Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 224 of 279
Found at i:73355354 original size:93 final size:93
Alignment explanation
Indices: 73355242--73355413 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
73355232 CGCCCATAAG
* *
73355242 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
73355306 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
73355335 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
73355400 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
73355414 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:73355408 original size:46 final size:46
Alignment explanation
Indices: 73355235--73355410 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
73355225 TGTAACCCGC
* *
73355235 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
73355281 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
73355331 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
73355374 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
73355411 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:73362362 original size:46 final size:46
Alignment explanation
Indices: 73362295--73362473 Score: 331
Period size: 46 Copynumber: 3.9 Consensus size: 46
73362285 TTTCCTNTTT
* * *
73362295 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC
1 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
73362341 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
1 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
73362387 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
1 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
73362433 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
73362474 TGCTCAACCA
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC
Found at i:73365308 original size:21 final size:20
Alignment explanation
Indices: 73365270--73365308 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
73365260 CTGTTCTGAC
*
73365270 TTTAAAAATTCATCATAAAT
1 TTTAAAAATTAATCATAAAT
*
73365290 TTTAAAAATATAATTATAA
1 TTTAAAAAT-TAATCATAA
73365309 GTCATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAAAAATTAATCATAAAT
Found at i:73376133 original size:18 final size:19
Alignment explanation
Indices: 73376089--73376139 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
73376079 GTAGCAATGG
*
73376089 CAGTAATCAGTACAGTAAC
1 CAGTAATCAGTGCAGTAAC
* *
73376108 CA-TGATCAATGCAGTAA-
1 CAGTAATCAGTGCAGTAAC
73376125 CAGTAATCAGTGCAG
1 CAGTAATCAGTGCAG
73376140 AATGCAAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (19 bp):
CAGTAATCAGTGCAGTAAC
Found at i:73379588 original size:27 final size:27
Alignment explanation
Indices: 73379550--73379629 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
73379540 TCGGGCAAAT
73379550 CAGTCATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACCTTACAGGGGTATTA
* * *
73379577 CAGTCATTTTACCCTACAGGGATATTT
1 CAGTCATTTTACCTTACAGGGGTATTA
* * *
73379604 CAGTCATTCTACCTTATAAGGGTATT
1 CAGTCATTTTACCTTACAGGGGTATT
73379630 TTGATCATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (27 bp):
CAGTCATTTTACCTTACAGGGGTATTA
Found at i:73379664 original size:27 final size:27
Alignment explanation
Indices: 73379569--73379665 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
73379559 TACCTTACAG
* * * *
73379569 GGGTATTACAGTCATTTTACCCTA-CA
1 GGGTATTTCGGTCATTCTACCCTATAA
* *
73379595 GGGATATTTCAGTCATTCTACCTTATAA
1 GGG-TATTTCGGTCATTCTACCCTATAA
* *
73379623 GGGTATTTTGATCATGT-TACCCTATGAA
1 GGGTATTTCGGTCAT-TCTACCCTAT-AA
73379651 -GGTATTTCGGTCATT
1 GGGTATTTCGGTCATT
73379666 TTATCACATA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.07
27 46 0.81
28 7 0.12
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTCATTCTACCCTATAA
Found at i:73379693 original size:27 final size:27
Alignment explanation
Indices: 73379663--73379760 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
73379653 TATTTCGGTC
* *
73379663 ATTTTATCACATAAGGGAAAAATCGTT
1 ATTTTATCACATAAGGGCAAAATTGTT
* *
73379690 ATTTTATCACGTAAGGGCAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATTGTT
* *
73379717 ATTTTATCACATGAGGGCAAAATTATT
1 ATTTTATCACATAAGGGCAAAATTGTT
*
73379744 ATTTTATCAGATAAGGG
1 ATTTTATCACATAAGGG
73379761 TTCAGGTACG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATTGTT
Found at i:73385095 original size:41 final size:41
Alignment explanation
Indices: 73385063--73385145 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
73385053 AGGATGCATC
*
73385063 ACTGTAGACCACAAACTCTTTCCTAGACTCAAGTAATACTA
1 ACTGTAGACCACAAACTCTTTCCCAGACTCAAGTAATACTA
*
73385104 ACTGTAGACCACAAACTCTTTCCCAGACTCAGGTAATACTA
1 ACTGTAGACCACAAACTCTTTCCCAGACTCAAGTAATACTA
73385145 A
1 A
73385146 AACAGGAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (41 bp):
ACTGTAGACCACAAACTCTTTCCCAGACTCAAGTAATACTA
Found at i:73396839 original size:18 final size:19
Alignment explanation
Indices: 73396808--73396845 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
73396798 AGGCCTTTTT
*
73396808 GGATTTTATTTTTAATTTG
1 GGATTTTATATTTAATTTG
*
73396827 GGATTTTA-ATTTACTTTG
1 GGATTTTATATTTAATTTG
73396845 G
1 G
73396846 TTATAACTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (19 bp):
GGATTTTATATTTAATTTG
Found at i:73397856 original size:36 final size:36
Alignment explanation
Indices: 73397804--73397877 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
73397794 AGAGAAAGAA
*
73397804 GAAATCCATTTAGGGCTCACATATTAGGCACACATT
1 GAAAGCCATTTAGGGCTCACATATTAGGCACACATT
73397840 GAAAGCCATTTAGGGCTCACATATTAGGCACACATT
