Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 56 of 186
Found at i:17370453 original size:21 final size:21
Alignment explanation
Indices: 17370427--17370479 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
17370417 ATTTTTTATA
17370427 ATTTTTTTTACAAAAAAATTCT
1 ATTTTTTTTAC-AAAAAATTCT
17370449 ATTTTTTTTACAAAAAATTCT
1 ATTTTTTTTACAAAAAATTCT
17370470 ATTTTTTTTA
1 ATTTTTTTTA
17370480 TTTTGTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTTTACAAAAAATTCT
Found at i:17370770 original size:36 final size:36
Alignment explanation
Indices: 17370688--17370759 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17370678 CTATTTTTTA
*
17370688 AAATAATTTTTCATTATTTCAATTTAGAAGTTATAC
1 AAATAATTTTTCATTATTTCAATTTAAAAGTTATAC
17370724 AAATAATTTTTCATTATTTCAATTTAAAAGTTATAC
1 AAATAATTTTTCATTATTTCAATTTAAAAGTTATAC
17370760 TTTTAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.47
Consensus pattern (36 bp):
AAATAATTTTTCATTATTTCAATTTAAAAGTTATAC
Found at i:17373122 original size:94 final size:97
Alignment explanation
Indices: 17372997--17373186 Score: 307
Period size: 94 Copynumber: 2.0 Consensus size: 97
17372987 ACTTTACTTT
*
17372997 TTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTCATATTTTATCTAACTT-TTTATTAA
1 TTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTCATATTTTATCTAA-TTATTTACTAA
*
17373061 TTTACTATTGGTTGTTTTCC-AAT-TTTTTTTA
65 TTTACTATTGGTTATTTTCCAAATATTTTTTTA
* *
17373092 TTTTTTCAATTTAAT-TTATAATTTATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAAT
1 TTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTCATATTTTATCTAATTATTTACTAAT
17373156 TTACTATTGGTTATTTTCCAAATATTTTTTT
66 TTACTATTGGTTATTTTCCAAATATTTTTTT
17373187 GAGTTTCTAA
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
93 2 0.02
94 61 0.69
95 18 0.20
96 7 0.08
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (97 bp):
TTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTCATATTTTATCTAATTATTTACTAAT
TTACTATTGGTTATTTTCCAAATATTTTTTTA
Found at i:17375425 original size:20 final size:20
Alignment explanation
Indices: 17375402--17375443 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17375392 TAATTTTTTA
17375402 AAAAAATCTAA-AAAATATAT
1 AAAAAATCTAATAAAATA-AT
*
17375422 AAAAAATTTAATAAAATAAT
1 AAAAAATCTAATAAAATAAT
17375442 AA
1 AA
17375444 TTATGGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATCTAATAAAATAAT
Found at i:17380691 original size:27 final size:26
Alignment explanation
Indices: 17380652--17380702 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
17380642 CATGAATCAC
*
17380652 CTTTGTGGTATACTCTGTATATATAA
1 CTTTGTGGTATACTCTATATATATAA
*
17380678 CTTTGTGTTCATACTCTATATATAT
1 CTTTGTGGT-ATACTCTATATATAT
17380703 CGCCTTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (26 bp):
CTTTGTGGTATACTCTATATATATAA
Found at i:17381765 original size:27 final size:27
Alignment explanation
Indices: 17381735--17381807 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
17381725 TCGCCAGACC
17381735 TACTAGCGTACACCATCT-TGCCAGGCT
1 TACTAGCGTACACCATCTCT-CCAGGCT
* * * *
17381762 TACTGGCATACATCGTCTCTCCAGGCT
1 TACTAGCGTACACCATCTCTCCAGGCT
* *
17381789 TGCTAGCGTATACCATCTC
1 TACTAGCGTACACCATCTC
17381808 GCTAGACCTA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.29
Consensus pattern (27 bp):
TACTAGCGTACACCATCTCTCCAGGCT
Found at i:17387364 original size:51 final size:51
Alignment explanation
Indices: 17387304--17387406 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
17387294 TTTTCGGAGT
* * *
17387304 TAACGGCAATCCTAATATAAAATCCATTGTAACTCGCTC-CTATTTCCCTTC
1 TAACGGCAATCCTAATACAAAATCCATTATAACTCGCTCTC-ATTTCCATTC
*
17387355 TAACGGCAATCCTGATACAAAATCCATTATAACTCGCTCTCATTTCCATTC
1 TAACGGCAATCCTAATACAAAATCCATTATAACTCGCTCTCATTTCCATTC
17387406 T
1 T
17387407 GAAATCAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (51 bp):
TAACGGCAATCCTAATACAAAATCCATTATAACTCGCTCTCATTTCCATTC
Found at i:17394491 original size:12 final size:12
Alignment explanation
Indices: 17394474--17394501 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17394464 TTGAACTTGA
17394474 ACTTGCACATGC
1 ACTTGCACATGC
17394486 ACTTGCACATGC
1 ACTTGCACATGC
17394498 ACTT
1 ACTT
17394502 TGCCCCCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (12 bp):
ACTTGCACATGC
Found at i:17397268 original size:4 final size:4
Alignment explanation
Indices: 17397259--17397284 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17397249 GTATTGTTGG
17397259 GGCT GGCT GGCT GGCT GGCT GGCT GG
1 GGCT GGCT GGCT GGCT GGCT GGCT GG
17397285 ATGTAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.54, T:0.23
Consensus pattern (4 bp):
GGCT
Found at i:17400396 original size:13 final size:13
Alignment explanation
Indices: 17400378--17400420 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
17400368 AACATTATTT
*
17400378 TTTAATCAATTAA
1 TTTAATTAATTAA
17400391 TTTAATTAATTAA
1 TTTAATTAATTAA
17400404 TTTAACTTAATTAA
1 TTTAA-TTAATTAA
17400418 TTT
1 TTT
17400421 CTCAACCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:17402970 original size:47 final size:47
Alignment explanation
Indices: 17402861--17402971 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
17402851 CCGGGATAAG
**
17402861 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGCA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGCATAGCA
* ** *
17402908 CACAAAGCACTTCATCGGAACAAATCCGGAACTTTAACAGCAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGCA-TAGCA
17402955 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
17402972 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGCATAGCA
Found at i:17403743 original size:4 final size:4
Alignment explanation
Indices: 17403734--17403762 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17403724 CCCTTTTCTA
17403734 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
17403763 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:17410246 original size:47 final size:47
Alignment explanation
Indices: 17410137--17410247 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
17410127 CCGGGATAAG
* * *
17410137 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
17410184 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
17410231 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
17410248 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:17411010 original size:4 final size:4
Alignment explanation
Indices: 17411001--17411081 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
17410991 CCCTTTTCTA
** * * *
17411001 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC
** *
17411051 ACTC TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
17411082 TTTTTAACTT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:17413396 original size:39 final size:39
Alignment explanation
Indices: 17413352--17413429 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
17413342 GGTACACTTT
17413352 CACATCTAGTTTTTGTTCTTGATGATCCAACATGATAAA
1 CACATCTAGTTTTTGTTCTTGATGATCCAACATGATAAA
17413391 CACATCTAGTTTTTGTTCTTGATGATCCAACATGATAAA
1 CACATCTAGTTTTTGTTCTTGATGATCCAACATGATAAA
17413430 TGGTGTGGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (39 bp):
CACATCTAGTTTTTGTTCTTGATGATCCAACATGATAAA
Found at i:17414844 original size:3 final size:3
Alignment explanation
Indices: 17414836--17414865 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17414826 TCGATATGTC
*
17414836 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17414866 AGTGGAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17435057 original size:11 final size:11
Alignment explanation
Indices: 17435027--17435060 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
17435017 CGCATCTAGT
17435027 TTTATTCTTAA
1 TTTATTCTTAA
**
17435038 TTTGCTCTTAA
1 TTTATTCTTAA
17435049 TTTATTCTTAA
1 TTTATTCTTAA
17435060 T
1 T
17435061 GATTTGACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTATTCTTAA
Found at i:17435790 original size:30 final size:32
Alignment explanation
Indices: 17435754--17435812 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
17435744 CATTTTACAT
*
17435754 AATTAAAGTTGGTATTTGTT-T-ATTTCAAAA
1 AATTAAAGTTGATATTTGTTATCATTTCAAAA
17435784 AATTAAAGTTGATATTTGTTATCATTTCA
1 AATTAAAGTTGATATTTGTTATCATTTCA
17435813 CAAAGGCACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 19 0.73
31 1 0.04
32 6 0.23
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (32 bp):
AATTAAAGTTGATATTTGTTATCATTTCAAAA
Found at i:17463485 original size:22 final size:21
Alignment explanation
Indices: 17463450--17463491 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17463440 TATTGAGCTA
* *
17463450 TTTTTTAAATATTTTTATAAT
1 TTTTTTAAAAATTTATATAAT
17463471 TTTTTTAATAAATTTATATAA
1 TTTTTTAA-AAATTTATATAA
17463492 ATTGATTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTAAAAATTTATATAAT
Found at i:17463486 original size:20 final size:20
Alignment explanation
Indices: 17463449--17463488 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17463439 CTATTGAGCT
**
17463449 ATTTTTTAAATATTTTTATA
1 ATTTTTTAAATAAATTTATA
*
17463469 ATTTTTTTAATAAATTTATA
1 ATTTTTTAAATAAATTTATA
17463489 TAAATTGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTAAATAAATTTATA
Found at i:17463817 original size:18 final size:20
Alignment explanation
Indices: 17463782--17463822 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
17463772 ATATAATTGT
*
17463782 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
17463802 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
17463820 AAA
1 AAA
17463823 TATCAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:17463913 original size:11 final size:11
Alignment explanation
Indices: 17463878--17463917 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17463868 ATAATACCAA
17463878 TAAAATAGTAG
1 TAAAATAGTAG
* * *
17463889 CAACATAATAG
1 TAAAATAGTAG
17463900 TAAAATAGTAG
1 TAAAATAGTAG
17463911 TAAAATA
1 TAAAATA
17463918 TGAAAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (11 bp):
TAAAATAGTAG
Found at i:17466753 original size:45 final size:45
Alignment explanation
Indices: 17466689--17466778 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
17466679 CTTTAGAAGT
17466689 AAGATTTTAGTGAATTTAGTATATAAATTTTCATATATAGGATTG
1 AAGATTTTAGTGAATTTAGTATATAAATTTTCATATATAGGATTG
17466734 AAGATTTTAGTGAATTTAGTATATAAATTTTCATATATAGGATTG
