834 TTTTGAGGGTTTATGG-
1 TTTT-AGGATTTA-GGA
*
6480850 TTTTAGGGTTTAGGA
1 TTTTAGGATTTAGGA
6480865 TTTT
1 TTTT
6480869 GATTTAAGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
14 15 0.28
15 23 0.43
16 11 0.21
17 4 0.08
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTTAGGATTTAGGA
Found at i:6480901 original size:7 final size:7
Alignment explanation
Indices: 6480871--6480939 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
6480861 AGGATTTTGA
6480871 TTTAAGG
1 TTTAAGG
*
6480878 -TTAGGG
1 TTTAAGG
*
6480884 TTTCGAGG
1 TTT-AAGG
6480892 TTTAAGG
1 TTTAAGG
*
6480899 TTTTGAAGT
1 -TTT-AAGG
6480908 TTTAAGG
1 TTTAAGG
**
6480915 TTTTAAAA
1 -TTTAAGG
6480923 TTTAAGG
1 TTTAAGG
6480930 TTTAAGG
1 TTTAAGG
6480937 TTT
1 TTT
6480940 TGAATTTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
6 5 0.11
7 23 0.49
8 16 0.34
9 3 0.06
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:6480913 original size:16 final size:15
Alignment explanation
Indices: 6480892--6480932 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6480882 GGTTTCGAGG
**
6480892 TTTAAGGTTTTGAAGT
1 TTTAAGGTTTT-AAAA
6480908 TTTAAGGTTTTAAAA
1 TTTAAGGTTTTAAAA
6480923 TTTAAGGTTT
1 TTTAAGGTTT
6480933 AAGGTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (15 bp):
TTTAAGGTTTTAAAA
Found at i:6480936 original size:22 final size:22
Alignment explanation
Indices: 6480908--6480964 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
6480898 GTTTTGAAGT
6480908 TTTAAGGTTTTAAAATTTAAGG
1 TTTAAGGTTTTAAAATTTAAGG
* * *
6480930 TTTAAGGTTTTGAATTTTAATG
1 TTTAAGGTTTTAAAATTTAAGG
*
6480952 TTTGAAGGATTTA
1 TTT-AAGGTTTTA
6480965 GGGTTTCGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTTAAAATTTAAGG
Found at i:6480949 original size:15 final size:16
Alignment explanation
Indices: 6480892--6480932 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6480882 GGTTTCGAGG
* *
6480892 TTTAAGGTTTTGAAGT
1 TTTAAGGTTTTAAAGA
6480908 TTTAAGGTTTTAAA-A
1 TTTAAGGTTTTAAAGA
6480923 TTTAAGGTTT
1 TTTAAGGTTT
6480933 AAGGTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTAAGGTTTTAAAGA
Found at i:6480976 original size:31 final size:30
Alignment explanation
Indices: 6480926--6480996 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
6480916 TTTAAAATTT
* *
6480926 AAGGTTTAAGGTTTTGAATTTTA-ATGTTTG
1 AAGGTTTAGGGTTTCGAATTTTAGA-GTTTG
*
6480956 AAGGATTTAGGGTTTCGAATTTTAGAGTTTT
1 AAGG-TTTAGGGTTTCGAATTTTAGAGTTTG
6480987 AAGGGTTTAG
1 AA-GGTTTAG
6480997 ATGTTTTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.11
31 28 0.80
32 3 0.09
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (30 bp):
AAGGTTTAGGGTTTCGAATTTTAGAGTTTG
Found at i:6481018 original size:41 final size:42
Alignment explanation
Indices: 6480973--6481082 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 42
6480963 TAGGGTTTCG
* * *
6480973 AATTTTAGAGTTTTAAGGGTTTAG-ATGTTTTTAGAG-TTCTA
1 AATTTTAGGGTTTTAAGGGTTTAGAAAGGTTTTAGAGCTT-TA
* *
6481014 AATTTCAGGGTTTTAAGGGTTT-GAAAGGTTTTAGAGCTTTG