1 GAAAGCCATTTAGGGCTCACATATTAGGCACACATT
73397876 GA
1 GA
73397878 TCTTTATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (36 bp):
GAAAGCCATTTAGGGCTCACATATTAGGCACACATT
Found at i:73400275 original size:32 final size:32
Alignment explanation
Indices: 73400238--73400358 Score: 154
Period size: 32 Copynumber: 3.8 Consensus size: 32
73400228 ACAGTCTCAA
* * * *
73400238 TTGGGCCTAGCCAATCTCAAAATCACTATTAG
1 TTGGGCCTAGCCCATATCAAAATCAATATCAG
73400270 TTGGG-CTAGCCCATATCAAAATCAATATCAG
1 TTGGGCCTAGCCCATATCAAAATCAATATCAG
* *
73400301 TTGGGCCTAGCCCATATCAGACTCAATATCAG
1 TTGGGCCTAGCCCATATCAAAATCAATATCAG
* * *
73400333 TTGGGCCTAGCGCATTTCAATATCAA
1 TTGGGCCTAGCCCATATCAAAATCAA
73400359 AGCCATATGA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
31 27 0.35
32 50 0.65
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAAAATCAATATCAG
Found at i:73405268 original size:27 final size:26
Alignment explanation
Indices: 73405214--73405301 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
73405204 TTAGTTTACC
* * *
73405214 AAATTACTGAAATACCCCC-AATTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
73405240 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAA-TACCCCCGATTTATA
* * *
73405267 AAATTATCCAAATATCCTCGATTTACA
1 AAATTA-CCAAATACCCCCGATTTATA
73405294 AAATTACC
1 AAATTACC
73405302 GTTTTACCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.06
26 16 0.30
27 29 0.55
28 5 0.09
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTATA
Found at i:73405312 original size:27 final size:27
Alignment explanation
Indices: 73405282--73405553 Score: 341
Period size: 27 Copynumber: 10.1 Consensus size: 27
73405272 ATCCAAATAT
* *
73405282 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * * *
73405309 CCTCAATTTATAGAATTATTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
73405336 CCTCGATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAGAATTACT-GTTTTAC
*
73405363 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * *
73405390 CCTCGATTTACAAAATTATTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
73405417 CCTCGATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAGAATTACT-GTTTTAC
*
73405444 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* * *
73405471 CCTCGATTTACAAAATTATTATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
73405498 CCTCAATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* **
73405525 CCTTGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
73405552 CC
1 CC
73405554 CTAGGGTATT
Statistics
Matches: 212, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 208 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:73405353 original size:81 final size:81
Alignment explanation
Indices: 73405282--73405553 Score: 411
Period size: 81 Copynumber: 3.4 Consensus size: 81
73405272 ATCCAAATAT
* * * * * *
73405282 CCTCGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTATTATTTTACCCTCGATTTAC
1 CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC
*
73405347 AGAATTATCGTTTTAC
66 AAAATTATCGTTTTAC
73405363 CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC
1 CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC
*
73405428 AGAATTATCGTTTTAC
66 AAAATTATCGTTTTAC
*
73405444 CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCAATTTAC
1 CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC
73405509 AAAATTA-CTGTTTTAC
66 AAAATTATC-GTTTTAC
* * **
73405525 CCTTGATTTACAGAATTACCATTTTACCC
1 CCTCGATTGACAGAATTACTGTTTTACCC
73405554 CTAGGGTATT
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 1 0.01
81 177 0.99
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (81 bp):
CCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTAC
AAAATTATCGTTTTAC
Found at i:73406133 original size:6 final size:6
Alignment explanation
Indices: 73406118--73406168 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
73406108 AATCTGTTAC
* * *
73406118 CTGATA CTGATT CTGATT CTAATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
73406167 CT
1 CT
73406169 CATTTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
5 1 0.03
6 32 0.86
7 3 0.08
8 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:73406145 original size:31 final size:31
Alignment explanation
Indices: 73406110--73406168 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
73406100 TAATTTTGAA
*
73406110 TCTGTTACCTGATACTGATTCTGATTCTAAT
1 TCTGTCACCTGATACTGATTCTGATTCTAAT
*
73406141 TCTGTCACCTGATTCTGATTCTGATTCT
1 TCTGTCACCTGATACTGATTCTGATTCT
73406169 CATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (31 bp):
TCTGTCACCTGATACTGATTCTGATTCTAAT
Found at i:73408232 original size:27 final size:27
Alignment explanation
Indices: 73408202--73408365 Score: 202
Period size: 27 Copynumber: 6.1 Consensus size: 27
73408192 ACCCAAATAT
*
73408202 CCTCAATTTACAAAATTACCGTTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
* **
73408229 CCTCAATTTATAGAATTATTGTTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
* *
73408256 CCTCAATTTATAGAATTATCGTTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
* * *
73408283 CCTCGATTGACAGAATTACTGTTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
* * **
73408310 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
*
73408337 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCAATTTACAGAATTACCGTTTTAC
73408364 CC
1 CC
73408366 CTAGGGTGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCTCAATTTACAGAATTACCGTTTTAC
Found at i:73408260 original size:54 final size:54
Alignment explanation