1 AAGATTTTAGTGAATTTAGTATATAAATTTTCATATATAGGATTG
17466779 TGTTGTTCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (45 bp):
AAGATTTTAGTGAATTTAGTATATAAATTTTCATATATAGGATTG
Found at i:17470051 original size:30 final size:31
Alignment explanation
Indices: 17469976--17470053 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
17469966 ATTGAATCAA
* * *
17469976 AATCAAAATCAAATTTTCGTGTGTATGATTG
1 AATCCAAATCAAAGTTTCATGTGTATGATTG
*
17470007 AATCCAAATCAAAGTTTCATGTGTATTATTG
1 AATCCAAATCAAAGTTTCATGTGTATGATTG
* *
17470038 TAT-CAAATTAAAGTTT
1 AATCCAAATCAAAGTTT
17470054 GTGTATTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 12 0.29
31 29 0.71
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (31 bp):
AATCCAAATCAAAGTTTCATGTGTATGATTG
Found at i:17471632 original size:17 final size:18
Alignment explanation
Indices: 17471610--17471643 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17471600 TACATGCCTT
17471610 AATTTGTTGCTG-TTTTC
1 AATTTGTTGCTGCTTTTC
17471627 AATTTGTTGCTGCTTTT
1 AATTTGTTGCTGCTTTT
17471644 GTCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (18 bp):
AATTTGTTGCTGCTTTTC
Found at i:17476653 original size:37 final size:37
Alignment explanation
Indices: 17476612--17476687 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
17476602 CATTCTTTTG
17476612 ATTTAAGCTTAGTAGCTTCTAGTCTATGGCAACTTCC
1 ATTTAAGCTTAGTAGCTTCTAGTCTATGGCAACTTCC
17476649 ATTTAAGCTTAGTAGCTTCTAGTCTATGGCAACTTCC
1 ATTTAAGCTTAGTAGCTTCTAGTCTATGGCAACTTCC
17476686 AT
1 AT
17476688 ACTTTTGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
ATTTAAGCTTAGTAGCTTCTAGTCTATGGCAACTTCC
Found at i:17479780 original size:12 final size:11
Alignment explanation
Indices: 17479758--17479783 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17479748 CATTTTCCTC
17479758 AAAATAAAAAA
1 AAAATAAAAAA
17479769 AAAATAAAAAA
1 AAAATAAAAAA
17479780 AAAA
1 AAAA
17479784 GAAAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:17498348 original size:74 final size:74
Alignment explanation
Indices: 17498227--17498382 Score: 303
Period size: 74 Copynumber: 2.1 Consensus size: 74
17498217 TCCATTGTCA
*
17498227 AGTTTTTGGATTTTTCGAATTTTCGATCAAACGCATAGATTTTCTTCATCTAAGGTAATGATTCA
1 AGTTTTTAGATTTTTCGAATTTTCGATCAAACGCATAGATTTTCTTCATCTAAGGTAATGATTCA
17498292 ATTCCTTAT
66 ATTCCTTAT
17498301 AGTTTTTAGATTTTTCGAATTTTCGATCAAACGCATAGATTTTCTTCATCTAAGGTAATGATTCA
1 AGTTTTTAGATTTTTCGAATTTTCGATCAAACGCATAGATTTTCTTCATCTAAGGTAATGATTCA
17498366 ATTCCTTAT
66 ATTCCTTAT
17498375 AGTTTTTA
1 AGTTTTTA
17498383 ATGTTATCTA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.46
Consensus pattern (74 bp):
AGTTTTTAGATTTTTCGAATTTTCGATCAAACGCATAGATTTTCTTCATCTAAGGTAATGATTCA
ATTCCTTAT
Found at i:17500902 original size:15 final size:15
Alignment explanation
Indices: 17500882--17500910 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17500872 GATAGTCTAT
17500882 AAATATTTTGCATTA
1 AAATATTTTGCATTA
17500897 AAATATTTTGCATT
1 AAATATTTTGCATT
17500911 TCGTAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
AAATATTTTGCATTA
Found at i:17506038 original size:42 final size:42
Alignment explanation
Indices: 17505983--17506086 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
17505973 CCGTGTGAAT
** * *
17505983 CACACGGGTAAGGATATGGGTGTGTATCCAGGCTGTGTGAGC
1 CACACGGACAAGGACATGGGTGTATATCCAGGCTGTGTGAGC
* * * * *
17506025 CATATGGACAAGGACATGGATGTATGTTCAGGCTGTGTGAGC
1 CACACGGACAAGGACATGGGTGTATATCCAGGCTGTGTGAGC
17506067 CACACGGACAAGGACATGGG
1 CACACGGACAAGGACATGGG
17506087 CATGTGTCTA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (42 bp):
CACACGGACAAGGACATGGGTGTATATCCAGGCTGTGTGAGC
Found at i:17512848 original size:27 final size:27
Alignment explanation
Indices: 17512817--17512871 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17512807 ATTCATGCAA
17512817 ATTCACTTAACCAAAACCTAATTAACT
1 ATTCACTTAACCAAAACCTAATTAACT
17512844 ATTCACTTAACCAAAACCTAATTAACT
1 ATTCACTTAACCAAAACCTAATTAACT
17512871 A
1 A
17512872 CAAAACTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (27 bp):
ATTCACTTAACCAAAACCTAATTAACT
Found at i:17524823 original size:21 final size:23
Alignment explanation
Indices: 17524779--17524824 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
17524769 AAAGATTGAT
* *
17524779 TTGTACTTTATATTCATCTTAAA
1 TTGTAATTTATATCCATCTTAAA
17524802 TTGTAATTTA-ATCCAT-TTAAA
1 TTGTAATTTATATCCATCTTAAA
17524823 TT
1 TT
17524825 TATAGATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (23 bp):
TTGTAATTTATATCCATCTTAAA
Found at i:17527628 original size:25 final size:25
Alignment explanation
Indices: 17527566--17527630 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
17527556 ACTTACATGG
*
17527566 CGATGCAACAGAGGACTATCAACGG
1 CGATGCAACAGAGGACTATCAACGA
** * * *
17527591 CGATGCAGTAGAGGACTGTCGATGA
1 CGATGCAACAGAGGACTATCAACGA
*
17527616 TGATGCAACAGAGGA
1 CGATGCAACAGAGGA
17527631 TTGTTGACAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.15
Consensus pattern (25 bp):
CGATGCAACAGAGGACTATCAACGA
Found at i:17533001 original size:21 final size:21
Alignment explanation
Indices: 17532977--17533025 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
17532967 AAGCATCGCA
17532977 TCCTCAGGCTCCCACATGGCC
1 TCCTCAGGCTCCCACATGGCC
*
17532998 TCCTCAGGCTCCCACGTGGCC
1 TCCTCAGGCTCCCACATGGCC
17533019 TCCTCAG
1 TCCTCAG
17533026 TGCTATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.47, G:0.20, T:0.20
Consensus pattern (21 bp):
TCCTCAGGCTCCCACATGGCC
Found at i:17534484 original size:34 final size:30
Alignment explanation
Indices: 17534445--17534505 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
17534435 CTGTTTAGTC
*
17534445 TTATTTGTATGTTATTATTTTTTATTTATTTTAT
1 TTATTTG-AT-TT-TTATTTATTA-TTATTTTAT
17534479 TTATTTGATTTTTATTTATTATTATTT
1 TTATTTGATTTTTATTTATTATTATTT
17534506 ATTCTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 9 0.35
32 2 0.08
33 2 0.08
34 7 0.27
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (30 bp):
TTATTTGATTTTTATTTATTATTATTTTAT
Found at i:17538138 original size:305 final size:306
Alignment explanation
Indices: 17537576--17538188 Score: 1086
Period size: 305 Copynumber: 2.0 Consensus size: 306
17537566 ACGATGTTGG
17537576 AGCCTCATTTTTCGAAAAGTGTTAGAACGCATTTGAGTGGTAATAGTAGTTTTGAGGAGGGTGTT
1 AGCCTCATTTTTCGAAAAGTGTTAGAACGCATTTGAGTGGTAATAGTAGTTTTGAGGAGGGTGTT
* *
17537641 GGTAGTAGTGCGAGCGCTCCATTTTGTGAGCACTGTAAAAATCGCCATCCGGGCAATTGCTGGAA
66 GGTAGTAGTGCGAGCACTCCATTTTGTGAGCACTGTAAAAATCGCCATCCGGCCAATTGCTGGAA
* * *
17537706 AAATGCAAAAGCATGTTTTCGATGTGGATCCACATAACATCAGTCGGGGAGTGTCCTCGACGACT
131 AAATGCAAAAGCATGTTTTCGATGTGGATACACATAACATCAGTCAGAGAGTGTCCTCGACGACT
*
17537771 TTGAGGCAGGTTTGGTTGTGAATGTTTTGATGTTTTGATTAAGAGTATAGTAATTGTGTGTGT-G
196 TTGAGGCAGGTTTGGTTGTGAATGTTTCGATGTTTTGATTAAGAGTATAGTAATTGTGTGTGTAG
*
17537835 ATAGCCCTATTCTGACCCTAGTCGGGAAGTGATTTCGGGACCGCTA
261 ATAACCCTATTCTGACCCTAGTCGGGAAGTGATTTCGGGACCGCTA
* *
17537881 AGCCTTATTTTTCGAAAAGTGTTAGAACGCATTTGAGTGGTAATAGTGGTTTTGAGGAGGGTGTT
1 AGCCTCATTTTTCGAAAAGTGTTAGAACGCATTTGAGTGGTAATAGTAGTTTTGAGGAGGGTGTT
17537946 GGTAGTAGTGCGAGCACTCCATTTTGTGAGCACTGTAAAAATCGCCATCCGGCCAATTGCTGGAA
66 GGTAGTAGTGCGAGCACTCCATTTTGTGAGCACTGTAAAAATCGCCATCCGGCCAATTGCTGGAA
**
17538011 AAATGCATGGAGCATGTTTTCGATGTGGATACACATAACATCAGGTCAGAGAGTGTCCTCGACGA
131 AAATGCA-AAAGCATGTTTTCGATGTGGATACACATAACATCA-GTCAGAGAGTGTCCTCGACGA
*
17538076 CTTTGAGGCAGGTTTGGTTTTGAATGTTTCGATGTTTTGATTAAGAGTATAGTAATTGTGTGTG-
194 CTTTGAGGCAGGTTTGGTTGTGAATGTTTCGATGTTTTGATTAAGAGTATAGTAATTGTGTGTGT
17538140 AGATAACCCTATTCTGACCCTAGTCGGGAAGTGATTTCGGGACCGCTA
259 AGATAACCCTATTCTGACCCTAGTCGGGAAGTGATTTCGGGACCGCTA
17538188 A
1 A
17538189 ACCGAGTCGC
Statistics
Matches: 293, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
305 133 0.45
306 32 0.11
307 128 0.44
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (306 bp):
AGCCTCATTTTTCGAAAAGTGTTAGAACGCATTTGAGTGGTAATAGTAGTTTTGAGGAGGGTGTT
GGTAGTAGTGCGAGCACTCCATTTTGTGAGCACTGTAAAAATCGCCATCCGGCCAATTGCTGGAA
AAATGCAAAAGCATGTTTTCGATGTGGATACACATAACATCAGTCAGAGAGTGTCCTCGACGACT
TTGAGGCAGGTTTGGTTGTGAATGTTTCGATGTTTTGATTAAGAGTATAGTAATTGTGTGTGTAG
ATAACCCTATTCTGACCCTAGTCGGGAAGTGATTTCGGGACCGCTA
Found at i:17538523 original size:12 final size:13
Alignment explanation
Indices: 17538489--17538527 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
17538479 TTTTTTTAAG
17538489 TAGTTTATTGATA
1 TAGTTTATTGATA
17538502 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
17538516 TAGTTTATTGAT
1 TAGTTTATTGAT
17538528 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 7 0.30
15 5 0.22
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:17542514 original size:4 final size:4
Alignment explanation
Indices: 17542505--17542536 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
17542495 TATTATCATT
17542505 TTTA TTTA -TTA TTTA TTTA -TTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
17542537 ATTCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.23
4 20 0.77
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:17542521 original size:11 final size:11
Alignment explanation
Indices: 17542505--17542539 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
17542495 TATTATCATT
17542505 TTTATTTATTA
1 TTTATTTATTA
17542516 TTTATTTATTA
1 TTTATTTATTA
17542527 TTTATTTATTA
1 TTTATTTATTA
17542538 TT
1 TT
17542540 CTTTATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:17544441 original size:17 final size:15
Alignment explanation
Indices: 17544411--17544469 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
17544401 TTTACAAATA
*
17544411 AAAATATGTAATAAT
1 AAAATATATAATAAT
17544426 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
17544443 AAAATATAT-GTAAT
1 AAAATATATAATAAT
17544457 AAAATATATAATA
1 AAAATATATAATA
17544470 TAATGTAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 7 0.18
16 8 0.21
17 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:17544457 original size:34 final size:33
Alignment explanation
Indices: 17544407--17544473 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
17544397 ATAATTTACA
* *
17544407 AATAAAAATATGTAATAATATAAATCATATAAT
1 AATAAAAATATGTAATAAAATAAATAATATAAT
*
17544440 AATAAAATATATGTAATAAAATATATAATATAAT
1 AATAAAA-ATATGTAATAAAATAAATAATATAAT
17544474 GTAAGAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAAAAATATGTAATAAAATAAATAATATAAT
