Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 339 of 378
Found at i:102692958 original size:15 final size:15
Alignment explanation
Indices: 102692940--102692977 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
102692930 TTTTTATATT
102692940 TTATATTTTATTAAA
1 TTATATTTTATTAAA
*
102692955 TTAT-TTATTATTAAT
1 TTATATT-TTATTAAA
102692970 TTATATTT
1 TTATATTT
102692978 AATAATAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATTTTATTAAA
Found at i:102693383 original size:29 final size:29
Alignment explanation
Indices: 102693350--102693419 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 29
102693340 TTAGTCATGT
102693350 TATTT-GTTTGGTTTAAAAATTAAAATCTA
1 TATTTGGTTT-GTTTAAAAATTAAAATCTA
*
102693379 TATTTTGGTTTTTTTAAAAATTAAAATCTA
1 TA-TTTGGTTTGTTTAAAAATTAAAATCTA
102693409 TATTTTGGTTT
1 TA-TTTGGTTT
102693420 TTTTGTGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 2 0.05
30 32 0.84
31 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (29 bp):
TATTTGGTTTGTTTAAAAATTAAAATCTA
Found at i:102693421 original size:29 final size:30
Alignment explanation
Indices: 102693361--102693423 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
102693351 ATTTGTTTGG
102693361 TTTAAAAATTAAAATCTATATTTTGGTTTT
1 TTTAAAAATTAAAATCTATATTTTGGTTTT
102693391 TTTAAAAATTAAAATCTATATTTTGGTTTT
1 TTTAAAAATTAAAATCTATATTTTGGTTTT
102693421 TTT
1 TTT
102693424 GTGTATTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTAAAAATTAAAATCTATATTTTGGTTTT
Found at i:102694077 original size:5 final size:5
Alignment explanation
Indices: 102694069--102694102 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
102694059 GTGAAAATAA
102694069 AAAAT AAAAT AAAAT AAAAT AAAATT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAA
102694103 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:102694292 original size:24 final size:24
Alignment explanation
Indices: 102694250--102694301 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
102694240 AATCAAGGTC
** *
102694250 AAATATATTATGCTAATAAATGCT
1 AAATATATTATAATAATAAATACT
*
102694274 AAATATATTATAATCATAAATACT
1 AAATATATTATAATAATAAATACT
102694298 AAAT
1 AAAT
102694302 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATAATAATAAATACT
Found at i:102698484 original size:5 final size:5
Alignment explanation
Indices: 102698468--102698510 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
102698458 CCAATTTTTG
*
102698468 AAAAT -AAA- AAAAT AAAAT AAAAT AAAATT AAATT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAA
102698511 AACACACAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 23 0.70
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:102698499 original size:16 final size:15
Alignment explanation
Indices: 102698468--102698510 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
102698458 CCAATTTTTG
102698468 AAAAT-AAA-AAAAT
1 AAAATAAAATAAAAT
102698481 AAAATAAAATAAAATT
1 AAAATAAAATAAAA-T
*
102698497 AAATTAAAATAAAA
1 AAAATAAAATAAAA
102698511 AACACACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 3 0.12
15 4 0.15
16 14 0.54
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:102698682 original size:24 final size:24
Alignment explanation
Indices: 102698655--102698706 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
102698645 AATTAAGGTC
* *
102698655 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
102698679 AAATATATTGTACTCATAAATACT
1 AAATATATTATACTAATAAATACT
102698703 AAAT
1 AAAT
102698707 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:102699681 original size:2 final size:2
Alignment explanation
Indices: 102699674--102699703 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102699664 TGCATACATA
102699674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102699704 TGCAGCACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102700658 original size:136 final size:136
Alignment explanation
Indices: 102700414--102700698 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
102700404 CATTGGGCCT
**
102700414 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
102700479 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
102700544 ATATGC
131 ATATGC
102700550 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
102700615 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
102700680 ATATGC
131 ATATGC
102700686 AAGCCCATTTGGG
1 AAGCCCATTTGGG
102700699 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:102700983 original size:25 final size:27
Alignment explanation
Indices: 102700946--102700998 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
102700936 TCAAACATGC
102700946 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
102700972 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
102700998 A
1 A
102700999 AAATGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:102702515 original size:26 final size:26
Alignment explanation
Indices: 102702469--102702602 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
102702459 ACATGAATTC
102702469 TTATCATG-AA-ATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
102702493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102702519 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102702545 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102702571 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102702597 TTATCA
1 TTATCA
102702603 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 8 0.08
25 2 0.02
26 92 0.90
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102702538 original size:52 final size:52
Alignment explanation
Indices: 102702469--102702602 Score: 245
Period size: 52 Copynumber: 2.6 Consensus size: 52
102702459 ACATGAATTC
*
102702469 TTATCAT-GAA-ATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
102702519 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
102702571 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
102702603 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
50 7 0.09
51 3 0.04
52 71 0.88
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:102706477 original size:64 final size:64
Alignment explanation
Indices: 102706404--102706612 Score: 156
Period size: 64 Copynumber: 3.2 Consensus size: 64
102706394 CTGGGCCAGA
*
102706404 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * **** * ** *
102706468 GCCCATTTCAAAATAC-ATGCAACATAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTAC
1 GCCCATTTCAGATTACAAT-AAAC-T-GGGCCTTA-GC---CCCTTATTCAGATAACA---GTA-
* *
102706530 TGGGCCAGA-
55 TGGCCCATAG
*
102706539 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
102706603 GCCCATTTCA
1 GCCCATTTCA
102706613 AAATACATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 30
0.63 0.18 0.19
Matches are distributed among these distances:
63 9 0.09
64 28 0.28
65 4 0.04
66 3 0.03
67 11 0.11
68 11 0.11
69 3 0.03
70 4 0.04
71 19 0.19
72 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:102706612 original size:135 final size:136
Alignment explanation
Indices: 102706370--102706653 Score: 543
Period size: 135 Copynumber: 2.1 Consensus size: 136
102706360 CATTGGGCCT
**
102706370 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
102706435 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACAT-AATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
102706499 ATATGC
131 ATATGC
102706505 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
102706570 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
102706635 ATATGC
131 ATATGC
102706641 AAGCCCATTTGGG
1 AAGCCCATTTGGG
102706654 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
135 121 0.83
136 25 0.17
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:102708468 original size:26 final size:26
Alignment explanation
Indices: 102708432--102708567 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
102708422 CATGATATTC
*
102708432 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
102708458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102708484 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102708510 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102708536 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102708562 TTATCA
1 TTATCA
102708568 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102708907 original size:2 final size:2
