Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 230 of 292
Found at i:66959372 original size:21 final size:21
Alignment explanation
Indices: 66959346--66959387 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
66959336 AAATAAAAAA
66959346 TTATTT-TTAACTAAAAAATAC
1 TTATTTATTAA-TAAAAAATAC
66959367 TTATTTAATTAATAAAAAATA
1 TTATTT-ATTAATAAAAAATA
66959388 ATTTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATTTATTAATAAAAAATAC
Found at i:66966150 original size:29 final size:27
Alignment explanation
Indices: 66966124--66966214 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 27
66966114 AATTTAATTA
66966124 TTTTATATATTTTTTCTTTTTTATAAT
1 TTTTATATATTTTTTCTTTTTTATAAT
** **
66966151 TTAAATATAATTTTTAGATTTTATCTATAAT
1 TTTTATAT-ATTTTT-TCTTTT-T-TATAAT
66966182 TTTTATATATTTATTTTCTTTTTTATAAT
1 TTTTATATA-TT-TTTTCTTTTTTATAAT
66966211 TTTT
1 TTTT
66966215 TAGGGTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
27 6 0.12
28 6 0.12
29 14 0.28
30 3 0.06
31 18 0.36
32 3 0.06
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.68
Consensus pattern (27 bp):
TTTTATATATTTTTTCTTTTTTATAAT
Found at i:66966166 original size:20 final size:20
Alignment explanation
Indices: 66966141--66966194 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
66966131 TATTTTTTCT
66966141 TTTTTATAATTTAAATATAA
1 TTTTTATAATTTAAATATAA
* * **
66966161 TTTTTAGATTTTATCTATAA
1 TTTTTATAATTTAAATATAA
66966181 TTTTTATATATTTA
1 TTTTTATA-ATTTA
66966195 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTATAATTTAAATATAA
Found at i:66967415 original size:2 final size:2
Alignment explanation
Indices: 66967408--66967460 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
66967398 CAAAGTCAAA
66967408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66967450 AT AT AT AT AT A
1 AT AT AT AT AT A
66967461 AAAGGGAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66968824 original size:34 final size:34
Alignment explanation
Indices: 66968786--66968858 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
66968776 GAATAATCCC
66968786 TTGAATATTAGCAATAAAACAC-CTAATTGCCCCA
1 TTGAATATTAGCAATAAAACACTC-AATTGCCCCA
*
66968820 TTGAATATTAGCAATAAAACACTCAATTGCCCCC
1 TTGAATATTAGCAATAAAACACTCAATTGCCCCA
66968854 TTGAA
1 TTGAA
66968859 CTCTCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (34 bp):
TTGAATATTAGCAATAAAACACTCAATTGCCCCA
Found at i:66972030 original size:21 final size:20
Alignment explanation
Indices: 66971996--66972042 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
66971986 ATATATGTAC
66971996 AAATATACACAAAACAATAT
1 AAATATACACAAAACAATAT
*
66972016 AAATGATATACAAAACAATAT
1 AAAT-ATACACAAAACAATAT
*
66972037 ATATAT
1 AAATAT
66972043 GAACAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATATACACAAAACAATAT
Found at i:66972039 original size:23 final size:21
Alignment explanation
Indices: 66971996--66972037 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
66971986 ATATATGTAC
66971996 AAAT-ATACACAAAACAATAT
1 AAATGATACACAAAACAATAT
*
66972016 AAATGATATACAAAACAATAT
1 AAATGATACACAAAACAATAT
66972037 A
1 A
66972038 TATATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATGATACACAAAACAATAT
Found at i:66975262 original size:15 final size:14
Alignment explanation
Indices: 66975242--66975275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
66975232 ACATCTCCCT
*
66975242 TTTTTATTATTTTTA
1 TTTTTATT-TATTTA
66975257 TTTTTATTTATTTA
1 TTTTTATTTATTTA
66975271 TTTTT
1 TTTTT
66975276 GCTTAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:66975431 original size:96 final size:96
Alignment explanation
Indices: 66975267--66975443 Score: 284
Period size: 96 Copynumber: 1.8 Consensus size: 96
66975257 TTTTTATTTA
* * * *
66975267 TTTATTTTTGCTTAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAATCACATCA
1 TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGATGACAGCCAAGCACATCA
*
66975332 CCCTGGTTACTCAGCCCACACACTCCTAATT
66 CCCTAGTTACTCAGCCCACACACTCCTAATT
*
66975363 TTTATTTTTGCTTAAGAACATATCGAA-CTTATTGACGCGAAAAGAGATGACAGCCAAGCACCTC
1 TTTATTTTTGCTTAAGAACATATCGAACCTT-TTGACGCGAAAAGAGATGACAGCCAAGCACATC
66975427 ACCCTAGTTACTCAGCC
65 ACCCTAGTTACTCAGCC
66975444 TAACACATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
95 3 0.04
96 71 0.96
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (96 bp):
TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGATGACAGCCAAGCACATCA
CCCTAGTTACTCAGCCCACACACTCCTAATT
Found at i:66982344 original size:22 final size:22
Alignment explanation
Indices: 66982319--66982361 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
66982309 GAATTTTCCC
66982319 AAAAGATTTTCTCCAATTTCTA
1 AAAAGATTTTCTCCAATTTCTA
66982341 AAAAGATTTTCTCCAATTTCT
1 AAAAGATTTTCTCCAATTTCT
66982362 CTCTGTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (22 bp):
AAAAGATTTTCTCCAATTTCTA
Found at i:66983871 original size:7 final size:7
Alignment explanation
Indices: 66983852--66983925 Score: 66
Period size: 6 Copynumber: 10.6 Consensus size: 7
66983842 TCAACATCTA
66983852 AAATAAT
1 AAATAAT
66983859 -AATAAT
1 AAATAAT
66983865 AAATAAT
1 AAATAAT
66983872 AAATAATAT
1 AAAT-A-AT
66983881 AATATAAT
1 AA-ATAAT
66983889 AAATAAAT
1 AAAT-AAT
*
66983897 AAATAAG
1 AAATAAT
*
66983904 AAAGAA-
1 AAATAAT
66983910 AAATAA-
1 AAATAAT
66983916 AAATAA-
1 AAATAAT
66983922 AAAT
1 AAAT
66983926 TGGGTTGCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
6 21 0.36
7 19 0.32
8 12 0.20
9 5 0.08
10 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:66983876 original size:4 final size:4
Alignment explanation
Indices: 66983862--66983902 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
66983852 AAATAATAAT
66983862 AATA AAT- AATA AAT- AATA TAATA TAATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA -AATA -AATA AATA AATA AATA A
66983903 GAAAGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 6 0.18
4 19 0.56
5 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:66983878 original size:17 final size:17
Alignment explanation
Indices: 66983856--66983922 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
66983846 CATCTAAAAT
66983856 AATAATAATAAATAATA
1 AATAATAATAAATAATA
66983873 AATAAT-ATAATATAATA
1 AATAATAATAA-ATAATA
*
66983890 AAT-A-AATAAATAAGA
1 AATAATAATAAATAATA
* *
66983905 AAGAAAAATAAA-AATA
1 AATAATAATAAATAATA
66983921 AA
1 AA
66983923 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
15 7 0.16
16 15 0.35
17 21 0.49
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAATAATAAATAATA
Found at i:66983923 original size:5 final size:6
Alignment explanation
Indices: 66983856--66983925 Score: 50
Period size: 7 Copynumber: 10.5 Consensus size: 6
66983846 CATCTAAAAT
* *
66983856 AATAAT AATAAA TAATAAA TAATATAA TATAATA AATAAATA AATAAGA
1 AATAAA AATAAA -AATAAA -AATA-AA AATAA-A AAT-AA-A AATAA-A
*
66983905 AAGAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AAT
66983926 TGGGTTGCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
6 21 0.39
7 24 0.44
8 9 0.17
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (6 bp):
AATAAA
Found at i:66988461 original size:46 final size:46
Alignment explanation
Indices: 66988392--66988567 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
66988382 TGTAACCCGC
* *
66988392 CCATAAGTGAACTCGGACACAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
66988438 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG---GAC--GTTCGCAT
* * * * *
66988488 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
66988531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
66988568 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:66988513 original size:93 final size:93
Alignment explanation
Indices: 66988400--66988570 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