Found at i:17544473 original size:17 final size:16
Alignment explanation
Indices: 17544411--17544473 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 16
17544401 TTTACAAATA
*
17544411 AAAATATGTA-ATAAT
1 AAAATATATATATAAT
17544426 ATAAATCATATA-ATAAT
1 A-AAAT-ATATATATAAT
*
17544443 -AAA-ATATATGTAAT
1 AAAATATATATATAAT
17544457 AAAATATATAATATAAT
1 AAAATATAT-ATATAAT
17544474 GTAAGAAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.13
14 4 0.10
15 7 0.18
16 8 0.21
17 15 0.38
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAATATATATATAAT
Found at i:17544485 original size:23 final size:22
Alignment explanation
Indices: 17544445--17544496 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
17544435 ATAATAATAA
*
17544445 AATAT-ATGTAATAAAATATAT
1 AATATAATGTAAGAAAATATAT
17544466 AATATAATGTAAGAAGAATATAT
1 AATATAATGTAAGAA-AATATAT
*
17544489 AAAATAAT
1 AATATAAT
17544497 AATAATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 5 0.19
22 8 0.30
23 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (22 bp):
AATATAATGTAAGAAAATATAT
Found at i:17544690 original size:22 final size:22
Alignment explanation
Indices: 17544664--17544728 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
17544654 AGATATAACT
*
17544664 AATATATATAATAAA-AATTAA
1 AATATATATAATAAATAAATAA
17544685 ACATATATAATAATATAATAAATAA
1 A-ATATAT-ATAATA-AATAAATAA
*
17544710 AATATAGTAAAATAAATAA
1 AATATA-TATAATAAATAA
17544729 TATATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 1 0.03
22 6 0.16
23 11 0.30
24 12 0.32
25 7 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATATATATAATAAATAAATAA
Found at i:17544725 original size:19 final size:20
Alignment explanation
Indices: 17544701--17544765 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
17544691 ATAATAATAT
17544701 AATAAATAAA-ATATAGTAA
1 AATAAATAAACATATAGTAA
* *
17544720 AATAAATAATATATATAATGAA
1 AATAAATAA-ACATATAGT-AA
*
17544742 AATACATACAACATATAGTAA
1 AATAAATA-AACATATAGTAA
17544763 AAT
1 AAT
17544766 GCAAATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 11 0.29
22 16 0.42
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATAAATAAACATATAGTAA
Found at i:17544743 original size:22 final size:21
Alignment explanation
Indices: 17544658--17544745 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 21
17544648 TAATATAGAT
*
17544658 ATAACTAATATATATAATAAAA
1 ATAAATAATATATATAAT-AAA
* *
17544680 ATTAAA-CATATATAATAATATA
1 A-TAAATAATATAT-ATAATAAA
*
17544702 ATAAATAA-A-ATATAGTAAA
1 ATAAATAATATATATAATAAA
17544721 ATAAATAATATATATAATGAAA
1 ATAAATAATATATATAAT-AAA
17544743 ATA
1 ATA
17544746 CATACAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
19 14 0.26
20 3 0.06
21 11 0.21
22 17 0.32
23 8 0.15
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAATAATATATATAATAAA
Found at i:17547126 original size:283 final size:285
Alignment explanation
Indices: 17546596--17547290 Score: 950
Period size: 283 Copynumber: 2.4 Consensus size: 285
17546586 TTCGATCTGC
* * * * * * *
17546596 TCTCTGCCAATGCAGGGAT-ACAAAATCATCTTAGATTTGATTCAGCGTAAGCACGT-AAAAGCC
1 TCTCTGACAATACAGAGATGAC-AAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAA-CC
* ** * * ** *
17546659 ATATCAATTATGCCTTCGATTTACTCCTTGTAAGCACAAGGATATCAAATCATCTTGGATTTGTT
64 AAATCAGCTATGTCTCCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATTTGTT
* *
17546724 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCA
129 TGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCATTGTAAACACAAGAATGCCA
* **
17546789 AATCATCTTGGATCTTCTTCAGTATAAACATCTGAAGGTTAGATATGCTATGTGTCTGCCCTTTG
194 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATATGCTATGTGTCTGCCCTCCG
** *
17546854 TTGAATATGGAGATGCCAAACTTCGA-
259 TCAAATATGGAGACGCCAAACTTCGAT
* *
17546880 T-TCTGACAATACAGATATGACAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAATACCAA
1 TCTCTGACAATACAGAGATGACAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAACCAA
* *
17546944 ATCAGCTATGGT-TCCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATTTGTTT
66 ATCAGCTAT-GTCTCCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATTTGTTT
17547008 GAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCATTGTAAACACAAGAATGCCAA
130 GAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCATTGTAAACACAAGAATGCCAA
* * *
17547073 ATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGGTCTGTTATGTGTCTGCCCTCCGT
195 ATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATATGCTATGTGTCTGCCCTCCGT
*
17547138 CAAATATGGAGACGCCAAACTTTGATTTGT
260 CAAATATGGAGACGCCAAACTTCGA----T
* * *
17547168 TCTCTGTCAATACAGAGATGCCAAATCATTTTAGACTTGCTTCAACGTAAACACGTGAAAACCAA
1 TCTCTGACAATACAGAGATGACAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAACCAA
* * * *
17547233 ATCAGTTATGTCTTCGGTTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
66 ATCAGCTATGTCTCCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGAT
17547291 CTAGCTTCAG
Statistics
Matches: 359, Mismatches: 42, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
283 242 0.67
284 7 0.02
288 3 0.01
289 107 0.30
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (285 bp):
TCTCTGACAATACAGAGATGACAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAACCAA
ATCAGCTATGTCTCCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATTTGTTTG
AGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCATTGTAAACACAAGAATGCCAAA
TCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATATGCTATGTGTCTGCCCTCCGTC
AAATATGGAGACGCCAAACTTCGAT
Found at i:17558015 original size:26 final size:26
Alignment explanation
Indices: 17557978--17558035 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
17557968 TGATACAAAT
17557978 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
17558004 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
17558030 TGATAA
1 TGATAA
17558036 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:17561199 original size:7 final size:7
Alignment explanation
Indices: 17561184--17561324 Score: 62
Period size: 7 Copynumber: 20.4 Consensus size: 7
17561174 AATAATATGA
17561184 ATAATAT
1 ATAATAT
*
17561191 ATCATAT
1 ATAATAT
17561198 ATAATAT
1 ATAATAT
*
17561205 ATAA-AA
1 ATAATAT
*
17561211 ATAACAT
1 ATAATAT
* *
17561218 GTACTA-
1 ATAATAT
*
17561224 A-AACAT
1 ATAATAT
17561230 ATAATAT
1 ATAATAT
* *
17561237 AGACATAA
1 ATA-ATAT
17561245 ATAATATAT
1 AT-A-ATAT
17561254 ATAATAT
1 ATAATAT
17561261 ATAATA-
1 ATAATAT
*
17561267 AAAAT-T
1 ATAATAT
*
17561273 AAACATAT
1 ATA-ATAT
17561281 ATAATAAT
1 ATAAT-AT
*
17561289 ATAATAA
1 ATAATAT
*
17561296 ATAAAAT
1 ATAATAT
*
17561303 ATAGTA-
1 ATAATAT
*
17561309 A-AATAA
1 ATAATAT
17561315 ATAATAT
1 ATAATAT
17561322 ATA
1 ATA
17561325 TAATGAAAAT
Statistics
Matches: 98, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
5 5 0.05
6 15 0.15
7 57 0.58
8 15 0.15
9 6 0.06
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (7 bp):
ATAATAT
Found at i:17561259 original size:9 final size:9
Alignment explanation
Indices: 17561245--17561328 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 9
17561235 ATAGACATAA
17561245 ATAATATAT
1 ATAATATAT
17561254 ATAATATAT
1 ATAATATAT
*
17561263 AATAA-AAAT
1 -ATAATATAT
*
17561272 -TAAACATAT
1 AT-AATATAT
17561281 ATAATA-AT
1 ATAATATAT
17561289 ATAATA-A-
1 ATAATATAT
*
17561296 ATAAAATAT
1 ATAATATAT
* *
17561305 AGTAAAATAA
1 A-TAATATAT
17561315 ATAATATAT
1 ATAATATAT
17561324 ATAAT
1 ATAAT
17561329 GAAAATACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
7 6 0.10
8 12 0.20
9 30 0.49
10 13 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAATATAT
Found at i:17561266 original size:31 final size:32
Alignment explanation
Indices: 17561228--17561294 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 32
17561218 GTACTAAAAC
17561228 ATATAATATAGACATAAATAATATATATAAT-
1 ATATAATATAGACATAAATAATATATATAATA
* * *
17561259 ATATAATA-A-AAAT-TA-AACATATATAATA
1 ATATAATATAGACATAAATAATATATATAATA
17561287 ATATAATA
1 ATATAATA
17561295 AATAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 11 0.34
28 9 0.28
29 3 0.09
30 1 0.03
31 8 0.25
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (32 bp):
ATATAATATAGACATAAATAATATATATAATA
Found at i:17561333 original size:22 final size:22
Alignment explanation
Indices: 17561243--17561356 Score: 78
Period size: 22 Copynumber: 5.2 Consensus size: 22
17561233 ATATAGACAT
*
17561243 AAATAATATATATAATATATAATA
1 AAATAA-ATACAT-ATATATAATA
*
17561267 AAAATTAA-ACATATATAATAATA
1 AA-ATAAATACATATAT-ATAATA
* *
17561290 TAATAAATA-A-A-ATATAGTA
1 AAATAAATACATATATATAATA
17561309 AAATAAATA-ATATATATAATGA
1 AAATAAATACATATATATAAT-A
* * *
17561331 AAATACATACA-ACATATAGTA
1 AAATAAATACATATATATAATA
17561352 AAATA
1 AAATA
17561357 CAAATATAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
19 14 0.19
20 3 0.04
21 13 0.18
22 25 0.34
23 12 0.16
24 3 0.04
25 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (22 bp):
AAATAAATACATATATATAATA
Found at i:17561348 original size:43 final size:40
Alignment explanation
Indices: 17561244--17561364 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 40
17561234 TATAGACATA
* * * * *
17561244 AATAATATATATAATATATAATAAAAATTAAACATATATAAT
1 AATAAAATAAATAAAATATAGT-AAAA-TAAAAATATATAAT
*
17561286 AATATAATAAATAAAATATAGTAAAATAAATAATATAT-AT
1 AATAAAATAAATAAAATATAGTAAAATAAA-AATATATAAT
* *
17561326 AATGAAAATACATACAACATATAGTAAAATACAAATATA
1 AAT-AAAATAAATA-AA-ATATAGTAAAATAAAAATATA
17561365 AAAATATATG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
40 9 0.14
41 18 0.27
42 25 0.38
43 14 0.21
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (40 bp):
AATAAAATAAATAAAATATAGTAAAATAAAAATATATAAT
Found at i:17561348 original size:85 final size:83
Alignment explanation
Indices: 17561193--17561354 Score: 182
Period size: 85 Copynumber: 1.9 Consensus size: 83
17561183 AATAATATAT
* * * * * *
17561193 CATATATAATATATAAAAATAACATGTACTAAAACATATAATATAGACATAAATAATATATATAA
1 CATATATAATATATAAAAATAAAATATACTAAAACAAATAATATAGAAATAAATAATACATACAA
*
17561258 TATATAATAAAAATTAAA
66 CATATAATAAAAATTAAA
* * * *
17561276 CATATATAATAATATAATAAATAAAATATAGTAAAATAAATAATATATATAATGAA-AATACATA
1 CATATATAAT-ATATAA-AAATAAAATATACTAAAACAAATAATATAGA-AATAAATAATACATA
*
17561340 CAACATATAGTAAAA
63 CAACATATAATAAAA
17561355 TACAAATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 10 0.16
