Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 190 of 295
Found at i:60382377 original size:18 final size:18
Alignment explanation
Indices: 60382354--60382388 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
60382344 TGGCGGATGC
60382354 ATAAACCGAAAAC-ACACG
1 ATAAACC-AAAACTACACG
60382372 ATAAACCAAAACTACAC
1 ATAAACCAAAACTACAC
60382389 CAAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.09
Consensus pattern (18 bp):
ATAAACCAAAACTACACG
Found at i:60382394 original size:17 final size:18
Alignment explanation
Indices: 60382353--60382394 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
60382343 CTGGCGGATG
60382353 CATAAACCGAAAACACAC
1 CATAAACCGAAAACACAC
*
60382371 GATAAACC-AAAACTACAC
1 CATAAACCGAAAAC-ACAC
60382389 CA-AAAC
1 CATAAAC
60382395 AAGCTCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.57, C:0.31, G:0.05, T:0.07
Consensus pattern (18 bp):
CATAAACCGAAAACACAC
Found at i:60397312 original size:40 final size:40
Alignment explanation
Indices: 60397247--60397491 Score: 395
Period size: 40 Copynumber: 6.2 Consensus size: 40
60397237 AAACCAAGTA
* * *
60397247 CCTTCGGGATTTA-ACCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60397286 CCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60397326 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60397366 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60397406 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60397446 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60397486 CCTTCG
1 CCTTCG
60397492 TTATCATCCG
Statistics
Matches: 195, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 13 0.07
40 182 0.93
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60399357 original size:29 final size:27
Alignment explanation
Indices: 60399339--60399408 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
60399329 ATATTAAGTC
60399339 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
60399366 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
60399394 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
60399409 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:60399402 original size:28 final size:28
Alignment explanation
Indices: 60399339--60399436 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
60399329 ATATTAAGTC
*
60399339 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
60399366 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60399394 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
60399423 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60399437 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60403107 original size:23 final size:23
Alignment explanation
Indices: 60403070--60403133 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
60403060 CTTGTAAGAA
*
60403070 CTTACTATTCTCAGCTCACTAGAG
1 CTTACCATT-TCAGCTCACTAGAG
*
60403094 CTTACCATTTCAGCTCATTAGAG
1 CTTACCATTTCAGCTCACTAGAG
60403117 CTTACCATTTCAGCTCA
1 CTTACCATTTCAGCTCA
60403134 ACAGTGCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 30 0.79
24 8 0.21
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (23 bp):
CTTACCATTTCAGCTCACTAGAG
Found at i:60403142 original size:23 final size:23
Alignment explanation
Indices: 60403070--60403144 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
60403060 CTTGTAAGAA
*
60403070 CTTACTATTCTCAGCTC-ACTAGAG
1 CTTACCATT-TCAGCTCAAC-AGAG
**
60403094 CTTACCATTTCAGCTCATTAGAG
1 CTTACCATTTCAGCTCAACAGAG
*
60403117 CTTACCATTTCAGCTCAACAGTG
1 CTTACCATTTCAGCTCAACAGAG
60403140 CTTAC
1 CTTAC
60403145 TGTCCATCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 36 0.82
24 8 0.18
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (23 bp):
CTTACCATTTCAGCTCAACAGAG
Found at i:60407604 original size:19 final size:20
Alignment explanation
Indices: 60407582--60407621 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60407572 AATTGGTTAA
60407582 AAATGATTT-AATTTTATTT
1 AAATGATTTAAATTTTATTT
* *
60407601 AAATTATTTAAATTTTGTTT
1 AAATGATTTAAATTTTATTT
60407621 A
1 A
60407622 GTAGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATGATTTAAATTTTATTT
Found at i:60409001 original size:16 final size:16
Alignment explanation
Indices: 60408980--60409012 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60408970 AATGAAGTTA
60408980 TTTTAA-TATTAAAATT
1 TTTTAATTA-TAAAATT
60408996 TTTTAATTATAAAATT
1 TTTTAATTATAAAATT
60409012 T
1 T
60409013 AACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATTATAAAATT
Found at i:60420740 original size:30 final size:30
Alignment explanation
Indices: 60420704--60420765 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
60420694 TATATTCAAG
60420704 TTTGGGAAATGAGAGTTCTCTTCTTCCTTC
1 TTTGGGAAATGAGAGTTCTCTTCTTCCTTC
60420734 TTTGGGAAATGAGAGTTCTCTTCTTCCTTC
1 TTTGGGAAATGAGAGTTCTCTTCTTCCTTC
60420764 TT
1 TT
60420766 CTAAGGCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (30 bp):
TTTGGGAAATGAGAGTTCTCTTCTTCCTTC
Found at i:60422232 original size:48 final size:48
Alignment explanation
Indices: 60422167--60422389 Score: 237
Period size: 48 Copynumber: 4.8 Consensus size: 48
60422157 GTTATGTGCG
*
60422167 ATCCCATGTAAGACCATATCTGGGACATGGCTTTGGCATCGATATGTA
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGTA
** * *
60422215 ATTTCATGTAAGACCATAGT-TGGG-C-T---ATTGGCATCTATATGTG
1 ATCCCATGTAAGACCATA-TCTGGGACATGGCATTGGCATCGATATGTA
* *
60422258 ATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT-T-TA
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGTA
* * * * *
60422304 CGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGGATTGATATGTG
1 --ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGTA
* *
60422354 ATCCCATGTAGGACCATATCTGGGATATGGCATTGG
1 ATCCCATGTAAGACCATATCTGGGACATGGCATTGG
60422390 TATCCTACCA
Statistics
Matches: 144, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 2 0.01
47 2 0.01
48 102 0.71
49 2 0.01
50 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (48 bp):
ATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGTA
Found at i:60426204 original size:27 final size:27
Alignment explanation
Indices: 60426173--60426349 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
60426163 TAAATTGTAC
60426173 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60426200 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60426226 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60426254 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60426282 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60426309 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60426336 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
60426350 AGACTCAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60426287 original size:82 final size:81
Alignment explanation
Indices: 60426174--60426329 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60426164 AAATTGTACA
* *
60426174 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60426238 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60426255 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60426320 TGCGAGTTGA
65 TGCGAATTGA
60426330 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60426341 original size:82 final size:81
Alignment explanation
Indices: 60426170--60426349 Score: 227
Period size: 82 Copynumber: 2.2 Consensus size: 81
60426160 GATTAAATTG
* *
60426170 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60426235 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60426251 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60426315 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60426333 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
60426350 AGACTCAATA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60427935 original size:27 final size:27
Alignment explanation
Indices: 60427897--60428018 Score: 109
Period size: 27 Copynumber: 4.5 Consensus size: 27
60427887 CATGATAGAT
*
60427897 AAGGAATGCCTTTGTGGTGCAATATGA
1 AAGGAATGCCTTTGTGGCGCAATATGA
*
60427924 AAGGAGTGCCTTTGTGGCGCAATATGA
1 AAGGAATGCCTTTGTGGCGCAATATGA
* *** ** *
60427951 AAAGAACATCTTTGTAACGCAATATTA
1 AAGGAATGCCTTTGTGGCGCAATATGA
* * ** *
60427978 AAAGAACGTATTTGTGGCACAATATGA
1 AAGGAATGCCTTTGTGGCGCAATATGA
*
60428005 AAGGAACGCCTTTG
1 AAGGAATGCCTTTG
60428019 CAACAAACTC
Statistics
Matches: 76, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (27 bp):
AAGGAATGCCTTTGTGGCGCAATATGA
Found at i:60430000 original size:47 final size:45
Alignment explanation
Indices: 60429833--60430147 Score: 176
Period size: 47 Copynumber: 6.7 Consensus size: 45
60429823 AAGGGGTTAC
* *
60429833 GTGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATC-G-GTATTGA
1 GTGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCGTA--GA
* * * * *
60429880 GATGAGGGCTAGTGTAAGACATGTTTGGGACATGCATCAACCGTATCA
1 G-TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-AGCGTA-GA
* *
60429928 -TGA-TAGCCCGTGTAAGACCACGTCTGGGACATGGCATCAGCGTAGA
1 GTGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCGTAGA
** * *
60429974 GGTGAGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA
1 -GTGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCGTAGA
* * **
60430020 -TGATGTTAGCCAGTGTAAGACGTGTCTAGGACATGCATC-GATTA-A
1 GTGA-G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCGTAGA
** * * *
60430065 GTTTCGTGCTAGTGTAAGACATGTCTGGGTCATGCATCAGCACGTATA
1 G-TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAG--CGTAGA
* * * *
60430113 GACGAGAGCTAGTGTAAGACCATATCTGGGACATG
1 G-TGAGTGCCAGTGTAAGA-CATGTCTGGGACATG
60430148 GCATTGGCCT
Statistics
Matches: 208, Mismatches: 40, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
44 30 0.14
45 4 0.02
46 32 0.15
47 75 0.36
48 50 0.24
49 17 0.08
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GTGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCGTAGA
Found at i:60430052 original size:94 final size:93
Alignment explanation
Indices: 60429838--60430151 Score: 289
Period size: 94 Copynumber: 3.4 Consensus size: 93
60429828 GTTACGTGAG
* *
60429838 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTA--GAGATGAGTGCTAGTGTAAGACATG
*
60429903 TTTGGGACATGCA-TCAACCGTATCATGAT
64 TCTGGGACATGCATTCAACCGTATCATGAT
* * * *
60429932 AGCCCGTGTAAGACCACGTCTGGGACATGGCATCAGCGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-GTAGAGATGAGTGCTAGTGTAAGACATG