66988390 GCCCATAAGT
** *
66988400 GAACTCGGACACAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACACAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66988465 CGAGCTCGAATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
* *
66988493 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACACAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
66988558 CGAGTTCGGATGC
66 CGAGCTCGAATGC
66988571 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACACAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:66991378 original size:20 final size:20
Alignment explanation
Indices: 66991353--66991393 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
66991343 GTTACGAAAC
*
66991353 TCGAAATCCAATTCTGTAAA
1 TCGAAATCCAATTCCGTAAA
*
66991373 TCGAAATCTAATTCCGTAAA
1 TCGAAATCCAATTCCGTAAA
66991393 T
1 T
66991394 TTTCCCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (20 bp):
TCGAAATCCAATTCCGTAAA
Found at i:66992648 original size:46 final size:46
Alignment explanation
Indices: 66992500--66992665 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
66992490 TGTAACCCGC
* *
66992500 CCATAAGTGAACTCGGACTCAA-TCAACGAGCACGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
66992545 CCATAAGTGAACT-GGACTCAACTCAACGAGCTCGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GAC-A-TTCGCAT
* * *
66992593 CTC-T---CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
66992636 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
66992666 ATTCGGATGC
Statistics
Matches: 100, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 10 0.10
45 29 0.29
46 41 0.41
47 2 0.02
48 6 0.06
49 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:66992684 original size:91 final size:89
Alignment explanation
Indices: 66992508--66992684 Score: 239
Period size: 91 Copynumber: 2.0 Consensus size: 89
66992498 GCCCATAAGT
*
66992508 GAACTCGGACTCAATCAACGAGCACGGGCATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
1 GAACTCGGACTCAATCAACGAGCACGGACATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
* * *
66992573 AGCTCGATGCCTAGTTACATCTCTC
66 AACTCGATGCCCAG-AACATCTCTC
***
66992598 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAA-TCAACGAGCACGGACATTCGCATCCATAAGTGAACT-GGACTCAACTCAA
*
66992663 CGAATTCGGATGCCCA-AACATC
64 CGAACTC-GATGCCCAGAACATC
66992685 CTAGTGACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 14 0.18
91 37 0.49
92 18 0.24
93 7 0.09
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (89 bp):
GAACTCGGACTCAATCAACGAGCACGGACATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
AACTCGATGCCCAGAACATCTCTC
Found at i:66995080 original size:15 final size:15
Alignment explanation
Indices: 66995062--66995139 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 15
66995052 CAAGAAAACC
66995062 GATAAAGAAATCCAA
1 GATAAAGAAATCCAA
* *
66995077 GATAGAGAAA-CCCA
1 GATAAAGAAATCCAA
66995091 GAATAAAGAAATCC-A
1 G-ATAAAGAAATCCAA
* *
66995106 GAATAAAGAGAT-CAG
1 G-ATAAAGAAATCCAA
*
66995121 GATAAAGAAACCCAA
1 GATAAAGAAATCCAA
66995136 GATA
1 GATA
66995140 CGATACTATG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 13 0.25
15 36 0.71
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
GATAAAGAAATCCAA
Found at i:66995097 original size:30 final size:29
Alignment explanation
Indices: 66995063--66995139 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
66995053 AAGAAAACCG
*
66995063 ATAAAGAAATCCAAGATAGAGAAACCCAGA
1 ATAAAGAAATCCAAGATAAAGAAA-CCAGA
* * *
66995093 ATAAAGAAATCC-AGAATAAAGAGATCAGG
1 ATAAAGAAATCCAAG-ATAAAGAAACCAGA
*
66995122 ATAAAGAAACCCAAGATA
1 ATAAAGAAATCCAAGATA
66995140 CGATACTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.47
30 21 0.52
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (29 bp):
ATAAAGAAATCCAAGATAAAGAAACCAGA
Found at i:66995127 original size:14 final size:15
Alignment explanation
Indices: 66995063--66995130 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
66995053 AAGAAAACCG
66995063 ATAAAGAAATCCA-A
1 ATAAAGAAATCCAGA
* *
66995077 GATAGAGAAACCCAGA
1 -ATAAAGAAATCCAGA
66995093 ATAAAGAAATCCAGA
1 ATAAAGAAATCCAGA
* *
66995108 ATAAAGAGAT-CAGG
1 ATAAAGAAATCCAGA
66995122 ATAAAGAAA
1 ATAAAGAAA
66995131 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.24
15 33 0.73
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAGA
Found at i:66998200 original size:93 final size:91
Alignment explanation
Indices: 66998043--66998212 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 91
66998033 GCCCATAAGT
* * *
66998043 GAACTCGGACTCAACTCAACGAGCCGGCGTTTGCATCCATAAGTGAACTTGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
66998108 AGCTCGGATGCCTAGTTACATCTCTC
66 AGCTCGGATGCCTAGTTACATCTCTC
* **
66998134 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAG-CCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
66998199 CGAGTTCGGATGCC
64 CGAGCTCGGATGCC
66998213 CAAACATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
91 23 0.33
92 3 0.04
93 44 0.63
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTC
Found at i:66998208 original size:46 final size:45
Alignment explanation
Indices: 66998036--66998207 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
66998026 GTAACCCGCC
* * * *
66998036 CATAAGTGAACTCGGACTCAACTCAACGAG-CCGGCGTTTGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATT
* * *
66998080 CATAAGTGAACTTGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-TT
***
66998125 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 -CATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATT
*
66998173 TATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
66998208 ATGCCCAAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 31 0.30
45 4 0.04
46 32 0.31
47 29 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATT
Found at i:66998227 original size:46 final size:46
Alignment explanation
Indices: 66998084--66998227 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
66998074 TGCATCCATA
* * *
66998084 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * ** *
66998133 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTTAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
66998177 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
66998223 AGTGA
1 AGTGA
66998228 CATGTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
44 7 0.10
46 33 0.45
47 29 0.40
49 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:67000012 original size:16 final size:17
Alignment explanation
Indices: 66999981--67000013 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66999971 TTCATAAGTA
66999981 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
66999998 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
67000014 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:67000550 original size:46 final size:46
Alignment explanation
Indices: 67000281--67000554 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
67000271 TTTGACATGA
* * * * *
67000281 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
67000327 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *** *
67000373 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
67000419 TGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
67000465 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
67000511 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
67000555 AGAGCACACT
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:67006304 original size:40 final size:40
Alignment explanation
Indices: 67006208--67006284 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
67006198 GCATACCTGA
*
67006208 GAAAAGAATAAAA-AAAAACAGAATTAAAAGTTTTGATCT
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