Alignment explanation
Indices: 102708900--102708925 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102708890 GGGGCGTTAC
102708900 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
102708926 GATGCAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102710360 original size:2 final size:2
Alignment explanation
Indices: 102710353--102710379 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102710343 ATTAAATAAG
102710353 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
102710380 TAAGTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102711276 original size:30 final size:30
Alignment explanation
Indices: 102711237--102711298 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
102711227 TAAAATTTTA
* **
102711237 AATTGAGTTCGGTTGGTAAAATATTCGACT
1 AATTAAGTTCGGTTACTAAAATATTCGACT
102711267 AATTAAGTTCGGTTACTAAAATATTCGACT
1 AATTAAGTTCGGTTACTAAAATATTCGACT
102711297 AA
1 AA
102711299 CCTAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (30 bp):
AATTAAGTTCGGTTACTAAAATATTCGACT
Found at i:102711610 original size:22 final size:23
Alignment explanation
Indices: 102711590--102711632 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
102711580 AATTTATAAT
102711590 TTTTTATAATAAATTTAATAACA
1 TTTTTATAATAAATTTAATAACA
* *
102711613 TTTTTA-ATTTAATTTAATAA
1 TTTTTATAATAAATTTAATAA
102711633 ATTAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTATAATAAATTTAATAACA
Found at i:102713695 original size:46 final size:46
Alignment explanation
Indices: 102713628--102713804 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
102713618 TGTAACCCGC
*
102713628 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * *
102713674 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
102713720 ACATCTCTTGAACTCGGACTCAACTCATCGAGTTCGGACATTCGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
102713767 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
102713805 TCCCAAATAT
Statistics
Matches: 103, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.69
47 32 0.31
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:102713764 original size:93 final size:93
Alignment explanation
Indices: 102713635--102713804 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
102713625 CGCCCATAAG
***
102713635 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
102713700 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
102713728 TGAACTCGGACTCAACTCATCGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
102713793 ACGAGTTCGGAT
66 ACGAGCTCGGAT
102713805 TCCCAAATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:102717884 original size:94 final size:95
Alignment explanation
Indices: 102717768--102718127 Score: 260
Period size: 94 Copynumber: 3.9 Consensus size: 95
102717758 AAATTTAATG
* * *
102717768 TTGTAGCTTTATCTTGCCCCACTGCAACTTAAGGGAGATAAGATTCGCTATTGTAGCTTT-ATTC
1 TTGTAGCTTCATCTTACCCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGCTTTCATTC
* * *
102717832 CAACCCACTGTAGCTTTAGGGGTATAGGAT
66 CAACCCACTGAAACTTTAGGGATATAGGAT
* * * * * * *
102717862 TTGTAGCTTCATCTTACTCCACTACAACTTTAGGTAGATAAGATT-GTTGTTTTATCCGTTTCAT
1 TTGTAGCTTCATCTTACCCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTA-GC-TTTCAT
* * * * *
102717926 TGCAACTTCA-AGAAAAC--CA--GATTTA--AT
64 TCCAAC-CCACTG-AAACTTTAGGGATATAGGAT
* * * * * * * * *
102717953 GTTGTAGCTTTATCTTGCCCCATTGCATCTTCAGGGAGATGAGATTTGCTACTGTAG-TTTCAAT
1 -TTGTAGCTTCATCTTACCCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGCTTTCATT
**
102718017 CCATTCCACT-ACAACTTTAGGGATATAGGAT
65 CCAACCCACTGA-AACTTTAGGGATATAGGAT
* * * *
102718048 TTGTAGCTTCGTCTTACTCCACTGCAACTTTAGAGAGATAAGACTCG-TCATTGTAGCTTT-ATT
1 TTGTAGCTTCATCTTACCCCACTGCAACTTTAGGGAGATAAGATTCGCT-ATTGTAGCTTTCATT
*
102718111 CCAACCCACTGCAACTT
65 CCAACCCACTGAAACTT
102718128 CAGAGAGACT
Statistics
Matches: 192, Mismatches: 56, Indels: 36
0.68 0.20 0.13
Matches are distributed among these distances:
88 1 0.01
89 5 0.03
90 8 0.04
91 3 0.02
92 36 0.19
93 21 0.11
94 97 0.51
95 9 0.05
96 8 0.04
97 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (95 bp):
TTGTAGCTTCATCTTACCCCACTGCAACTTTAGGGAGATAAGATTCGCTATTGTAGCTTTCATTC
CAACCCACTGAAACTTTAGGGATATAGGAT
Found at i:102717903 original size:186 final size:185
Alignment explanation
Indices: 102717582--102718090 Score: 610
Period size: 186 Copynumber: 2.7 Consensus size: 185
102717572 GATACAAGAT
* * * *
102717582 TTGTAGCTTTATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCTATTGTAGCTTCATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* * * * * *
102717647 AACCCACTGCAATTTTAGGAGG-ACT-GGATTCGTAACTTCATCTTGCTCCACTGTAATTTTAAG
66 AACCCACTGCAACTTTAGG-GGTA-TAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTT-AG
* * * *
102717710 GAGATAAGATCACTACTTTATCAGTTTCACTGTAATTTTAAGAAAATCAAATTTAATG
128 GAGATAAGATCACTACTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* *
102717768 TTGTAGCTTTATCTTGCCCCACTGCAACTTAAGGGAGATAAGATTCGCTATTGTAGCTTTATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* * *
102717833 AACCCACTGTAGCTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTACAACTTTAGGTA
66 AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGG-A
*** ** * * *
102717898 GATAAGATTGTTGTTTTATCCGTTTCATTGCAACTTCAAGAAAACCAGATTTAATG
130 GATAAGATCACTACTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* * * * *
102717954 TTGTAGCTTTATCTTGCCCCATTGCATCTTCAGGGAGATGAGATTTGCTACTGTAG-TTTCAATC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTT-ATTC
** * * *
102718018 CATTCCACTACAACTTTAGGGATATAGGATTTGTAGCTTCGTCTTACTCCACTGCAACTTTAGAG
65 CAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAG-G
102718083 AGATAAGA
129 AGATAAGA
102718091 CTCGTCATTG
Statistics
Matches: 276, Mismatches: 42, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
185 9 0.03
186 266 0.96
187 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (185 bp):
TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGGAG
ATAAGATCACTACTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
Found at i:102736126 original size:13 final size:13
Alignment explanation
Indices: 102736108--102736132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102736098 TCTTACTCGT
102736108 AAACACATATCGA
1 AAACACATATCGA
102736121 AAACACATATCG
1 AAACACATATCG
102736133 TTGCCATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
AAACACATATCGA
Found at i:102739005 original size:39 final size:40
Alignment explanation
Indices: 102738928--102739006 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
102738918 GGTCCTTATA
*
102738928 GGGTGTGCGCACGTTACATTTTGGTCCTTTTTCTTTGTTT
1 GGGTGTGCGCACGTTACATTTTCGTCCTTTTTCTTTGTTT
102738968 GGGTGTGCGCACGTTACA-TTTCGTCCTTTTTCTTTGTTT
1 GGGTGTGCGCACGTTACATTTTCGTCCTTTTTCTTTGTTT
102739007 CTTTTTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.08, C:0.19, G:0.24, T:0.49
Consensus pattern (40 bp):
GGGTGTGCGCACGTTACATTTTCGTCCTTTTTCTTTGTTT
Found at i:102739787 original size:21 final size:21
Alignment explanation
Indices: 102739762--102739802 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102739752 TGTTTATATG
* *
102739762 TTATATTTTTTCTTTTCACTT
1 TTATATTTATTATTTTCACTT
102739783 TTATATTTATTATTTTCACT
1 TTATATTTATTATTTTCACT
102739803 ATATTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTTATTATTTTCACTT
Found at i:102747988 original size:18 final size:18
Alignment explanation
Indices: 102747965--102748001 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
102747955 AGTCCTAAAG
102747965 ATAATTTTCCCTTGCCAC
1 ATAATTTTCCCTTGCCAC
102747983 ATAATTTTCCCTTGCCAC
1 ATAATTTTCCCTTGCCAC
102748001 A
1 A
102748002 CATTGATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (18 bp):
ATAATTTTCCCTTGCCAC
Found at i:102751873 original size:89 final size:85
Alignment explanation
Indices: 102751765--102752219 Score: 398
Period size: 92 Copynumber: 5.4 Consensus size: 85
102751755 TGATATTTTT
* * *
102751765 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAAATTCTG
102751830 TTTTTCCAATTTATATTTTTCAA
65 TTTTT--AATTTATATTTTTCAA
*
102751853 AAATCAACTCATAATTGCGAGAGGTGAGTTGGGCCTCGAGGCACGCTGAGGTATTTTCAAATTCT
1 AAATCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAAATTCT
*
102751918 G-TTTTAATTTGTATTTTTCAA
64 GTTTTTAATTTATATTTTTCAA