*** * *
60429997 TCTGGGACATGCATTGGCCTCG-ATGATGTT
64 TCTGGGACATGCATTCAAC-CGTATCATGAT
* * * * **
60430027 AGCCAGTGTAAGA-CGTGTCTAGGACAT-GCATCGATTA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GTAGAGATGAGTGCTAGTGTAAGACATGT
* * * * *
60430089 CTGGGTCATGCA-TCAGCACGTATAGACGAG
65 CTGGGACATGCATTCAAC-CGTAT-CATGAT
* *
60430119 AGCTAGTGTAAGACCATATCTGGGACATGGCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
60430152 TGGCCTCGAT
Statistics
Matches: 178, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
90 4 0.02
91 34 0.19
92 18 0.10
93 16 0.09
94 80 0.45
95 21 0.12
96 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTAGAGATGAGTGCTAGTGTAAGACATGTC
TGGGACATGCATTCAACCGTATCATGAT
Found at i:60435427 original size:53 final size:53
Alignment explanation
Indices: 60435349--60435453 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
60435339 ATAAACTACG
* * * * *
60435349 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCACGACAATGGTGAGTTC
1 ATAAGACAAAGATACCACGTAAGACCATGCCAAGACACGACAATGGTAAGTTC
* * * *
60435402 ATAAGACAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGACAAAGATACCACGTAAGACCATGCCAAGACACGACAATGGTAAGTT
60435454 TAAAAATGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (53 bp):
ATAAGACAAAGATACCACGTAAGACCATGCCAAGACACGACAATGGTAAGTTC
Found at i:60435888 original size:22 final size:21
Alignment explanation
Indices: 60435844--60435888 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
60435834 TTTATAAATA
*
60435844 TTTTGAATTTTAAAAGTTTTT
1 TTTTGAATTTTAAAAGTTATT
60435865 TTTTGAATTTTTGAAAA-TTATT
1 TTTTGAA-TTTT-AAAAGTTATT
60435887 TT
1 TT
60435889 GAATTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTGAATTTTAAAAGTTATT
Found at i:60438632 original size:27 final size:27
Alignment explanation
Indices: 60438602--60438693 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
60438592 TTTCTAGGAT
60438602 TAATAA-ATTATATATATTATTTTTAAA
1 TAATAATATT-TATATATTATTTTTAAA
* *
60438629 TAATAATATTTTTATTTTATTTTTAATA
1 TAATAATATTTATATATTATTTTTAA-A
*
60438657 TTTATATAA-AATTA-A-A-TATTTTTAAA
1 --TA-ATAATATTTATATATTATTTTTAAA
60438683 TAATAATATTT
1 TAATAATATTT
60438694 TATTTTTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
23 4 0.08
24 5 0.09
26 1 0.02
27 29 0.55
28 4 0.08
29 1 0.02
30 5 0.09
31 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATAATATTTATATATTATTTTTAAA
Found at i:60439589 original size:14 final size:14
Alignment explanation
Indices: 60439570--60439618 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
60439560 TGTTCACGAA
60439570 AAACAACAAAAATT
1 AAACAACAAAAATT
60439584 AAACAAC--AAA--
1 AAACAACAAAAATT
*
60439594 AAACAACAAACATT
1 AAACAACAAAAATT
60439608 AAACAACAAAA
1 AAACAACAAAA
60439619 TCAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 7 0.24
12 5 0.17
14 17 0.59
ACGTcount: A:0.73, C:0.18, G:0.00, T:0.08
Consensus pattern (14 bp):
AAACAACAAAAATT
Found at i:60439599 original size:24 final size:24
Alignment explanation
Indices: 60439568--60439618 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
60439558 AATGTTCACG
60439568 AAAAACAACAAAAATTAAACAACA
1 AAAAACAACAAAAATTAAACAACA
*
60439592 AAAAACAACAAACATTAAACAACA
1 AAAAACAACAAAAATTAAACAACA
60439616 AAA
1 AAA
60439619 TCAAAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.75, C:0.18, G:0.00, T:0.08
Consensus pattern (24 bp):
AAAAACAACAAAAATTAAACAACA
Found at i:60448778 original size:17 final size:16
Alignment explanation
Indices: 60448727--60448779 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
60448717 ACACTATTCT
60448727 ATAATATAAAATTATGA
1 ATAATATAAAATTAT-A
60448744 GATAAT-TAAAA-TATTA
1 -ATAATATAAAATTA-TA
60448760 ATAATTATAAAATTATA
1 ATAA-TATAAAATTATA
60448777 ATA
1 ATA
60448780 TCATTTCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 16 0.52
18 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
ATAATATAAAATTATA
Found at i:60450492 original size:17 final size:19
Alignment explanation
Indices: 60450448--60450493 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
60450438 TACACAAAAC
60450448 TATTTTTA-AATTTCACTA
1 TATTTTTATAATTTCACTA
60450466 TATCTTTTATAATTTCA-TA
1 TAT-TTTTATAATTTCACTA
60450485 -ATTTTTATA
1 TATTTTTATA
60450494 TAAATTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 7 0.27
20 7 0.27
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTATAATTTCACTA
Found at i:60450499 original size:20 final size:21
Alignment explanation
Indices: 60450450--60450500 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
60450440 CACAAAACTA
60450450 TTTT-TAAATTTCACTATATC
1 TTTTATAAATTTCACTATATC
*
60450470 TTTTAT-AATTTCA-TA-ATT
1 TTTTATAAATTTCACTATATC
60450488 TTTATATAAATTT
1 TTT-TATAAATTT
60450501 ATCCAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 16 0.59
21 1 0.04
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATAAATTTCACTATATC
Found at i:60453975 original size:38 final size:38
Alignment explanation
Indices: 60453931--60454080 Score: 176
Period size: 38 Copynumber: 3.9 Consensus size: 38
60453921 ATTCAAATTG
* * *
60453931 GGTGTTATTGAGGCTTAGTGCTTAGCAGGCTTTGTGCT
1 GGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCC
* *
60453969 GGTGTTATTCAGGCTTAATGCCTAGTAGGCTTTGTGCC
1 GGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCC
*
60454007 GGTGTTATTCAGGCTTAGTGCCTAGTAGG-TTTCGTGCC
1 GGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTT-GTGCC
* * * ***
60454045 GATGTTGTACAGGCTTAGCATCTAGCAGGCTTTGTG
1 GGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTGTG
60454081 TCGATAAATC
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 3 0.03
38 91 0.94
39 3 0.03
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.37
Consensus pattern (38 bp):
GGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTGTGCC
Found at i:60454027 original size:22 final size:22
Alignment explanation
Indices: 60453956--60454028 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 22
60453946 TAGTGCTTAG
* *
60453956 CAGGCTTTGTGCTGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
* *
60453978 CAGGCTTAATGCC-----TAGT
1 CAGGCTTAGTGCCGGTGTTATT
*
60453995 -AGGCTTTGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
60454016 CAGGCTTAGTGCC
1 CAGGCTTAGTGCC
60454029 TAGTAGGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
16 10 0.27
17 3 0.08
21 3 0.08
22 21 0.57
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (22 bp):
CAGGCTTAGTGCCGGTGTTATT
Found at i:60458982 original size:49 final size:47
Alignment explanation
Indices: 60458903--60459259 Score: 570
Period size: 47 Copynumber: 7.5 Consensus size: 47
60458893 TATTTGAATA
*
60458903 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
60458950 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
60458999 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
60459048 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
60459095 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
60459142 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
60459189 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
60459236 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
60459260 GAGTCCCGAA
Statistics
Matches: 294, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 199 0.68
49 95 0.32
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:60462590 original size:21 final size:21
Alignment explanation
Indices: 60462561--60462616 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
60462551 CCCTAATTTG
*
60462561 GGATGTTACAACATAGACATGT
1 GGAT-TTACAACACAGACATGT
* * *
60462583 GGATTTACCACACAGGCGTGT
1 GGATTTACAACACAGACATGT
*
60462604 GGATTTACCACAC
1 GGATTTACAACAC
60462617 GAGTGTGTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (21 bp):
GGATTTACAACACAGACATGT
Found at i:60462622 original size:19 final size:20
Alignment explanation
Indices: 60462580--60462623 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
60462570 AACATAGACA
*
60462580 TGTGGATTTACCACACAGGCG
1 TGTGGATTTACCACACA-GAG
60462601 TGTGGATTTACCACAC-GAG
1 TGTGGATTTACCACACAGAG
60462620 TGTG
1 TGTG
60462624 TGGGATAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
21 16 0.73
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (20 bp):
TGTGGATTTACCACACAGAG
Found at i:60463638 original size:11 final size:11
Alignment explanation
Indices: 60463622--60463647 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60463612 GAAACGTGAT
60463622 TCGGATCTTGA
1 TCGGATCTTGA
60463633 TCGGATCTTGA
1 TCGGATCTTGA
60463644 TCGG
1 TCGG
60463648 GGTAAGAATA
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:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (11 bp):
TCGGATCTTGA
Found at i:60465302 original size:21 final size:20
Alignment explanation
Indices: 60465278--60465316 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60465268 TCGAGTTGGT
60465278 CACACGAGCGTGTTGCCCTTC
1 CACACGAGCGTG-TGCCCTTC
* *
60465299 CACATGGGCGTGTGCCCT
1 CACACGAGCGTGTGCCCT
60465317 GTTTTAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACGAGCGTGTGCCCTTC
Found at i:60468875 original size:18 final size:17
Alignment explanation
Indices: 60468852--60468886 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60468842 ATATAACATA
*
60468852 AAATAAAGTAAATAAAAG
1 AAATAAAG-AAACAAAAG
60468870 AAATAAAGAAACAAAAG
1 AAATAAAGAAACAAAAG
60468887 GATGGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAAGAAACAAAAG
Found at i:60469656 original size:27 final size:27
Alignment explanation
Indices: 60469624--60469675 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
60469614 GTATGTGTAT
*
60469624 GATTGAAA-AGTGTATTGAATTGGAATG
1 GATTGAAATAGTATATTG-ATTGGAATG
*
60469651 GATTGAAATTGTATATTGATTGGAA
1 GATTGAAATAGTATATTGATTGGAA
60469676 ATTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (27 bp):
GATTGAAATAGTATATTGATTGGAATG
Found at i:60470021 original size:24 final size:26
Alignment explanation
Indices: 60469981--60470031 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
60469971 TGACATTGAA
60469981 TGATATTGAATAAGAAAT-G-GAAAT
1 TGATATTGAATAAGAAATAGAGAAAT
*
60470005 TGATATTGAA-ATTGAAATAGAGAAAT
1 TGATATTGAATA-AGAAATAGAGAAAT
60470031 T
1 T
60470032 TATTGTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 15 0.65
25 1 0.04
26 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
TGATATTGAATAAGAAATAGAGAAAT
Found at i:60478114 original size:34 final size:34
Alignment explanation