Indices: 73408202--73408365 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
73408192 ACCCAAATAT
* * *
73408202 CCTCAATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTATTGTTTTAC
1 CCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
* * * *
73408256 CCTCAATTTATAGAATTATCGTTTTACCCTCGATTGACAGAATTACTGTTTTAC
1 CCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
* ** *
73408310 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
73408364 CC
1 CC
73408366 CTAGGGTGTT
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
CCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
Found at i:73408267 original size:81 final size:81
Alignment explanation
Indices: 73408181--73408356 Score: 190
Period size: 81 Copynumber: 2.2 Consensus size: 81
73408171 GTACCCCCGG
* * * * *
73408181 TTTATAAAATTACCCAAATATCCTCAATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATT
1 TTTATAGAATTACCCAAATACCCTCAATTGACAAAATTACCGTTTTACCCTCAATTTACAAAATT
* *
73408246 ATTGTTTTACCCTCAA
66 ACTATTTTACCCTCAA
* **** * * * *
73408262 TTTATAGAATTATCGTTTTACCCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAAAATT
1 TTTATAGAATTACCCAAATACCCTCAATTGACAAAATTACCGTTTTACCCTCAATTTACAAAATT
*
73408327 ACTATTTTACCCTCGA
66 ACTATTTTACCCTCAA
*
73408343 TTTACAGAATTACC
1 TTTATAGAATTACC
73408357 GTTTTACCCC
Statistics
Matches: 76, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (81 bp):
TTTATAGAATTACCCAAATACCCTCAATTGACAAAATTACCGTTTTACCCTCAATTTACAAAATT
ACTATTTTACCCTCAA
Found at i:73408646 original size:27 final size:26
Alignment explanation
Indices: 73408602--73408653 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
73408592 CTTGCTGCAA
*
73408602 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
73408629 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
73408654 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:73408901 original size:6 final size:6
Alignment explanation
Indices: 73408870--73408948 Score: 81
Period size: 6 Copynumber: 12.8 Consensus size: 6
73408860 TTGCATTCAC
* *
73408870 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
73408919 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
73408949 CATTTTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
5 3 0.05
6 50 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:73408905 original size:31 final size:31
Alignment explanation
Indices: 73408870--73408948 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
73408860 TTGCATTCAC
* *
73408870 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
73408901 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
73408932 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
73408949 CATTTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:73415712 original size:10 final size:10
Alignment explanation
Indices: 73415699--73415744 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
73415689 AGCTCACTTG
73415699 AGCTCGTTTT
1 AGCTCGTTTT
*
73415709 AGCTCGTTTG
1 AGCTCGTTTT
*
73415719 AGCTCGAATTT
1 AGCTCG-TTTT
*
73415730 AGCTCGTTTC
1 AGCTCGTTTT
73415740 AGCTC
1 AGCTC
73415745 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:73415732 original size:21 final size:20
Alignment explanation
Indices: 73415696--73415744 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
73415686 ATCAGCTCAC
*
73415696 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
73415716 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
73415737 TTCAGCTC
1 TTGAGCTC
73415745 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:73415987 original size:13 final size:13
Alignment explanation
Indices: 73415969--73415993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73415959 AATAGTTGTG
73415969 TGTTATTTAATTA
1 TGTTATTTAATTA
73415982 TGTTATTTAATT
1 TGTTATTTAATT
73415994 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:73417754 original size:51 final size:51
Alignment explanation
Indices: 73417698--73417798 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
73417688 TATCCTTTAA
73417698 TTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTCTTTGCTTATACTTGTGT
1 TTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTCTTTGCTTATACTTGTGT
*
73417749 TTCTTGTTGTTTTCGATTTCTTTCTTTACTTTTCTTTGCTTATACTTGTG
1 TTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTCTTTGCTTATACTTGTG
73417799 CCGATTTCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.08, C:0.17, G:0.12, T:0.63
Consensus pattern (51 bp):
TTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTCTTTGCTTATACTTGTGT
Found at i:73421781 original size:40 final size:39
Alignment explanation
Indices: 73421736--73421878 Score: 205
Period size: 40 Copynumber: 3.6 Consensus size: 39
73421726 CAAGCTCAAT
* * * *
73421736 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
*
73421776 TGCCTTAGGGTCTTAGCCCGGATATATCAACTTGCACAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
*
73421815 TTGTCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 -TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC-AA
73421856 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
73421879 GTATTCAAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAA
Found at i:73430400 original size:11 final size:11
Alignment explanation
Indices: 73430384--73430409 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
73430374 ATTGCATGTA
73430384 TGATATTATTG
1 TGATATTATTG
73430395 TGATATTATTG
1 TGATATTATTG
73430406 TGAT
1 TGAT
73430410 GTGGGCTTCG
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:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:73431890 original size:14 final size:14