67006247 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGAT
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGAT
67006285 TTAAATTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 12 0.33
40 24 0.67
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.23
Consensus pattern (40 bp):
GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
Found at i:67007035 original size:10 final size:10
Alignment explanation
Indices: 67007019--67007067 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
67007009 TAAATTCTAG
67007019 AAGATAAATA
1 AAGATAAATA
*
67007029 TAGATAAATA
1 AAGATAAATA
*
67007039 AAGATAATTA
1 AAGATAAATA
67007049 AAGATAAATGA
1 AAGATAAAT-A
67007060 AA-ATAAAT
1 AAGATAAAT
67007068 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAGATAAATA
Found at i:67010470 original size:6 final size:6
Alignment explanation
Indices: 67010459--67010491 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
67010449 AGAGAGCTCA
67010459 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
1 ATGGGC ATGGGC ATGGGC ATGGGC ATGGGC ATG
67010492 AGACCTGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.48, T:0.18
Consensus pattern (6 bp):
ATGGGC
Found at i:67018531 original size:32 final size:34
Alignment explanation
Indices: 67018479--67018550 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
67018469 ATTTTAAAAT
* *
67018479 TTTTTAAATATATAATA-T-TATATATTTTTTAC
1 TTTTTAAATATATAAAATTATATATATTTTTTAA
* *
67018511 TTTTTAAATTTCTAAAATTATATATATTTTTTAA
1 TTTTTAAATATATAAAATTATATATATTTTTTAA
67018545 TTTTTA
1 TTTTTA
67018551 GATGATGACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 14 0.41
33 1 0.03
34 19 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTTTAAATATATAAAATTATATATATTTTTTAA
Found at i:67018682 original size:11 final size:11
Alignment explanation
Indices: 67018666--67018690 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
67018656 AGTTGAGGCG
67018666 ATGACAAATAT
1 ATGACAAATAT
67018677 ATGACAAATAT
1 ATGACAAATAT
67018688 ATG
1 ATG
67018691 TAGGGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGACAAATAT
Found at i:67022734 original size:1 final size:1
Alignment explanation
Indices: 67022699--67022724 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
67022689 AAGCAAAGAC
67022699 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
67022725 GGGGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:67028199 original size:24 final size:23
Alignment explanation
Indices: 67028172--67028279 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 23
67028162 ATATAGTATT
67028172 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
67028196 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
* * *
67028220 TAAGAAATATATATAATTAGTAATAT-
1 TAA-AAATATATA-CA-T-GAAATGTA
* *
67028246 TAAAAATATATACATGACATATA
1 TAAAAATATATACATGAAATGTA
67028269 TAAAACATATA
1 TAAAA-ATATA
67028280 CAATATATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
22 5 0.07
23 6 0.09
24 26 0.38
25 19 0.28
26 6 0.09
27 6 0.09
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:67028360 original size:16 final size:16
Alignment explanation
Indices: 67028335--67028365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67028325 TTTGTACCCT
67028335 ACACAAATATATATAC
1 ACACAAATATATATAC
*
67028351 ACACACATATATATA
1 ACACAAATATATATA
67028366 TATATATAAA
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:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (16 bp):
ACACAAATATATATAC
Found at i:67028406 original size:21 final size:22
Alignment explanation
Indices: 67028369--67028470 Score: 97
Period size: 22 Copynumber: 4.8 Consensus size: 22
67028359 ATATATATAT
*
67028369 ATATA-AATAATAGTATTAGAA
1 ATATACAATAATAATATTAGAA
67028390 ATATACAAT-ATAATATTAGAA
1 ATATACAATAATAATATTAGAA
* *
67028411 ATATACATATAATAGTA-TAAAA
1 ATATACA-ATAATAATATTAGAA
* *
67028433 ATATATAACTAATAATACTA-AA
1 ATATACAA-TAATAATATTAGAA
*
67028455 ATATA-TATAATAATAT
1 ATATACAATAATAATAT
67028471 ATAAAAAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.12
21 25 0.36
22 29 0.42
23 7 0.10
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATACAATAATAATATTAGAA
Found at i:67028422 original size:20 final size:21
Alignment explanation
Indices: 67028369--67028459 Score: 80
Period size: 21 Copynumber: 4.2 Consensus size: 21
67028359 ATATATATAT
*
67028369 ATATA-AATAATAGTATTAGAA
1 ATATACAAT-ATAATATTAGAA
67028390 ATATACAATATAATATTAGAA
1 ATATACAATATAATATTAGAA
*
67028411 ATATAC-ATATAATAGTATAAAA
1 ATATACAATATAATA-T-TAGAA
* *
67028433 ATATATAACTAATAATACTA-AA
1 ATATACAA-T-ATAATATTAGAA
67028455 ATATA
1 ATATA
67028460 TATAATAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
20 8 0.13
21 23 0.38
22 19 0.32
23 3 0.05
24 1 0.02
25 6 0.10
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (21 bp):
ATATACAATATAATATTAGAA
Found at i:67028424 original size:44 final size:46
Alignment explanation
Indices: 67028365--67028482 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 46
67028355 ACATATATAT
* * *
67028365 ATATATATAAATAATAGTATTAGAAATATACAA-T-ATAATATTAGAA
1 ATATACAT-AATAATAGTATTAAAAATATACAACTAATAATACTA-AA
*
67028411 ATATACAT-ATAATAGTA-TAAAAATATATAACTAATAATACTAAA
1 ATATACATAATAATAGTATTAAAAATATACAACTAATAATACTAAA
* *
67028455 ATATATATAATAATA-TATAAAAAATATA
1 ATATACATAATAATAGTATTAAAAATATA
67028483 ATATTGAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
43 11 0.18
44 21 0.34
45 23 0.37
46 7 0.11
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (46 bp):
ATATACATAATAATAGTATTAAAAATATACAACTAATAATACTAAA
Found at i:67028437 original size:22 final size:21
Alignment explanation
Indices: 67028388--67028486 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 21
67028378 ATAGTATTAG
*
67028388 AAATATACAATATAATAT-TAG
1 AAATATAC-ATATAATATATAA
67028409 AAATATACATATAATAGTATAA
1 AAATATACATATAATA-TATAA
*
67028431 AAATATATA-ACTAATA-ATACTA
1 AAATATACATA-TAATATATA--A
*
67028453 AAATATATATAATAATATATAAA
1 AAATATACAT-ATAATATAT-AA
67028476 AAATATA-ATAT
1 AAATATACATAT
67028487 TGAAAACATA
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
20 11 0.16
21 12 0.18
22 27 0.40
23 13 0.19
24 3 0.04
25 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATACATATAATATATAA
Found at i:67028464 original size:42 final size:41
Alignment explanation
Indices: 67028369--67028486 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
67028359 ATATATATAT
* * * *
67028369 ATATAAATAATAGTATTAGAAATATACAATATAATATTAGAA
1 ATATATATAATAGTA-TAAAAATATATAATATAATACTAGAA
67028411 ATATACATATAATAGTATAAAAATATATAACTAATAATACTA-AA
1 ATAT--ATATAATAGTATAAAAATATATAA-T-ATAATACTAGAA
* *
67028455 ATATATATAATAATATATAAAAAATATAATAT
1 ATATATATAATAGTATA-AAAATATATAATAT
67028487 TGAAAACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
41 2 0.03
42 17 0.26
43 21 0.32
44 17 0.26
45 8 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (41 bp):
ATATATATAATAGTATAAAAATATATAATATAATACTAGAA
Found at i:67028465 original size:20 final size:20
Alignment explanation
Indices: 67028397--67028485 Score: 76
Period size: 20 Copynumber: 4.4 Consensus size: 20
67028387 GAAATATACA
* * * *
67028397 ATATAATATTAGAAATATAC
1 ATATAATAATATAAAAATAT
*
67028417 ATATAATAGTATAAAAATAT
1 ATATAATAATATAAAAATAT
67028437 ATAACTAATAATACT-AAAATAT
1 AT-A-TAATAATA-TAAAAATAT
67028459 ATATAATAATATATAAAA-A-
1 ATATAATAATATA-AAAATAT
67028478 ATATAATA
1 ATATAATA
67028486 TTGAAAACAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
19 9 0.15
20 27 0.46
21 6 0.10
22 16 0.27
23 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAATAATATAAAAATAT
Found at i:67028710 original size:17 final size:16
Alignment explanation
Indices: 67028684--67028716 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
67028674 CTATATATAA