1 AATTTTAGGGTTTTAAGGGTTTAGAAAGGTTTTAGAGCTTTA
*
6481055 GATTTTAGGGTTTTAAAGGGTTTA-AAAG
1 AATTTTAGGGTTTT-AAGGGTTTAGAAAG
6481083 TTTGAGGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.02
41 43 0.74
42 14 0.24
ACGTcount: A:0.27, C:0.03, G:0.26, T:0.44
Consensus pattern (42 bp):
AATTTTAGGGTTTTAAGGGTTTAGAAAGGTTTTAGAGCTTTA
Found at i:6481195 original size:7 final size:7
Alignment explanation
Indices: 6481183--6481267 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
6481173 TATGGTTTGG
6481183 AGGGTTT
1 AGGGTTT
6481190 AGGGTTT
1 AGGGTTT
**
6481197 AGATTTT
1 AGGGTTT
6481204 AGGGTTT
1 AGGGTTT
*
6481211 GGGGTTT
1 AGGGTTT
* *
6481218 AAGATTT
1 AGGGTTT
* **
6481225 TGATTTT
1 AGGGTTT
6481232 AGGGTTT
1 AGGGTTT
6481239 AAAGGGTTT
1 --AGGGTTT
6481248 AGGGTTT
1 AGGGTTT
*
6481255 A-GTTTT
1 AGGGTTT
6481261 AGGGTTT
1 AGGGTTT
6481268 GGATGGTTTT
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
6 5 0.09
7 46 0.79
9 7 0.12
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:6481208 original size:21 final size:21
Alignment explanation
Indices: 6481183--6481379 Score: 93
Period size: 21 Copynumber: 9.7 Consensus size: 21
6481173 TATGGTTTGG
6481183 AGGGTTTAGGGTTTAGATTTT
1 AGGGTTTAGGGTTTAGATTTT
*
6481204 AGGGTTTGGGGTTTAAGATTTT
1 AGGGTTTAGGGTTT-AGATTTT
**
6481226 -GATTTTAGGGTTTA-A----
1 AGGGTTTAGGGTTTAGATTTT
6481241 AGGGTTTAGGGTTTAG-TTTT
1 AGGGTTTAGGGTTTAGATTTT
* * *
6481261 AGGGTTTGGATGGTTTTAAGGTCTT
1 AGGGTTT--A-GGGTTT-AGATTTT
*
6481286 --GTTTTAGGGTTT-GA----
1 AGGGTTTAGGGTTTAGATTTT
* *
6481300 AAGGTTTAGGGTTTCGATTTT
1 AGGGTTTAGGGTTTAGATTTT
*
6481321 AGGGTTTGAGGTTTTA-ATTTT
1 AGGGTTT-AGGGTTTAGATTTT
*
6481342 AGGGTTTAAAGGGTTTAAGGTTTT
1 AGGGTTT--AGGGTTT-AGATTTT
*
6481366 A-GTTTTAGGGTTTA
1 AGGGTTTAGGGTTTA
6481380 AAAAAAACGC
Statistics
Matches: 134, Mismatches: 19, Indels: 47
0.67 0.09 0.23
Matches are distributed among these distances:
16 23 0.17
17 2 0.01
18 1 0.01
19 1 0.01
20 14 0.10
21 49 0.37
22 20 0.15
23 14 0.10
24 7 0.05
25 3 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (21 bp):
AGGGTTTAGGGTTTAGATTTT
Found at i:6481210 original size:30 final size:30
Alignment explanation
Indices: 6481171--6481336 Score: 164
Period size: 30 Copynumber: 5.7 Consensus size: 30
6481161 GGTTTTGAAA
*
6481171 TTTATGGTTTGGAGGGTTTAGGGTTTAGAT
1 TTTAGGGTTTGGAGGGTTTAGGGTTTAGAT
* * *
6481201 TTTAGGGTTT-G-GGGTTTAAGATTTTGAT
1 TTTAGGGTTTGGAGGGTTTAGGGTTTAGAT
**
6481229 TTTAGGGTTTAAAGGGTTTAGGGTTTAG-T
1 TTTAGGGTTTGGAGGGTTTAGGGTTTAGAT
* *
6481258 TTTAGGGTTTGGATGGTTTTAAGGTCTT-G-T
1 TTTAGGGTTTGGA-GGGTTTAGGGT-TTAGAT
* * *
6481288 TTTAGGGTTTGAAAGGTTTAGGGTTTCGAT
1 TTTAGGGTTTGGAGGGTTTAGGGTTTAGAT
*
6481318 TTTAGGGTTT-GAGGTTTTA
1 TTTAGGGTTTGGAGGGTTTA
6481337 ATTTTAGGGT
Statistics
Matches: 111, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
28 26 0.23
29 28 0.25
30 55 0.50
31 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.34, T:0.48
Consensus pattern (30 bp):
TTTAGGGTTTGGAGGGTTTAGGGTTTAGAT