*
102751939 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAATTC--
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAAATTCTG
* *
102752002 -TATT--TTCA-A------AA
65 TTTTTAATTTATATTTTTCAA
* * *
102752013 AAATCAACTCATATTGCTAGAGGTGAGTTGAACCTC-GGCTCACATGCTGAGG-AGTTTTCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--CAC--GCTGAGGTA-TTTTCAAAT
*
102752076 TCTGTTTTTTTTCAATTTATACTTTTCAA
61 TCTG---TTTTT-AATTTATATTTTTCAA
* *
102752105 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATG-TGGAGGTATTTTCAAA--
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CAC--GCT-GAGGTATTTTCAAATT
* * *
102752167 AT-TTTCT--TTTA-A-GTTTCAA
62 CTGTTTTTAATTTATATTTTTCAA
* * *
102752186 AAACCAACTCATATTACGAGAGATGAGTTGAGCC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
102752220 CTGGCTCACG
Statistics
Matches: 315, Mismatches: 26, Indels: 59
0.79 0.06 0.15
Matches are distributed among these distances:
72 2 0.01
74 39 0.12
75 1 0.00
76 17 0.05
80 1 0.00
81 38 0.12
82 4 0.01
83 7 0.02
85 52 0.17
86 32 0.10
88 16 0.05
89 45 0.14
90 4 0.01
91 1 0.00
92 53 0.17
93 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (85 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAAATTCTGT
TTTTAATTTATATTTTTCAA
Found at i:102752258 original size:173 final size:165
Alignment explanation
Indices: 102751919--102752258 Score: 409
Period size: 173 Copynumber: 2.0 Consensus size: 165
102751909 TCAAATTCTG
* * *
102751919 TTTTAATTTGTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGC
* * * *
102751984 TGAGGTATTTTCAAATTCTATTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAACCTC
66 TGAGGTATTTTCAAATTCTATTTTCAAAAAAACCAACTCATATTACGAGAGATGAGTTGAACCTC
102752049 GGCTCACATGCTGAGGAGTTTTCAATTTCTGTTTT
131 GGCTCACATGCTGAGGAGTTTTCAATTTCTGTTTT
*
102752084 TTTTCAATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACA
1 TTTT-AATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCAC-
* *
102752149 TG-TGGAGGTATTTTCAAAATTTTCTTTT-AAGTTTCAAAAACCAACTCATATTACGAGAGATGA
64 -GCT-GAGGTATTTTC-AAATTCTATTTTCAA-----AAAAACCAACTCATATTACGAGAGATGA
* * * * *
102752212 GTTGAGCC-CTGGCTCACGTGCTGAGCTA-TTTTTAGTTTCTGTTTT
121 GTTGAACCTC-GGCTCACATGCTGAG-GAGTTTTCAATTTCTGTTTT
102752257 TT
1 TT
102752259 AGTTTATGTT
Statistics
Matches: 148, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
165 4 0.03
166 55 0.37
167 1 0.01
168 14 0.09
169 10 0.07
172 1 0.01
173 62 0.42
174 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (165 bp):
TTTTAATTTATACTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAAATTCTATTTTCAAAAAAACCAACTCATATTACGAGAGATGAGTTGAACCTC
GGCTCACATGCTGAGGAGTTTTCAATTTCTGTTTT
Found at i:102752259 original size:14 final size:14
Alignment explanation
Indices: 102752240--102752273 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
102752230 TGCTGAGCTA
*
102752240 TTTTTAGTTTCTGT
1 TTTTTAGTTTATGT
102752254 TTTTTAGTTTATGT
1 TTTTTAGTTTATGT
*
102752268 TATTTA
1 TTTTTA
102752274 AAGAGTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.71
Consensus pattern (14 bp):
TTTTTAGTTTATGT
Found at i:102752601 original size:127 final size:127
Alignment explanation
Indices: 102752426--102752680 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
102752416 TCCCTGAAGT
102752426 TACAGTGAAGCTGATCGAGGTTATCAGATCTTGCCTTTCTAAAGTTACAGAAGAGAAGATCACAA
1 TACAGTGAAGCTGATCGAGGTTATCAGATCTTGCCTTTCTAAAGTTACAGAAGAGAAGATCACAA
*
102752491 ACCTCATCTCACTGAAGCGATAGAGAAGCAGATTGAAGTTGTAGACCTGATCTTTATAAAGC
66 ACCTCATCTCACTAAAGCGATAGAGAAGCAGATTGAAGTTGTAGACCTGATCTTTATAAAGC
*
102752553 TACAGTGAAGCTGGTCGAGGTTATCAGATCTTGCCTTTCTAAAGTTACAGAAGAGAAGATCACAA
1 TACAGTGAAGCTGATCGAGGTTATCAGATCTTGCCTTTCTAAAGTTACAGAAGAGAAGATCACAA
* * *
102752618 ACCTCATCTCACTAAAGCGATAGAGAAGCGGATTGAAGTTGTAGACCTTATCTTTATGAAGC
66 ACCTCATCTCACTAAAGCGATAGAGAAGCAGATTGAAGTTGTAGACCTGATCTTTATAAAGC
102752680 T
1 T
102752681 GCATGAAAGC
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (127 bp):
TACAGTGAAGCTGATCGAGGTTATCAGATCTTGCCTTTCTAAAGTTACAGAAGAGAAGATCACAA
ACCTCATCTCACTAAAGCGATAGAGAAGCAGATTGAAGTTGTAGACCTGATCTTTATAAAGC
Found at i:102753623 original size:13 final size:14
Alignment explanation
Indices: 102753598--102753626 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
102753588 TATTTATATT
102753598 TATATATACATAAA
1 TATATATACATAAA
102753612 TATATA-ACATAAA
1 TATATATACATAAA
102753625 TA
1 TA
102753627 AAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
TATATATACATAAA
Found at i:102753648 original size:18 final size:20
Alignment explanation
Indices: 102753609--102753649 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
102753599 ATATATACAT
*
102753609 AAATATATAACATAAATAAA
1 AAATATATAACAAAAATAAA
102753629 AAATATATAA-AAAAATAAA
1 AAATATATAACAAAAATAAA
102753648 AA
1 AA
102753650 GAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAATATATAACAAAAATAAA
Found at i:102753654 original size:23 final size:22
Alignment explanation
Indices: 102753620--102753664 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
102753610 AATATATAAC
102753620 ATAAATAAAAAATATATAAAAAA
1 ATAAATAAAAAAT-TATAAAAAA
*
102753643 ATAAA-AAGAAAATTTTAAAAAA
1 ATAAATAA-AAAATTATAAAAAA
102753665 TTTACCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAAATAAAAAATTATAAAAAA
Found at i:102754171 original size:40 final size:40
Alignment explanation
Indices: 102754116--102754194 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
102754106 GTCCTCCTAA
*
102754116 GGTGTGCGCACGTTACATTTCAGTCCTTTTTCTTTGTTTG
1 GGTGTGCGCACGTTACATTTCAGTCCTTTTTCTCTGTTTG
102754156 GGTGTGCGCACGTTACATTTCAGTCCTTTTTCTCTGTTT
1 GGTGTGCGCACGTTACATTTCAGTCCTTTTTCTCTGTTT
102754195 CTTTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.47
Consensus pattern (40 bp):
GGTGTGCGCACGTTACATTTCAGTCCTTTTTCTCTGTTTG
Found at i:102754995 original size:21 final size:21
Alignment explanation
Indices: 102754970--102755010 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102754960 TGTTTATATA
* *
102754970 TTATATTTTTTCTTTTCACTT
1 TTATATTTATTATTTTCACTT
102754991 TTATATTTATTATTTTCACT
1 TTATATTTATTATTTTCACT
102755011 ATATTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTTATTATTTTCACTT
Found at i:102755666 original size:2 final size:2
Alignment explanation
Indices: 102755659--102755709 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
102755649 TATTTACTTC
* * * *
102755659 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT GT GT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
102755700 AT GT AT AT AT
1 AT AT AT AT AT
102755710 TTTAACATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (2 bp):
AT
Found at i:102758526 original size:33 final size:34
Alignment explanation
Indices: 102758487--102758568 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
102758477 GCCTAAGCCA
**
102758487 ATTCAGATAACAGTGGTACTGGGCCAGAG-CCCTT
1 ATTCAGATAACAGT-AAACTGGGCCAGAGCCCCTT
* * **
102758521 -TTCAGATTACAATAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTAAACTGGGCCAGAGCCCCTT
102758554 ATTCAGATAACAGTA
1 ATTCAGATAACAGTA
102758569 TGGCCCATAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 10 0.26
33 16 0.42
34 12 0.32
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (34 bp):
ATTCAGATAACAGTAAACTGGGCCAGAGCCCCTT
Found at i:102760439 original size:26 final size:26
Alignment explanation
Indices: 102760403--102760512 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
102760393 CATGAAATTC
102760403 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
102760429 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102760455 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
102760481 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
102760507 TTATCA
1 TTATCA
102760513 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102761637 original size:24 final size:24
Alignment explanation
Indices: 102761599--102761664 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
102761589 GGGTAAGATT
102761599 TGAACATGCAACTGTATTTGAATC
1 TGAACATGCAACTGTATTTGAATC
* * * *
102761623 TGAACATACATCTGTGTCTGAATC
1 TGAACATGCAACTGTATTTGAATC
*
102761647 TGAATATGCAACTGTATT
1 TGAACATGCAACTGTATT
102761665 CCATTATGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (24 bp):
TGAACATGCAACTGTATTTGAATC
Found at i:102762553 original size:40 final size:40