Alignment explanation
Indices: 73431867--73431910 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
73431857 ATTCGGCTAC
*
73431867 CAAAAGAAAAATAG
1 CAAAACAAAAATAG
73431881 CAAAACAAAAGAT-G
1 CAAAACAAAA-ATAG
73431895 -AAAACAAAAATAG
1 CAAAACAAAAATAG
73431908 CAA
1 CAA
73431911 GGAAGAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 2 0.08
13 10 0.38
14 12 0.46
15 2 0.08
ACGTcount: A:0.70, C:0.11, G:0.11, T:0.07
Consensus pattern (14 bp):
CAAAACAAAAATAG
Found at i:73438388 original size:51 final size:50
Alignment explanation
Indices: 73438322--73438459 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 50
73438312 TGAGGTCGCA
* *
73438322 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-AAACTGAGATCACG
* * ** *** *
73438373 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
*
73438423 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
73438460 TAGCTTCGGC
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 41 0.57
51 31 0.43
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
Found at i:73452126 original size:29 final size:29
Alignment explanation
Indices: 73452093--73452152 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
73452083 ATAACCAAAC
*
73452093 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
73452122 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
73452151 CT
1 CT
73452153 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:73452145 original size:15 final size:15
Alignment explanation
Indices: 73452099--73452146 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
73452089 AAACCTACAA
*
73452099 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
73452114 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
73452128 AAACTTCATATCCAT
1 AAACTTCATATCCAT
73452143 AAAC
1 AAAC
73452147 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:73453487 original size:30 final size:28
Alignment explanation
Indices: 73453451--73453506 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
73453441 AAGCGAAAAA
* *
73453451 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
73453481 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
73453507 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:73456778 original size:29 final size:29
Alignment explanation
Indices: 73456745--73456802 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
73456735 ATAACCAAAC
*
73456745 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
73456774 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
73456803 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:73456797 original size:15 final size:15
Alignment explanation
Indices: 73456751--73456798 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
73456741 AAACCTACAA
*
73456751 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
73456766 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
73456780 AAACTTCATATCCAT
1 AAACTTCATATCCAT
73456795 AAAC
1 AAAC
73456799 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:73458352 original size:14 final size:14
Alignment explanation
Indices: 73458333--73458377 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
73458323 AACTCATCTT
*
73458333 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
73458347 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
73458360 AATTTAATTTAATG
1 AGTTTAATTTAATG
73458374 AGTT
1 AGTT
73458378 ACTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:73458763 original size:83 final size:83
Alignment explanation
Indices: 73458664--73458830 Score: 298
Period size: 83 Copynumber: 2.0 Consensus size: 83
73458654 TATAAAGGAA
* * *
73458664 GCATTAAGCATCATTAAAAGAGAGTTTAAAGGAGCATTTCATGTCCTTTAAAATCTGGTAGCAAC
1 GCATTAAGCATCATTAAAAGAGAGATTAAAGGAGCATTTCAGGTCCTTTAAAATCTGATAGCAAC
73458729 TTGTTCAAATACCCCAAC
66 TTGTTCAAATACCCCAAC
*
73458747 GCATTAAGCATCATTAAAAGAGAGATTAAAGGGGCATTTCAGGTCCTTTAAAATCTGATAGCAAC
1 GCATTAAGCATCATTAAAAGAGAGATTAAAGGAGCATTTCAGGTCCTTTAAAATCTGATAGCAAC
73458812 TTGTTCAAATACCCCAAC
66 TTGTTCAAATACCCCAAC
73458830 G
1 G
73458831 TTTTTTTTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
GCATTAAGCATCATTAAAAGAGAGATTAAAGGAGCATTTCAGGTCCTTTAAAATCTGATAGCAAC
TTGTTCAAATACCCCAAC
Found at i:73459470 original size:29 final size:29
Alignment explanation
Indices: 73459437--73459496 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
73459427 ATAACCAAAC
*
73459437 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
73459466 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
73459495 CT
1 CT
73459497 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:73459489 original size:15 final size:15
Alignment explanation
Indices: 73459443--73459490 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
73459433 AAACCTACAA
*
73459443 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
73459458 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
73459472 AAACTTCATATCCAT
1 AAACTTCATATCCAT
73459487 AAAC
1 AAAC
73459491 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:73460373 original size:43 final size:43
Alignment explanation
Indices: 73460273--73460443 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
73460263 ATATAGCTCG
* * * * **
73460273 TACAATGCC-ATATCCTAGATATGGTCTTACATGTTGTCACA-
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
* * * * *
73460314 TATCGATGTCACTGTCCCAGACAGGGTCTTACACGTAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