Found at i:6481219 original size:59 final size:58
Alignment explanation
Indices: 6481104--6481378 Score: 234
Period size: 59 Copynumber: 4.8 Consensus size: 58
6481094 AAGTATTTGG
* * * ** **
6481104 GGTTTTGATTTT-GGAGTTTGGA-TGTTTAGGGTTTAGATTATAGGACATT-GACTTTAA
1 GGTTTTGATTTTAGG-GTTTGAAGGGTTTAGGGTTTAGATTTTAGG-GTTTGGGGTTTAA
* * *
6481161 GGTTTTGAAATTTATGGTTTGGAGGGTTTAGGGTTTAGATTTTAGGGTTTGGGGTTTAA
1 GGTTTTG-ATTTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTTAGGGTTTGGGGTTTAA
* *
6481220 GATTTTGATTTTAGGGTTTAAAGGGTTTAGGGTTTAG-TTTTAGGGTTTGGATGGTTTTAA
1 GGTTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTTAGGGTTTGG--GG-TTTAA
* * *
6481280 GGTCTTG-TTTTAGGGTTTGAAAGGTTTAGGGTTTCGATTTTAGGGTTT---G----A
1 GGTTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTTAGGGTTTGGGGTTTAA
* * *
6481330 GGTTTTAATTTTAGGGTTTAAAGGGTTTAAGGTTTTAG-TTTTAGGGTTT
1 GGTTTTGATTTTAGGGTTTGAAGGGTTT-AGGGTTTAGATTTTAGGGTTT
6481379 AAAAAAAACG
Statistics
Matches: 184, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
50 6 0.03
51 29 0.16
52 7 0.04
55 1 0.01
57 20 0.11
58 39 0.21
59 61 0.33
60 21 0.11
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (58 bp):
GGTTTTGATTTTAGGGTTTGAAGGGTTTAGGGTTTAGATTTTAGGGTTTGGGGTTTAA
Found at i:6481248 original size:51 final size:51
Alignment explanation
Indices: 6481183--6481380 Score: 145
Period size: 51 Copynumber: 3.8 Consensus size: 51
6481173 TATGGTTTGG
* *
6481183 AGGGTTT--AGGGTTTAGATTTTAGGGTTTGGGGTTTAAGATTTTGATTTT
1 AGGGTTTAAAGGGTTTAGATTTTAGGGTTTAGGGTTTAAGGTTTTGATTTT
* *
6481232 AGGGTTTAAAGGGTTTAGGGTTTAGTTTTAGGGTTTGGATGGTTTTAAGGTCTTG-TTTT
1 AGGGTTTAAAGGGTTTA--G---A-TTTTAGGGTTT--A-GGGTTTAAGGTTTTGATTTT
** * ** * *
6481291 AGGGTTTGAAA-GGTTTAGGGTTTCGATTTTAGGGTTTGAGGTTTTAATTTT
1 AGGGTTT-AAAGGGTTTAGATTTTAGGGTTTAGGGTTTAAGGTTTTGATTTT
* *
6481342 AGGGTTTAAAGGGTTTAAGGTTTTA-GTTTTAGGGTTTAA
1 AGGGTTTAAAGGGTTT-AGATTTTAGGGTTTAGGGTTTAA
6481381 AAAAAACGCG
Statistics
Matches: 117, Mismatches: 17, Indels: 28
0.72 0.10 0.17
Matches are distributed among these distances:
49 7 0.06
50 14 0.12
51 37 0.32
52 6 0.05
53 8 0.07
56 1 0.01
57 12 0.10
59 17 0.15
60 15 0.13
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (51 bp):
AGGGTTTAAAGGGTTTAGATTTTAGGGTTTAGGGTTTAAGGTTTTGATTTT
Found at i:6481355 original size:30 final size:30
Alignment explanation
Indices: 6481321--6481381 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
6481311 TTTCGATTTT
*
6481321 AGGGTTTGAGGTTTTAATTTTAGGGTTTAA
1 AGGGTTTAAGGTTTTAATTTTAGGGTTTAA
*
6481351 AGGGTTTAAGGTTTTAGTTTTAGGGTTTAA
1 AGGGTTTAAGGTTTTAATTTTAGGGTTTAA
6481381 A
1 A
6481382 AAAAACGCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (30 bp):
AGGGTTTAAGGTTTTAATTTTAGGGTTTAA
Found at i:6481682 original size:3 final size:3
Alignment explanation
Indices: 6481676--6481738 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
6481666 TTATGCTACT
6481676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6481724 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