Indices: 60478075--60478139 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
60478065 TAAATTGGCC
60478075 TAAATGCTGTGTTTGATAAGTAAATTATATCGCA
1 TAAATGCTGTGTTTGATAAGTAAATTATATCGCA
60478109 TAAATGCTGTGTTTGATAAGTAAATTATATC
1 TAAATGCTGTGTTTGATAAGTAAATTATATC
60478140 ATGTATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (34 bp):
TAAATGCTGTGTTTGATAAGTAAATTATATCGCA
Found at i:60481131 original size:47 final size:47
Alignment explanation
Indices: 60481075--60481531 Score: 686
Period size: 47 Copynumber: 9.6 Consensus size: 47
60481065 GATAATTGTG
60481075 ATGTG-AA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481120 ATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481169 ATGTGAAAGTGTATATACATGTGATAAGACCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481218 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60481269 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60481316 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481365 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481412 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
60481459 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
60481506 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60481532 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 17, Indels: 25
0.90 0.04 0.06
Matches are distributed among these distances:
45 5 0.01
46 2 0.01
47 194 0.51
48 5 0.01
49 130 0.34
51 40 0.10
53 5 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60481182 original size:96 final size:96
Alignment explanation
Indices: 60481075--60481531 Score: 721
Period size: 96 Copynumber: 4.8 Consensus size: 96
60481065 GATAATTGTG
*
60481075 ATGTG-AA-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
60481138 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481169 ATGTGAAAGTGTATATACATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
60481234 ATATATGTGATAAGGTCTAATGGCCGATGTGATGA
62 ATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60481269 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
60481334 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60481365 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
60481428 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
60481459 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
60481522 -ATGTGATAAG
65 TATGTGATAAG
60481532 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 15, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
93 2 0.01
94 97 0.29
95 3 0.01
96 103 0.30
98 81 0.24
100 53 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60483633 original size:45 final size:45
Alignment explanation
Indices: 60483569--60483916 Score: 429
Period size: 45 Copynumber: 7.7 Consensus size: 45
60483559 GTGTTACAGG
60483569 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
*
60483614 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACAGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
* * *
60483659 AAATGAATAAGACCATAGTTGAAAGAAACTATGACACTATACTGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
* **
60483704 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATATTGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
* * * * *
60483749 AAACGAATAAAACCATAGTTGAAAGACAATATGGCAATATACC-A
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
60483793 AAATCGAATAAGACCATAGTTGAAAGACAAC-AT-AGCACTATACC-A
1 AAAT-GAATAAGACCATAGTTGAAAGAC-ACTATGA-CACTATACCGA
* * * *
60483838 AAATTGAATAAGACCATAGTTGAAAGACATTATGGA-AATATGA-TGG
1 AAA-TGAATAAGACCATAGTTGAAAGACACTAT-GACACTAT-ACCGA
* * *
60483884 AAATAAATAAGAACATAGTTGAAAAACACTATG
1 AAATGAATAAGACCATAGTTGAAAGACACTATG
60483917 GTATCATATT
Statistics
Matches: 267, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
44 6 0.02
45 254 0.95
46 6 0.02
47 1 0.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACCGA
Found at i:60483779 original size:22 final size:22
Alignment explanation
Indices: 60483709--60483779 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
60483699 ACTGGAAATG
*
60483709 AATAAGACCATAGTTGAAAGAC
1 AATAAAACCATAGTTGAAAGAC
*** *
60483731 ACTATGGCACTATA-TTGAAA-AC
1 A--ATAAAACCATAGTTGAAAGAC
60483753 GAATAAAACCATAGTTGAAAGAC
1 -AATAAAACCATAGTTGAAAGAC
60483776 AATA
1 AATA
60483780 TGGCAATATA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 7 0.19
22 13 0.36
23 9 0.25
24 7 0.19
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.21
Consensus pattern (22 bp):
AATAAAACCATAGTTGAAAGAC
Found at i:60501315 original size:41 final size:41
Alignment explanation
Indices: 60501256--60501338 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
60501246 GCATGCAAAG
60501256 GTTGATTATTTTGATATGTTGGGATGGCAAGAGTTGGTGTT
1 GTTGATTATTTTGATATGTTGGGATGGCAAGAGTTGGTGTT
*
60501297 GTTGATTATTTTGCTATGTTGGGATGGCAAGAGTTGGTGTT
1 GTTGATTATTTTGATATGTTGGGATGGCAAGAGTTGGTGTT
60501338 G
1 G
60501339 GTTTTAAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.43
Consensus pattern (41 bp):
GTTGATTATTTTGATATGTTGGGATGGCAAGAGTTGGTGTT
Found at i:60501675 original size:27 final size:26
Alignment explanation
Indices: 60501645--60501722 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
60501635 AGTGGATAAG
60501645 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCTTA-T
*
60501672 TTGTAAAATTACCAAAATACCTCTGAT
1 TTGTAAAATTACCAAAATACC-CTTAT
* *
60501699 TTGTGAAATTA-TAGAAATACCCTT
1 TTGTAAAATTACCA-AAATACCCTT
60501723 GTAAGGTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
26 3 0.07
27 39 0.87
28 3 0.07
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCTTAT
Found at i:60502548 original size:27 final size:26
Alignment explanation
Indices: 60502507--60502566 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
60502497 CCACATATGT
* *
60502507 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
60502533 ATATCTGCATCTGGTGACTTTGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
60502560 ATATCTG
1 ATATCTG
60502567 GTAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:60511635 original size:19 final size:19
Alignment explanation
Indices: 60511611--60511648 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60511601 TAATCCACAT
60511611 GTTTCCCTTATATCTACAC
1 GTTTCCCTTATATCTACAC
60511630 GTTTCCCTTATATCTACAC
1 GTTTCCCTTATATCTACAC
60511649 TTGTTCCGAA
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:0.21, C:0.32, G:0.05, T:0.42
Consensus pattern (19 bp):
GTTTCCCTTATATCTACAC
Found at i:60515027 original size:43 final size:43
Alignment explanation
Indices: 60514961--60515216 Score: 334
Period size: 43 Copynumber: 6.0 Consensus size: 43
60514951 TGTGATATCA
*
60514961 ATATGTAATTATGTGTAAGACCACGTTTGGGACGTTGGCATCG
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
60515004 ATATGTAATTATGTGTAAAACCACGTCTGGGACATTGGCATCA
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
*
60515047 ATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGCATCG
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
60515090 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
** * * * *
60515133 ATATGGGATTACGTGTAAGACCATGTCTGGGATAG-TGGCATCA
1 ATATGTAATTATGTGTAAGACCACGTCTGGGA-CGTTGGCATCG
* ** * ** *
60515176 ATATGTGATTACATGTAAGATCATATCTGGGACATTGGCAT
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCAT
60515217 TGTACGATAT
Statistics
Matches: 190, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 189 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (43 bp):
ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:60515193 original size:129 final size:129
Alignment explanation
Indices: 60514961--60515195 Score: 371
Period size: 129 Copynumber: 1.8 Consensus size: 129
60514951 TGTGATATCA
* * *
60514961 ATATGTAATTATGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTAATTATGTGTAAAACC
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGGAATTACGTGTAAAACC
* **
60515026 ACGTCTGGGACATTGGCATCAATATGTAATTATGTGTAAGACCACGTCTGGGATGTTGGCATCG
66 ACGTCTGGGACAGTGGCATCAATATGTAATTACATGTAAGACCACGTCTGGGATGTTGGCATCG
* *
60515090 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGGGATTACGTGTAAGACC
1 ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGGAATTACGTGTAAAACC
* * *
60515155 ATGTCTGGGATAGTGGCATCAATATGTGATTACATGTAAGA
66 ACGTCTGGGACAGTGGCATCAATATGTAATTACATGTAAGA
60515196 TCATATCTGG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 95 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (129 bp):
ATATGTAATTATGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGGAATTACGTGTAAAACC
ACGTCTGGGACAGTGGCATCAATATGTAATTACATGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:60516681 original size:14 final size:14
Alignment explanation
Indices: 60516659--60516696 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60516649 TTTGCATGCG
*
60516659 AATATATAACAATA
1 AATAAATAACAATA
60516673 AATAAATAAC-ATA
1 AATAAATAACAATA
60516686 AA-AAATAACAA
1 AATAAATAACAA
60516697 ATAGCTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAATAACAATA
Found at i:60517218 original size:19 final size:19
Alignment explanation
Indices: 60517189--60517232 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
60517179 AATGCAAAGA
60517189 ATAATATATATAGTAAAATAT
1 ATAATATATA-A-TAAAATAT
*
60517210 ATAATATATAATAAAATTT
1 ATAATATATAATAAAATAT
60517229 ATAA
1 ATAA
60517233 ATAAAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAATATATAATAAAATAT
Found at i:60517223 original size:31 final size:33
Alignment explanation
Indices: 60517188--60517257 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
60517178 AAATGCAAAG
*
60517188 AATAATATATAT-AGTAAAATATATAAT-ATAT
1 AATAATATATATAAATAAAATATATAATAATAT
* * *
60517219 AATAAAATTTATAAATAAAATGTATAATAATAT
1 AATAATATATATAAATAAAATATATAATAATAT
*
60517252 TATAAT
1 AATAAT
60517258 GGATAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 10 0.32
32 13 0.42
33 8 0.26
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (33 bp):
AATAATATATATAAATAAAATATATAATAATAT
Found at i:60517231 original size:12 final size:12
Alignment explanation
Indices: 60517216--60517257 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
60517206 ATATATAATA
60517216 TATAATAAAATT
1 TATAATAAAATT
*
60517228 TATAAATAAAATG
1 TAT-AATAAAATT
*
60517241 TATAATAATA-T
1 TATAATAAAATT
60517252 TATAAT
1 TATAAT
60517258 GGATAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 6 0.23
12 9 0.35
13 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