67028684 ATATATATACATACAT
1 ATATATATACATACAT
67028700 ATATAATATACATACAT
1 ATAT-ATATACATACAT
67028717 TAATATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:67028731 original size:3 final size:3
Alignment explanation
Indices: 67028717--67028880 Score: 65
Period size: 3 Copynumber: 54.7 Consensus size: 3
67028707 ATACATACAT
* *
67028717 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA
* * * ** * *
67028763 TAA TAA TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
67028808 TAA TGAA -AA TAA TAC TAA CAG TAC TAA TAA -AGA TAA TAA TAGA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
67028853 TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
67028881 TGTAAAAAAA
Statistics
Matches: 118, Mismatches: 27, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 13 0.11
3 93 0.79
4 11 0.09
5 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:67029431 original size:2 final size:2
Alignment explanation
Indices: 67029426--67029460 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
67029416 TATTTTAATA
* *
67029426 AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67029461 AAGAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:67030743 original size:18 final size:18
Alignment explanation
Indices: 67030717--67030751 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67030707 ATCAAAATTT
67030717 TAAAAATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
*
67030735 TAAAGATCAAATTTAAA
1 TAAAAATCAAATTTAAA
67030752 TTAATTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:67030825 original size:29 final size:29
Alignment explanation
Indices: 67030792--67030883 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
67030782 TAATTTGATC
* *
67030792 TTTATCCAGCCAATTTCAATTCTTCAATT
1 TTTATCCAGCCAACTTCAAATCTTCAATT
* * *
67030821 TTTATCCAGCCTACTTCAAATCTTTAATC
1 TTTATCCAGCCAACTTCAAATCTTCAATT
*
67030850 TTTATCCAGCCAACTTCAAATATTCAATCT
1 TTTATCCAGCCAACTTCAAATCTTCAAT-T
67030880 TTTA
1 TTTA
67030884 ATATAGAGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 49 0.92
30 4 0.08
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTATCCAGCCAACTTCAAATCTTCAATT
Found at i:67047623 original size:2 final size:2
Alignment explanation
Indices: 67047616--67047648 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
67047606 AACTCGTACT
67047616 TA TA TA 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 TA TA TA T
67047649 GAGAGAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67050132 original size:45 final size:46
Alignment explanation
Indices: 67050063--67050184 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 46
67050053 ATACGCTTAC
*
67050063 AATGAGTAAGACTATAGCTGAAAGATGCTATGA-CATTGTGACAAA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGAGCATTGTGACAAA
* *
67050108 AATGAGTAAGACCATAGCTCAAAGATGCTAT-AGCATTGTGACAAG
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGAGCATTGTGACAAA
*
67050153 AATGAGTAAGACCATAGCTGAAAGATGTTATG
1 AATGAGTAAGACCATAGCTGAAAGATGCTATG
67050185 GCGTGTTGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.01
45 69 0.99
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (46 bp):
AATGAGTAAGACCATAGCTGAAAGATGCTATGAGCATTGTGACAAA
Found at i:67054520 original size:23 final size:23
Alignment explanation
Indices: 67054490--67054535 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
67054480 TTAAAAGTAA
67054490 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
67054513 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
67054536 CTTTAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.57
Consensus pattern (23 bp):
GATTTTCTCAAGATTTTTATGTT
Found at i:67056211 original size:21 final size:19
Alignment explanation
Indices: 67056191--67056250 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
67056181 ATTTTAAATA
67056191 AGTTTTTATTAATTTATAAT
1 AGTTTTTA-TAATTTATAAT
* *
67056211 A-TTTTTATAATTTCTCAT
1 AGTTTTTATAATTTATAAT
*
67056229 AGATTTTTAATAATTTTTAAT
1 AG-TTTTT-ATAATTTATAAT
67056250 A
1 A
67056251 ATTATTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 6 0.18
21 11 0.33
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
AGTTTTTATAATTTATAAT
Found at i:67056246 original size:10 final size:10
Alignment explanation
Indices: 67056179--67056253 Score: 73
Period size: 10 Copynumber: 7.5 Consensus size: 10
67056169 ATATTTGTTG
*
67056179 TAATTTTAAA
1 TAATTTTTAA
*
67056189 TAAGTTTTTAT
1 TAA-TTTTTAA
*
67056200 TAATTTATAA
1 TAATTTTTAA
67056210 T-ATTTTT-A
1 TAATTTTTAA
* *
67056218 TAATTTCTCA
1 TAATTTTTAA
67056228 TAGATTTTTAA
1 TA-ATTTTTAA
67056239 TAATTTTTAA
1 TAATTTTTAA
67056249 TAATT
1 TAATT
67056254 ATTTGAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
8 2 0.04
9 10 0.19
10 25 0.47
11 16 0.30
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:67059010 original size:18 final size:17
Alignment explanation
Indices: 67058981--67059019 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
67058971 ACAATTTTGA
*
67058981 TTAAATTATAATTATTT
1 TTAAATTATAATTATCT
67058998 TTAAATATATAATTATCT
1 TTAAAT-TATAATTATCT
67059016 TTAA
1 TTAA
67059020 CTTCTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATTATAATTATCT
Found at i:67059101 original size:7 final size:7
Alignment explanation
Indices: 67059091--67059120 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
67059081 TGTATTATTT
67059091 TTATAGA
1 TTATAGA
67059098 TTATAGA
1 TTATAGA
67059105 TTATAGA
1 TTATAGA
67059112 TTATAGA
1 TTATAGA
67059119 TT
1 TT
67059121 TAATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (7 bp):
TTATAGA
Found at i:67064940 original size:67 final size:67
Alignment explanation
Indices: 67064832--67064966 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
67064822 ATGATGAGTT
67064832 AGAAAAAAGTCTATGAAACTCGGCTTGATCGTGAGTGGTGTCGAAGCCAAGAGGGTCAAAGGAAA
1 AGAAAAAAGTCTATGAAACTCGGCTTGATCGTGAGTGGTGTCGAAGCCAAGAGGGTCAAAGGAAA
67064897 TG
66 TG
67064899 AGAAAAAAGTCTATGAAACTCGGCTTGATCGTGAGTGGTGTCGAAGCCAAGAGGGTCAAAGGAAA
1 AGAAAAAAGTCTATGAAACTCGGCTTGATCGTGAGTGGTGTCGAAGCCAAGAGGGTCAAAGGAAA
67064964 TG
66 TG
67064966 A
1 A
67064967 AAAGAAGCCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (67 bp):
AGAAAAAAGTCTATGAAACTCGGCTTGATCGTGAGTGGTGTCGAAGCCAAGAGGGTCAAAGGAAA
TG
Found at i:67071375 original size:31 final size:31
Alignment explanation
Indices: 67071335--67071396 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
67071325 AATAATAACC
*
67071335 CAATTACTTAAAT-AATAACTTTCAAATAGTT
1 CAATGACTTAAATGAA-AACTTTCAAATAGTT
*
67071366 CAATGACTTAAATGAAAGCTTTCAAATAGTT
1 CAATGACTTAAATGAAAACTTTCAAATAGTT
67071397 TAGTGGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (31 bp):
CAATGACTTAAATGAAAACTTTCAAATAGTT
Found at i:67072843 original size:20 final size:20
Alignment explanation
Indices: 67072807--67072846 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
67072797 CTTACAACTT
67072807 GAAAAATAAAATTTTTCATAA
1 GAAAAATAAAA-TTTTCATAA
67072828 GAAAATATAAAA-TTTCATA
1 GAAAA-ATAAAATTTTCATA
67072847 TTTCGATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
GAAAAATAAAATTTTCATAA
Found at i:67097940 original size:2 final size:2
Alignment explanation
Indices: 67097928--67097960 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
67097918 TTTTACAATA
*
67097928 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67097961 GATTCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67098594 original size:29 final size:29
Alignment explanation
Indices: 67098561--67098629 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
67098551 TAGAGTTTCG
*
67098561 TGTATATAATTGCAC-TAAATTAAAGTTCA
1 TGTATATAATT-CACATAAATCAAAGTTCA
*
67098590 TGTATACAACTTCACATTAAATCAAAGTTCA
1 TGTATATAA-TTCACA-TAAATCAAAGTTCA
67098621 --TATATAATT
1 TGTATATAATT