84 6 0.09
85 44 0.69
86 4 0.06
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (83 bp):
CATATATAATATATAAAAATAAAATATACTAAAACAAATAATATAGAAATAAATAATACATACAA
CATATAATAAAAATTAAA
Found at i:17562429 original size:14 final size:15
Alignment explanation
Indices: 17562383--17562438 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 15
17562373 TTTACAAATA
* *
17562383 AAAATATGTAATAAT
1 AAAATATATAGTAAT
17562398 ATAAATCATATAGTAAT
1 A-AAAT-ATATAGTAAT
17562415 AAAATATAT-GTAAT
1 AAAATATATAGTAAT
17562429 AAAATATATA
1 AAAATATATA
17562439 ATATAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 8 0.22
17 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATATATAGTAAT
Found at i:17562440 original size:12 final size:13
Alignment explanation
Indices: 17562405--17562448 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
17562395 AATATAAATC
17562405 ATATAGTAATAAA
1 ATATAGTAATAAA
17562418 ATATATGTAATAAA
1 ATATA-GTAATAAA
*
17562432 ATATA-TAATATA
1 ATATAGTAATAAA
17562444 ATATA
1 ATATA
17562449 AGAAGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.38
13 5 0.17
14 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (13 bp):
ATATAGTAATAAA
Found at i:17562443 original size:34 final size:33
Alignment explanation
Indices: 17562379--17562443 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
17562369 ATAATTTACA
* *
17562379 AATAAAAATATGTAATAATATAAATCATATAGT
1 AATAAAAATATGTAATAAAATAAATAATATAGT
*
17562412 AATAAAATATATGTAATAAAATATATAATATA
1 AATAAAA-ATATGTAATAAAATAAATAATATA
17562444 ATATAAGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (33 bp):
AATAAAAATATGTAATAAAATAAATAATATAGT
Found at i:17562588 original size:7 final size:7
Alignment explanation
Indices: 17562573--17562713 Score: 62
Period size: 7 Copynumber: 20.4 Consensus size: 7
17562563 AATAATATGA
17562573 ATAATAT
1 ATAATAT
*
17562580 ATCATAT
1 ATAATAT
17562587 ATAATAT
1 ATAATAT
*
17562594 ATAA-AA
1 ATAATAT
*
17562600 ATAACAT
1 ATAATAT
* *
17562607 GTACTA-
1 ATAATAT
*
17562613 A-AACAT
1 ATAATAT
17562619 ATAATAT
1 ATAATAT
* *
17562626 AGACATAA
1 ATA-ATAT
17562634 ATAATATAT
1 AT-A-ATAT
17562643 ATAATAT
1 ATAATAT
17562650 ATAATA-
1 ATAATAT
*
17562656 AAAAT-T
1 ATAATAT
*
17562662 AAACATAT
1 ATA-ATAT
17562670 ATAATAAT
1 ATAAT-AT
*
17562678 ATAATAA
1 ATAATAT
*
17562685 ATAAAAT
1 ATAATAT
*
17562692 ATAGTA-
1 ATAATAT
*
17562698 A-AATAA
1 ATAATAT
17562704 ATAATAT
1 ATAATAT
17562711 ATA
1 ATA
17562714 TAATGAAAAT
Statistics
Matches: 98, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
5 5 0.05
6 15 0.15
7 57 0.58
8 15 0.15
9 6 0.06
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (7 bp):
ATAATAT
Found at i:17562648 original size:9 final size:9
Alignment explanation
Indices: 17562634--17562717 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 9
17562624 ATAGACATAA
17562634 ATAATATAT
1 ATAATATAT
17562643 ATAATATAT
1 ATAATATAT
*
17562652 AATAA-AAAT
1 -ATAATATAT
*
17562661 -TAAACATAT
1 AT-AATATAT
17562670 ATAATA-AT
1 ATAATATAT
17562678 ATAATA-A-
1 ATAATATAT
*
17562685 ATAAAATAT
1 ATAATATAT
* *
17562694 AGTAAAATAA
1 A-TAATATAT
17562704 ATAATATAT
1 ATAATATAT
17562713 ATAAT
1 ATAAT
17562718 GAAAATACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
7 6 0.10
8 12 0.20
9 30 0.49
10 13 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAATATAT
Found at i:17562655 original size:31 final size:32
Alignment explanation
Indices: 17562617--17562683 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 32
17562607 GTACTAAAAC
17562617 ATATAATATAGACATAAATAATATATATAAT-
1 ATATAATATAGACATAAATAATATATATAATA
* * *
17562648 ATATAATA-A-AAAT-TA-AACATATATAATA
1 ATATAATATAGACATAAATAATATATATAATA
17562676 ATATAATA
1 ATATAATA
17562684 AATAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 11 0.34
28 9 0.28
29 3 0.09
30 1 0.03
31 8 0.25
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (32 bp):
ATATAATATAGACATAAATAATATATATAATA
Found at i:17562722 original size:22 final size:22
Alignment explanation
Indices: 17562632--17562745 Score: 78
Period size: 22 Copynumber: 5.2 Consensus size: 22
17562622 ATATAGACAT
*
17562632 AAATAATATATATAATATATAATA
1 AAATAA-ATACAT-ATATATAATA
*
17562656 AAAATTAA-ACATATATAATAATA
1 AA-ATAAATACATATAT-ATAATA
* *
17562679 TAATAAATA-A-A-ATATAGTA
1 AAATAAATACATATATATAATA
17562698 AAATAAATA-ATATATATAATGA
1 AAATAAATACATATATATAAT-A
* * *
17562720 AAATACATACA-ACATATAGTA
1 AAATAAATACATATATATAATA
17562741 AAATA
1 AAATA
17562746 CAAATATAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
19 14 0.19
20 3 0.04
21 13 0.18
22 25 0.34
23 12 0.16
24 3 0.04
25 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (22 bp):
AAATAAATACATATATATAATA
Found at i:17562737 original size:43 final size:40
Alignment explanation
Indices: 17562633--17562753 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 40
17562623 TATAGACATA
* * * * *
17562633 AATAATATATATAATATATAATAAAAATTAAACATATATAAT
1 AATAAAATAAATAAAATATAGT-AAAA-TAAAAATATATAAT
*
17562675 AATATAATAAATAAAATATAGTAAAATAAATAATATAT-AT
1 AATAAAATAAATAAAATATAGTAAAATAAA-AATATATAAT
* *
17562715 AATGAAAATACATACAACATATAGTAAAATACAAATATA
1 AAT-AAAATAAATA-AA-ATATAGTAAAATAAAAATATA
17562754 AAAATATATG
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
40 9 0.14
41 18 0.27
42 25 0.38
43 14 0.21
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (40 bp):
AATAAAATAAATAAAATATAGTAAAATAAAAATATATAAT
Found at i:17562737 original size:85 final size:83
Alignment explanation
Indices: 17562582--17562743 Score: 182
Period size: 85 Copynumber: 1.9 Consensus size: 83
17562572 AATAATATAT
* * * * * *
17562582 CATATATAATATATAAAAATAACATGTACTAAAACATATAATATAGACATAAATAATATATATAA
1 CATATATAATATATAAAAATAAAATATACTAAAACAAATAATATAGAAATAAATAATACATACAA
*
17562647 TATATAATAAAAATTAAA
66 CATATAATAAAAATTAAA
* * * *
17562665 CATATATAATAATATAATAAATAAAATATAGTAAAATAAATAATATATATAATGAA-AATACATA
1 CATATATAAT-ATATAA-AAATAAAATATACTAAAACAAATAATATAGA-AATAAATAATACATA
*
17562729 CAACATATAGTAAAA
63 CAACATATAATAAAA
17562744 TACAAATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 10 0.16
84 6 0.09
85 44 0.69
86 4 0.06
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (83 bp):
CATATATAATATATAAAAATAAAATATACTAAAACAAATAATATAGAAATAAATAATACATACAA
CATATAATAAAAATTAAA
Found at i:17575058 original size:40 final size:41
Alignment explanation
Indices: 17574961--17575063 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
17574951 GACTTCGAGT
* * *
17574961 CGATGAGACACTGGGTGTCAATTTAATACTTCATATTAATT
1 CGATGAGGCACTGGGTGTCAAATTAATACTTCATATTAATC
* * *
17575002 TGATGAGGCACTGGGTGTCAAATTATTACTTTGA-ATT-ATC
1 CGATGAGGCACTGGGTGTCAAATTAATAC-TTCATATTAATC
*
17575042 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGGCACTGGGTGTCAAA
17575064 CTGGTGTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 22 0.42
41 28 0.53
42 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
CGATGAGGCACTGGGTGTCAAATTAATACTTCATATTAATC
Found at i:17576016 original size:30 final size:30
Alignment explanation
Indices: 17575980--17576047 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
17575970 CCATACGGCT
*
17575980 AGACACATAAGTGTGTGACTGAGCCGTGTG
1 AGACACATAAGAGTGTGACTGAGCCGTGTG
*** * *
17576010 AGACACACGGGAGTGTGATTGGGCCGTGTG
1 AGACACATAAGAGTGTGACTGAGCCGTGTG
17576040 AGACACAT
1 AGACACAT
17576048 GACTAGTACA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (30 bp):
AGACACATAAGAGTGTGACTGAGCCGTGTG
Found at i:17578308 original size:34 final size:34
Alignment explanation
Indices: 17578270--17578349 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
17578260 TGATCTCTTG
17578270 TAAGCATATTAATGGCTACTATAACGAATTATTA
1 TAAGCATATTAATGGCTACTATAACGAATTATTA
* ** **
17578304 TAAGCATATTAATTGCTACTATATTGTTTTATTA
1 TAAGCATATTAATGGCTACTATAACGAATTATTA
*
17578338 AAAGCATATTAA
1 TAAGCATATTAA
17578350 ATACTACTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (34 bp):
TAAGCATATTAATGGCTACTATAACGAATTATTA
Found at i:17580894 original size:31 final size:31
Alignment explanation
Indices: 17580856--17580916 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17580846 ATGGTTGCTG
*
17580856 AACTATTTAAAAATTTTCATTTATGTCACTA
1 AACTATTTAAAAATTTTCATTTAAGTCACTA
* * *
17580887 AACTATTTGAAAGTTTTTATTTAAGTCACT
1 AACTATTTAAAAATTTTCATTTAAGTCACT
17580917 GGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (31 bp):
AACTATTTAAAAATTTTCATTTAAGTCACTA
Found at i:17583644 original size:15 final size:16
Alignment explanation
Indices: 17583619--17583652 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17583609 AAAATGTAAT
17583619 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
17583635 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
17583650 TTT
1 TTT
17583653 TTAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:17585862 original size:12 final size:12
Alignment explanation
Indices: 17585823--17585863 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
17585813 CATATCTATT
17585823 TCTGTAATTTGAA
1 TCTG-AATTTGAA
*
17585836 TCTGAATCTGAA
1 TCTGAATTTGAA
*
17585848 TCTGAATTTGTA
1 TCTGAATTTGAA
17585860 TCTG
1 TCTG
17585864 CTTCTGACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (12 bp):
TCTGAATTTGAA
Found at i:17595825 original size:17 final size:17
Alignment explanation
Indices: 17595803--17595852 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
17595793 CCAATTGGGA
17595803 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
17595820 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
* *
17595837 CTTATGGGTCCACACG
1 CGTGTGGG-CCACACG
17595853 AGTATGTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 23 0.77
18 7 0.23
ACGTcount: A:0.14, C:0.30, G:0.40, T:0.16
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:17599023 original size:51 final size:50
Alignment explanation
Indices: 17598940--17599086 Score: 213
Period size: 51 Copynumber: 2.9 Consensus size: 50
17598930 AGATACCCAG
* *
17598940 TGGCCTTCACATAGTACCACCCTTGTAGCCAAAGTTATTTTATTCACAAAA
1 TGGCCTTCACATAGTACCACACTTGT-GCCAAAGCTATTTTATTCACAAAA
* * * *
17598991 TGGTCTTCACATAGTGCCACACTTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTCACAAAA
17599042 TGGCCTTCACATAGTACCACACTTGTGCCCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTC
17599087 CTAAGGTTCA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 1 0.01
51 84 0.99