TATAATAAAATT
Found at i:60519581 original size:44 final size:44
Alignment explanation
Indices: 60518912--60519570 Score: 830
Period size: 44 Copynumber: 15.0 Consensus size: 44
60518902 AACCGAAATG
* * * *
60518912 TTCGATTTGCTCTCTGACAATACGGAGACGCCAAATCCGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* *
60518956 TTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
60519000 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
*
60519044 TTCGATCTGCTCTCT-ATCAATACAGAGACGCCAAATCTGATATC
1 TTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCTATC
* *
60519088 TTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * *
60519132 TTCGATCTGCTCTCTGACAATACAGAGACACTAAATTTGCTATT
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * **
60519176 TTTGGTCTGCTCTCTGACAATACAGAGAGGCCAAATCACCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
60519220 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * * * *
60519264 TTCGATCTACTCTCTGAAAAAATAGAGACACCAAATCTGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
60519308 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
*
60519352 TTCGATCTGCTCTCTGACAATACAAAGACGCCAAATCTG-TCATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATC
* * * **
60519396 TTTGATCTGCTCTCT-ATCAATACAGGGACATCC-AATCTAATATC
1 TTCGATCTGCTCTCTGA-CAATACAGAGAC-GCCAAATCTGCTATC
* * * *
60519440 TTTGATGTGCTCTCT-ATC-ATACAGAGACACCAAATCTGATATC
1 TTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCTATC
* **
60519483 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTATTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
* * *
60519527 TTCGATCTACTCTCTGATAATACAGTGACGCCAAAT-TGGCTATC
1 TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCT-GCTATC
60519571 GGTGATCTAC
Statistics
Matches: 541, Mismatches: 62, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.00
43 38 0.07
44 496 0.92
45 5 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATC
Found at i:60529374 original size:14 final size:14
Alignment explanation
Indices: 60529333--60529370 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60529323 TTTGCATGCG
*
60529333 AATATATAACAATA
1 AATAAATAACAATA
60529347 AATAAATAAC-ATA
1 AATAAATAACAATA
60529360 AA-AAATAACAA
1 AATAAATAACAA
60529371 ATAACTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAATAACAATA
Found at i:60531558 original size:41 final size:40
Alignment explanation
Indices: 60531440--60531648 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
60531430 CGGATGATAA
*
60531440 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
60531480 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
60531520 GCGGGCTAAGTTTCGAAGGCATTTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTATTT
* * **
60531561 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
60531601 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
60531641 CC-GGCTAA
1 CCGGGCTAA
60531649 ACCCCAAAGG
Statistics
Matches: 151, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 8 0.05
40 107 0.71
41 36 0.24
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:60531579 original size:81 final size:80
Alignment explanation
Indices: 60531441--60531648 Score: 294
Period size: 81 Copynumber: 2.6 Consensus size: 80
60531431 GGATGATAAC
*
60531441 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTGT
60531506 GCGAGTTACTATTTG
66 GCGAGTTACTATTTG
* *
60531521 CGGGCTAAGTTTCGAAGGCATTTTGTGCGAGTTACTATTTCCGGGCTAAGTCCTGAAGGCAATTG
1 CGGGCTAAGTCTCGAAGGCA-TTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTG
***
60531586 TGCGAGTTACTATAAC
65 TGCGAGTTACTATTTG
* * * *
60531602 CGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTA-CTATTTCCGGGCTAA
60531649 ACCCCAAAGG
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 8 0.07
80 35 0.30
81 72 0.63
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (80 bp):
CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCAATTGT
GCGAGTTACTATTTG
Found at i:60562406 original size:27 final size:26
Alignment explanation
Indices: 60562343--60562456 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
60562333 TGGAGGAAAC
* *
60562343 GTTCTGGTGGCTATACCACAAATATAT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
60562370 GTT-TCAGTGGCTATGCCACAAATATCT
1 GTTCT-GGTGGCTATGCCAC-AATATCT
*
60562397 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
60562423 GTATTTTGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
60562450 GTTCTGG
1 GTTCTGG
60562457 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 13 0.18
27 59 0.81
28 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:60566534 original size:28 final size:28
Alignment explanation
Indices: 60566494--60566575 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
60566484 GGAGGAAGCA
60566494 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
60566522 TTCTGGTGGCTATGCCACAAATATCT-A
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
60566549 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
60566576 ATATCGTGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 7 0.14
27 17 0.34
28 26 0.52
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:60591024 original size:37 final size:38
Alignment explanation
Indices: 60590974--60591053 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
60590964 TTATTACGAA
* *
60590974 GTCTTACCCGGAC-ATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAAATTC-CCACACGAAGTCATCGG
*
60591011 GTCTTACCCGGACAAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
60591049 GTCTT
1 GTCTT
60591054 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.34
38 23 0.61
39 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
Found at i:60591250 original size:47 final size:47
Alignment explanation
Indices: 60591172--60591741 Score: 924
Period size: 47 Copynumber: 12.1 Consensus size: 47
60591162 CCCTTCGGGA
** * * * * * *
60591172 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
60591219 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60591266 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGCC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60591313 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
60591360 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
60591407 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60591454 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60591501 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
60591548 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60591595 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
60591642 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60591689 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGC
60591738 CTTA
1 CTTA
60591742 CTATCATTTC
Statistics
Matches: 496, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
47 454 0.92
49 42 0.08
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60595869 original size:46 final size:47
Alignment explanation
Indices: 60595763--60595878 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
60595753 TGTCTTCGAC
** * *
60595763 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
60595813 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
60595859 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
60595879 TCTATCCCGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:60601334 original size:46 final size:46
Alignment explanation
Indices: 60601267--60601444 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
60601257 TGTAACCCGC
* *
60601267 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGTAT
* * *
60601313 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGTAT
* * ** *
60601359 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGTAT
* *
60601406 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
60601445 CCCAAATATC
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.64
47 35 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGTAT
Found at i:60601387 original size:93 final size:93
Alignment explanation
Indices: 60601274--60601446 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
60601264 CGCCCATAAG
*** *
60601274 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60601339 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
60601367 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60601432 ACGAGTTCAGATGCC
66 ACGAGTTCAGATGCC
60601447 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:60601461 original size:46 final size:45
Alignment explanation
Indices: 60601318--60601448 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 45
60601308 CGTATCCATA
* *
60601318 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA--TACATC-C
* * * * * *
60601366 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCCCATACATCC
60601411 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA
60601449 AATATCCCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
44 6 0.09
45 1 0.01
46 26 0.38
47 30 0.44
48 1 0.01
49 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCATACATCC
Found at i:60605085 original size:21 final size:22
Alignment explanation
Indices: 60605061--60605130 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 22
60605051 GAATAAGAAG
* *
60605061 AAAATACTGTAAAATAAAATC-
1 AAAATACGGCAAAATAAAATCT
60605082 AAAATACGGCAAAATAAAATCT
1 AAAATACGGCAAAATAAAATCT
* * *
60605104 AAAACTAAGGAGAAAATAAAATAT
1 AAAA-TACGG-CAAAATAAAATCT
60605128 AAA
1 AAA
60605131 CCCTAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.46
22 4 0.10
23 4 0.10
24 14 0.34
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.19
Consensus pattern (22 bp):
AAAATACGGCAAAATAAAATCT
Found at i:60612754 original size:79 final size:80
Alignment explanation
Indices: 60612643--60612832 Score: 208
Period size: 79 Copynumber: 2.4 Consensus size: 80
60612633 GCTACTCGTT
* * * *
60612643 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCG-GGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60612706 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
60612723 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
60612788 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
60612803 CAAA-GCCTTCGGGACTTAGCCCGGACATTA
1 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTA
60612833 TTCAAATAAC
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.59
80 32 0.34