67098630 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 2 0.06
29 17 0.50
30 2 0.06
31 13 0.38
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (29 bp):
TGTATATAATTCACATAAATCAAAGTTCA
Found at i:67103529 original size:2 final size:2
Alignment explanation
Indices: 67103522--67103551 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67103512 TTATTGTTAT
67103522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67103552 AAGTAAAAGA
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):
TA
Found at i:67104489 original size:15 final size:16
Alignment explanation
Indices: 67104469--67104499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67104459 TAATGTAAAG
67104469 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
67104484 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
67104500 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:67104715 original size:6 final size:6
Alignment explanation
Indices: 67104704--67104729 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
67104694 CGTGTACCGC
67104704 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
67104730 TCGTTACGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:67108899 original size:46 final size:46
Alignment explanation
Indices: 67108838--67109113 Score: 480
Period size: 46 Copynumber: 6.0 Consensus size: 46
67108828 AGTGTGCTCT
*
67108838 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67108884 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67108930 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67108976 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
67109022 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
67109068 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
67109114 ATAACAGAAA
Statistics
Matches: 220, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 220 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:67109137 original size:92 final size:93
Alignment explanation
Indices: 67108852--67109150 Score: 442
Period size: 92 Copynumber: 3.2 Consensus size: 93
67108842 TATGGAATGT
*
67108852 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
* ***
67108917 ATACCATGGCAACCTGATATG-AAATGT
66 ATACCATGGCAACATGATATGAAAACAA
* *
67108944 GTAAGACCATGGTTGAAAGATACCAGGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
* **
67109009 ATACCATGGCAACGTGATATGAAATGAA
66 ATACCATGGCAACATGATATGAAAACAA
*
67109037 -TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
* *
67109101 ATACCATGGCAACATAACA-GAAAACAA
66 ATACCATGGCAACATGATATGAAAACAA
* *
67109128 GTAAAACCATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
67109151 TATGACATCA
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
91 6 0.03
92 179 0.96
93 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (93 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
ATACCATGGCAACATGATATGAAAACAA
Found at i:67109137 original size:138 final size:138
Alignment explanation
Indices: 67108852--67109150 Score: 456
Period size: 138 Copynumber: 2.2 Consensus size: 138
67108842 TATGGAATGT
**
67108852 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAG
* * * *
67108917 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAGGGCAACGTGATA
66 ATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCAGGGCAACATAACA
***
67108982 TGAAATGT
131 TGAAACAA
* *
67108990 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAG
*
67109055 ATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATAACA
66 ATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCAGGGCAACATAACA
67109120 -GAAAACAA
131 TG-AAACAA
* *
67109128 GTAAAACCATAGTTGAAAGATAC
1 GTAAGACCATGGTTGAAAGATAC
67109151 TATGACATCA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
137 1 0.01
138 145 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAG
ATACCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCAGGGCAACATAACA
TGAAACAA
Found at i:67110815 original size:24 final size:24
Alignment explanation
Indices: 67110783--67110829 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
67110773 TTCTCTAATC
67110783 GCGAGACAGT-TCACCAATCACCTT
1 GCGAGACAGTCT-ACCAATCACCTT
* *
67110807 GCGATACAGTCTACCAGTCACCT
1 GCGAGACAGTCTACCAATCACCT
67110830 GTTCATCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (24 bp):
GCGAGACAGTCTACCAATCACCTT
Found at i:67115645 original size:7 final size:8
Alignment explanation
Indices: 67115626--67115653 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
67115616 ACAATTATTG
67115626 TTTTTGAA
1 TTTTTGAA
67115634 TTTTTGAA
1 TTTTTGAA
67115642 TTTTTGAA
1 TTTTTGAA
67115650 TTTT
1 TTTT
67115654 AGATTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (8 bp):
TTTTTGAA
Found at i:67118439 original size:18 final size:18
Alignment explanation
Indices: 67118416--67118504 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
67118406 CGTTTACGGT
67118416 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
**
67118434 ACTATTCACGTATACAAT
1 ACTATTCACGTATACAGC
*
67118452 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * * *
67118470 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
67118488 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
67118505 TAGTTGGGAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:67118462 original size:36 final size:36
Alignment explanation
Indices: 67118415--67118504 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
67118405 CCGTTTACGG
*
67118415 TACTATTCACGTATACAGCACTATTCACGTATACAA
1 TACTATTCACGTATACAGCACTATTCACGAATACAA
* * **
67118451 TACTATTCACGTATACGGCACTATTTACGAATACGG
1 TACTATTCACGTATACAGCACTATTCACGAATACAA
*
67118487 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
67118505 TAGTTGGGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.31
Consensus pattern (36 bp):
TACTATTCACGTATACAGCACTATTCACGAATACAA
Found at i:67125570 original size:12 final size:12
Alignment explanation
Indices: 67125538--67125581 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
67125528 TTTTAACATG
*
67125538 TTAATATTTATAA
1 TTAAAATTTAT-A
67125551 TTAAAATTTATA
1 TTAAAATTTATA
*
67125563 TAAAAATTTATA
1 TTAAAATTTATA
67125575 TTAAAAT
1 TTAAAAT
67125582 ATTTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTAAAATTTATA
Found at i:67127823 original size:21 final size:21
Alignment explanation
Indices: 67127798--67127839 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
67127788 ATTAGAAAAC
67127798 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
67127819 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
67127840 TACATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (21 bp):
ATGTAAAAGTACAAGATAAAT
Found at i:67131893 original size:3 final size:3
Alignment explanation
Indices: 67131885--67131924 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
67131875 TAAAAGAAGG
67131885 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
67131925 TTAAACTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:67133839 original size:12 final size:12
Alignment explanation
Indices: 67133822--67133853 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
67133812 TAGATAGAAA
67133822 AAGAAATTATTG
1 AAGAAATTATTG
67133834 AAGAAATTATTG
1 AAGAAATTATTG
67133846 AAGAAATT
1 AAGAAATT
67133854 GGGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:67135854 original size:54 final size:54
Alignment explanation
Indices: 67135781--67135921 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
67135771 GTAATTGTCG
*
67135781 TTGCAAGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
* *
67135835 TTGCAGGGGATTTAGCCTGGACTGGTAATCCTGATAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
*
67135889 TTGCAGGTGATTTAGCCTGGACTGGTAATCCCG
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCG
67135922 CTGCAAGGTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (54 bp):
TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
Found at i:67136526 original size:23 final size:23
Alignment explanation
Indices: 67136500--67136544 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
67136490 TGGGTATGTG
*
67136500 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
67136523 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
67136545 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:67140320 original size:30 final size:29
Alignment explanation
Indices: 67140237--67140320 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
67140227 TTGAGATGAT
* *
67140237 TATTTGAATTGGATTGAATATTGAT-T-A
1 TATTTGAATTGAAATGAATATTGATGTGA
*
67140264 TA-TTGAATTGATTTATGAATA-T-ATGTGAA
1 TATTTGAATTGA--AATGAATATTGATGTG-A
67140293 TATTTGAATTGAAATGAATATTGATGTG
1 TATTTGAATTGAAATGAATATTGATGTG
67140321 GAAATTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
26 10 0.22
27 4 0.09
28 13 0.29
29 4 0.09
30 14 0.31
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (29 bp):
TATTTGAATTGAAATGAATATTGATGTGA
Found at i:67140488 original size:16 final size:16
Alignment explanation
Indices: 67140467--67140500 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
67140457 ATATATAGTT
67140467 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
67140483 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
67140499 AA
1 AA
67140501 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:67140914 original size:18 final size:18
Alignment explanation
Indices: 67140851--67140921 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
67140841 TGGAGAGATC
67140851 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
67140870 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
67140888 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
67140906 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
67140922 CTGATCAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:67140926 original size:36 final size:37
Alignment explanation
Indices: 67140856--67140926 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
67140846 AGATCGACTG
* * *
67140856 TTACTGAATAATTTAATTGTTACTGTATATCTGATTT
1 TTACTGAATAATTTAACTGTTACTGGATAACTGATTT
*
67140893 TTACTGAATAA-TTGACTGTTACTGGATAACTGAT
1 TTACTGAATAATTTAACTGTTACTGGATAACTGAT
67140927 CAATTGATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 19 0.63
37 11 0.37
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (37 bp):
TTACTGAATAATTTAACTGTTACTGGATAACTGATTT
Found at i:67140931 original size:26 final size:26
Alignment explanation
Indices: 67140902--67140952 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
67140892 TTTACTGAAT
* *
67140902 AATTGACTGTTACTGGATAACTGATC
1 AATTGACTGATACTGAATAACTGATC
*
67140928 AATTGATTGATACTGAATAACTGAT
1 AATTGACTGATACTGAATAACTGAT
67140953 TATTATTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (26 bp):
AATTGACTGATACTGAATAACTGATC
Found at i:67140952 original size:18 final size:17
Alignment explanation
Indices: 67140931--67140987 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
67140921 ACTGATCAAT
67140931 TGATTGATACTGAATAAC
1 TGATTGATA-TGAATAAC
*
67140949 TGATT-ATTATTGAATAAT
1 TGATTGA-TA-TGAATAAC
*
67140967 TGATTGTTATCGAATAAC
1 TGATTGATAT-GAATAAC
67140985 TGA
1 TGA
67140988 CTATTACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.06
18 30 0.94
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (17 bp):
TGATTGATATGAATAAC
Found at i:67140984 original size:62 final size:62
Alignment explanation
Indices: 67140871--67140987 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 62
67140861 GAATAATTTA
* * * * *
67140871 ATTGTTACTGTATATCTGATTTTTACTGAATAATTGACTGTTACTGGATAACTGATCAATTG
1 ATTGATACTGAATAACTGATTATTACTGAATAATTGACTGTTACTGAATAACTGATCAATTG
* *
67140933 ATTGATACTGAATAACTGATTATTATTGAATAATTGATTGTTA-TCGAATAACTGA
1 ATTGATACTGAATAACTGATTATTACTGAATAATTGACTGTTACT-GAATAACTGA
67140988 CTATTACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 1 0.02
62 46 0.98
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (62 bp):
ATTGATACTGAATAACTGATTATTACTGAATAATTGACTGTTACTGAATAACTGATCAATTG
Found at i:67141001 original size:36 final size:36
Alignment explanation
Indices: 67140928--67141014 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
67140918 ATAACTGATC
* * * *
67140928 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACTGAATAACTGACTATTACTAAAT
67140964 AATTGATTGTTA-TCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACT-GAATAACTGACTATTACTAAAT
* *
67141000 AAATAATTGTT-CTGA
1 AATTGATTGTTACTGA
67141015 TTGACTGATC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACTGAATAACTGACTATTACTAAAT
Found at i:67141654 original size:3 final size:3
Alignment explanation
Indices: 67141646--67141684 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
67141636 AGGCGTTACA
67141646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
67141685 CTAAACTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:67152950 original size:13 final size:13
Alignment explanation
Indices: 67152928--67152957 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
67152918 CAAAGGGATT
67152928 GAGAAAAAAAATA
1 GAGAAAAAAAATA
*
67152941 GAGAAGAAAAATA
1 GAGAAAAAAAATA
67152954 GAGA
1 GAGA
67152958 TAGGGAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (13 bp):
GAGAAAAAAAATA
Found at i:67154060 original size:19 final size:19
Alignment explanation
Indices: 67154036--67154073 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
67154026 TTAGTGTATA
67154036 GATGAATTGAAATTTGGAT
1 GATGAATTGAAATTTGGAT
67154055 GATGAATTGAAATTTGGAT
1 GATGAATTGAAATTTGGAT
67154074 AAGTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (19 bp):
GATGAATTGAAATTTGGAT
Found at i:67159540 original size:29 final size:30
Alignment explanation
Indices: 67159491--67159554 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
67159481 TGTTTTATTA
* * *
67159491 TGGTA-TTTTACTTTTATAAATGTCCAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
*
67159520 TGGTACTTGTACTTTGA-AAATGTATAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
67159549 TGGTAC
1 TGGTAC
67159555 CTAAATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (30 bp):
TGGTACTTGTACTTTGATAAATGTACAATG
Found at i:67164125 original size:2 final size:2
Alignment explanation
Indices: 67164118--67164143 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67164108 AATACAGTAC
67164118 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
67164144 GTATGTAAGG
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:67165427 original size:5 final size:5
Alignment explanation
Indices: 67165420--67165456 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
67165410 CAACTCAGGA
*
67165420 AGGGA AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG AG
1 AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG AG
67165457 TCTTGTGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (5 bp):
AGGGG
Found at i:67165626 original size:3 final size:3
Alignment explanation
Indices: 67165618--67165652 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
67165608 TAAACTTGTT
67165618 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
67165653 CTGAAAGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67171781 original size:27 final size:27
Alignment explanation
Indices: 67171743--67171797 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
67171733 TAGGGGATTT
67171743 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
67171770 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
67171797 T
1 T
67171798 AAGGTAGCCC
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:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