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (50 bp):
TGGCCTTCACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAAA
Found at i:17599154 original size:24 final size:24
Alignment explanation
Indices: 17599122--17599218 Score: 131
Period size: 24 Copynumber: 3.9 Consensus size: 24
17599112 ACTTTGCACC
17599122 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
17599146 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
17599170 CACATTGCCACGGACTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
*
17599198 ATGCCATGGTCTTATTTCACT
1 ATGCCATGGACTTATTTCACT
17599219 GAGCACAATG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
24 41 0.64
25 1 0.02
27 1 0.02
28 21 0.33
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:17599166 original size:52 final size:52
Alignment explanation
Indices: 17599110--17599225 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
17599100 GGGAAATTTC
* *
17599110 TCACTTTGCACCA-TGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCA-CATTGCCACGGACTTATTTCACTTAGATGCCATGGTCTTATT
17599162 TCACTTAGCACATTGCCACGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACATTGCCACGGACTTATTTCACTTAGATGCCATGGTCTTATT
*
17599214 TCACTGAGCACA
1 TCACTTAGCACA
17599226 ATGTCATATC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 2 0.03
52 58 0.97
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (52 bp):
TCACTTAGCACATTGCCACGGACTTATTTCACTTAGATGCCATGGTCTTATT
Found at i:17599179 original size:28 final size:27
Alignment explanation
Indices: 17599110--17599225 Score: 127
Period size: 24 Copynumber: 4.4 Consensus size: 27
17599100 GGGAAATTTC
*
17599110 TCACTTTGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
*
17599138 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
17599162 TCACTTAGCACATTGCCACGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
17599190 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
17599214 TCACTGAGCACA
1 TCACTTAGCACA
17599226 ATGTCATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 43 0.58
25 1 0.01
27 2 0.03
28 28 0.38
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:17601236 original size:16 final size:16
Alignment explanation
Indices: 17601202--17601236 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17601192 GGTTTATTGG
*
17601202 AATGGAATAGGGTTCT
1 AATGGAATAGAGTTCT
*
17601218 AATGGAATAGAGTTGT
1 AATGGAATAGAGTTCT
17601234 AAT
1 AAT
17601237 CAGTAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGTTCT
Found at i:17601470 original size:60 final size:61
Alignment explanation
Indices: 17601395--17601526 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 61
17601385 TTATTATTAA
** * * * * *
17601395 ATTTTAATAGGATTATTATTAAATGTGATTTAATAAAAATAA-AATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAAC
*
17601455 ATTTTAATATAATTATTATTAAATATAAATTAATAAAAATAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAAC
17601516 ATTCTTAATAT
1 ATT-TTAATAT
17601527 TTATTGATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 37 0.60
61 18 0.29
62 7 0.11
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (61 bp):
ATTTTAATATAATTATTATTAAATATAAATTAATAAAAATAATAATAAATAATTTAATAAC
Found at i:17605905 original size:37 final size:37
Alignment explanation
Indices: 17605847--17605930 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
17605837 TTCCAATTGA
* *
17605847 AACACGCCAAATGCTCGTAAGAG-CTAATCCACCCGAT
1 AACACGCCAAATGCACATAAGAGTC-AATCCACCCGAT
* * *
17605884 AACATGCCAAATGCACATAAGAGTCGATCCACCTGAT
1 AACACGCCAAATGCACATAAGAGTCAATCCACCCGAT
*
17605921 AACACACCAA
1 AACACGCCAA
17605931 TGGCTCCGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.15
Consensus pattern (37 bp):
AACACGCCAAATGCACATAAGAGTCAATCCACCCGAT
Found at i:17605943 original size:37 final size:37
Alignment explanation
Indices: 17605902--17605973 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
17605892 AAATGCACAT
**
17605902 AAGAGTCGA-TCCACCTGATAACACACCAATGGCTCCG
1 AAGAG-CGACTCCACCCAATAACACACCAATGGCTCCG
*
17605939 AAGAGCTACTCCACCCAATAACACACCAATGGCTC
1 AAGAGCGACTCCACCCAATAACACACCAATGGCTC
17605974 TAAAAAGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 2 0.06
37 29 0.94
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (37 bp):
AAGAGCGACTCCACCCAATAACACACCAATGGCTCCG
Found at i:17606213 original size:19 final size:20
Alignment explanation
Indices: 17606189--17606234 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
17606179 CAAATAAATT
17606189 TATATCAT-TTATAATCA-AA
1 TATATCATATTAT-ATCACAA
*
17606208 TATATC-TATTATATCACAT
1 TATATCATATTATATCACAA
17606227 TATATCAT
1 TATATCAT
17606235 CAAACATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATCATATTATATCACAA
Found at i:17610055 original size:53 final size:53
Alignment explanation
Indices: 17609975--17610090 Score: 214
Period size: 53 Copynumber: 2.2 Consensus size: 53
17609965 CCTGGGACAT
*
17609975 GCCCATGCTAGAGGTCGTGTTCAACCCCGTGTAACTCTTTGAATTATGCACAC
1 GCCCATGCTAGAGGTCGTGTTCAACCCCGTGCAACTCTTTGAATTATGCACAC
17610028 GCCCATGCTAGAGGTCGTGTTCAACCCCGTGCAACTCTTTGAATTATGCACAC
1 GCCCATGCTAGAGGTCGTGTTCAACCCCGTGCAACTCTTTGAATTATGCACAC
*
17610081 GGCCATGCTA
1 GCCCATGCTA
17610091 CACACCTGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (53 bp):
GCCCATGCTAGAGGTCGTGTTCAACCCCGTGCAACTCTTTGAATTATGCACAC
Found at i:17614993 original size:24 final size:26
Alignment explanation
Indices: 17614962--17615029 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
17614952 GGGGAGACGT
*
17614962 AAAT-TTTTTATTTAA-ATTGATAT-
1 AAATATTTTTATTTAATATTAATATA
*
17614985 AATTATTTTTATTTAATATTAATATA
1 AAATATTTTTATTTAATATTAATATA
*
17615011 AAATATTTTTAATT-ATATT
1 AAATATTTTTATTTAATATT
17615030 TTAATGGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.08
24 11 0.29
25 12 0.32
26 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
AAATATTTTTATTTAATATTAATATA
Found at i:17614994 original size:25 final size:27
Alignment explanation
Indices: 17614964--17615020 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 27
17614954 GGAGACGTAA
* *
17614964 ATTTTTTATTTAA-ATTGATAT-AATT
1 ATTTTTTATTTAATATTAATATAAAAT
17614989 A-TTTTTATTTAATATTAATATAAAAT
1 ATTTTTTATTTAATATTAATATAAAAT
17615015 ATTTTT
1 ATTTTT
17615021 AATTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.41
25 8 0.30
26 4 0.15
27 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTTTTTATTTAATATTAATATAAAAT
Found at i:17615932 original size:7 final size:7
Alignment explanation
Indices: 17615920--17615944 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17615910 CTTACGCATG
17615920 ATTTTAT
1 ATTTTAT
17615927 ATTTTAT
1 ATTTTAT
17615934 ATTTTAT
1 ATTTTAT
17615941 ATTT
1 ATTT
17615945 ATTAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:17616566 original size:19 final size:20
Alignment explanation
Indices: 17616542--17616583 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
17616532 AAAATTTTGT
*
17616542 CTTTTTAACTTAATTATTTA
1 CTTTTAAACTTAATTATTTA
17616562 CTTTTAAAAACTTAATTATTTA
1 CTTTT--AAACTTAATTATTTA
17616584 TAATCACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
CTTTTAAACTTAATTATTTA
Found at i:17616877 original size:146 final size:150
Alignment explanation
Indices: 17616683--17617037 Score: 424
Period size: 146 Copynumber: 2.4 Consensus size: 150
17616673 GCGGCGTTTT
* * * *
17616683 TCAAAAATGCCGCTATAAATTGAGTATTAGCGGCGTTTTTATGAAAGCGCCGCTATAGGTCTA-T
1 TCAAAAACGCCGCTATAGATTGAGTATTAGCGGCGTTTTTAAGAAAGCGCCGCTATAGGTCGACT
* * *
17616747 CTATAGCGGCGTTTTTATAAAAACGCCACT-AAAGATTAAGCCGAA-C-C-ATATTGC-GAGCTT
66 -TATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCAGAAGCGCGATATT-CTGAGCTT
*
17616807 CGGTGGCAATAGCGGCGCTTCAC
129 CAGTGGCAATAGCGGCGCTTC-C
* *
17616830 -C-AAAACGCCGCTATAGGTTTGAGTATTAGCGGCGTTTTTAAGGAAGCGCCGCTATAGGTCGAC
1 TCAAAAACGCCGCTATA-GATTGAGTATTAGCGGCGTTTTTAAGAAAGCGCCGCTATAGGTCGAC
** *
17616893 TTATAGCGGCGTTTGTACAAAAACGCTGCTAAAAGATTAAGCAGAACGGCGTCGTTTATTCTGAG
65 TTATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCAGAA--GCG-CG-ATATTCTGAG
*
17616958 CTTCAGTGGCAATAGCGGCGTTTCC
126 CTTCAGTGGCAATAGCGGCGCTTCC
17616983 TCAAAAACGCCGCTATAGATTGAGTATTAGCGGCGCTTTTTCAA-AAA-CGCCGCTA
1 TCAAAAACGCCGCTATAGATTGAGTATTAGCGGCG-TTTTT-AAGAAAGCGCCGCTA
17617038 AGGATTTGGG
Statistics
Matches: 177, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
145 13 0.07
146 67 0.38
147 15 0.08
150 1 0.01
152 1 0.01
153 2 0.01
154 55 0.31
155 21 0.12
156 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (150 bp):
TCAAAAACGCCGCTATAGATTGAGTATTAGCGGCGTTTTTAAGAAAGCGCCGCTATAGGTCGACT
TATAGCGGCGTTTGTACAAAAACGCCACTAAAAGATTAAGCAGAAGCGCGATATTCTGAGCTTCA
GTGGCAATAGCGGCGCTTCC
Found at i:17617027 original size:40 final size:41
Alignment explanation
Indices: 17616970--17617127 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 41
17616960 TCAGTGGCAA
* *
17616970 TAGCGGCG-TTTCCTCAAAAACGCCGCTATAGA-TTGAGTAT
1 TAGCGGCGCTTT-TTCAAAAACGCCGCTATAGATTTGAGTTT
*
17617010 TAGCGGCGCTTTTTCAAAAACGCCGCTA-AGGATTTGGGTTT
1 TAGCGGCGCTTTTTCAAAAACGCCGCTATA-GATTTGAGTTT
* * * * *
17617051 TAGTGGCGTTTTTATAAAAAAAGGCCGCAATAGATTTGAGTTT
1 TAGCGGCGCTTTT-T-CAAAAACGCCGCTATAGATTTGAGTTT
**
17617094 TAGCGGCGCTTATTGGAAAAACGCCGCTATAGAT
1 TAGCGGCGCTT-TTTCAAAAACGCCGCTATAGAT
17617128 GTAAACTATT
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 25 0.26
41 20 0.21
42 17 0.18
43 30 0.31
44 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (41 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTATAGATTTGAGTTT
Found at i:17617702 original size:28 final size:29
Alignment explanation
Indices: 17617650--17617704 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
17617640 TTTAACCCCT
* *
17617650 AAACCCATAAACTATAGACCTTAAATTTG
1 AAACCCATAAACTATAAACCCTAAATTTG
17617679 AAACCC-TAAACTATAAACCCTAAATT
1 AAACCCATAAACTATAAACCCTAAATT
17617705 AATGACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (29 bp):
AAACCCATAAACTATAAACCCTAAATTTG
Found at i:17618253 original size:22 final size:22
Alignment explanation
Indices: 17618186--17618269 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
17618176 AGGTTGAGGC
* **
17618186 TTTAGGGGTTAAGGGGATATGG
1 TTTAGGGATTAAGGGTTTATGG
* **
17618208 TTTAGGGATTAA-TGTTTAAAG
1 TTTAGGGATTAAGGGTTTATGG
17618229 TTTAGGGATTAAGGGTTTATGG
1 TTTAGGGATTAAGGGTTTATGG
*
17618251 TTTAAGG-TTCAAGGGTTTA
1 TTTAGGGATT-AAGGGTTTA