81 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:60612827 original size:40 final size:40
Alignment explanation
Indices: 60612624--60612827 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
60612614 CGGAATTTAA
** * *
60612624 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGAGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60612664 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60612704 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60612743 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60612783 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60612823 CCGGA
1 CCGGA
60612828 CATTATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60633874 original size:79 final size:80
Alignment explanation
Indices: 60633774--60633958 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
60633764 GCTACTCGTT
* * *
60633774 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60633837 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
60633854 CAAAGGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAA-GCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
60633918 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
*
60633934 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCAGGACTTAGCCCGGA
60633959 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.61
80 32 0.36
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:60633958 original size:40 final size:40
Alignment explanation
Indices: 60633755--60633958 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
60633745 CGGAATTTAA
** *
60633755 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60633795 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60633835 CCGGATTTAGTAACTCGCACAAAGGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60633874 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60633914 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60633954 CCGGA
1 CCGGA
60633959 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60636034 original size:27 final size:27
Alignment explanation
Indices: 60636004--60636068 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
60635994 GATCACTGAA
* * *
60636004 CACTTTGCTATGTTTGTCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
60636031 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
60636058 CACTTTGCCAT
1 CACTTTGCCAT
60636069 AGTTCAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:60636204 original size:31 final size:31
Alignment explanation
Indices: 60636125--60636305 Score: 188
Period size: 31 Copynumber: 5.8 Consensus size: 31
60636115 TCAGATAAGT
* * *
60636125 GTAGCTAAAGCTACCACTTATCACTTG-TCAATT
1 GTAGCTGAAGCTACCACTTTTCAC-TGATC-A-G
* *
60636158 GTAGCCGAAGCTACCA-TTATTCAGTGATCAG
1 GTAGCTGAAGCTACCACTT-TTCACTGATCAG
* * *
60636189 ATAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
60636220 GTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
60636251 GTAG-TCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCT-GAAGCTACCACTTTTCACTGATCAG
**
60636282 GTAGCCAAAGCTACCACTTTTCAC
1 GTAGCTGAAGCTACCACTTTTCAC
60636306 ATTGTACACA
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
31 98 0.79
32 7 0.06
33 19 0.15
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:60636250 original size:62 final size:62
Alignment explanation
Indices: 60636158--60636305 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 62
60636148 CTTGTCAATT
* *
60636158 GTAGCCGAAGCTACCA-TTATTCAGTGATCAGATAG-CTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAGATAGTC-GAAGCTACCACTTTTCACTAATCAG
* * *
60636220 GTAGCCGAAGCTACTACTTTTCACTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGATAGTCGAAGCTACCACTTTTCACTAATCAG
*
60636282 GTAGCCAAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
60636306 ATTGTACACA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
62 74 0.96
63 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGATAGTCGAAGCTACCACTTTTCACTAATCAG
Found at i:60636382 original size:33 final size:33
Alignment explanation
Indices: 60636298--60636409 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 33
60636288 AAAGCTACCA
* * *
60636298 CTTTTCACA-TTGTACACACAAGGCGTACCTTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
*
60636331 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* *
60636363 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
60636396 CTTTTCCAGTTGTA
1 CTTTTCAAGTTGTA
60636410 TCTTTTAGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 29 0.42
33 40 0.58
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:60640235 original size:13 final size:13
Alignment explanation
Indices: 60640217--60640243 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60640207 TAAGCAATCA
60640217 CACACGAGCGTGT
1 CACACGAGCGTGT
60640230 CACACGAGCGTGT
1 CACACGAGCGTGT
60640243 C
1 C
60640244 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:60642478 original size:21 final size:22
Alignment explanation
Indices: 60642449--60642493 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
60642439 TTGATGACTT
*
60642449 AGAAAAATTTGAATTTGGGACA
1 AGAAAATTTTGAATTTGGGACA
60642471 AGAAAATTTTGAATTTGGGACA
1 AGAAAATTTTGAATTTGGGACA
60642493 A
1 A
60642494 CGAAGATGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
AGAAAATTTTGAATTTGGGACA
Found at i:60649279 original size:20 final size:20
Alignment explanation
Indices: 60649254--60649292 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
60649244 ACTCAATTAA
60649254 AAATTA-TTTTAAAGTGTTTT
1 AAATTACTTTTAAA-TGTTTT
60649274 AAATTACTTTTAAATGTTT
1 AAATTACTTTTAAATGTTT
60649293 ATAAGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
AAATTACTTTTAAATGTTTT
Found at i:60653425 original size:22 final size:22
Alignment explanation
Indices: 60653397--60653519 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
60653387 AAGTGTATAT
60653397 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
60653419 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
*
60653443 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * ***
60653466 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
60653490 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
60653513 ATGTGAT
1 ATGTGAT
60653520 GAATGTGAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 22 0.32
23 16 0.23
24 16 0.23
25 15 0.22
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:60653432 original size:47 final size:47
Alignment explanation
Indices: 60653378--60653735 Score: 599
Period size: 47 Copynumber: 7.6 Consensus size: 47
60653368 ATGATGAAAT
60653378 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
*
60653425 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
60653472 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* * * * *
60653519 TGAATGTGAAAGTGTATATATGTGACAAGGCCTAATGGTCGATGTAA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
60653566 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* * * *
60653613 TGAATGTGAAAGTGTATATATGTGACAAGGCCTAATGGTCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
60653660 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
* * *
60653707 TGGATATGAAAGTGTATAAATGTGATAAG
1 TGAATGTGAAAGTGTATATATGTGATAAG
60653736 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 288 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
Found at i:60657729 original size:12 final size:12
Alignment explanation
Indices: 60657712--60657752 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
60657702 TTTATTACAT
60657712 AAATATTTTTTC
1 AAATATTTTTTC
60657724 AAATATTTTTTC
1 AAATATTTTTTC
*
60657736 AAATAATTTTTC
1 AAATATTTTTTC
60657748 AAATA
1 AAATA
60657753 ATTTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATATTTTTTC
Found at i:60659966 original size:16 final size:16
Alignment explanation
Indices: 60659942--60659978 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
60659932 TCTATATTAA
* *
60659942 TTTTACAACACTTATT
1 TTTTTCAACAATTATT
60659958 TTTTTCAACAATTATT
1 TTTTTCAACAATTATT
60659974 TTTTT
1 TTTTT
60659979 TAATTTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTCAACAATTATT
Found at i:60660270 original size:20 final size:20
Alignment explanation
Indices: 60660247--60660320 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
60660237 TAAAATTCAA
60660247 TAAAAATTATAAAAAAATAT
1 TAAAAATTATAAAAAAATAT
* *
60660267 T-AAATTTTTATAAAAAATA-
1 TAAAAATTATA-AAAAAATAT
** * *
60660286 TAAATTTTTTATAAAAATCAT
1 TAAAAATTATAAAAAAAT-AT
*
60660307 AAAAAATTATAAAA
1 TAAAAATTATAAAA
60660321 TATAGAAAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.34
20 18 0.44
21 9 0.22
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATAT
Found at i:60660289 original size:19 final size:21
Alignment explanation
Indices: 60660253--60660302 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
60660243 TCAATAAAAA
60660253 TTATAAAAAAATATTAAA-TTT
1 TTAT-AAAAAATATTAAATTTT
60660274 TTATAAAAAATA-TAAATTTT
1 TTATAAAAAATATTAAATTTT
60660294 TTATAAAAA
1 TTATAAAAA
60660303 TCATAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATAAAAAATATTAAATTTT
Found at i:60660316 original size:19 final size:18
Alignment explanation
Indices: 60660294--60660416 Score: 59
Period size: 18 Copynumber: 6.4 Consensus size: 18
60660284 TATAAATTTT
60660294 TTATAAAAATCATAAAAAA
1 TTATAAAAAT-ATAAAAAA
*
60660313 TTAT-AAAATATAGAAAA
1 TTATAAAAATATAAAAAA
* * * * *
60660330 GTGTAGAAATATATATAA
1 TTATAAAAATATAAAAAA
* * *
60660348 TTTTATAAAGTCGTAAGAAAA
1 TTATA-AAAAT-ATAA-AAAA
* *
60660369 TTATAAAAAATGTAAAGAA
1 TTAT-AAAAATATAAAAAA
*
60660388 TTATAAAAATTTGTAAAAGAA
1 TTATAAAAA--TATAAAA-AA
60660409 TTATAAAA
1 TTATAAAA
60660417 CTTATCATAC
Statistics
Matches: 79, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
17 9 0.11
18 23 0.29
19 14 0.18
20 12 0.15
21 20 0.25
22 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (18 bp):
TTATAAAAATATAAAAAA
Found at i:60660386 original size:21 final size:21
Alignment explanation
Indices: 60660366--60660416 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
60660356 AGTCGTAAGA
60660366 AAATTATAAAAA-ATGTAAAG
1 AAATTATAAAAATATGTAAAG
*
60660386 -AATTATAAAAATTTGTAAA-
1 AAATTATAAAAATATGTAAAG
60660405 AGAATTATAAAA
1 A-AATTATAAAA
60660417 CTTATCATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.41
20 6 0.22
21 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (21 bp):
AAATTATAAAAATATGTAAAG