6481739 AAAAGAAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6481816 original size:20 final size:20
Alignment explanation
Indices: 6481773--6481810 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6481763 TCATTTTTCA
6481773 TTATTCTTATTATTATTTAG
1 TTATTCTTATTATTATTTAG
*
6481793 TTATTGTTATT-TTATTTA
1 TTATTCTTATTATTATTTA
6481811 TTTTATAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTATTCTTATTATTATTTAG
Found at i:6481905 original size:19 final size:19
Alignment explanation
Indices: 6481881--6481917 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6481871 TAAAATTTAT
*
6481881 TTATTTATTATTATTATTG
1 TTATTTACTATTATTATTG
6481900 TTATTTACTATTATTATT
1 TTATTTACTATTATTATT
6481918 AATATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATTTACTATTATTATTG
Found at i:6481923 original size:19 final size:19
Alignment explanation
Indices: 6481882--6481923 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6481872 AAAATTTATT
* **
6481882 TATTTATTATTATTATTGT
1 TATTTACTATTATTATTAA
6481901 TATTTACTATTATTATTAA
1 TATTTACTATTATTATTAA
6481920 TATT
1 TATT
6481924 AAAAAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTACTATTATTATTAA
Found at i:6481994 original size:4 final size:4
Alignment explanation
Indices: 6481985--6482018 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
6481975 TAATATATAA
*
6481985 AAAT AAAT AAAC AAAT AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6482019 ATTTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:6482644 original size:9 final size:9
Alignment explanation
Indices: 6482630--6482654 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6482620 TTTTGGTGGA
6482630 TTTTTTTAT
1 TTTTTTTAT
6482639 TTTTTTTAT
1 TTTTTTTAT
6482648 TTTTTTT
1 TTTTTTT
6482655 GGGTTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6483456 original size:74 final size:70
Alignment explanation
Indices: 6483373--6483599 Score: 199
Period size: 74 Copynumber: 3.1 Consensus size: 70
6483363 ATGGCATCAT
* *
6483373 AAGTCAAAAAATAAAGAGTCGATCCGGACAATACCATAAGTTGAAAAATAAAAAATCGACTAGGA
1 AAGTCAAAAAATAAAGA-TCGATCGGGACAACACCATAAGTT-AAAAATAAAAAATCGA-T-GGA
6483438 CAATACCAC
62 CAATACCAC
* ** * *
6483447 AAGTCAAAAAATAAAGAACGATCGGGACAACACTGTAAGTCAAAAAATAAAAGAATCTATTGAGA
1 AAGTCAAAAAATAAAGATCGATCGGGACAACACCATAAGT-TAAAAATAAAA-AATCGA-TG-GA
* *
6483512 CAATATCGC
62 CAATACCAC
* *
6483521 GAGTCTAATAAA-AAAGAAT-GATCGGGACAACACCATAAGTTAAAAGAT-AAAAATCGAATGGA
1 AAGTC-AAAAAATAAAG-ATCGATCGGGACAACACCATAAGTTAAAA-ATAAAAAATCG-ATGG-
**
6483583 ACAGCACCAC
61 ACAATACCAC
6483593 AAGTCAA
1 AAGTCAA
6483600 CTAAAGTGAT
Statistics
Matches: 123, Mismatches: 22, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
71 3 0.02
72 16 0.13
73 37 0.30
74 61 0.50
75 6 0.05
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (70 bp):
AAGTCAAAAAATAAAGATCGATCGGGACAACACCATAAGTTAAAAATAAAAAATCGATGGACAAT
ACCAC
Found at i:6483475 original size:36 final size:36
Alignment explanation