Alignment explanation
Indices: 102762507--102762593 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
102762497 ATTTTAGTAA
*
102762507 AAAACGCAGCAAAAAATAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCAGCAAAAAACAGAGCATTAGCGGCGCTTTTGGC
* * * *
102762547 AAAACGCCGCTAAAACCAGGGCATTAGCGGCGCTTTTGGC
1 AAAACGCAGCAAAAAACAGAGCATTAGCGGCGCTTTTGGC
102762587 AAAACGC
1 AAAACGC
102762594 CGCTAAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.16
Consensus pattern (40 bp):
AAAACGCAGCAAAAAACAGAGCATTAGCGGCGCTTTTGGC
Found at i:102762790 original size:21 final size:21
Alignment explanation
Indices: 102762766--102762845 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
102762756 CATTATAGTT
*
102762766 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
102762787 TATGGTTTAGGGTTTAA-AT-
1 TATGGTTTAGGGTTTAAGATA
* *
102762806 GA--GTTAACTATGGTTTAAGATA
1 TATGGTT---TAGGGTTTAAGATA
102762828 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
102762846 GTTTAGGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.06
19 1 0.02
20 11 0.23
21 28 0.60
22 1 0.02
24 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:102762970 original size:7 final size:7
Alignment explanation
Indices: 102762960--102762987 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
102762950 GGGGTTGAGG
102762960 GTTTAGA
1 GTTTAGA
102762967 GTTTAGA
1 GTTTAGA
102762974 GTTTAGA
1 GTTTAGA
102762981 GTTTAGA
1 GTTTAGA
102762988 AAAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GTTTAGA
Found at i:102767315 original size:15 final size:15
Alignment explanation
Indices: 102767295--102767327 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
102767285 CATTAATGTC
102767295 TTTCATTCATCCTTA
1 TTTCATTCATCCTTA
102767310 TTTCATTCATCCTTA
1 TTTCATTCATCCTTA
102767325 TTT
1 TTT
102767328 TGTTCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCATTCATCCTTA
Found at i:102767589 original size:43 final size:43
Alignment explanation
Indices: 102767509--102767609 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
102767499 TTAATTTTTA
* *
102767509 TGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCTCTAAAGGCCC
1 TGACCTTTAGCGGCGTTTATGGAAAAAGCGCCTCTAAAGGCCC
* * *
102767552 TGACTTTTAACGGCGTTTATGGAAAAAGTG-CTGCTAAAGGCCC
1 TGACCTTTAGCGGCGTTTATGGAAAAAGCGCCT-CTAAAGGCCC
102767595 TGACCTTTAGCGGCG
1 TGACCTTTAGCGGCG
102767610 GCGTTTTCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.04
43 48 0.96
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (43 bp):
TGACCTTTAGCGGCGTTTATGGAAAAAGCGCCTCTAAAGGCCC
Found at i:102768620 original size:31 final size:31
Alignment explanation
Indices: 102768585--102768649 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
102768575 TTTTTTAGCT
* * *
102768585 AAATTTGACCCTCAACCATTTAAAAAGAGTC
1 AAATTTAACCATCAACCATTTAAAAAGAATC
* * *
102768616 AAATTTAACCATTAATCTTTTAAAAAGAATC
1 AAATTTAACCATCAACCATTTAAAAAGAATC
102768647 AAA
1 AAA
102768650 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (31 bp):
AAATTTAACCATCAACCATTTAAAAAGAATC
Found at i:102769600 original size:21 final size:21
Alignment explanation
Indices: 102769576--102769630 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
102769566 AAAATGGTTA
*
102769576 ATTTTTAATTAT-GGTCCCTTT
1 ATTTTTAATT-TCGGTCCCTAT
102769597 ATTTTTAATTTCGGTCCCTAT
1 ATTTTTAATTTCGGTCCCTAT
102769618 ACTATTTTAATTT
1 A-T-TTTTAATTT
102769631 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 19 0.63
22 1 0.03
23 9 0.30
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTTTTAATTTCGGTCCCTAT
Found at i:102773419 original size:25 final size:23
Alignment explanation
Indices: 102773375--102773420 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
102773365 ATGCTTTATA
*
102773375 ATATATATTTTTTAAAATTTTAC
1 ATATATATTTTTAAAAATTTTAC
102773398 ATATATATTTTTGAAAATATTTT
1 ATATATATTTTT-AAAA-ATTTT
102773421 TTAAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATATATTTTTAAAAATTTTAC
Found at i:102773441 original size:34 final size:35
Alignment explanation
Indices: 102773379--102773463 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 35
102773369 TTTATAATAT
*
102773379 ATATTTTTTAAAATTTTACATATATATTTTTGAAA
1 ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
* *
102773414 ATATTTTTTAAACTTTTAAATAT-TATTTTTTAAA
1 ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
*
102773448 TTATTTTTTAAAATTT
1 ATATTTTTTAAAATTT
102773464 AGGGTTTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 24 0.53
35 21 0.47
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (35 bp):
ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
Found at i:102773446 original size:14 final size:13
Alignment explanation
Indices: 102773427--102773462 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
102773417 TTTTTTAAAC
102773427 TTTTAAATATTATT
1 TTTTAAA-ATTATT
102773441 TTTT-AAATTATT
1 TTTTAAAATTATT
102773453 TTTTAAAATT
1 TTTTAAAATT
102773463 TAGGGTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.48
13 7 0.33
14 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAAATTATT
Found at i:102773481 original size:15 final size:15
Alignment explanation
Indices: 102773461--102773490 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102773451 TTTTTTAAAA
*
102773461 TTTAGGGTTTAGGGT
1 TTTAGGGTTGAGGGT
102773476 TTTAGGGTTGAGGGT
1 TTTAGGGTTGAGGGT
102773491 CAATATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (15 bp):
TTTAGGGTTGAGGGT
Found at i:102782585 original size:16 final size:18
Alignment explanation
Indices: 102782546--102782579 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102782536 TAAGTTTATA
102782546 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
102782563 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
102782580 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:102783244 original size:36 final size:38
Alignment explanation
Indices: 102783188--102783258 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 38
102783178 CAAATATTCA
*
102783188 ATTTTATGTTATTTATTTTATGATTTGAT-ATTTTATC
1 ATTTTATGTTATTTACTTTATGATTTGATAATTTTATC
*
102783225 ATTTTAT-TTATTTACTTTATGATTTTATAATTTT
1 ATTTTATGTTATTTACTTTATGATTTGATAATTTT
102783259 TTATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 19 0.61
37 12 0.39
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (38 bp):
ATTTTATGTTATTTACTTTATGATTTGATAATTTTATC
Found at i:102784086 original size:5 final size:5
Alignment explanation
Indices: 102784078--102784115 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
102784068 AAAGAATAGA
*
102784078 ATTAT ATTAT ATAAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
102784116 TAAACTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:102786121 original size:30 final size:30
Alignment explanation
Indices: 102786087--102786151 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
102786077 ACTTATTTTA
102786087 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
102786117 TTGTTAATTTTGTTATTTTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
102786147 TTGTT
1 TTGTT
102786152 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:102786285 original size:11 final size:11
Alignment explanation
Indices: 102786269--102786299 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
102786259 ATTATATATT
102786269 TAAAAATTATA
1 TAAAAATTATA
*
102786280 TAAAAATAATA
1 TAAAAATTATA
102786291 TAAAAATTA
1 TAAAAATTA
102786300 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:102786296 original size:12 final size:11
Alignment explanation
Indices: 102786269--102786303 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
102786259 ATTATATATT
*
102786269 TAAAAATTATA
1 TAAAAATAATA
102786280 TAAAAATAATA
1 TAAAAATAATA
102786291 TAAAAATTAATA
1 TAAAAA-TAATA
102786303 T
1 T
102786304 GGGTGGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:102786681 original size:18 final size:18
Alignment explanation
Indices: 102786660--102786701 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
102786650 GAAACATTTA
*
102786660 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
102786678 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
102786696 TTTTAA
1 TTTTAA
102786702 AAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:102786726 original size:14 final size:14