73460357 TA-ATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
* * *
73460401 TACAATGCCAATGTCCTAGGCATGGTCTTACATGTAATCACAT
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
73460444 CTCGGTAACC
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 91 0.88
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
Found at i:73463080 original size:56 final size:55
Alignment explanation
Indices: 73462964--73463081 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
73462954 TGCATGCTTT
* * * *
73462964 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
73463018 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
73463074 CATTAAAT
1 CATTAAAT
73463082 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:73463730 original size:20 final size:20
Alignment explanation
Indices: 73463705--73463759 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
73463695 ACGAGTTAAA
* *
73463705 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
73463725 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
73463745 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
73463760 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:73465438 original size:49 final size:49
Alignment explanation
Indices: 73465377--73465526 Score: 230
Period size: 50 Copynumber: 3.0 Consensus size: 49
73465367 TTTAGTTATT
* *
73465377 TTAGCTTAATTAATTAAGTTGTTTTATTTGTCTTTAGTTTCTTAAATAA
1 TTAGTTTAATTAATTAAGTTGTTTTATTTGTCTTTAGTTGCTTAAATAA
*
73465426 TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
1 TTAGTTTAATTAATTAAGTTG-TTTTATTTGTCTTTAGTTGCTTAAATAA
* *
73465476 TTAGTTTAATTAATTAAGTTTTTTTAATTT-TCTTTAGTTGCTTAACTAA
1 TTAGTTTAATTAATTAAGTTGTTTT-ATTTGTCTTTAGTTGCTTAAATAA
73465525 TT
1 TT
73465527 TTGGCAATTA
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
49 44 0.47
50 49 0.53
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (49 bp):
TTAGTTTAATTAATTAAGTTGTTTTATTTGTCTTTAGTTGCTTAAATAA
Found at i:73465471 original size:50 final size:50
Alignment explanation
Indices: 73465377--73465526 Score: 241
Period size: 49 Copynumber: 3.0 Consensus size: 50
73465367 TTTAGTTATT
* * *
73465377 TTAGCTTAATTAATTAAGTTG-TTTTATTTGTCTTTAGTTTCTTAAATAA
1 TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
73465426 TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
1 TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
* *
73465476 TTAGTTTAATTAATTAAGTT-TTTTTAATTTTCTTTAGTTGCTTAACTAA
1 TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
73465525 TT
1 TT
73465527 TTGGCAATTA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
49 49 0.52
50 46 0.48
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (50 bp):
TTAGTTTAATTAATTAAGTTGTTTTTAATTGTCTTTAGTTGCTTAAATAA
Found at i:73465599 original size:16 final size:18
Alignment explanation
Indices: 73465553--73465600 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
73465543 TCCAGCTTAA
*
73465553 TTAAATTGTTTACAACCAT
1 TTAACTTGTTTA-AACCAT
*
73465572 TTAACTTATTTAAA-CAT
1 TTAACTTGTTTAAACCAT
73465589 TT-ACTTGTTTAA
1 TTAACTTGTTTAA
73465601 TTGTGCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 9 0.35
17 5 0.19
18 2 0.08
19 10 0.38
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (18 bp):
TTAACTTGTTTAAACCAT
Found at i:73467079 original size:36 final size:36
Alignment explanation
Indices: 73467032--73467119 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 36
73467022 GATTGAGCGG
*
73467032 AAAAGGCAAGAGAGTGGTGAGTCTATTCAAGTGAAC
1 AAAAGCCAAGAGAGTGGTGAGTCTATTCAAGTGAAC
73467068 AAAAGCCAAGAGAGTGGTGAGTCTATTCAAGTGAAC
1 AAAAGCCAAGAGAGTGGTGAGTCTATTCAAGTGAAC
*
73467104 AAAAGCCAAGTGAGTG
1 AAAAGCCAAGAGAGTG
73467120 AATTTTCTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.18
Consensus pattern (36 bp):
AAAAGCCAAGAGAGTGGTGAGTCTATTCAAGTGAAC
Found at i:73467776 original size:18 final size:16
Alignment explanation
Indices: 73467755--73467820 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 16
73467745 AAAAGAGAAA
73467755 GAAAAAGAAAAAGAATGT
1 GAAAAAGAAAAA-AAT-T
73467773 GAAAAAGAAAAGAAAATT
1 GAAAAAG-AAA-AAAATT
73467791 GAAAAAGCAAAAAAGATT
1 GAAAAAG-AAAAAA-ATT
73467809 GAAGAAAGAAAA
1 GAA-AAAGAAAA
73467821 GAAAGAGTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 3 0.07
18 28 0.65
19 10 0.23
20 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (16 bp):
GAAAAAGAAAAAAATT
Found at i:73468968 original size:55 final size:55
Alignment explanation
Indices: 73468897--73469025 Score: 186
Period size: 55 Copynumber: 2.3 Consensus size: 55
73468887 ATGCCCTTAG
* * *
73468897 CCCGTGTGCAACACTGACTTCAACACACGGCCATGGCACACGCCTGTGTGACCTT
1 CCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACCTA
* * * * *
73468952 CCCGTGTACGATACTGACTTTAAGACACGGCCATGGCACACGCCCGTGTGGCCTA
1 CCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACCTA
73469007 CCCGTGTACAACACTGACT
1 CCCGTGTACAACACTGACT
73469026 AAAAATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.20
Consensus pattern (55 bp):
CCCGTGTACAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACCTA
Found at i:73470002 original size:47 final size:47
Alignment explanation
Indices: 73469790--73470203 Score: 312
Period size: 47 Copynumber: 8.8 Consensus size: 47
73469780 ATAAGTTTTT
* * *
73469790 GATGCCATGTCCCAGACATGGTCCTACACTGGCTA-GCATCATCGAAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCATCGAGGCC
* * * * * * *
73469839 AATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATATATAC-ATGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CAT-CGAGGCC
* * * * *