Indices: 6483370--6483571 Score: 138
Period size: 37 Copynumber: 5.5 Consensus size: 36
6483360 AGGATGGCAT
* *
6483370 CATAAGTCAAAAAATAAAGAGTCGATCCGGACAATAC
1 CATAAGTCAAAAAATAAAGA-ACGATCGGGACAATAC
** * *
6483407 CATAAGTTGAAAAATAAAAAATCGA-CTAGGACAATAC
1 CATAAGTCAAAAAATAAAGAA-CGATC-GGGACAATAC
* *
6483444 CACAAGTCAAAAAATAAAGAACGATCGGGACAACAC
1 CATAAGTCAAAAAATAAAGAACGATCGGGACAATAC
** * * * *
6483480 TGTAAGTCAAAAAATAAAAGAATCTATTGAGACAATAT
1 CATAAGTCAAAAAAT-AAAGAA-CGATCGGGACAATAC
*** * * *
6483518 CGCGAGTCTAATAAA-AAAGAATGATCGGGACAACAC
1 CATAAGTC-AAAAAATAAAGAACGATCGGGACAATAC
* *
6483554 CATAAGTTAAAAGATAAA
1 CATAAGTCAAAAAATAAA
6483572 AATCGAATGG
Statistics
Matches: 123, Mismatches: 35, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
35 4 0.03
36 40 0.33
37 59 0.48
38 15 0.12
39 5 0.04
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (36 bp):
CATAAGTCAAAAAATAAAGAACGATCGGGACAATAC
Found at i:6483731 original size:33 final size:32
Alignment explanation
Indices: 6483667--6483736 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
6483657 TTGGTGCTAG
*
6483667 ATAAACTAAGCTTAAATTTCATTGAAAGCCAA
1 ATAAACTAAGCTTAAATTTCAATGAAAGCCAA
* * * *
6483699 CTAAACTAGGCTTAAAATTTCAATGGATGCCAA
1 ATAAACTAAGCTT-AAATTTCAATGAAAGCCAA
6483732 ATAAA
1 ATAAA
6483737 TCGGACTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (32 bp):
ATAAACTAAGCTTAAATTTCAATGAAAGCCAA
Found at i:6483811 original size:98 final size:98
Alignment explanation
Indices: 6483641--6483847 Score: 240
Period size: 98 Copynumber: 2.1 Consensus size: 98
6483631 TAATTAAACT
* *
6483641 GGACTTAAAATCTTTTTTGGTGCTAGATAAACTAAGCTTAAATTTCATTGAAAGCCAACTAAACT
1 GGACTTAAAATCTTTTTTGGTACTAAATAAACTAAGCTTAAATTTCATTGAAAGCCAACTAAACT
6483706 AGGCTTAAAATTTCAAT-GGATGCCAAATAAATC
66 AGGCTTAAAATTTCAATAGGA-GCCAAATAAATC
* * * ** * * * *
6483739 GGACTTAAATTTTTTTTTGGTACTAAATAAATTGGGCTTAAATTTCATTG-AAGGCTAGTGGAAC
1 GGACTTAAAATCTTTTTTGGTACTAAATAAACTAAGCTTAAATTTCATTGAAAGCCAACT-AAAC
* *
6483803 T-GGACTTAAAATTTCATTAGGAGCCAAATAAATT
65 TAGG-CTTAAAATTTCAATAGGAGCCAAATAAATC
*
6483837 GGGCTTAAAAT
1 GGACTTAAAAT
6483848 TTCAGTGGTG
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
97 8 0.09
98 80 0.88
99 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (98 bp):
GGACTTAAAATCTTTTTTGGTACTAAATAAACTAAGCTTAAATTTCATTGAAAGCCAACTAAACT
AGGCTTAAAATTTCAATAGGAGCCAAATAAATC
Found at i:6483844 original size:33 final size:32
Alignment explanation
Indices: 6483676--6483851 Score: 115
Period size: 33 Copynumber: 5.4 Consensus size: 32
6483666 GATAAACTAA
* * * *
6483676 GCTT-AAATTTCATTGAAAGCCAACTAAACTAG
1 GCTTAAAATTTCATTG-GAGCCAAATAAATTGG
* *
6483708 GCTTAAAATTTCAATGGATGCCAAATAAATCGG
1 GCTTAAAATTTCATTGGA-GCCAAATAAATTGG
* * ** *
6483741 ACTTAAATTTTTTTTTGGTA-CTAAATAAATTGG
1 GCTTAAA-ATTTCATTGG-AGCCAAATAAATTGG
* * * * * *
6483774 GCTT-AAATTTCATTGAAGGCTAGTGGAACTGG
1 GCTTAAAATTTCATTGGAGCCAAAT-AAATTGG
*
6483806 ACTTAAAATTTCATTAGGAGCCAAATAAATTGG
1 GCTTAAAATTTCATT-GGAGCCAAATAAATTGG