Alignment explanation
Indices: 102786700--102786734 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
102786690 ATATATTTTT
102786700 AAAAAATATATATA
1 AAAAAATATATATA
102786714 AAAATAATA-ATATA
1 AAAA-AATATATATA
102786728 AAAAAAT
1 AAAAAAT
102786735 TTAATACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 13 0.65
15 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATATATATA
Found at i:102793884 original size:2 final size:2
Alignment explanation
Indices: 102793877--102793918 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
102793867 ATTTATAACT
*
102793877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T
102793919 TTGTGCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102795406 original size:16 final size:15
Alignment explanation
Indices: 102795367--102795423 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
102795357 ATAAAAAAAA
102795367 TCTAATTTTTATCCT
1 TCTAATTTTTATCCT
102795382 TCTAATTTTCTATTCCT
1 TCTAATTTT-TA-TCCT
*
102795399 TC-AATTTTTCACCCT
1 TCTAATTTTT-ATCCT
*
102795414 TTTAATTTTT
1 TCTAATTTTT
102795424 TTTTTCGCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
15 14 0.39
16 16 0.44
17 6 0.17
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTAATTTTTATCCT
Found at i:102796866 original size:10 final size:10
Alignment explanation
Indices: 102796843--102796872 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
102796833 GTCACCAATG
102796843 CTTGCAAGATC
1 CTTGCAA-ATC
102796854 CTTGCAAATC
1 CTTGCAAATC
102796864 CTTGCAAAT
1 CTTGCAAAT
102796873 TCAGCTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (10 bp):
CTTGCAAATC
Found at i:102798344 original size:17 final size:17
Alignment explanation
Indices: 102798322--102798356 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
102798312 CCTGATAAAG
*
102798322 TTCGAGCTCGTAACAAA
1 TTCGAGCTCGAAACAAA
*
102798339 TTCGAGTTCGAAACAAA
1 TTCGAGCTCGAAACAAA
102798356 T
1 T
102798357 CTAGCTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (17 bp):
TTCGAGCTCGAAACAAA
Found at i:102802383 original size:16 final size:16
Alignment explanation
Indices: 102802362--102802400 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
102802352 GTTTGGTTCA
102802362 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
102802378 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
102802394 CTGTAAT
1 CTGTAAT
102802401 CAGTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:102802474 original size:44 final size:46
Alignment explanation
Indices: 102802382--102802475 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
102802372 ATAGAGCTGT
*
102802382 AATGGAATAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
*
102802428 AATGGAATAGAACTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTC-AGCTGTTTGGTTGAATGG
102802472 AATG
1 AATG
102802476 ATATTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
Found at i:102802709 original size:59 final size:58
Alignment explanation
Indices: 102802586--102802716 Score: 174
Period size: 59 Copynumber: 2.2 Consensus size: 58
102802576 ATAATAGGAT
*
102802586 TATTATTAAATATAATTTAATAATAAATAATAAATAATTTAATCATACTTTAATATAA
1 TATTATTAAATATAATTTAATAAGAAATAATAAATAATTTAATCATACTTTAATATAA
* *
102802644 TTATTATTAAATATAATTTAATAAAGATAATAATATATAATTTAATAACATTC-TTAATATAA
1 -TATTATTAAATATAATTTAAT-AAGA-AATAATAAATAATTTAAT--CATACTTTAATATAA
102802706 TTATTATTAAA
1 -TATTATTAAA
102802717 ATATGAATGA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
59 21 0.32
60 3 0.05
61 17 0.26
62 20 0.31
63 4 0.06
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
TATTATTAAATATAATTTAATAAGAAATAATAAATAATTTAATCATACTTTAATATAA
Found at i:102802865 original size:15 final size:15
Alignment explanation
Indices: 102802845--102802875 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102802835 TTTAATTATG
102802845 TTCTATAAATTAATC
1 TTCTATAAATTAATC
102802860 TTCTATAAATTAATC
1 TTCTATAAATTAATC
102802875 T
1 T
102802876 CAATTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCTATAAATTAATC
Found at i:102803489 original size:25 final size:25
Alignment explanation
Indices: 102803461--102803512 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
102803451 TGAGTTTGCA
102803461 AATCTCAACAATGCATT-TTCTGCTG
1 AATCTCAACAATGCATTCTT-TGCTG
*
102803486 AATCTCAACAATGCCTTCTTTGCTG
1 AATCTCAACAATGCATTCTTTGCTG
102803511 AA
1 AA
102803513 ATATCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
AATCTCAACAATGCATTCTTTGCTG
Found at i:102808345 original size:11 final size:11
Alignment explanation
Indices: 102808313--102808346 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
102808303 TAACCTCCAA
*
102808313 AATATTTACTG
1 AATATTTACTT
102808324 AATATTTACTT
1 AATATTTACTT
102808335 AATATTTACTT
1 AATATTTACTT
102808346 A
1 A
102808347 TAATGTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (11 bp):
AATATTTACTT
Found at i:102809720 original size:23 final size:23
Alignment explanation
Indices: 102809693--102809739 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102809683 AAAGAGTAAA
102809693 TTAGTTATTTCTATTCAAAATTT
1 TTAGTTATTTCTATTCAAAATTT
102809716 TTAGTTATTTCTATTCAAAATTT
1 TTAGTTATTTCTATTCAAAATTT
102809739 T
1 T
102809740 CTCTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAGTTATTTCTATTCAAAATTT
Found at i:102809746 original size:22 final size:22
Alignment explanation
Indices: 102809698--102809752 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
102809688 GTAAATTAGT
*
102809698 TATTTCTATTCAAAATTTTTAGT
1 TATTTCTATTCAAAATTTTTA-C
102809721 TATTTCTATTCAAAATTTTCT-C
1 TATTTCTATTCAAAATTTT-TAC
*
102809743 TATTTATATT
1 TATTTCTATT
102809753 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.31
23 19 0.66
24 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTCTATTCAAAATTTTTAC
Found at i:102810935 original size:15 final size:16
Alignment explanation
Indices: 102810915--102810944 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
102810905 CTAGGTTTAA
102810915 GTTAAAAA-AAAGACC
1 GTTAAAAAGAAAGACC
102810930 GTTAAAAAGAAAGAC
1 GTTAAAAAGAAAGAC
102810945 GCACACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.13
Consensus pattern (16 bp):
GTTAAAAAGAAAGACC
Found at i:102821067 original size:5 final size:5
Alignment explanation
Indices: 102821057--102821084 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102821047 ATGTCATTCC
102821057 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
102821085 ATATCTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:102831387 original size:25 final size:27
Alignment explanation
Indices: 102831353--102831404 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
102831343 AATCGGTAAA
*
102831353 ATTTTTCTATCA-AT-ATTTTCATACG
1 ATTTTCCTATCATATAATTTTCATACG
102831378 ATTTTCCTATCATATCAATTTTCATAC
1 ATTTTCCTATCATAT-AATTTTCATAC
102831405 AAAAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
28 10 0.43
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATACG
Found at i:102839485 original size:11 final size:11
Alignment explanation
Indices: 102839469--102839494 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
102839459 CATTTATTTA
102839469 TTTATTTTCTT
1 TTTATTTTCTT
102839480 TTTATTTTCTT
1 TTTATTTTCTT
102839491 TTTA
1 TTTA
102839495 CACTTAAATA
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:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:102839570 original size:20 final size:19
Alignment explanation
Indices: 102839522--102839571 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
102839512 GTTTATGCTC
*
102839522 TTTTATTTGTGTATTATTA
1 TTTTATTTTTGTATTATTA
*
102839541 TTATTATTTTTGTCGTTATTA
1 TT-TTATTTTTGT-ATTATTA
102839562 TTTTATTTTT
1 TTTTATTTTT
102839572 ACTTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATTTTTGTATTATTA
Found at i:102839730 original size:20 final size:20
Alignment explanation
Indices: 102839683--102839733 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
102839673 TTTACCTTAT
*
102839683 TTATTATAATAATAATATTA
1 TTATTATTATAATAATATTA
* *
102839703 TTATTATTATAATTATGTTA
1 TTATTATTATAATAATATTA
102839723 TTATTATTATA
1 TTATTATTATA
102839734 GTATTCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATTATAATAATATTA
Found at i:102844412 original size:42 final size:42