17618270 GGGGTTAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 18 0.36
22 32 0.64
ACGTcount: A:0.26, C:0.01, G:0.33, T:0.39
Consensus pattern (22 bp):
TTTAGGGATTAAGGGTTTATGG
Found at i:17618272 original size:29 final size:28
Alignment explanation
Indices: 17618206--17618279 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
17618196 AAGGGGATAT
*
17618206 GGTTTAGGGATTAATGTTTAAAGTTTAG
1 GGTTTAGGGATTAATGTTTAAAGTTAAG
* * *
17618234 GGATTAAGGG-TTTATGGTTTAAGGTTCAAG
1 GG-TTTAGGGATTAAT-GTTTAAAGTT-AAG
*
17618264 GGTTTAGGGGTTAATG
1 GGTTTAGGGATTAATG
17618280 GGACATGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
28 6 0.17
29 22 0.61
30 8 0.22
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.39
Consensus pattern (28 bp):
GGTTTAGGGATTAATGTTTAAAGTTAAG
Found at i:17618292 original size:80 final size:80
Alignment explanation
Indices: 17618186--17618366 Score: 254
Period size: 80 Copynumber: 2.3 Consensus size: 80
17618176 AGGTTGAGGC
* * *
17618186 TTTAGGGGTTAAGGGGATATGGTTTAGGGATTAATGTTTAAAGTTTAGGGATTAAGGGTTTATGG
1 TTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATTAAGGGTTAATGG
17618251 TTTAAGGTTCAAGGG
66 TTTAAGGTTCAAGGG
* * * * *
17618266 TTTAGGGGTTAATGGGACATGATTTAGGGTTTAGTGTTTAAATTTTAGGGATTAATGGTTAATGG
1 TTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATTAAGGGTTAATGG
* * *
17618331 TTTAGGGTTGAGGGG
66 TTTAAGGTTCAAGGG
*
17618346 TTTAGGGATTAAGGGGACATG
1 TTTAGGGGTTAAGGGGACATG
17618367 GGTTAAGGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 88 1.00
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (80 bp):
TTTAGGGGTTAAGGGGACATGATTTAGGGATTAATGTTTAAAGTTTAGGGATTAAGGGTTAATGG
TTTAAGGTTCAAGGG
Found at i:17618327 original size:21 final size:21
Alignment explanation
Indices: 17618288--17618327 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17618278 TGGGACATGA
* * *
17618288 TTTAGGGTTTAGTGTTTAAAT
1 TTTAGGGATTAATGGTTAAAT
17618309 TTTAGGGATTAATGGTTAA
1 TTTAGGGATTAATGGTTAA
17618328 TGGTTTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTAGGGATTAATGGTTAAAT
Found at i:17618681 original size:16 final size:17
Alignment explanation
Indices: 17618650--17618685 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17618640 CTATATAACT
17618650 TATTGTTTTTTAATTTA
1 TATTGTTTTTTAATTTA
17618667 TATTGTTTTTT-ATTTA
1 TATTGTTTTTTAATTTA
17618683 TAT
1 TAT
17618686 AAAATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TATTGTTTTTTAATTTA
Found at i:17628570 original size:31 final size:31
Alignment explanation
Indices: 17628524--17628590 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
17628514 TGGTTGTATT
* *
17628524 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
17628555 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
17628586 TTTTA
1 TTTTA
17628591 ATGTATGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:17628690 original size:43 final size:43
Alignment explanation
Indices: 17628666--17629046 Score: 563
Period size: 43 Copynumber: 8.8 Consensus size: 43
17628656 GTAAAAAAAG
*
17628666 CGCCGCTAAAAGCCTTGACGTTTAGCGGTGC-TTTACGCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTAC-CACAAA
*
17628709 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
*
17628752 CGCCGTTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCT-AAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
*
17628796 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGC-TTTACGCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTAC-CACAAA
* *
17628839 CGCTGCTAAAAGCCTTGATC-TTTAGCGACGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGA-CGTTTAGCGGCGCTTTTACCACAAA
17628882 CGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCT-AAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
* **
17628926 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
* * *
17628969 CGCCGCTAAAAGCCTTGACCTTTAACGGCGC-TTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
*
17629011 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTCTTTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCG-CTTTT
17629047 TCCAATAAAC
Statistics
Matches: 312, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
42 44 0.14
43 173 0.55
44 95 0.30
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
Found at i:17628794 original size:87 final size:85
Alignment explanation
Indices: 17628666--17629046 Score: 559
Period size: 87 Copynumber: 4.4 Consensus size: 85
17628656 GTAAAAAAAG
*
17628666 CGCCGCTAAAAGCCTTGACGTTTAGCGGTGC-TTTACGCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTAC-CACAAACGCCGCTAAAAGCCTTGACCT
17628730 TTAGCGGCGCTTTTACCACAAA
65 TTAGCGGCGC-TTTACCACAAA
* * *
17628752 CGCCGTTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGTTAAAAGCCTTGACGT
1 CGCCGCT-AAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCT
17628817 TTAGCGGCGCTTTACGCACAAA
65 TTAGCGGCGCTTTAC-CACAAA
* * *
17628839 CGCTGCTAAAAGCCTTGATC-TTTAGCGACGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACG
1 CGCCGCTAAAAGCCTTGA-CGTTTAGCGGCGCTTTTACCACAAACGCCGCT-AAAAGCCTTGACC
17628903 TTTAGCGGCGCTTTTACCACAAA
64 TTTAGCGGCGC-TTTACCACAAA
* **
17628926 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
* *
17628991 TAACGGCGCTTTCCCACAAA
66 TAGCGGCGCTTTACCACAAA
*
17629011 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTCTTTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCG-CTTTT
17629047 TCCAATAAAC
Statistics
Matches: 268, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
85 38 0.14
86 77 0.29
87 143 0.53
88 10 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (85 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTACCACAAA
Found at i:17629059 original size:130 final size:130
Alignment explanation
Indices: 17628666--17629046 Score: 640
Period size: 130 Copynumber: 2.9 Consensus size: 130
17628656 GTAAAAAAAG
* *
17628666 CGCCGCTAAAAGCCTTGACGTTTAGCGGTGCTTTACGCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTACGCACAAACGCCGCTAAAAGCCTTGACCTT
*
17628731 TAGCGGCGCTTTTACCACAAACGCCGTTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
* *
17628796 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTACGCACAAACGCTGCTAAAAGCCTTGATCTT
1 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTACGCACAAACGCCGCTAAAAGCCTTGACCTT
*
17628861 TAGCGACGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
* *
17628926 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTACGCACAAACGCCGCTAAAAGCCTTGACCTT
* * *
17628991 TAACGGCGC-TTTCCCACAAACGCCGCT-AAAAGCCTTGACCTTTAGCGGCGTCTTTT
66 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCG-CTTTT
17629047 TCCAATAAAC
Statistics
Matches: 236, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
128 22 0.09
129 22 0.09
130 192 0.81
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (130 bp):
CGCCGTTAAAAGCCTTGACGTTTAGCGGCGCTTTACGCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAACGCCGCTAAAAAGCCTTGACGTTTAGCGGCGCTTTTACCACAAA
Found at i:17641190 original size:33 final size:33
Alignment explanation
Indices: 17641148--17641225 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 33
17641138 AATTTTTAAA
*
17641148 AAAATTAAAAAATATGA-AAAATAATAA-TTCTTT
1 AAAATTAAAAAAGAT-ATAAAAT-ATAAGTTCTTT
*
17641181 AAAATTAAAAAAGATATAAAATATAAGTTTTTT
1 AAAATTAAAAAAGATATAAAATATAAGTTCTTT
17641214 AAAATATAAAAA
1 AAAAT-TAAAAA
17641226 TTTCAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 5 0.12
33 29 0.73
34 6 0.15
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (33 bp):
AAAATTAAAAAAGATATAAAATATAAGTTCTTT
Found at i:17641467 original size:22 final size:22
Alignment explanation
Indices: 17641439--17641481 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17641429 TATTAAACAA
*
17641439 TAAAAAAAATATTTAAAATTAT
1 TAAAAAAAATATTCAAAATTAT
*
17641461 TAAAAAAATTATTCAAAATTA
1 TAAAAAAAATATTCAAAATTA
17641482 AACAACTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAAAATATTCAAAATTAT
Found at i:17646675 original size:187 final size:187
Alignment explanation
Indices: 17646360--17646733 Score: 748
Period size: 187 Copynumber: 2.0 Consensus size: 187
17646350 AAATGATAGA
17646360 TCAAGGAAATCGAGATTCAGGCTTAAATCGAGAAAATACAAGGTTATGGACTAAATTGATAAATT
1 TCAAGGAAATCGAGATTCAGGCTTAAATCGAGAAAATACAAGGTTATGGACTAAATTGATAAATT
17646425 TGCCGTTTTCGTATTCGAAGTAAGTTCGCGTGATTTAATAAGCCTATTATTCATGTTATTATTGT
66 TGCCGTTTTCGTATTCGAAGTAAGTTCGCGTGATTTAATAAGCCTATTATTCATGTTATTATTGT
17646490 TATACATGAAATATATCTGGCTATGATTGTATTGAATTTGATGTTAATAGAAATTTC
131 TATACATGAAATATATCTGGCTATGATTGTATTGAATTTGATGTTAATAGAAATTTC
17646547 TCAAGGAAATCGAGATTCAGGCTTAAATCGAGAAAATACAAGGTTATGGACTAAATTGATAAATT
1 TCAAGGAAATCGAGATTCAGGCTTAAATCGAGAAAATACAAGGTTATGGACTAAATTGATAAATT
17646612 TGCCGTTTTCGTATTCGAAGTAAGTTCGCGTGATTTAATAAGCCTATTATTCATGTTATTATTGT
66 TGCCGTTTTCGTATTCGAAGTAAGTTCGCGTGATTTAATAAGCCTATTATTCATGTTATTATTGT
17646677 TATACATGAAATATATCTGGCTATGATTGTATTGAATTTGATGTTAATAGAAATTTC
131 TATACATGAAATATATCTGGCTATGATTGTATTGAATTTGATGTTAATAGAAATTTC
17646734 ATGGAATATG
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (187 bp):
TCAAGGAAATCGAGATTCAGGCTTAAATCGAGAAAATACAAGGTTATGGACTAAATTGATAAATT
TGCCGTTTTCGTATTCGAAGTAAGTTCGCGTGATTTAATAAGCCTATTATTCATGTTATTATTGT
TATACATGAAATATATCTGGCTATGATTGTATTGAATTTGATGTTAATAGAAATTTC
Found at i:17652007 original size:21 final size:21
Alignment explanation
Indices: 17651983--17652022 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17651973 ACCTTTTTTA
17651983 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
17652004 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
17652023 CGTCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:17657600 original size:23 final size:23
Alignment explanation
Indices: 17657570--17657617 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17657560 TTGATGACAT
17657570 GTTAGTGAAAAGTACATCCATAG
1 GTTAGTGAAAAGTACATCCATAG
17657593 GTTAGTGAAAAGTACATCCATAG
1 GTTAGTGAAAAGTACATCCATAG
17657616 GT
1 GT
17657618 GAGCATGTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (23 bp):
GTTAGTGAAAAGTACATCCATAG
Found at i:17660700 original size:69 final size:68
Alignment explanation
Indices: 17660342--17660820 Score: 275
Period size: 69 Copynumber: 6.9 Consensus size: 68
17660332 AAAATTCATA
* * * * *
17660342 TCATATTAAGGCTCACAGGAGAAGAGCCATAGCCTCCAACACAGTCAGCGAGAACAAAGCTCCTA
1 TCATATTAAGGCTC-TAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
*
17660407 GCTG