Found at i:60660623 original size:28 final size:28
Alignment explanation
Indices: 60660591--60660651 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
60660581 TAATGGTTGC
* *
60660591 ATTTTATAA-ATTTTTTAATTTTTAATAA
1 ATTTTA-AATATTTTTTAATATTTTATAA
*
60660619 ATTTTAAATATTTTTTTATATTTTATAA
1 ATTTTAAATATTTTTTAATATTTTATAA
*
60660647 TTTTT
1 ATTTT
60660652 TTTTGTCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTTAAATATTTTTTAATATTTTATAA
Found at i:60660632 original size:19 final size:19
Alignment explanation
Indices: 60660591--60660632 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
60660581 TAATGGTTGC
*
60660591 ATTTTATAAATTTTTTAAT
1 ATTTTATAAATTTTTAAAT
60660610 -TTTTAATAAA-TTTTAAAT
1 ATTTT-ATAAATTTTTAAAT
60660628 ATTTT
1 ATTTT
60660633 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATAAATTTTTAAAT
Found at i:60660944 original size:90 final size:92
Alignment explanation
Indices: 60660790--60660955 Score: 225
Period size: 90 Copynumber: 1.8 Consensus size: 92
60660780 TTGAGTGCAA
**
60660790 AAAAAAAGAGTAAGGGTGCTTAATTTTTTTTTTGTAAAATTTTTAAGGTCTTTTTTATGCATTTT
1 AAAAAAAGAGTAAGGGTGCTTAATTTTTTTTTTGTAAAAAGTTTAAGGTCTTTTTTATGCATTTT
*
60660855 GACAGTTTAAGTACCCAATTGAGTGGG
66 GAAAGTTTAAGTACCCAATTGAGTGGG
* *
60660882 AAAAAAA-AGT-AGGG-GCTTAATTGCTTTTTTTT-TAAAAAGTTTGAGGAT-TTTTTTATGTAT
1 AAAAAAAGAGTAAGGGTGCTTAATT--TTTTTTTTGTAAAAAGTTTAAGG-TCTTTTTTATGCAT
60660942 TTTGAAAGTTTAAG
63 TTTGAAAGTTTAAG
60660956 CATCTAATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
89 8 0.12
90 39 0.59
91 12 0.18
92 7 0.11
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (92 bp):
AAAAAAAGAGTAAGGGTGCTTAATTTTTTTTTTGTAAAAAGTTTAAGGTCTTTTTTATGCATTTT
GAAAGTTTAAGTACCCAATTGAGTGGG
Found at i:60660976 original size:90 final size:92
Alignment explanation
Indices: 60660777--60660979 Score: 220
Period size: 90 Copynumber: 2.2 Consensus size: 92
60660767 ATGCATTTGA
* **
60660777 CAATTGAGTGCAAAAAAAAAGAGTAAGGGTGCTTAATTTTTTTTTTGTAAAATTTTTAAGGTCTT
1 CAATTGAGTG-AAAAAAAAAAAGTAAGGGTGCTTAATTTTTTTTTTGTAAAAAGTTTAAGGTCTT
* *
60660842 TTTTATGCATTTTGACAGTTTAAGTACC
65 TTTTATGCATTTTGAAAGTTTAAGCACC
** *
60660870 CAATTGAGTG-GGAAAAAAAAGT-AGGG-GCTTAATTGCTTTTTTTT-TAAAAAGTTTGAGGAT-
1 CAATTGAGTGAAAAAAAAAAAGTAAGGGTGCTTAATT--TTTTTTTTGTAAAAAGTTTAAGG-TC
* *
60660930 TTTTTTATGTATTTTGAAAGTTTAAGCATC
63 TTTTTTATGCATTTTGAAAGTTTAAGCACC
* *
60660960 TAA-TGTGTGAAAAAAAAAAA
1 CAATTGAGTGAAAAAAAAAAA
60660980 AGAAGAAGAA
Statistics
Matches: 92, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
89 13 0.14
90 51 0.55
91 18 0.20
93 10 0.11
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (92 bp):
CAATTGAGTGAAAAAAAAAAAGTAAGGGTGCTTAATTTTTTTTTTGTAAAAAGTTTAAGGTCTTT
TTTATGCATTTTGAAAGTTTAAGCACC
Found at i:60663297 original size:28 final size:28
Alignment explanation
Indices: 60663264--60663338 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
60663254 ATTGCATGAC
*
60663264 TATGAATGTGATTTGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
60663292 TATGAATGTGATTGGGGCC-GATGGGCTA
1 TATGAATGTGATT-GGGCCTGATGGGCCA
*
60663320 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
60663339 AAAGGGGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 5 0.12
28 33 0.79
29 4 0.10
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:60664395 original size:18 final size:17
Alignment explanation
Indices: 60664372--60664405 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60664362 GCTTTTGAAG
60664372 GGTTTTCAATAAGAACAA
1 GGTTTTCAATAA-AACAA
*
60664390 GGTTTTCGATAAAACA
1 GGTTTTCAATAAAACA
60664406 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
GGTTTTCAATAAAACAA
Found at i:60666783 original size:8 final size:8
Alignment explanation
Indices: 60666749--60666800 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
60666739 TAGTGATGTG
*
60666749 AATAATAA
1 AATATTAA
*
60666757 AGTATATAA
1 AATAT-TAA
60666766 AATA-TAA
1 AATATTAA
60666773 AATATTAA
1 AATATTAA
*
60666781 AATATCAA
1 AATATTAA
*
60666789 AATATTAG
1 AATATTAA
60666797 AATA
1 AATA
60666801 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:60666790 original size:16 final size:15
Alignment explanation
Indices: 60666753--60666800 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
60666743 GATGTGAATA
*
60666753 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
60666769 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
60666784 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
60666800 A
1 A
60666801 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:60666939 original size:23 final size:23
Alignment explanation
Indices: 60666913--60666961 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
60666903 ATAATACTAC
*
60666913 ATAAATATGT-ATATATATAAAAA
1 ATAAATACGTGATA-ATATAAAAA
*
60666936 ATAAATACGTGATAATATTAAAA
1 ATAAATACGTGATAATATAAAAA
60666959 ATA
1 ATA
60666962 CGTACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (23 bp):
ATAAATACGTGATAATATAAAAA
Found at i:60667065 original size:25 final size:24
Alignment explanation
Indices: 60667037--60667166 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 24
60667027 TAGAAAAAAA
*
60667037 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* *
60667062 ATATACATAAAATAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
60667085 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * *
60667108 ATATACCTAATATATTA-AAAGAAT
1 ATATACATAATATAGTATTAAG-AT
* * *
60667132 ATATATATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
60667156 ATATA-ATAATA
1 ATATACATAATA
60667167 ACAAAAAAAG
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.47
24 24 0.29
25 18 0.22
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:60667071 original size:29 final size:28
Alignment explanation
Indices: 60666967--60667072 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 28
60666957 AAATACGTAC
* *
60666967 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
60666992 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* * * *
60667018 GATAACAT-GTA-GAAAA-A-AAATATAA
1 -ATAATATAGTATTAAAATATATACATAA
60667043 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
60667072 A
1 A
60667073 ATAGTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
24 11 0.18
25 18 0.30
26 11 0.18
27 11 0.18
28 2 0.03
29 7 0.12
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:60667086 original size:23 final size:25
Alignment explanation
Indices: 60666964--60667166 Score: 104
Period size: 23 Copynumber: 8.4 Consensus size: 25
60666954 TAAAAATACG
* * * *
60666964 TACATAATATAGTGTAAAAAATACA
1 TACATAATATAGTATTAAAGATATA
60666989 TACATAATATA--ATTAAA-ATATA
1 TACATAATATAGTATTAAAGATATA
* ** * *
60667011 TACATAAGATAACATGTAGAAAAAAAATA
1 TACAT-A-AT-ATA-GTATTAAAGATATA
*
60667040 TAAATAATATAGTATTAAAGATATA
1 TACATAATATAGTATTAAAGATATA
* *
60667065 TACATAAAATAGTA-T-AATATATA
1 TACATAATATAGTATTAAAGATATA
* * *
60667088 TACGTAATATAGAATT-TAGA-ATA
1 TACATAATATAGTATTAAAGATATA
* *
60667111 TACCTAATATA-T-TAAAAGAATATA
1 TACATAATATAGTATTAAAG-ATATA
* * *
60667135 TATATAATATAATATT-AAGAAATA
1 TACATAATATAGTATTAAAGATATA
60667159 TA-ATAATA
1 TACATAATA
60667167 ACAAAAAAAG
Statistics
Matches: 136, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 11 0.08
23 43 0.32
24 24 0.18
25 39 0.29
26 3 0.02
27 2 0.01
28 5 0.04
29 8 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
TACATAATATAGTATTAAAGATATA
Found at i:60667142 original size:24 final size:23
Alignment explanation
Indices: 60667115--60667166 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
60667105 AGAATATACC
*
60667115 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
60667139 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
60667162 TAATA
1 TAATA
60667167 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:60667685 original size:30 final size:30
Alignment explanation
Indices: 60667649--60667734 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
60667639 GTGGTGGTAG
*
60667649 AGTGTGGCTAGTGGAGTAGGTAGTTGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* *
60667679 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
* * *
60667709 AGTGTGACTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTAGGTAGTGG
60667735 CAAAGGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.28
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
Found at i:60668622 original size:89 final size:90
Alignment explanation
Indices: 60668436--60668919 Score: 347
Period size: 92 Copynumber: 5.4 Consensus size: 90
60668426 ACGTGAGCCA
* *** * **
60668436 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-A-AAACA-AAATTTGTAAAACA-GATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTAAAAAAAAATGAAA
* ** *
60668497 TTGAAAATTCCTCGGTATGTGACCCG
66 TTGAAAATACCTCGGCGT-TGACCTG
* *
60668523 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG-CAAAGCATAAATT-AAAAAAAAT-CA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CATAAATTAAAAAAAAATGAA
60668585 ATTGAAAATACCTCGGCGTATGACCTG
65 ATTGAAAATACCTCGGCGT-TGACCTG
* *
60668612 AGGCTTAACTCACCTATCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACATAAATT-AAAAAAAAATG
* **
60668677 AAATTGAAAATACCTCAGCG-TGTTCTG
63 AAATTGAAAATACCTCGGCGTTGACCTG
* ** *
60668704 AGGC-CGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACA-
1 AGGCTC-AACTCACCTCTCGCAATATGAGTTGA--TTTTT-GACAAACATAAATTAAAAAAAAAT
* * * * *
60668766 GAATTTGAAAATACCTCAGCATGTGA-GTCA
62 GAAATTGAAAATACCTCGGCGT-TGACCT-G
* * * * * *
60668796 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGA-AACACAGAAATT-GAAGAACA-G
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAA-ACATAAATTAAAAAAAAATG
* * * *
60668858 AAATGGAAAACACCTCAGCG-T--CTTG
63 AAATTGAAAATACCTCGGCGTTGACCTG
** *
60668883 AGATTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
60668920 TTGAAAGATA
Statistics
Matches: 334, Mismatches: 43, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
85 5 0.01
87 64 0.19
88 4 0.01
89 58 0.17
90 26 0.08
91 50 0.15
92 92 0.28
93 17 0.05
94 18 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACATAAATTAAAAAAAAATGAAA
TTGAAAATACCTCGGCGTTGACCTG
Found at i:60668716 original size:92 final size:88
Alignment explanation
Indices: 60668407--60668940 Score: 394
Period size: 87 Copynumber: 5.9 Consensus size: 88
60668397 TTGAAAACAT
* * ** *
60668407 AAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAG--CGTGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