Alignment explanation
Indices: 102844235--102844397 Score: 238
Period size: 42 Copynumber: 3.9 Consensus size: 42
102844225 CGCAGGTGGA
* *
102844235 ACCGTTCCTACTCACCTGATGATGGATACTATAGAAGGCTGG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
* *
102844277 ACCGTTCTTA-TACACCTGATGAACGATACTATAGAAGGCGGG
1 ACCGTTCCTACT-CACCTGATGATCGATACTATAGAAGGCGGG
* * *
102844319 ATCGTTCCTACTCACCTGACGATCGATACTACAGAAGGCGGG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
*
102844361 ACTGTTCCTACTCACCTGATGATCGATACTATAGAAG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAG
102844398 AAATGACCGG
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 104 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
Found at i:102845322 original size:16 final size:16
Alignment explanation
Indices: 102845311--102845369 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
102845301 TTAATTACTT
102845311 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
102845327 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
102845342 TAAATATTAAATTAA-A
1 T-AATATTAAATTAATA
102845358 TTAAATATTAAA
1 -T-AATATTAAA
102845370 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.17
16 14 0.40
17 15 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:102846979 original size:16 final size:16
Alignment explanation
Indices: 102846958--102846988 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102846948 TTATGTATGC
*
102846958 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
102846974 AAAATACAAAAGACA
1 AAAATACAAAAGACA
102846989 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:102851668 original size:34 final size:34
Alignment explanation
Indices: 102851630--102851697 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
102851620 GGAGAGAGGG
102851630 AATGCATGCTTCAAAATCCGTTTCTGAGGACGTA
1 AATGCATGCTTCAAAATCCGTTTCTGAGGACGTA
*
102851664 AATGCATGCTTCAAAATCCGTTTTTGAGGACGTA
1 AATGCATGCTTCAAAATCCGTTTCTGAGGACGTA
102851698 CTTTTGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (34 bp):
AATGCATGCTTCAAAATCCGTTTCTGAGGACGTA
Found at i:102863180 original size:5 final size:5
Alignment explanation
Indices: 102863170--102863208 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
102863160 TATAAAATAT
102863170 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
102863209 AAGAAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:102864508 original size:5 final size:5
Alignment explanation
Indices: 102864498--102864537 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
102864488 TTTATTGAAT
102864498 TAATA TAATA T-ATGA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA
102864538 ATATTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 29 0.88
6 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:102864517 original size:10 final size:9
Alignment explanation
Indices: 102864500--102864551 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
102864490 TATTGAATTA
102864500 ATATAATAT
1 ATATAATAT
102864509 ATGATAATAT
1 AT-ATAATAT
102864519 AATATAATAT
1 -ATATAATAT
102864529 AATATAATA-
1 -ATATAATAT
**
102864538 ATATTTTAT
1 ATATAATAT
102864547 ATATA
1 ATATA
102864552 CTTAAACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.16
9 6 0.16
10 23 0.62
11 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
ATATAATAT
Found at i:102867052 original size:43 final size:43
Alignment explanation
Indices: 102866957--102867070 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
102866947 ATCGAGATGT
* *
102866957 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
*
102867000 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGA
* * *
102867043 GATTTCGTGTAAGACCCTGTCTTGGACA
1 GATTACGTGTAAGACCATGTCTGGGACA
102867071 GTAACATCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
43 59 0.94
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:102869644 original size:50 final size:50
Alignment explanation
Indices: 102869569--102869745 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
102869559 CCATGGCAAC
*
102869569 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
*
102869619 AAGTGATAAATGATAGCTTCAGCTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
* *
102869669 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
*
102869719 CAAGTGA-AAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAA-TGATAGCTTCGGCTAC
102869746 CTGATCAGTG
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 98 0.82
51 21 0.18
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (50 bp):
AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
Found at i:102869759 original size:31 final size:31
Alignment explanation
Indices: 102869721--102869900 Score: 297
Period size: 31 Copynumber: 5.8 Consensus size: 31
102869711 ACAAATGACA
102869721 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
102869752 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
102869783 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
102869814 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
102869845 AGTGAAAAATGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
102869876 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
102869901 AAGTGATAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:102878152 original size:43 final size:43
Alignment explanation
Indices: 102878104--102878271 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
102878094 ATCGAGATGT
*
102878104 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
102878147 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * * * *
102878191 -ATTTCGTGTAAGACCCTGTTTGGGATAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
102878233 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
102878272 GAGCTTATGG
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 89 0.87
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:102881697 original size:19 final size:20
Alignment explanation
Indices: 102881673--102881710 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
102881663 GGTATCACCA
102881673 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
102881692 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
102881711 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:102882097 original size:93 final size:93
Alignment explanation
Indices: 102881938--102882108 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
102881928 GCCCCTAAGT
* *
102881938 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATTAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATTAGTGAACTCAGACTCAACTCAA
102882003 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
102882031 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA-TAGGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATTA-GTGAACTCAGACTCAACTCA
102882095 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
102882109 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATTAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:102882105 original size:46 final size:45
Alignment explanation
Indices: 102881935--102882105 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
102881925 CCCGCCCCTA
* * *
102881935 AGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA-T
*
102881981 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
102882028 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
102882073 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCAGACTCAACTCAACGAGTTCGGA
102882106 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 59 0.56
47 29 0.27
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:102882562 original size:30 final size:30
Alignment explanation
Indices: 102882528--102882587 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
102882518 ATTTAATACG
102882528 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
102882558 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
102882588 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:102882683 original size:42 final size:42
Alignment explanation
Indices: 102882636--102882719 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
102882626 TATAACATGC
102882636 TGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCTCTCT
1 TGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCTCTCT
102882678 TGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCTCTCT
1 TGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCTCTCT
102882720 AACATATACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (42 bp):
TGATCACTTTTCCCTTCTATGGAAACATCAAATTCTCTCTCT
Found at i:102882720 original size:24 final size:24
Alignment explanation
Indices: 102882651--102882720 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
102882641 ACTTTTCCCT
102882651 TCTATGGAAACATCAAATTCTCTC
1 TCTATGGAAACATCAAATTCTCTC
* ** *
102882675 TCT-T-G-ATCA-C-TTTTCCCT-
1 TCTATGGAAACATCAAATTCTCTC
102882693 TCTATGGAAACATCAAATTCTCTC
1 TCTATGGAAACATCAAATTCTCTC
102882717 TCTA
1 TCTA
102882721 ACATATACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 3 0.09
19 6 0.19
20 2 0.06
21 6 0.19
22 2 0.06
23 6 0.19
24 7 0.22
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (24 bp):
TCTATGGAAACATCAAATTCTCTC
Found at i:102885048 original size:23 final size:23
Alignment explanation
Indices: 102885018--102885066 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
102885008 ATTTTAAATG
102885018 TGTATGCTATATTATTATATGAT
1 TGTATGCTATATTATTATATGAT
102885041 TGTATGCTATATTATTATATGAT
1 TGTATGCTATATTATTATATGAT
102885064 TGT
1 TGT
102885067 TCATATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (23 bp):
TGTATGCTATATTATTATATGAT
Found at i:102885621 original size:26 final size:27
Alignment explanation
Indices: 102885585--102885647 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
102885575 CTTAGCTTTT
*
102885585 ATGAGCATCCTGATT-A-TAGGCTCTTA
1 ATGAGCTTCCTG-TTAAGTAGGCTCTTA
*
102885611 ATGAGCTTCCTGTTAAGTTGGCTCTTA
1 ATGAGCTTCCTGTTAAGTAGGCTCTTA
*
102885638 GTGAGCTTCC
1 ATGAGCTTCC
102885648 CGATAGTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 12 0.38
27 18 0.56
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
ATGAGCTTCCTGTTAAGTAGGCTCTTA
Found at i:102885741 original size:23 final size:23
Alignment explanation
Indices: 102885704--102885749 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
102885694 CCCATTATAT
* *
102885704 GGCTTTTTGTAAGCTTCTTGATA
1 GGCTTTTCGTAAGCTTCTCGATA
*
102885727 GGCTTTTCGTGAGCTTCTCGATA
1 GGCTTTTCGTAAGCTTCTCGATA
102885750 TGGTTCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (23 bp):
GGCTTTTCGTAAGCTTCTCGATA
Found at i:102885841 original size:23 final size:24
Alignment explanation
Indices: 102885582--102885863 Score: 98
Period size: 25 Copynumber: 11.5 Consensus size: 24
102885572 CACCTTAGCT
*
102885582 TTTATGAGCATCCTGATTATAGGCTC
1 TTTATGAGCTTCCTGA-TAT-GGCTC
* *
102885608 TTAATGAGCTTCCTGTTAAGTTGGCTC
1 TTTATGAGCTTCCTGAT-A--TGGCTC
*
102885635 -TTAGTGAGCTTCCCGATA-GTGCTC
1 TTTA-TGAGCTTCCTGATATG-GCTC
** *
102885659 GCT-TGAACTTCCTGATATATGGCT-
1 TTTATGAGCTTCCTG--ATATGGCTC
* ** * * *
102885683 ATTCGGAGTTTCCCATTATATGGCTT
1 TTTATGAGCTT-CC-TGATATGGCTC
* * *
102885709 TTTGTAAGCTTCTTGATA-GGCT-
1 TTTATGAGCTTCCTGATATGGCTC
* *
102885731 TTTCGTGAGCTT-CTCGATATGGTTC
1 TTT-ATGAGCTTCCT-GATATGGCTC
* * *
102885756 TTTGTGAACTTTCTGATTATGGCTC
1 TTTATGAGCTTCCTGA-TATGGCTC
*
102885781 -TTATGAGCTTCCTGTTATATAGC-C
1 TTTATGAGCTTCCTG--ATATGGCTC
** *
102885805 TGGATAAGCTTCCTGATA-GGCTC
1 TTTATGAGCTTCCTGATATGGCTC
*
102885828 TTTATGAGCTTCCTGAAATGGCTC
1 TTTATGAGCTTCCTGATATGGCTC
* *
102885852 TGTGTGAGCTTC
1 TTTATGAGCTTC
102885864 ATGTTATAAG
Statistics
Matches: 191, Mismatches: 41, Indels: 50
0.68 0.15 0.18
Matches are distributed among these distances:
22 6 0.03
23 43 0.23
24 48 0.25
25 49 0.26
26 27 0.14
27 17 0.09
28 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (24 bp):
TTTATGAGCTTCCTGATATGGCTC
Found at i:102885859 original size:24 final size:23
Alignment explanation
Indices: 102885811--102885863 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
102885801 AGCCTGGATA
* *
102885811 AGCTTCCTGATAGGCTCTTTATG
1 AGCTTCCTGAAAGGCTCTGTATG
*
102885834 AGCTTCCTGAAATGGCTCTGTGTG
1 AGCTTCCTGAAA-GGCTCTGTATG
102885858 AGCTTC
1 AGCTTC
102885864 ATGTTATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
AGCTTCCTGAAAGGCTCTGTATG
Found at i:102887506 original size:50 final size:50
Alignment explanation
Indices: 102887383--102887527 Score: 202
Period size: 50 Copynumber: 2.9 Consensus size: 50
102887373 AGCCAAAGCT
* * * * **
102887383 ATCTGGTACACATAGTCGCTTGCACTTAGTACTACACATGCGACC-AATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
102887432 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
*
102887482 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
102887528 CACAATAGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 39 0.46
50 45 0.54
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:102892660 original size:28 final size:28
Alignment explanation
Indices: 102892628--102892723 Score: 165
Period size: 28 Copynumber: 3.4 Consensus size: 28
102892618 CGATATTTTG
102892628 CACACTAAGTGCCATTCTCAATATCTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
*
102892656 CACACTAAGTGCCATTCTCAATATCTTA
1 CACACTAAGTGCCATTCTCAATATCTCA
* *
102892684 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
102892712 CACACTAAGTGC
1 CACACTAAGTGC
102892724 TATATTTGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:102892802 original size:40 final size:40
Alignment explanation
Indices: 102892758--102892842 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
102892748 GTGCTGTACA
*
102892758 TAGCCAAAGCTAT-CTCAAATCACACACTAAGTGCCAAATT
1 TAGCCAAAGCTATAC-CAAACCACACACTAAGTGCCAAATT
* * ** *
102892798 TAGCCGAAGCTATACCGAACCGTACACTAAGTGCCATATT
1 TAGCCAAAGCTATACCAAACCACACACTAAGTGCCAAATT
102892838 TAGCC
1 TAGCC
102892843 GATATGTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.22
Consensus pattern (40 bp):
TAGCCAAAGCTATACCAAACCACACACTAAGTGCCAAATT
Found at i:102894652 original size:22 final size:23
Alignment explanation
Indices: 102894625--102894672 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
102894615 TATTATTGTT
*
102894625 AATTAATTATGAATTTT-AATTA
1 AATTAATTATAAATTTTAAATTA
*
102894647 AATTAATTTTAAATTTTAAATTA
1 AATTAATTATAAATTTTAAATTA
102894670 AAT
1 AAT
102894673 ATTAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTAATTATAAATTTTAAATTA
Found at i:102894656 original size:15 final size:15
Alignment explanation
Indices: 102894636--102894686 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
102894626 ATTAATTATG
102894636 AATTTTAATTAAATT
1 AATTTTAATTAAATT
102894651 AATTTTAAATTTTAAATT
1 AATTTT-AA--TTAAATT
*
102894669 AAATATTAA-TAAATT
1 -AATTTTAATTAAATT
102894684 AAT
1 AAT
102894687 ATCGTTACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
14 3 0.10
15 12 0.39
16 2 0.06
18 9 0.29
19 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTTAATTAAATT
Found at i:102895125 original size:18 final size:19
Alignment explanation
Indices: 102895102--102895142 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
102895092 TATAATATTT
102895102 TAAATTA-GATTATATAAA
1 TAAATTATGATTATATAAA
*
102895120 TAAATTATTTATTATATAAA
1 TAAATTA-TGATTATATAAA
102895140 TAA
1 TAA
102895143 TTAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
20 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAATTATGATTATATAAA
Found at i:102896787 original size:27 final size:27
Alignment explanation
Indices: 102896749--102896804 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
102896739 GTCGTCATTC
*
102896749 CTTGTATGGTAATGAATCTAGCAAACT
1 CTTGTATGGTAATCAATCTAGCAAACT
*
102896776 CTTGTTTGGTAATCAATCTAGCAAACT
1 CTTGTATGGTAATCAATCTAGCAAACT
102896803 CT
1 CT
102896805 AGTCCAGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
CTTGTATGGTAATCAATCTAGCAAACT
Found at i:102897118 original size:16 final size:16
Alignment explanation
Indices: 102897097--102897131 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
102897087 TTTACTTAAC
102897097 ATTTAAAGATGAAAAA
1 ATTTAAAGATGAAAAA
102897113 ATTTAAAGATGAAAAA
1 ATTTAAAGATGAAAAA
102897129 ATT
1 ATT
102897132 CATATATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
ATTTAAAGATGAAAAA
Found at i:102899031 original size:18 final size:18
Alignment explanation
Indices: 102899008--102899043 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
102898998 GAGATCGAAC
102899008 CCCAATCACATAATTAAG
1 CCCAATCACATAATTAAG
102899026 CCCAATCACATAATTAAG
1 CCCAATCACATAATTAAG