73469889 GATGCATGTCCTAGACACGTCTTACACTAGCA--CAAC-TCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATC-GAGGCC
* * * *
73469933 GATGCGTGTCCCAGACACGTCTTACACTAGCTA-TCATCATCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGAGGCC
* * **
73469980 GATGCATGTCCCAGACATGTCTTACATTGGCACTCATC-TCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCC
* * *
73470026 GATGCCATGTCCCAGACATGGTCTTATACTGGTACTCATAAT--ATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGA-GGCC
* * *
73470074 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATC-TCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCC
* * * *
73470120 AATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAGGCC
*
73470168 GATGTATGTCCCAGACATGTCTTACACTGGCACTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA
73470204 AGAAATCCAA
Statistics
Matches: 295, Mismatches: 51, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 32 0.11
45 3 0.01
46 55 0.19
47 91 0.31
48 58 0.20
49 46 0.16
50 8 0.03
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCC
Found at i:73470081 original size:94 final size:95
Alignment explanation
Indices: 73469790--73470203 Score: 440
Period size: 94 Copynumber: 4.4 Consensus size: 95
73469780 ATAAGTTTTT
* ** *
73469790 GATGCCATGTCCCAGACATGGTCCTACACTGGCTAGCATCATC-GAAGCCAATGCCATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-A-C-TCATCTCTAGCCGATGCCATGTCCCAG
*
73469854 ACATGGTCTTATACTAGCT-CTCATATATACAT-GCT
61 ACATGGTCTTATACTAGCTACTCATA-AT-CATGGCC
* * * * *
73469889 GATGCATGTCCTAGACACGTCTTACACTAGCA--CAACTCTTAGCCGATG-CGTGTCCCAGACA-
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC-TAGCCGATGCCATGTCCCAGACAT
* * * *
73469950 CGTCTTACACTAGCTA-TCATCATCGA-GGCT
65 GGTCTTATACTAGCTACTCATAATC-ATGGCC
* *
73469980 GATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTACACCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTA-GCCGATGCCATGTCCCAGACAT
*
73470045 GGTCTTATACT-GGTACTCATAAT-ATGGCC
65 GGTCTTATACTAGCTACTCATAATCATGGCC
* *
73470074 GATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTATGCCAATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTA-GCCGATGCCATGTCCCAGACAT
* *
73470139 GGTCTTATACTGGC-ACTCATAAT-GTGGCC
65 GGTCTTATACTAGCTACTCATAATCATGGCC
*
73470168 GATGTATGTCCCAGACATGTCTTACACTGGCACTCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA
73470204 AGAAATCCAA
Statistics
Matches: 269, Mismatches: 33, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
90 1 0.00
91 34 0.13
92 22 0.08
93 24 0.09
94 144 0.54
95 16 0.06
96 1 0.00
97 11 0.04
98 12 0.04
99 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAGCCGATGCCATGTCCCAGACATG
GTCTTATACTAGCTACTCATAATCATGGCC
Found at i:73470184 original size:141 final size:139
Alignment explanation
Indices: 73469790--73470204 Score: 401
Period size: 141 Copynumber: 2.9 Consensus size: 139
73469780 ATAAGTTTTT
* *
73469790 GATGCCATGTCCCAGACATGGTCCTACACTGGCTAGCATCATCGAAGCCAATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAAGCCAATGCCATGTCCCAGA
* * * * * *
73469855 CATGGTCTTATACTAGCTCTCATATATACATGCTGATGCATGTCCTAGACACGTCTTACACTAG-
64 CATGGTCTTATACTGGCACTCATA-AT--ATGCCGATGCATGTCCCAGACATGTCTTACACTGGA
* * *
73469919 CACAACTCTTAGCC
126 CTCAAATCATAGCC
* * * * **
73469933 GATGCGTGTCCCAGACACGTCTTACACTAGCTATCATCATCGAGGCTGATG-CATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAAGCCAATGCCATGTCCCAGACA
* * ** ** *
73469997 T-GTCTTACATTGGCACTCATCTCTACACCGATGCCATGTCCCAGACATGGTCTTATACTGGTAC
66 TGGTCTTATACTGGCACTCAT-AATATGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-AC
*
73470061 TCATAAT-ATGGCC
127 TCA-AATCATAGCC
* * *
73470074 GATGCATGTCCCAAACATGTCTTACACTGGC-ACTCATC-TCTATGCCAATGCCATGTCCCAGAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAAGCCAATGCCATGTCCCAGAC
* *
73470137 ATGGTCTTATACTGGCACTCATAATGTGGCCGATGTATGTCCCAGACATGTCTTACACTGGCACT
65 ATGGTCTTATACTGGCACTCATAATAT-GCCGATGCATGTCCCAGACATGTCTTACACTGG-ACT
73470202 CAA
128 CAA
73470205 GAAATCCAAT
Statistics
Matches: 219, Mismatches: 43, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
137 6 0.03
138 12 0.05
139 27 0.12
140 39 0.18
141 94 0.43
142 37 0.17
143 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (139 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAAGCCAATGCCATGTCCCAGACA
TGGTCTTATACTGGCACTCATAATATGCCGATGCATGTCCCAGACATGTCTTACACTGGACTCAA
ATCATAGCC
Found at i:73473343 original size:19 final size:20
Alignment explanation
Indices: 73473321--73473367 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
73473311 AGCTCCGTCC
73473321 AGCTCAATTCA-CTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
73473340 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
73473360 AGCTCAAT
1 AGCTCAAT
73473368 CGCGCTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:73473347 original size:10 final size:10
Alignment explanation
Indices: 73473332--73473365 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
73473322 GCTCAATTCA
73473332 CTCATTTGAG
1 CTCATTTGAG
*
73473342 CTCATTTCAG
1 CTCATTTGAG
*
73473352 CTCGTTTGAG
1 CTCATTTGAG
73473362 CTCA
1 CTCA
73473366 ATCGCGCTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (10 bp):
CTCATTTGAG
Found at i:73477235 original size:10 final size:10
Alignment explanation
Indices: 73477220--73477318 Score: 64
Period size: 10 Copynumber: 9.8 Consensus size: 10
73477210 AGTAAGTTTT
73477220 AAAAAAATCA
1 AAAAAAATCA
73477230 AAAAAAA--A
1 AAAAAAATCA
73477238 AATTTAAAAA-CAA
1 AA---AAAAATC-A
*
73477251 AAAAAAAT-G
1 AAAAAAATCA
73477260 AAAAAAA-CGA
1 AAAAAAATC-A
*
73477270 AAAAAATTCA