* *
60668470 TTT-AAAACA-AAATTTG-TAAAACAG
63 TTTGAAAACAGAAA-TTGAAAAAAAAG
** * * * * * *
60668494 ATTTTGAAAATTCCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TT
1 AAATTGAAAATACCTCAG--CGTGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
60668557 TTTGCAAAGCATAAATT-AAAAAAAAT
63 TTTG-AAAACAGAAATTGAAAAAAAAG
* * * * *
60668583 CAATTGAAAATACCTCGGCGTATGACCTGAGGCTTAACTCACCTATCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCG--TGATCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTTT
*
60668648 TTTGACAAACATAAATTGAAAAAAAAATG
63 TTTGA-AAACAGAAATTG-AAAAAAAA-G
*
60668677 AAATTGAAAATACCTCAGCGTGTTCTGAGGCCGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGATCTGAGGCC-AACTCACCTCTCGCAATATGAGTTGATTTTTT
*
60668742 TGGAAAAACA-AAATTTG-AAAAACAG
65 T-G-AAAACAGAAA-TTGAAAAAAAAG
* * * *
60668767 AATTTGAAAATACCTCAGCATGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTT
1 AAATTGAAAATACCTCAGC--GTGA-TCTGAGGC-CAACTCACCTCTCGCAATATGAGTTGATTT
* *
60668831 TTTTGAAACACAGAAATTG-AAGAACAG
62 TTTTGAAA-ACAGAAATTGAAAAAAAAG
* * * ** *
60668858 AAATGGAAAACACCTCAGCGT-CT-TGAGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGATCTGAG-GCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
60668921 TGAAAGATAGAAATTGAAAA
65 TGAAA-ACAGAAATTGAAAA
60668941 TACCTCAACG
Statistics
Matches: 372, Mismatches: 50, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
87 105 0.28
88 2 0.01
89 63 0.17
90 26 0.07
91 52 0.14
92 85 0.23
93 20 0.05
94 19 0.05
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGATCTGAGGCCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAACAGAAATTGAAAAAAAAG
Found at i:60668776 original size:13 final size:14
Alignment explanation
Indices: 60668744--60668776 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
60668734 GATTTTTTTG
60668744 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
60668758 GAAAAACAGAATTT
1 GAAAAACAAAATTT
60668772 GAAAA
1 GAAAA
60668777 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:60668975 original size:75 final size:75
Alignment explanation
Indices: 60668854--60669236 Score: 453
Period size: 73 Copynumber: 5.2 Consensus size: 75
60668844 AAATTGAAGA
* * * **
60668854 ACAGAAATGGAAAACACCTC-A-GCGTCTTGAGATTCAACTCACCTCTCGCAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
60668917 TTTTTGAAAG
66 TTTTTGAAAG
* *
60668927 ATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
60668990 TTTTTGACAA-
66 TTTTTGA-AAG
* * * * *
60669000 ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATT
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
60669063 TTTTTGAAAG
66 TTTTTGAAAG
* * *
60669073 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAG-TTA-A
1 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
*
60669136 TTTTTG-ACG
66 TTTTTGAAAG
* * * * * * * *
60669145 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGAT
1 -ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
60669210 TTTTTTGAAAA
65 TTTTTTGAAAG
60669221 ACAGAAATTGAAAATA
1 ACAGAAATTGAAAATA
60669237 GAAATGGAAA
Statistics
Matches: 261, Mismatches: 37, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
71 36 0.14
72 5 0.02
73 123 0.47
74 8 0.03
75 88 0.34
76 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTTTTGAAAG
Found at i:60669139 original size:146 final size:146
Alignment explanation
Indices: 60668869--60669236 Score: 610
Period size: 146 Copynumber: 2.5 Consensus size: 146
60668859 AATGGAAAAC
* * *
60668869 ACCTCAGCGTCTTGAGATTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGATAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
* *
60668934 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
60668999 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
60669015 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
1 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
*
60669080 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACG
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
60669145 AACAAAAATTGAAATT
131 AACAAAAATTGAAATT
* * * * * *
60669161 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGA
60669226 AATTGAAAATA
64 AATTGAAAATA
60669237 GAAATGGAAA
Statistics
Matches: 208, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 148 0.71
148 60 0.29
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (146 bp):
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGTAATATGAGCTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTTTGACA
AACAAAAATTGAAATT
Found at i:60669315 original size:86 final size:87
Alignment explanation
Indices: 60669161--60669320 Score: 207
Period size: 86 Copynumber: 1.8 Consensus size: 87
60669151 AATTGAAATT
* *
60669161 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCG-GTCCTGAGGCTCAACTCACTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGA
*
60669226 AATTGAAAATAGAAATGGAAAAC
65 AATTAAAAATAGAAATGGAAAAC
* * * * * *
60669249 ACCTCAGC-GTCTTGAGGTTCAACTCAGC-TCTCGCAATATGAGCTGATTTTTTTGAAACATATA
1 ACCTCAGCGGTCCTGAGGCTCAACTCA-CTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGA
60669312 AATTAAAAA
65 AATTAAAAA
60669321 AAAATTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 53 0.85
87 1 0.02
88 8 0.13
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (87 bp):
ACCTCAGCGGTCCTGAGGCTCAACTCACTTATCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
ATTAAAAATAGAAATGGAAAAC
Found at i:60669680 original size:146 final size:150
Alignment explanation
Indices: 60669326--60670050 Score: 545
Period size: 146 Copynumber: 4.6 Consensus size: 150
60669316 AAAAAAAAAT
* ** * * * *
60669326 TAAAAACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 TAAAAACAGAAATTGAAAATACCTCAACATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGA
*
60669391 GTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTC
64 GTTGA-T-TTTTGAAAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTC
* *
60669456 GCAATATGAGTTGATTTTTTTTGA
127 ACAATATGAGCTGATTTTTTTTGA
* * * * * *
60669480 TAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** *
60669545 TGATTTTTGACAAA-CAAAAATTGAAATTACCTCAG-TGTCTTGAGGTTCAACTCACCTCTCACA
66 TGATTTTTGA-AAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTCACA
60669608 ATATGAGCTGA-TTTTTTT-A
130 ATATGAGCTGATTTTTTTTGA
* * *
60669627 -AAAGACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
60669691 TGATTTTTTGAAACATAAATTAAAAAAACAAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCA
66 TGA-TTTTTG-------------AAAAGCAAAAATTGAAAATACCTCAGC-TGTCCCGAGGCTCA
* * **
60669756 ACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTG-
116 ACTCACCTCTCACAATATGAGCTGATTT---------TTTTTGA
* * * *
60669799 TAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
1 TAA---AAACA--G--------AAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTC
* * * * * *
60669864 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAG
53 TCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAATACCTCAGC-TGTCCCGAGGCTCAA
* *
60669929 CTCACCTCTCGCAATATGAGTTGA---TTTTTG-
117 CTCACCTCTCACAATATGAGCTGATTTTTTTTGA
* * * * *
60669959 -AAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
60670023 TGATTTTTTGAAAAGCATAAATTGAAAA
66 TGA-TTTTTGAAAAGCAAAAATTGAAAA
60670051 AACGAAAATT
Statistics
Matches: 470, Mismatches: 57, Indels: 95
0.76 0.09 0.15
Matches are distributed among these distances:
146 115 0.24
147 28 0.06
148 7 0.01
149 34 0.07
150 25 0.05
151 4 0.01
152 33 0.07
154 26 0.06
156 3 0.01
159 5 0.01
160 24 0.05
162 35 0.07
163 2 0.00
172 63 0.13
173 2 0.00
176 3 0.01
178 1 0.00
185 6 0.01
186 54 0.11
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (150 bp):
TAAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAGCAAAAATTGAAAATACCTCAGCTGTCCCGAGGCTCAACTCACCTCTCACAA
TATGAGCTGATTTTTTTTGA
Found at i:60669685 original size:75 final size:75
Alignment explanation
Indices: 60669327--60669703 Score: 426
Period size: 75 Copynumber: 5.0 Consensus size: 75
60669317 AAAAAAAATT
* ** * * *
60669327 AAAA-ACAGAATTTGAAAGGACCTCGACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 AAAAGACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGA
60669391 GTTGATTCTTTTG
64 GTTGATT-TTTTG
* *
60669404 AAAAG-CAGAAATTGAAAATACCTCAGC-TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
60669467 TGATTTTTTTTG
66 TGA--TTTTTTG
* * * * * *
60669479 ATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 A-AAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
60669544 TTGA-TTTTTG
65 TTGATTTTTTG
* * * * * * *
60669554 ACAA-ACAAAAATTGAAATTACCTC-A-GTGTCTTGAGGTTCAACTCACCTCTCACAATATGAGC
1 AAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
60669616 TGATTTTTTT
66 TGATTTTTTG
* * *
60669626 AAAAGACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
60669691 TGATTTTTTG
66 TGATTTTTTG
60669701 AAA
1 AAA
60669704 CATAAATTAA
Statistics
Matches: 256, Mismatches: 34, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
71 35 0.14
72 8 0.03
73 33 0.13
74 38 0.15
75 57 0.22
76 8 0.03
77 40 0.16
78 37 0.14
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
AAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTG
Found at i:60669775 original size:233 final size:223
Alignment explanation
Indices: 60669368--60669783 Score: 600
Period size: 233 Copynumber: 1.8 Consensus size: 223
60669358 GGCCCGAGAC
* * *
60669368 TCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAGCTG
1 TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAACTG
* * * *
60669433 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATAAAAATAGAATTTGAAA
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAACAAAACTTGAAA
* *
60669498 ATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAA
131 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAA
60669563 AATTGAAATTACCTCAGTGTCTTGAGGT
196 AATTGAAATTACCTCAGTGTCTTGAGGT
*
60669591 TCAACTCACCTCTCACAATATGAGCTGATT-TTTTTAAAAGACAGAAATTGAAAATACCTCAACA
1 TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAG-CAGAAATTGAAAATACCTCAAC-
** * *
60669655 TGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAACATAAATTAAAAAAAC
64 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT------T---TGAAAAAAAC
60669720 AAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
120 AAAACTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
60669784 GAAAAGCAGA
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
222 9 0.05