65 GTTG
*** * ** * *
17660411 TCATATTAAGGCTAGC-AAAAGAAGAGCCACAACCTCTGACACAGTTAGCAAGAGTAAAGCT-CT
1 TCATATTAAGGCT--CTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCT
*
17660474 CAATTG
64 -AGTTG
* * * *** *
17660480 TCATATTAAGGCTCGTAGGCGACGAGCTACAGCTTCCAATGTAGTTAGCGAGAGCAAAGCTCCCA
1 TCATATTAAGGCTC-TAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
* *
17660545 GCTA
65 GTTG
* ** **** ** ** * *
17660549 TCATATTAAGGCTTGTAGGTAAAGAATTGCAGCCTCCAATGCAGTTATTGAGAACAAAGCTCCCA
1 TCATATTAAGGC-TCTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
*
17660614 -TCTA
65 GT-TG
* * *
17660618 TTATATTAAGGCTCATTA-GCGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCCT
1 TCATATTAAGGCTC--TAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCT
17660682 AGTTG
64 AGTTG
* * * * * * * * *
17660687 TCATATTAAGGCTCGCAGGCGAAGAGTCGCAACTTCCAACACAATTAACGAGAGGAAAGCTCCAA
1 TCATATTAAGGCTC-TAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
** *
17660752 ACTA
65 GTTG
* * * * * * *
17660756 TTATATTAAAGCT-TGCAGGTGAAAAGCCACAGCTTCCAATATAGTTAGCGAGAGCAAAGCTCCT
1 TCATATTAAGGCTCT--AGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCT
17660820 A
64 A
17660821 ATTTGGGATT
Statistics
Matches: 310, Mismatches: 86, Indels: 28
0.73 0.20 0.07
Matches are distributed among these distances:
67 1 0.00
68 4 0.01
69 299 0.96
70 5 0.02
71 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (68 bp):
TCATATTAAGGCTCTAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAG
TTG
Found at i:17660746 original size:138 final size:138
Alignment explanation
Indices: 17660344--17660820 Score: 420
Period size: 138 Copynumber: 3.5 Consensus size: 138
17660334 AATTCATATC
* * * * *
17660344 ATATTAAGGCTCACAGGAGAAGAGCCATAGCCTCCAACACAGTCAGCGAGAACAAAGCTCCTAGC
1 ATATTAAGGCTCATAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGC
** * * ** * * *
17660409 TGTCATATTAAGGCTAGCAAAAGAAGAGCCACAACCTCTGACACAGTTAGCAAGAGTAAAGCTCT
66 TGTCATATTAAGGCTAGCAGGAGAAGAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTC-
* *
17660474 CAAT-TGTC
130 CAATCTATT
* * * * *** *
17660482 ATATTAAGGCTCGTAGGCGACGAGCTACAGCTTCCAATGTAGTTAGCGAGAGCAAAGCTCCCAGC
1 ATATTAAGGCTCATAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGC
* * * * * * ** ** *
17660547 TATCATATTAAGGCTTGTAGGTA-AAGAATTGCAGCCTCCAATGCAGTTATTGAGAACAAAGCTC
66 TGTCATATTAAGGCTAGCAGG-AGAAGAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTC
*
17660611 CCATCTATT
130 CAATCTATT
* *
17660620 ATATTAAGGCTCATTA-GCGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAAGCTCCTAG
1 ATATTAAGGCTCA-TAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAG
* * * * * *
17660684 TTGTCATATTAAGGCTCGCAGGCGAAGAGTCGCAACTTCCAACACAATTAACGAGAGGAAAGCTC
65 CTGTCATATTAAGGCTAGCAGGAGAAGAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTC
*
17660749 CAAACTATT
130 CAATCTATT
* *** * * * * *
17660758 ATATTAAAGCTTGCAGGTGAAAAGCCACAGCTTCCAATATAGTTAGCGAGAGCAAAGCTCCTA
1 ATATTAAGGCTCATAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTA
17660821 ATTTGGGATT
Statistics
Matches: 260, Mismatches: 74, Indels: 10
0.76 0.22 0.03
Matches are distributed among these distances:
137 4 0.02
138 253 0.97
139 3 0.01
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (138 bp):
ATATTAAGGCTCATAGGCGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGC
TGTCATATTAAGGCTAGCAGGAGAAGAGTCGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCC
AATCTATT
Found at i:17660816 original size:207 final size:207
Alignment explanation
Indices: 17660340--17660818 Score: 466
Period size: 207 Copynumber: 2.3 Consensus size: 207
17660330 ACAAAATTCA
* ** * * * *
17660340 TATCATATTAAGGCTCACAGG-AGAAGAGCCATAGCCTCCAACACAGTCAGCGAGAACAAAGCTC
1 TATCATATTAAAGCTTGCAGGTA-AAGAACCACAGCCTCCAATACAGTTAGCGAGAACAAAGCTC
* * * * ** ** *
17660404 CTAGCTGTCATATTAAGGCTAGCA--AAAGAAGAGCCACAACCTCTGACACAGTTAGCAAGAGTA
65 CCATCTATTATATTAAGGCT--CATTAGCGAAGAGCCACAACCTCCAACACAGTTAGCAAGAGCA
* * * *** * *
17660467 AAGCTCTCAATTGTCATATTAAGGCTCGTAGGCGACGAGCTACAGCTTCCAATGTAGTTAGCGAG
128 AAGCTCTCAATTGTCATATTAAGGCTCGCAGGCGAAGAGCTACAACTTCCAACACAATTAACGAG
* *
17660532 AGCAAAGCTCCCAGC
193 AGCAAAGCTCCAAAC
* * *** * **
17660547 TATCATATTAAGGCTTGTAGGTAAAGAATTGCAGCCTCCAATGCAGTTATTGAGAACAAAGCTCC
1 TATCATATTAAAGCTTGCAGGTAAAGAACCACAGCCTCCAATACAGTTAGCGAGAACAAAGCTCC
* *
17660612 CATCTATTATATTAAGGCTCATTAGCGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAAG
66 CATCTATTATATTAAGGCTCATTAGCGAAGAGCCACAACCTCCAACACAGTTAGCAAGAGCAAAG
* *
17660677 CTC-CTAGTTGTCATATTAAGGCTCGCAGGCGAAGAG-TCGCAACTTCCAACACAATTAACGAGA
131 CTCTC-AATTGTCATATTAAGGCTCGCAGGCGAAGAGCT-ACAACTTCCAACACAATTAACGAGA
*
17660740 GGAAAGCTCCAAAC
194 GCAAAGCTCCAAAC
* * * * *
17660754 TATTATATTAAAGCTTGCAGGTGAAA-AGCCACAGCTTCCAATATAGTTAGCGAGAGCAAAGCTC
1 TATCATATTAAAGCTTGCAGGT-AAAGAACCACAGCCTCCAATACAGTTAGCGAGAACAAAGCTC
17660818 C
65 C
17660819 TAATTTGGGA
Statistics
Matches: 216, Mismatches: 50, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
205 2 0.01
206 2 0.01
207 208 0.96
208 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (207 bp):
TATCATATTAAAGCTTGCAGGTAAAGAACCACAGCCTCCAATACAGTTAGCGAGAACAAAGCTCC
CATCTATTATATTAAGGCTCATTAGCGAAGAGCCACAACCTCCAACACAGTTAGCAAGAGCAAAG
CTCTCAATTGTCATATTAAGGCTCGCAGGCGAAGAGCTACAACTTCCAACACAATTAACGAGAGC
AAAGCTCCAAAC
Found at i:17665371 original size:39 final size:39
Alignment explanation
Indices: 17665328--17665452 Score: 128
Period size: 39 Copynumber: 3.3 Consensus size: 39
17665318 GCATATTTCA
* * * *
17665328 CATATAGTCACCTAACATACAAGCATATATCACCATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * * * *
17665367 CATATAATCTCATAACATTTAAGCATATGTCATAGTACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
17665406 CGTAAAATCACATAACATTCAAGCATATACCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
17665445 C-TA-AATCA
1 CATATAATCA
17665453 TCTTTATAGA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
37 5 0.07
38 2 0.03
39 62 0.90
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:17669343 original size:21 final size:21
Alignment explanation
Indices: 17669317--17669358 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17669307 AAATCAAACC
*
17669317 TAAGAAGAGCGGAACAAGAAG
1 TAAGAAGAGCAGAACAAGAAG
17669338 TAAGAAGAGCAGAACAAGAAG
1 TAAGAAGAGCAGAACAAGAAG
17669359 CGCTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.31, T:0.05
Consensus pattern (21 bp):
TAAGAAGAGCAGAACAAGAAG
Found at i:17676353 original size:47 final size:47
Alignment explanation
Indices: 17676245--17676471 Score: 261
Period size: 47 Copynumber: 4.9 Consensus size: 47
17676235 TGTAACCCGC
* *
17676245 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TTCGCAT
17676291 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
* **
17676338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CT--TCGCAT
* * **
17676388 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCAGA-AATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
* *
17676431 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGAATGCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCT
17676472 CAACCATCCT
Statistics
Matches: 155, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.01
43 6 0.04
45 1 0.01
46 60 0.39
47 74 0.48
48 4 0.03
50 6 0.04
51 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:17676360 original size:93 final size:91
Alignment explanation
Indices: 17676245--17676461 Score: 253
Period size: 93 Copynumber: 2.3 Consensus size: 91
17676235 TGTAACCCGC
* * *
17676245 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-G-GGC-GTTCGCATC-CATAAGTGAACTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGAGCCAGTT-ACATCTCA-AA---AACTCG
* **
17676306 GACTCAACTCAACGAGTTCGGATGCTTCGCAT
61 GACTCAACTCAACGAGTTCAGA-AATTCGCAT
* *
17676338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCACAAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA-GCC-AGTTACATCTCAAAAACTCGGAC
17676403 TCAACTCAACGAGTTCAGAAATTCGCAT
64 TCAACTCAACGAGTTCAGAAATTCGCAT
*
17676431 CCATAAATGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
17676462 TTCGAATGCT
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
93 69 0.63
94 28 0.26
96 2 0.02
97 5 0.05
98 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (91 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGAGCCAGTTACATCTCAAAAACTCGGACTC
AACTCAACGAGTTCAGAAATTCGCAT
Found at i:17683987 original size:93 final size:93
Alignment explanation
Indices: 17683875--17684046 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17683865 CGCCCATAAG
* *
17683875 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17683940 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17683968 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17684033 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17684047 TCAATCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17684043 original size:46 final size:46
Alignment explanation
Indices: 17683868--17684043 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17683858 TGTAACCCGC
* * *
17683868 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17683914 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17683964 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17684007 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17684044 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17700982 original size:120 final size:118
Alignment explanation
Indices: 17700764--17701008 Score: 341
Period size: 120 Copynumber: 2.1 Consensus size: 118
17700754 GGACTAAGAT
* *
17700764 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* ** *
17700829 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
17700883 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * *
17700948 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
17701002 CCGAAGG
1 CCGAAGG
17701009 TACGTGATTT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
119 51 0.46
120 59 0.53
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:17700989 original size:40 final size:40
Alignment explanation
Indices: 17700711--17700975 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
17700701 TTGAATGATG
* * * * *
17700711 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