1 AAAAAAATCA
*
73477280 AAAAAATTCA
1 AAAAAAATCA
*
73477290 AAAAAATTCA
1 AAAAAAATCA
*
73477300 AAAAAAATTGA
1 AAAAAAA-TCA
73477311 AAAAAAAT
1 AAAAAAAT
73477319 TTGAACATTG
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
8 3 0.04
9 7 0.09
10 46 0.62
11 15 0.20
13 3 0.04
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:73477263 original size:17 final size:18
Alignment explanation
Indices: 73477231--73477283 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
73477221 AAAAAATCAA
*
73477231 AAAAAAAAATTTAAAAAC
1 AAAAAAAAATTGAAAAAC
73477249 AAAAAAAAA-TGAAAAA-
1 AAAAAAAAATTGAAAAAC
*
73477265 AACGAAAAAAATTCAAAAA
1 AA--AAAAAAATTGAAAAA
73477284 AATTCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 2 0.07
17 6 0.20
18 16 0.53
19 6 0.20
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (18 bp):
AAAAAAAAATTGAAAAAC
Found at i:73477296 original size:20 final size:21
Alignment explanation
Indices: 73477248--73477319 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 21
73477238 AATTTAAAAA
* *
73477248 CAAAAAAAAATGAAAAAAA--
1 CAAAAAAAATTCAAAAAAATT
*
73477267 CGAAAAAAATTCAAAAAAATT
1 CAAAAAAAATTCAAAAAAATT
73477288 C-AAAAAAATTCAAAAAAAATT
1 CAAAAAAAATTC-AAAAAAATT
*
73477309 GAAAAAAAATT
1 CAAAAAAAATT
73477320 TGAACATTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 16 0.36
20 10 0.22
21 10 0.22
22 9 0.20
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (21 bp):
CAAAAAAAATTCAAAAAAATT
Found at i:73477313 original size:9 final size:10
Alignment explanation
Indices: 73477269--73477316 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
73477259 GAAAAAAACG
73477269 AAAAAAATTC
1 AAAAAAATTC
73477279 AAAAAAATTC
1 AAAAAAATTC
73477289 AAAAAAATTC
1 AAAAAAATTC
*
73477299 AAAAAAAATTG
1 -AAAAAAATTC
73477310 AAAAAAA
1 AAAAAAA
73477317 ATTTGAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:73483104 original size:27 final size:26
Alignment explanation
Indices: 73483059--73483112 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
73483049 TTAATATATG
* * *
73483059 TTTAATGTGTTTAGCTTAGGACATAAT
1 TTTAATGTGTCTAACTTAGAACA-AAT
*
73483086 TTTAATGTGTCTAATTTAGAACAAAT
1 TTTAATGTGTCTAACTTAGAACAAAT
73483112 T
1 T
73483113 AATTAGCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTAATGTGTCTAACTTAGAACAAAT
Found at i:73484354 original size:11 final size:10
Alignment explanation
Indices: 73484337--73484365 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
73484327 TGAATATTAG
73484337 CAAAAAAATT
1 CAAAAAAATT
73484347 CAAAAAAATT
1 CAAAAAAATT
73484357 CAAAAAAAT
1 CAAAAAAAT
73484366 ATTTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
CAAAAAAATT
Found at i:73486458 original size:14 final size:14
Alignment explanation
Indices: 73486435--73486477 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
73486425 GTGGAGAGAT
73486435 CAAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
*
73486449 CAAAATAAAAAGAATG
1 CAAAAGAAAAAG-A-G
73486465 -AAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
73486478 TAGAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 11 0.44
16 1 0.04
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (14 bp):
CAAAAGAAAAAGAG
Found at i:73493574 original size:15 final size:15
Alignment explanation
Indices: 73493554--73493601 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
73493544 TCAAAGATGG
73493554 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
73493569 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
73493583 GTTTATGGATATAAA
1 GTTTATGGATATGAA
73493598 GTTT
1 GTTT
73493602 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:73493588 original size:14 final size:14
Alignment explanation
Indices: 73493548--73493591 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
73493538 AAGGATTCAA
73493548 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
73493562 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
73493577 AGATGGGTTTATGG
1 AGATGGGTTTATGG
73493591 A
1 A
73493592 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:73493617 original size:29 final size:29
Alignment explanation
Indices: 73493548--73493607 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
73493538 AAGGATTCAA
*
73493548 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
73493577 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
73493606 AG
1 AG
73493608 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:73494626 original size:14 final size:14
Alignment explanation
Indices: 73494584--73494628 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
73494574 TTAAAGAAGT
73494584 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
73494598 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
73494611 AACTCATTTAATTA
1 AACTCATTAAATTA
73494625 AACT
1 AACT
73494629 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:73495696 original size:6 final size:6
Alignment explanation
Indices: 73495685--73495759 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
73495675 GCTTCGTACC
* * *
73495685 CACTCT CACTCT CACTCT CATTCT CGCTCT CGCTCT CACTCT CACTCT
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
*
73495733 CACTCT CACTCT CTCTCT CACTCT CAC
1 CACTCT CACTCT CACTCT CACTCT CAC
73495760 ATGTGAAACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.13, C:0.49, G:0.03, T:0.35
Consensus pattern (6 bp):
CACTCT
Found at i:73501890 original size:15 final size:16
Alignment explanation
Indices: 73501872--73501905 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