TTTGAAACCATTGAATTCAAATTATGG
Found at i:67177373 original size:53 final size:53
Alignment explanation
Indices: 67177292--67177442 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
67177282 CTTACACGGT
* *
67177292 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
67177347 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
67177400 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
67177443 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:67184887 original size:53 final size:53
Alignment explanation
Indices: 67184806--67184956 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
67184796 CTTACACGGT
* *
67184806 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
67184861 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
67184914 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
67184957 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:67186879 original size:14 final size:14
Alignment explanation
Indices: 67186856--67186889 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
67186846 TACCATTTTT
*
67186856 CTATTATGTTGTTA
1 CTATTTTGTTGTTA
67186870 CTATTTTGTTGTTA
1 CTATTTTGTTGTTA
*
67186884 TTATTT
1 CTATTT
67186890 GGATATTGTA
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:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (14 bp):
CTATTTTGTTGTTA
Found at i:67186953 original size:30 final size:30
Alignment explanation
Indices: 67186914--67186976 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
67186904 ACTTGTTTTA
67186914 TTGTCAATTTTGTTATTATTTTAAAGACAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
* * *
67186944 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
67186974 TTG
1 TTG
67186977 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGACAT
Found at i:67193066 original size:24 final size:24
Alignment explanation
Indices: 67192996--67193093 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
67192986 GTCGCTGTCC
*
67192996 CCCTTGCCCTTACCATTGCTGTCG
1 CCCTTGCCCTTACCATTGCTGTTG
67193020 CCCTTGCCCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
*
67193044 CCCTTGCTCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
* * *
67193068 CCATAT-CCATTACCATTGTTGTTG
1 CCCT-TGCCCTTACCATTGCTGTTG
67193092 CC
1 CC
67193094 ATTCCCATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 66 0.99
25 1 0.01
ACGTcount: A:0.11, C:0.36, G:0.15, T:0.38
Consensus pattern (24 bp):
CCCTTGCCCTTACCATTGCTGTTG
Found at i:67193071 original size:12 final size:12
Alignment explanation
Indices: 67193008--67193071 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
67192998 CTTGCCCTTA
*
67193008 CCATTGCTGTCG
1 CCATTGCTGTTG
* ** *
67193020 CCCTTGCCCTTA
1 CCATTGCTGTTG
67193032 CCATTGCTGTTG
1 CCATTGCTGTTG
* * *
67193044 CCCTTGCTCTTA
1 CCATTGCTGTTG
67193056 CCATTGCTGTTG
1 CCATTGCTGTTG
67193068 CCAT
1 CCAT
67193072 ATCCATTACC
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.09, C:0.36, G:0.17, T:0.38
Consensus pattern (12 bp):
CCATTGCTGTTG
Found at i:67196884 original size:17 final size:18
Alignment explanation
Indices: 67196864--67196907 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
67196854 ATTTTTTATG
67196864 AAATTTTTAT-ATATTTT
1 AAATTTTTATAATATTTT
*
67196881 AAATTTTTTTGAATATTTT
1 AAATTTTTAT-AATATTTT
67196900 ATAATTTT
1 A-AATTTT
67196908 AAATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
AAATTTTTATAATATTTT
Found at i:67196888 original size:28 final size:27
Alignment explanation
Indices: 67196856--67196912 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
67196846 TATATTTCAT
67196856 TTTTTATGAA-ATTTTTATATATTTTAAA
1 TTTTTATGAATA-TTTTATA-ATTTTAAA
*
67196884 TTTTTTTGAATATTTTATAATTTTAAA
1 TTTTTATGAATATTTTATAATTTTAAA
67196911 TT
1 TT
67196913 ATTTTTGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.37
28 16 0.59
29 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTTATGAATATTTTATAATTTTAAA
Found at i:67198461 original size:31 final size:32
Alignment explanation
Indices: 67198370--67198459 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 32
67198360 ATTGATGTAT
* **
67198370 AGGGTTTAATTG-TTATTTTAATTATTTTATG
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
*
67198401 AGGGGTTAATTGA-TTTTTTAATTATTTTAAA
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
67198432 AGGGTTTAATTGATTTTTTTAATTATTT
1 AGGGTTTAATTGATTTTTTTAATTATTT
67198460 AAGTCTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 38 0.73
32 14 0.27
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.57
Consensus pattern (32 bp):
AGGGTTTAATTGATTTTTTTAATTATTTTAAA
Found at i:67198485 original size:11 final size:10
Alignment explanation
Indices: 67198466--67198510 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
67198456 ATTTAAGTCT
67198466 AAAATTATTA
1 AAAATTATTA
67198476 AAATATTATTA
1 AAA-ATTATTA
*
67198487 AAAAATATATA
1 AAAATTAT-TA
*
67198498 GAAATTATTA
1 AAAATTATTA
67198508 AAA
1 AAA
67198511 TTTTAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 11 0.38
11 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:67200577 original size:2 final size:2
Alignment explanation
Indices: 67200570--67200595 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67200560 AACAGTAACA
67200570 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
67200596 TAACAAGTTG
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:67201962 original size:9 final size:9
Alignment explanation
Indices: 67201943--67202017 Score: 57
Period size: 9 Copynumber: 8.2 Consensus size: 9
67201933 AAATAACAAA
67201943 ATTTTTCTAT
1 ATTTTT-TAT
67201953 ATTTTTTAT
1 ATTTTTTAT
67201962 ATTTTTTA-
1 ATTTTTTAT
* *
67201970 ATAATTTCAT
1 AT-TTTTTAT
67201980 A-TTTTTAT
1 ATTTTTTAT
*
67201988 CA-TTTTAAT
1 -ATTTTTTAT
*
67201997 AGTTTTTAT
1 ATTTTTTAT
67202006 ATTATTTTAT
1 ATT-TTTTAT
67202016 AT
1 AT
67202018 AACTTATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 8 0.15
9 30 0.57
10 15 0.28
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:67202080 original size:21 final size:20
Alignment explanation
Indices: 67202033--67202080 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
67202023 ATTTATTGTG
67202033 TTCTAT-ATTTTTAAATTTT
1 TTCTATAATTTTTAAATTTT
67202052 TTCTATAATTTTTATAATATTT
1 TTCTATAATTTTTA-AAT-TTT
67202074 TTC-ATAA
1 TTCTATAA
67202081 CATATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 7 0.27
21 7 0.27
22 6 0.23
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
TTCTATAATTTTTAAATTTT
Found at i:67202125 original size:17 final size:17
Alignment explanation
Indices: 67202103--67202140 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
67202093 ATTTTATACC
67202103 ATTTAT-TTTCTATAATT
1 ATTTATATTTCTATAA-T
*
67202120 ATTTATATTTTTATAAT
1 ATTTATATTTCTATAAT
67202137 ATTT
1 ATTT
67202141 TAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATATTTCTATAAT
Found at i:67202142 original size:18 final size:19
Alignment explanation
Indices: 67202106--67202140 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
67202096 TTATACCATT
67202106 TATTTTCTATAATTATTTA
1 TATTTTCTATAATTATTTA
67202125 TATTTT-TATAA-TATTT
1 TATTTTCTATAATTATTT
67202141 TAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTCTATAATTATTTA
Found at i:67204374 original size:3 final size:3
Alignment explanation
Indices: 67204366--67204400 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
67204356 TTGACTTCAT
67204366 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
67204401 TTTGAATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67207710 original size:26 final size:26
Alignment explanation
Indices: 67207681--67207732 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
67207671 TACAAATTTG
67207681 AAATTCCCGTTTTAAGATTAAATTAA