17700751 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17700791 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17700830 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17700870 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17700910 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
17700951 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
17700976 AACGAGTAGC
Statistics
Matches: 206, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 35 0.17
40 161 0.78
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17711604 original size:3 final size:3
Alignment explanation
Indices: 17711596--17712031 Score: 123
Period size: 3 Copynumber: 143.0 Consensus size: 3
17711586 NNNNNNNNNN
* * * *
17711596 ATA ATA ATA ATA ATA TTA AGT- ATA GT- ATAA ATA ATA TGTA CATA ACA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA -ATA -ATA ATA
* *
17711643 GTA ATA ATA ATA AGTA ACA ATA ATA ATA ATA ATA AT- ATA GA-A ATTCA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-T-A
* *
17711690 A-A A-A AGTA A-A CATA AT- ATA ATG ATA TTA A-A ATA A-A AT- ATA
1 ATA ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
17711730 CACTA ATA TTT ATAA ATA ATA ATA GTA A-A TGTA ATA ATA ATA ATA ATA
1 -A-TA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * *
17711778 ATA TTA AGT- ATA GT- ATAA ATA ATA TGTA CATA ACA GTA ATA ATA ATA
1 ATA ATA A-TA ATA ATA AT-A ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
*
17711825 AGTA ACA ATA ATA ATA ATA ATA AT- ATA GA-A ATTCA A-A A-A AGTA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-T-A ATA ATA A-TA
* * * *
17711868 A-A CATA AT- ATA ATG ATA TTA A-A ATA A-A AT- ATA CACTA ATA TTT
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA
* *
17711911 ATAA ATA ATA ATA GTA A-A TATA ATA ATA ATA ATA ATG ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
17711957 ATA ATA TTA AGT- ATA GT- ATAA ATA ATA TGTA CATA ACA GTA ATA ATA
1 ATA ATA ATA A-TA ATA ATA AT-A ATA ATA -ATA -ATA ATA ATA ATA ATA
*
17712004 ATA AGTA ACA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA
17712032 TAGAAATTCA
Statistics
Matches: 316, Mismatches: 63, Indels: 108
0.65 0.13 0.22
Matches are distributed among these distances:
2 40 0.13
3 220 0.70
4 48 0.15
5 8 0.03
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17711666 original size:19 final size:19
Alignment explanation
Indices: 17711638--17711674 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17711628 AATATGTACA
*
17711638 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
17711657 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
17711675 TAATATAGAA
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:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:17711836 original size:19 final size:19
Alignment explanation
Indices: 17711808--17711844 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17711798 AATATGTACA
*
17711808 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
17711827 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
17711845 TAATATAGAA
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:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:17711873 original size:170 final size:176
Alignment explanation
Indices: 17711596--17712080 Score: 838
Period size: 170 Copynumber: 2.8 Consensus size: 176
17711586 NNNNNNNNNN
17711596 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
1 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
17711661 AATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTAAAATAAAA
66 AATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTAAAATAAAA
*
17711726 TATACACTAATATTTATAAATAATAATAG-T-A-AAT-GTAAT-A-
131 TATACACTAATATTTATAAATAATAATAGATAATAATAATAATAAG
17711766 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
1 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
17711831 AATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTAAAATAAAA
66 AATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTAAAATAAAA
17711896 TATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATAATAATG
131 TATACACTAATATTTATAAATAATAATAG-----ATAATAATAATAATAA-G
17711948 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
1 ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
* *
17712013 AATAATAATAATAATAATATAGAAATTCAAAAAAACTAAACATAATATAATAATATTAAAATAAA
66 AATAATAATAATAATAATATAGAAATTC-AAAAAAGTAAACATAATATAATGATATTAAAATAAA
17712078 ATA
130 ATA
17712081 ATTTAAAAAA
Statistics
Matches: 299, Mismatches: 3, Indels: 13
0.95 0.01 0.04
Matches are distributed among these distances:
170 159 0.53
176 1 0.00
177 1 0.00
178 3 0.01
179 4 0.01
180 1 0.00
182 93 0.31
183 37 0.12
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.31
Consensus pattern (176 bp):
ATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGTAATAATAATAAGTAAC
AATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAATATAATGATATTAAAATAAAA
TATACACTAATATTTATAAATAATAATAGATAATAATAATAATAAG
Found at i:17712089 original size:16 final size:16
Alignment explanation
Indices: 17712056--17712088 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17712046 AACTAAACAT
*
17712056 AATATAATAATATTAA
1 AATAAAATAATATTAA
17712072 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
17712087 AA
1 AA
17712089 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:17713856 original size:106 final size:106
Alignment explanation
Indices: 17713725--17713959 Score: 443
Period size: 106 Copynumber: 2.2 Consensus size: 106
17713715 TCCGCTGCAA
* *
17713725 CTCTCGCAATATGAGTTGATTTTCTTTCTTTCTTTTTTTTTTTGAAATGTAGAAATTGGAAAGCA
1 CTCTCGCAATATGAGTTGATTTTCTTTCTTTCTTTTTTTGTTTGAAATGTAGAAAGTGGAAAGCA
17713790 GAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCAC
66 GAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCAC
*
17713831 CTCTCGCAATATGAGTTGATTTTCTTTCTTTCTTTTTTTGTTTGAAGTGTAGAAAGTGGAAAGCA
1 CTCTCGCAATATGAGTTGATTTTCTTTCTTTCTTTTTTTGTTTGAAATGTAGAAAGTGGAAAGCA
17713896 GAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCAC
66 GAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCAC
17713937 CTCTCGCAATATGAGTTGATTTT
1 CTCTCGCAATATGAGTTGATTTT
17713960 TGAAAAACAG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 126 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (106 bp):
CTCTCGCAATATGAGTTGATTTTCTTTCTTTCTTTTTTTGTTTGAAATGTAGAAAGTGGAAAGCA
GAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCAC
Found at i:17714217 original size:152 final size:148
Alignment explanation
Indices: 17713889--17714566 Score: 840
Period size: 152 Copynumber: 4.6 Consensus size: 148
17713879 GTAGAAAGTG
** * * * **
17713889 GAAAG-CAGAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
* * * * * **
17713953 TGATTTTTGAAAAACAGAAATTGAAATTACGT-TA-GTGCATCCTAAGGCCCAACTCACCTCTCG
66 TGATTTTTG-AAAACAGAAATTGAAATTACCTCAACGTG--TCTTGAGGCTCAACTCATTTCTCG
17714016 C-A-ATGAGTTG-ATTTTTTT
128 CAATATGAGTTGAATTTTTTT
*
17714034 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17714099 TGATTTTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCAC
66 TGA--TTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
17714164 AATATGAGTTGAATTTTTTTTT
129 AATATGAGTTGAA--TTTTTTT
* * * **
17714186 GAAAGATAGAAATTGAAAATACCTCAACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATG
1 GAAAGACAGAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCATTTCTCGCAATATG
* * *
17714250 AGTTGATTTTAGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
63 AGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
*
17714315 CAATATGAGTTGATTTTTTTTTT
128 CAATATGAGTTGA--ATTTTTTT
* *
17714338 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
1 GAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17714403 TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 TGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
17714468 TATGAGTTGAA---TTTT
131 TATGAGTTGAATTTTTTT
* * * * *
17714483 GAAA-ATAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAG
1 GAAAGACAGAAATTGAAAA-TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* *
17714546 TTGAATTTTGAAAATAGAAAT
65 TTGATTTTTGAAAACAGAAAT
17714567 AAAAATATCA
Statistics
Matches: 470, Mismatches: 46, Indels: 35
0.85 0.08 0.06
Matches are distributed among these distances:
143 5 0.01
144 67 0.14
145 13 0.03
146 54 0.11
147 40 0.09
148 8 0.02
149 12 0.03
150 99 0.21
152 140 0.30
154 31 0.07
155 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (148 bp):
GAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
TGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGAATTTTTTT
Found at i:17714315 original size:72 final size:72
Alignment explanation
Indices: 17713889--17714566 Score: 747
Period size: 72 Copynumber: 9.2 Consensus size: 72
17713879 GTAGAAAGTG
* ** * * * **
17713889 GAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
17713954 GATTTTT
66 GATTTTT
* * * * * * **
17713961 GAAAAACAGAAATTGAAATTACGT-TA-GTGCATCCTAAGGCCCAACTCACCTCTCGC-A-ATGA
1 G-AAAACAGAAATTGAAAATACCTCAACGTG--TCTTGAGGCTCAACTCATTTCTCGCAATATGA
17714022 GTTGATTTTTTT
63 GTTGA--TTTTT
* * *
17714034 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
17714099 TGATTTTTTT
65 TGA--TTTTT
* *
17714109 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
17714174 GAATTTTTTTTT
66 G-A----TTTTT
* * * **
17714186 GAAAGATAGAAATTGAAAATACCTCAACATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATG
1 GAAA-ACAGAAATTGAAAATACCTCAAC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATG
*
17714250 AGTTGATTTTA
62 AGTTGATTTTT
*
17714261 GAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
17714326 GATTTTTTTTTT
66 GA-----TTTTT
* * *
17714338 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
1 G-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17714403 TGAATTTT
65 TGATTTTT
*
17714411 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
*
17714476 GAATTTT
66 GATTTTT
* * *
17714483 GAAAATAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGT
1 GAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
*
17714547 TGAATTTT
65 TGATTTTT
*
17714555 GAAAATAGAAAT
1 GAAAACAGAAAT
17714567 AAAAATATCA
Statistics
Matches: 527, Mismatches: 53, Indels: 51
0.84 0.08 0.08
Matches are distributed among these distances:
71 17 0.03
72 180 0.34
73 87 0.17
74 79 0.15
75 31 0.06
77 16 0.03
78 83 0.16
79 1 0.00
80 32 0.06
81 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GATTTTT
Done.