102899044 AGATGAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
CCCAATCACATAATTAAG
Found at i:102899125 original size:23 final size:23
Alignment explanation
Indices: 102899095--102899139 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
102899085 TTCTTTTTCA
102899095 TTTTATTATTACCCCAACATTCG
1 TTTTATTATTACCCCAACATTCG
*
102899118 TTTTATTATTACTCCAACATTC
1 TTTTATTATTACCCCAACATTC
102899140 ACTTGGCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTATTATTACCCCAACATTCG
Found at i:102903311 original size:18 final size:18
Alignment explanation
Indices: 102903290--102903356 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
102903280 TTTTTGATGC
102903290 ATTTTATAATTTTTTACA
1 ATTTTATAATTTTTTACA
**
102903308 ATTTTATAACATTTTAC-
1 ATTTTATAATTTTTTACA
*
102903325 ATTTT-TTATATTTTTACA
1 ATTTTATAAT-TTTTTACA
102903343 ATTTTATAATTTTT
1 ATTTTATAATTTTT
102903357 CTAATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 24 0.60
19 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATAATTTTTTACA
Found at i:102903321 original size:28 final size:28
Alignment explanation
Indices: 102903289--102903412 Score: 84
Period size: 29 Copynumber: 4.5 Consensus size: 28
102903279 CTTTTTGATG
102903289 CATTTTATAATTTTTTACAATTTTATAA
1 CATTTTATAATTTTTTACAATTTTATAA
* *
102903317 CATTTTA-CATTTTTTA-TATTTT-T-A
1 CATTTTATAATTTTTTACAATTTTATAA
102903341 CAATTTTATAA-TTTTT-CTAATTTTAATAA
1 C-ATTTTATAATTTTTTAC-AATTTT-ATAA
* * * *
102903370 -AATTTAAATATTTTTTATATTTTTATTAA
1 CATTTTATA-ATTTTTTACAATTTTA-TAA
102903399 -ATTTTAATAATTTT
1 CATTTT-ATAATTTT
102903413 ATTGATGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
24 2 0.03
25 12 0.16
26 11 0.15
27 14 0.19
28 10 0.14
29 23 0.31
30 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
CATTTTATAATTTTTTACAATTTTATAA
Found at i:102903339 original size:17 final size:17
Alignment explanation
Indices: 102903290--102903365 Score: 84
Period size: 17 Copynumber: 4.4 Consensus size: 17
102903280 TTTTTGATGC
102903290 ATTTTATAATTTTTTACA
1 ATTTTATAA-TTTTTACA
*
102903308 ATTTTATAACATTTTAC-
1 ATTTTATAA-TTTTTACA
*
102903325 ATTTTTTATATTTTTACA
1 ATTTTATA-ATTTTTACA
102903343 ATTTTATAATTTTT-CTA
1 ATTTTATAATTTTTAC-A
102903360 ATTTTA
1 ATTTTA
102903366 ATAAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
16 1 0.02
17 26 0.52
18 23 0.46
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATAATTTTTACA
Found at i:102903361 original size:9 final size:9
Alignment explanation
Indices: 102903291--102903412 Score: 63
Period size: 9 Copynumber: 13.3 Consensus size: 9
102903281 TTTTGATGCA
102903291 TTTTATAAT
1 TTTTATAAT
*
102903300 TTTT-TACAA
1 TTTTATA-AT
*
102903309 TTTTATAACA
1 TTTTATAA-T
* *
102903319 TTTTACATT
1 TTTTATAAT
102903328 TTTTAT-AT
1 TTTTATAAT
*
102903336 TTTTACAA-
1 TTTTATAAT
102903344 TTTTATAAT
1 TTTTATAAT
*
102903353 TTTTCTAAT
1 TTTTATAAT
* *
102903362 TTTAATAAA
1 TTTTATAAT
*
102903371 ATTTA-AAT
1 TTTTATAAT
*
102903379 ATTTTTTATAT
1 -TTTTATA-AT
102903390 TTTTATTAAAT
1 TTTTA-T-AAT
*
102903401 TTTAATAAT
1 TTTTATAAT
102903410 TTT
1 TTT
102903413 ATTGATGTTT
Statistics
Matches: 84, Mismatches: 19, Indels: 20
0.68 0.15 0.16
Matches are distributed among these distances:
8 17 0.20
9 42 0.50
10 15 0.18
11 9 0.11
12 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:102903773 original size:87 final size:88
Alignment explanation
Indices: 102903594--102903774 Score: 190
Period size: 87 Copynumber: 2.1 Consensus size: 88
102903584 AATGGCTTAA
* * ** *
102903594 TTTTTTTTTTGAAGTTTAAGGGTCTTTTTTATTCATTTTGGCAGTTCAAGTACTCAATTAAGTAT
1 TTTTTTTTTTGAAGTTTAAGGGTCTTTTTGATTCATCTTGAAAGTTCAAGTACCCAATTAAGTAT
* *** *
102903659 AAAAAAAATTAAGGGCTTAATTG
66 AAAAAAAATCAAAAACTTAATTC
* *
102903682 TTTTTTTTTT-AAGTTTGAGGGTCTTTTTGATGT-ATCTTGAAAGTTTAAGTACCCAATTAAGTG
1 TTTTTTTTTTGAAGTTTAAGGGTCTTTTTGAT-TCATCTTGAAAGTTCAAGTACCCAATTAAGT-
*
102903745 A-AAAGAAAA-CAAAAACTTAATTAC
64 ATAAAAAAAATCAAAAACTTAATT-C
102903769 TTTTTT
1 TTTTTT
102903775 AAAAAAAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
86 9 0.12
87 56 0.73
88 12 0.16
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (88 bp):
TTTTTTTTTTGAAGTTTAAGGGTCTTTTTGATTCATCTTGAAAGTTCAAGTACCCAATTAAGTAT
AAAAAAAATCAAAAACTTAATTC
Found at i:102904118 original size:85 final size:86
Alignment explanation
Indices: 102903948--102904172 Score: 239
Period size: 84 Copynumber: 2.7 Consensus size: 86
102903938 GTGTAAATTT
* * * * *
102903948 TTTTTTTAAAAAGAGCAATTAA---TTTTTTTTTGCATTCAATTGGGTATTTGAATTTTCAAAAT
1 TTTTTTCAAAAAAAGCAATTAAGCCTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAAAT
*
102904010 GCATAAAAAAAGCCCCAAAAC
66 GCATAAAAAAAACCCCAAAAC
** *
102904031 -TTTTTCAAATAAAAGTTATTAAGCCTTTTTTTTTAC-TT-AATTGGGTGCTTGAACTTTCAAAA
1 TTTTTTCAAA-AAAAGCAATTAAGCCTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAAA
*
102904093 TGCATAAAAAAATACTCTC-AAAC
65 TGCATAAAAAAA-AC-CCCAAAAC
* * * *
102904116 TTTTTTCAAAAAAAGCAATTAAGTCTTTTCTTTTTTCACTCAATTGGGCACTTGAAC
1 TTTTTTCAAAAAAAGCAATTAAGCCTTTT-TTTTTACATTCAATTGGGTACTTGAAC
102904173 CGTCAAAGTG
Statistics
Matches: 115, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
82 8 0.07
83 9 0.08
84 33 0.29
85 23 0.20
86 27 0.23
87 1 0.01
88 14 0.12
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (86 bp):
TTTTTTCAAAAAAAGCAATTAAGCCTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAAAT
GCATAAAAAAAACCCCAAAAC
Found at i:102904192 original size:88 final size:86
Alignment explanation
Indices: 102904003--102904197 Score: 202
Period size: 88 Copynumber: 2.3 Consensus size: 86
102903993 ATTTGAATTT
* **
102904003 TCAAAATGCATAAAAAAAG--C-CCCAAAACTTTTTCAAATAAAAGTTATTAAGCCTTTTTTTTT
1 TCAAAATGCATAAAAAAAGTACTCTC-AAACTTTTTCAAATAAAAGCAATTAAGCCTTTTTTTTT
* ** **
102904065 ACTTAATTGGGTGCTTGAACTT
65 ACTCAATTGGGCACTTGAACCG
*
102904087 TCAAAATGCATAAAAAAA-TACTCTCAAACTTTTTTCAAA-AAAAGCAATTAAGTCTTTTCTTTT
1 TCAAAATGCATAAAAAAAGTACTCTCAAAC-TTTTTCAAATAAAAGCAATTAAG-CCTTT-TTTT
102904150 TTCACTCAATTGGGCACTTGAACCG
63 TT-ACTCAATTGGGCACTTGAACCG
* **
102904175 TCAAAGTGCATCTAAAAAGTACT
1 TCAAAATGCATAAAAAAAGTACT
102904198 TTGACTGTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
84 18 0.20
85 16 0.18
86 15 0.16
87 6 0.07
88 32 0.35
89 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (86 bp):
TCAAAATGCATAAAAAAAGTACTCTCAAACTTTTTCAAATAAAAGCAATTAAGCCTTTTTTTTTA
CTCAATTGGGCACTTGAACCG
Found at i:102904352 original size:10 final size:9
Alignment explanation
Indices: 102904339--102904459 Score: 52
Period size: 9 Copynumber: 12.7 Consensus size: 9
102904329 AATTATTAAA
102904339 TTTTATAAGT
1 TTTTATAA-T
102904349 TTTTATAAT
1 TTTTATAAT
*
102904358 TTTTTTATAT
1 TTTTATA-AT
* *
102904368 TTCTAT-GT
1 TTTTATAAT
102904376 ATTTTAT-AT
1 -TTTTATAAT
*
102904385 TTTTTTAAGAT
1 TTTTAT-A-AT
*
102904396 TTTTATAAAAA
1 TTTTAT--AAT
*
102904407 ATTTATAATT
1 TTTTATAA-T
*
102904417 CTTTTACAAT
1 -TTTTATAAT
102904427 TTTTATAAT
1 TTTTATAAT
102904436 TTTTCA-AAT
1 TTTT-ATAAT
102904445 TTTTA-ATAT
1 TTTTATA-AT
102904454 TTTTAT
1 TTTTAT
102904460 TAAAATTTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
8 8 0.09
9 41 0.48
10 16 0.19
11 19 0.22
12 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:102904433 original size:20 final size:18
Alignment explanation
Indices: 102904408--102904449 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
102904398 TTATAAAAAA
*
102904408 TTTATAATTCTTTTACAATT
1 TTTATAATT-TTTCA-AATT
102904428 TTTATAATTTTTCAAATT
1 TTTATAATTTTTCAAATT
102904446 TTTA
1 TTTA
102904450 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTCAAATT
Found at i:102904438 original size:58 final size:57
Alignment explanation
Indices: 102904350--102904468 Score: 125
Period size: 58 Copynumber: 2.1 Consensus size: 57
102904340 TTTATAAGTT
* * * **
102904350 TTTATAATTTTTTTATATTTCTATGTATTTTAT-ATTTTTTTAAGATTTTTATAAAAAA
1 TTTATAATTCTTTTAAATTTCTATGAATTTT-TCAAATTTTTAAGATTTTTAT-AAAAA
* * *
102904408 TTTATAATTCTTTTACAATTTTTAT-AATTTTTCAAATTTTTAATATTTTTATTAAAA
1 TTTATAATTCTTTTA-AATTTCTATGAATTTTTCAAATTTTTAAGATTTTTATAAAAA
102904465 TTTA
1 TTTA
102904469 ATATTTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
57 9 0.18
58 35 0.69
59 7 0.14
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (57 bp):
TTTATAATTCTTTTAAATTTCTATGAATTTTTCAAATTTTTAAGATTTTTATAAAAA
Done.