1 AAATTCCCGTTTTAAGATTAAATTAA
67207707 AAATTCCCGTTTTAAGATTAAATTAA
1 AAATTCCCGTTTTAAGATTAAATTAA
67207733 CTTTATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (26 bp):
AAATTCCCGTTTTAAGATTAAATTAA
Found at i:67213873 original size:23 final size:23
Alignment explanation
Indices: 67213842--67213886 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
67213832 TTACTTTTTC
*
67213842 AAATTATTAATAATTTT-TAAAG
1 AAATTATTAAAAATTTTATAAAG
67213864 AAATTCATTAAAAATTTTATAAA
1 AAATT-ATTAAAAATTTTATAAA
67213887 AAGCTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTATTAAAAATTTTATAAAG
Found at i:67214620 original size:22 final size:22
Alignment explanation
Indices: 67214592--67214637 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
67214582 GTGTCAGTAT
67214592 ATAAGATTTTTGGGGTATCTAA
1 ATAAGATTTTTGGGGTATCTAA
67214614 ATAAGATTTTTGGGGTATCTAA
1 ATAAGATTTTTGGGGTATCTAA
67214636 AT
1 AT
67214638 TATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (22 bp):
ATAAGATTTTTGGGGTATCTAA
Found at i:67215194 original size:26 final size:28
Alignment explanation
Indices: 67215147--67215200 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
67215137 TTTTTTTATG
*
67215147 TTTAAATTTTTTTTGTCACAAG-TAATA
1 TTTAAATATTTTTTGTCACAAGTTAATA
67215174 TTTAAACTATTTTTT-TC-CAAGTTAATA
1 TTTAAA-TATTTTTTGTCACAAGTTAATA
67215201 CCTCCATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 13 0.54
28 7 0.29
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (28 bp):
TTTAAATATTTTTTGTCACAAGTTAATA
Found at i:67215898 original size:14 final size:12
Alignment explanation
Indices: 67215859--67215893 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
67215849 ATAAAGAGAG
*
67215859 AAAAATAATGTA
1 AAAAATAATTTA
67215871 AAAAATAATTTA
1 AAAAATAATTTA
67215883 AAAAATAATTT
1 AAAAATAATTT
67215894 TTAAAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAAATAATTTA
Found at i:67216458 original size:18 final size:18
Alignment explanation
Indices: 67216431--67216468 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
67216421 AAATTTTAAC
67216431 TTTTACTCAAAAATA-TT
1 TTTTACTCAAAAATACTT
67216448 TTTTAACTCAAAAATACTT
1 TTTT-ACTCAAAAATACTT
67216467 TT
1 TT
67216469 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTACTCAAAAATACTT
Found at i:67217825 original size:89 final size:89
Alignment explanation
Indices: 67217670--67217849 Score: 270
Period size: 89 Copynumber: 2.0 Consensus size: 89
67217660 AAAGCAAATG
* * *
67217670 AATTTTGATCATCAAACAGTCATGAACCAACATCCCAAATTCAGAAACATTTACATGTGAATCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
67217735 TCAAAGCAGAAATAATATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
* * * * *
67217759 AATTTTGATTATCGAACAATCATGAACCAGCATCCCAAATTTAAAAAGATTTACATGTGAACCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
67217824 TCAAAGCAGAAATAGCATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
67217848 AA
1 AA
67217850 ATGGAGTGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (89 bp):
AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
TCAAAGCAGAAATAACATTGTAGC
Found at i:67224775 original size:47 final size:45
Alignment explanation
Indices: 67224702--67224913 Score: 169
Period size: 47 Copynumber: 4.6 Consensus size: 45
67224692 GCCTCAAGTA
* * * *
67224702 ATGTCCTAGACACGGTCTTACTCTGAC-TCGTATTTCAAGTCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGACTTC--ATTTCAAGCCGATG-C
**
67224749 ATGTCCCAGACATGGTCTTACACTGACTATCATCTTGTAGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTGACT-TCAT-TTCAAGCCGATGC
* * * * * *
67224796 ATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCTGATGT
1 ATGTCCCAGACATGGTCTTACACTGACTT-CATTTC-AAGCCGATGC
* * * *
67224842 ATGTTCTAGACAT-GTCTTACACTAGCCCTCATTTCAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACT-GACTTCATTTCAA-GCCGATG-C
67224889 ATGTCCCAGACATGGTCTTACACTG
1 ATGTCCCAGACATGGTCTTACACTG
67224914 GCTCTCATAA
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
45 3 0.02
46 52 0.40
47 55 0.42
48 19 0.15
49 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (45 bp):
ATGTCCCAGACATGGTCTTACACTGACTTCATTTCAAGCCGATGC
Found at i:67224955 original size:94 final size:92
Alignment explanation
Indices: 67224788--67224957 Score: 202
Period size: 94 Copynumber: 1.8 Consensus size: 92
67224778 TCATCTTGTA
* * * * *
67224788 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCTGATGTATGTTCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCTGATGCATGTCCCAGAC
*
67224853 ATGTCTTACACTAGCCCTCATTTCAAT
66 ATGCCTTACACTAGCCCTCATTTCAAT
*
67224880 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGG-TCGATGCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCT-GATGCATGTCC
*
67224942 CAGGCATGCCTTACAC
61 CAGACATGCCTTACAC
67224958 AAGCTCACGC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
92 7 0.11
93 15 0.23
94 41 0.63
95 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCTGATGCATGTCCCAGAC
ATGCCTTACACTAGCCCTCATTTCAAT
Found at i:67229131 original size:22 final size:22
Alignment explanation
Indices: 67229103--67229153 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
67229093 GTAAGAAGAG
67229103 GGTATCGCGATATCCAAGGCTT
1 GGTATCGCGATATCCAAGGCTT
67229125 GGTATCGCGATATCCAAGGCTT
1 GGTATCGCGATATCCAAGGCTT
67229147 GGTATCG
1 GGTATCG
67229154 TGATCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (22 bp):
GGTATCGCGATATCCAAGGCTT
Found at i:67231192 original size:51 final size:50
Alignment explanation
Indices: 67231011--67231205 Score: 185
Period size: 51 Copynumber: 3.9 Consensus size: 50
67231001 TGAGAACACA
* * *** ** * *
67231011 TGTGTAGTACTATGTGCAGGCTACTATGTGTTGAAGACGGTTTTAGCTCAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG-CTTAGATCAC
* * * * * *
67231062 TGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATTG-TTAGGTCAC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTAGATCAC
* *
67231111 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTTGATCAC
1 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTAGATCAC
* *
67231162 GTGTGTAGTACTAAGTGCAGGCTACAATGCGTACCAGAGAGCTT
1 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTT
67231206 CGGTTACAAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 8 0.07
50 34 0.28
51 79 0.65
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTAGATCAC
Found at i:67236815 original size:44 final size:45
Alignment explanation
Indices: 67236725--67236853 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
67236715 GACAGAACGA
*
67236725 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
67236771 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
67236815 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
67236854 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:67240536 original size:93 final size:93
Alignment explanation
Indices: 67240424--67240595 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
67240414 GCCCATAAGT
* *
67240424 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67240489 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
67240517 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67240582 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
67240596 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:67240591 original size:46 final size:46
Alignment explanation
Indices: 67240416--67240591 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
67240406 TGTAACCCGC
* * *
67240416 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
67240462 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
67240512 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
67240555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67240592 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Done.