6483839 GCTTAAAATTTCA
1 GCTTAAAATTTCA
6483852 GTGGTGGACA
Statistics
Matches: 104, Mismatches: 32, Indels: 15
0.69 0.21 0.10
Matches are distributed among these distances:
30 1 0.01
31 8 0.08
32 15 0.14
33 67 0.64
34 12 0.12
35 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (32 bp):
GCTTAAAATTTCATTGGAGCCAAATAAATTGG
Found at i:6483944 original size:30 final size:30
Alignment explanation
Indices: 6483860--6483947 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 30
6483850 CAGTGGTGGA
* *
6483860 CAGATAAATTAGGCTTAACTTTTATTAGTGC
1 CAGATAAACTAGGCTTAAATTTTA-TAGTGC
* *
6483891 CA-AGTAAGCTAGGCTTAAAATTTTATGGTGC
1 CAGA-TAAACTAGGCTT-AAATTTTATAGTGC
6483922 CAGATAAACTAGGCTTAAATTTTATA
1 CAGATAAACTAGGCTTAAATTTTATA
6483948 TAGATTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 10 0.21
31 30 0.62
32 8 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (30 bp):
CAGATAAACTAGGCTTAAATTTTATAGTGC
Found at i:6484165 original size:23 final size:21
Alignment explanation
Indices: 6484104--6484166 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 21
6484094 ATATATTTTT
6484104 TCATCTAATCTGGGCTTATGTG
1 TCATCTAATCT-GGCTTATGTG
* *
6484126 TAAGCTAATCTGAGCTTATTGTG
1 TCATCTAATCTG-GCTTA-TGTG
*
6484149 TCATCTAAACTAGGCTTA
1 TCATCTAATCT-GGCTTA
6484167 AGACTCAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 1 0.03
22 14 0.42
23 17 0.52
24 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (21 bp):
TCATCTAATCTGGCTTATGTG
Found at i:6485224 original size:11 final size:11
Alignment explanation
Indices: 6485205--6485273 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
6485195 CAGCCATTCA
6485205 TTTTT-TTTCT
1 TTTTTCTTTCT
6485215 TTTTTCTTTCT
1 TTTTTCTTTCT
6485226 TTTATTC-TTC-
1 TTT-TTCTTTCT
* * *
6485236 ATTTCCTTTCA
1 TTTTTCTTTCT
*
6485247 TTTTTCTTTTTT
1 TTTTTC-TTTCT
6485259 TTTTTCTTTTCT
1 TTTTTC-TTTCT
6485271 TTT
1 TTT
6485274 GCATTCTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 2 0.04
10 10 0.21
11 15 0.32
12 20 0.43
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:6485251 original size:32 final size:32
Alignment explanation
Indices: 6485201--6485266 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
6485191 TTTCCAGCCA
** *
6485201 TTCATTTTTTTTCTTTTTTCTTTCTTTTATTC
1 TTCATTTCCTTTCATTTTTCTTTCTTTTATTC
* *
6485233 TTCATTTCCTTTCATTTTTCTTTTTTTTTTTC
1 TTCATTTCCTTTCATTTTTCTTTCTTTTATTC
6485265 TT
1 TT
6485267 TTCTTTTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (32 bp):
TTCATTTCCTTTCATTTTTCTTTCTTTTATTC
Found at i:6485638 original size:15 final size:17
Alignment explanation
Indices: 6485609--6485645 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
6485599 GTTTTTTTTT
*
6485609 TTTTTTAATTATTGGCC
1 TTTTTTAATTATTGGAC
6485626 TTTTTT-ATT-TTGGAC
1 TTTTTTAATTATTGGAC
6485641 TTTTT
1 TTTTT
6485646 CCATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 3 0.16
17 6 0.32
ACGTcount: A:0.14, C:0.08, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTTTTAATTATTGGAC
Done.