223 49 0.29
224 42 0.25
230 1 0.01
233 67 0.40
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (223 bp):
TCAACTCACCTCTCACAATATGAGCTGATTCTTTTGAAAAGCAGAAATTGAAAATACCTCAACTG
TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAACAAAACTTGAAA
ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAA
AATTGAAATTACCTCAGTGTCTTGAGGT
Found at i:60669933 original size:73 final size:73
Alignment explanation
Indices: 60669810--60670051 Score: 367
Period size: 73 Copynumber: 3.3 Consensus size: 73
60669800 AAGGCAAAAA
*
60669810 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
60669875 GTTGATTT
66 GTTGATTT
* * *
60669883 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
60669948 GTTGATTT
66 GTTGATTT
* * * * *
60669956 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
60670021 GTTGATTTT
66 GTTGA-TTT
* *
60670030 TTGAAAAGCATAAATTGAAAAA
1 TTGAAAAACAGAAATT-AAAAA
60670052 ACGAAAATTG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
73 131 0.86
74 19 0.12
75 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:60670150 original size:91 final size:89
Alignment explanation
Indices: 60669967--60670136 Score: 268
Period size: 91 Copynumber: 1.9 Consensus size: 89
60669957 TGAAAAGCAT
* *
60669967 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
60670032 GAAAAGCATAAATTGAAAAAACGA
66 GAAAAGCAGAAATTGAAAAAACGA
60670056 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTT
**
60670121 TTTTAAAGACAGAAAT
64 TTGAAAAG-CAGAAAT
60670137 AAAAACATCA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 22 0.30
91 45 0.62
92 6 0.08
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAAGCAGAAATTGAAAAAACGA
Found at i:60672688 original size:47 final size:47
Alignment explanation
Indices: 60672657--60673038 Score: 656
Period size: 47 Copynumber: 8.1 Consensus size: 47
60672647 CACTTCCACG
**
60672657 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
60672704 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
60672751 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
60672798 TTCATCACATTGGCCGTTCGGCCTTATCACATATTTGCATGTTCACG
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
60672845 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
60672892 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
60672939 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCACGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
60672986 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
60673033 TTCATC
1 TTCATC
60673039 TCATAGAATC
Statistics
Matches: 316, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 316 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:60681269 original size:8 final size:8
Alignment explanation
Indices: 60681235--60681294 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
60681225 TAGTGATGTG
*
60681235 AATAATAA
1 AATATTAA
*
60681243 AGTATATAA
1 AATAT-TAA
60681252 AATA-TAA
1 AATATTAA
60681259 AATATTAA
1 AATATTAA
*
60681267 AATATCAA
1 AATATTAA
60681275 AAT-TTCAA
1 AATATT-AA
*
60681283 AATATTAG
1 AATATTAA
60681291 AATA
1 AATA
60681295 ATAATAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 8 0.19
8 26 0.62
9 8 0.19
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:60681466 original size:20 final size:20
Alignment explanation
Indices: 60681409--60681468 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
60681399 AATACTACAT
60681409 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
60681428 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
60681451 AAATATGTACATAATATA
1 AAATATGTACATAATATA
60681469 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:60681560 original size:25 final size:24
Alignment explanation
Indices: 60681532--60681661 Score: 106
Period size: 23 Copynumber: 5.5 Consensus size: 24
60681522 AGAAAAAAAA
*
60681532 ATATAAATAATATAGTATTAAAGAT
1 ATATACATAATATAGTATT-AAGAT
* *
60681557 ATATACATAAAATAGTA-TAATAT
1 ATATACATAATATAGTATTAAGAT
* * *
60681580 ATATACGTAATATAGAATTTAGA-
1 ATATACATAATATAGTATTAAGAT
* * *
60681603 ATATACCTAATATATTA-AAAGATT
1 ATATACATAATATAGTATTAAGA-T
* * *
60681627 ATATATATAATATAATATTAAGAA
1 ATATACATAATATAGTATTAAGAT
60681651 ATATA-ATAATA
1 ATATACATAATA
60681662 ACAAAAAAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.04
23 38 0.46
24 23 0.28
25 19 0.23
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAGAT
Found at i:60681581 original size:23 final size:25
Alignment explanation
Indices: 60681445--60681661 Score: 96
Period size: 23 Copynumber: 8.9 Consensus size: 25
60681435 TACGTGATAA
* *
60681445 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
60681470 TGTAAAAAATACATACAT-A-ATAG
1 TATTAAAGATATATACATAATATAG
* *
60681493 AATTAAA-ATATATACATAAGATAACATG
1 TATTAAAGATATATACAT-A-AT-ATA-G
** * * *
60681521 TAGAAAAAAAAATATAAATAATATAG
1 TA-TTAAAGATATATACATAATATAG
*
60681547 TATTAAAGATATATACATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
60681572 TA-T-AATATATATACGTAATATAG
1 TATTAAAGATATATACATAATATAG
* * *
60681595 AATT-TAGA-ATATACCTAATATA-
1 TATTAAAGATATATACATAATATAG
* * *
60681617 T-TAAAAGATTATATATATAATATAA
1 TATTAAAGA-TATATACATAATATAG
*
60681642 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
60681662 ACAAAAAAAA
Statistics
Matches: 143, Mismatches: 35, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
22 12 0.08
23 45 0.31
24 22 0.15
25 39 0.27
26 4 0.03
27 4 0.03
28 4 0.03
29 4 0.03
30 8 0.06
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:60681982 original size:16 final size:16
Alignment explanation
Indices: 60681944--60681982 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60681934 ATCTCCAAAA
*
60681944 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
60681960 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
60681976 AATAACT
1 AAAAACT
60681983 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:60682187 original size:30 final size:30
Alignment explanation
Indices: 60682153--60682234 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
60682143 TGGTGGAGTA
* * * *
60682153 TGGCTAGTAGAGTAGGTAGTGGAGTAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
60682183 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
1 TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
60682213 TGGCTAGTGGAGTTGGTGGTGG
1 TGGCTAGTGGAGTTGGTGGTGG
60682235 CAAAGGCTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.18, C:0.05, G:0.49, T:0.28
Consensus pattern (30 bp):
TGGCTAGTGGAGTTGGTGGTGGAGCAAGTG
Found at i:60682224 original size:18 final size:17
Alignment explanation
Indices: 60682169--60682224 Score: 50
Period size: 18 Copynumber: 3.5 Consensus size: 17
60682159 GTAGAGTAGG
60682169 TAGTGGAGTAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
60682187 TAGT-G-G-AGT-TGG-
1 TAGTGGAGAAGTGTGGC
*
60682199 TGGTGGAGCAAGTGTGGC
1 TAGTGGAG-AAGTGTGGC
60682217 TAGTGGAG
1 TAGTGGAG
60682225 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (17 bp):
TAGTGGAGAAGTGTGGC
Found at i:60689544 original size:22 final size:23
Alignment explanation
Indices: 60689460--60689549 Score: 76
Period size: 26 Copynumber: 3.8 Consensus size: 23
60689450 AGACTCACCA
* *
60689460 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACT-CT-T-C
* * *
60689486 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTCTTC
*
60689509 CAGCTCAT-TGGAGCTTAC-CTTC
1 CAGCTCGTAT-GAGCTTACTCTTC
60689531 CAGCTCGTATGAGCTTACT
1 CAGCTCGTATGAGCTTACT
60689550 GTTTAACTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.31
23 17 0.31
24 1 0.02
25 1 0.02
26 18 0.33
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTCTTC
Found at i:60697627 original size:50 final size:50
Alignment explanation
Indices: 60697550--60697791 Score: 304
Period size: 50 Copynumber: 4.8 Consensus size: 50
60697540 GTTGTGAGAA
*
60697550 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
60697600 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
60697651 CACGTGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
60697701 CACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * *
60697751 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
60697792 GAGCTTCGGT
Statistics
Matches: 162, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 122 0.75
51 40 0.25
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:60697738 original size:101 final size:101
Alignment explanation
Indices: 60697554--60697791 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 101
60697544 TGAGAACACA
* * * * *
60697554 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
*
60697619 GCAGGCTACTATGCGTACCCGATAGTTTCGATCACG
66 GCAGGCTACTACGCGTACCCGATAGTTTCGATCACG
* *
60697655 TGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATGGTTAGGTCACGTATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
* * * * ** *
60697720 GCAGGCTACTACGTGTACCAGATTGATAGGTTGCA--
66 GCAGGCTACTACGCGTACCCGATAGTTTCGAT-CACG
* * *
60697755 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGA
60697792 GAGCTTCGGT
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 33 0.28
101 82 0.70
102 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGCCTACTACGTGTACCAGATGGTTAGGTCACATATGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAGTTTCGATCACG
Found at i:60698012 original size:16 final size:16
Alignment explanation
Indices: 60697991--60698022 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60697981 AGAATGGAGT
60697991 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
60698007 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
60698023 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:60700788 original size:26 final size:23
Alignment explanation
Indices: 60700759--60700898 Score: 135
Period size: 23 Copynumber: 6.0 Consensus size: 23
60700749 AGACTCACCA
60700759 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
*
60700785 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
60700808 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
*
60700831 CAGCTCGTATGAGCTTATTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
*
60700853 CAGCTCG-ATAGAGCTTACTATTT
1 CAGCTCGTAT-GAGCTTACTGTTT
* *
60700876 TAGCTC-AATAGAGCTTACTGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
60700899 ATCAACTCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 17 0.17
23 57 0.58
24 2 0.02
25 1 0.01
26 19 0.19
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Done.