73501862 TAAAGTACGA
73501872 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
73501887 AAA-TTCACACATAAT
1 AAATTTCACACATAAT
73501902 AAAT
1 AAAT
73501906 ATAGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:73503602 original size:13 final size:13
Alignment explanation
Indices: 73503584--73503612 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
73503574 CGGCTAACCT
73503584 ACATAATTAAATA
1 ACATAATTAAATA
73503597 ACATAATTAAATA
1 ACATAATTAAATA
73503610 ACA
1 ACA
73503613 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:73503860 original size:21 final size:21
Alignment explanation
Indices: 73503836--73503875 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
73503826 GAAAAAGGAA
*
73503836 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
73503857 TGAGCTCAAACGAGCTAAA
1 TGAGCTCAAACGAGCTAAA
73503876 ACGAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:73506805 original size:28 final size:28
Alignment explanation
Indices: 73506769--73506877 Score: 130
Period size: 28 Copynumber: 3.9 Consensus size: 28
73506759 CTGCCAGAAT
* * *
73506769 AGAT-ATTGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGAAAC
* *
73506796 AGATAATTGTGGCAGGGCCACTAGAAAC
1 AGATAATTGTGGCAGAGCCACCAGAAAC
* *
73506824 AAATATTTGTGGCAGAGCCACCAGAAAC
1 AGATAATTGTGGCAGAGCCACCAGAAAC
* *
73506852 AGATATTTGTGCCAGAGCCACCAGAA
1 AGATAATTGTGGCAGAGCCACCAGAA
73506878 CGCTTCCTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
27 4 0.06
28 66 0.94
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGAAAC
Found at i:73507975 original size:17 final size:17
Alignment explanation
Indices: 73507953--73507985 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
73507943 TCGGCTATGG
73507953 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
73507970 AGAAAAGAAAAGATGA
1 AGAAAAGAAAAGATGA
73507986 GAAGGGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:73508557 original size:28 final size:28
Alignment explanation
Indices: 73508526--73508580 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
73508516 CCATCTTTAA
* *
73508526 TTTAAAAGCCCTCAACGTCGGTACTCTG
1 TTTAAAAGCCCTCAACGCCAGTACTCTG
73508554 TTTAAAAGCCCTCAACGCCAGTACTCT
1 TTTAAAAGCCCTCAACGCCAGTACTCT
73508581 CCCTTCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
TTTAAAAGCCCTCAACGCCAGTACTCTG
Found at i:73512279 original size:46 final size:45
Alignment explanation
Indices: 73512229--73512400 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 45
73512219 TTGAGCATCT
*
73512229 GAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGATC
* *
73512275 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATG-TAACTAGCCATC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T-G--ATC
* * * * **
73512321 TGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATACGAACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGATC
* *
73512368 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTAGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
73512401 GGCGGGTTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 56 0.54
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGATC
Found at i:73512383 original size:93 final size:93
Alignment explanation
Indices: 73512224--73512394 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
73512214 GATGGTTGAG
* * **
73512224 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGTT
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCGTTGAGTT
*
73512289 GAGTCCGAGTTCATGAGATGTAACTAGC
66 GAGTCCAAGTTCATGAGATGTAACTAGC
* * * *
73512317 CATCTGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGTT
1 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCGTTGAGTT
73512382 GAGTCCAAGTTCA
66 GAGTCCAAGTTCA
73512395 CTTAGGGGCG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCGTTGAGTT
GAGTCCAAGTTCATGAGATGTAACTAGC
Found at i:73525717 original size:93 final size:93
Alignment explanation
Indices: 73525558--73525728 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
73525548 GGATGGTTCA
* * ** *
73525558 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCATTGAGT
73525623 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
73525651 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATATGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCATTGAGT
*
73525716 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
73525729 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATACGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73530865 original size:28 final size:28
Alignment explanation
Indices: 73530822--73530937 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
73530812 AGCATGGCTG
*
73530822 CCAG-AACAGAT-ATTGTGACAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* * *
73530848 CCAGATATAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
73530876 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
*
73530904 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
73530932 CCAGAA
1 CCAGAA
73530938 CGCATCCTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.05
27 5 0.06
28 69 0.88
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:73532034 original size:17 final size:17
Alignment explanation
Indices: 73532012--73532044 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
73532002 TCGGCTATGG
73532012 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
73532029 AGAAAAGAAAAGATGA
1 AGAAAAGAAAAGATGA
73532045 GAAGGGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:73537693 original size:15 final size:15
Alignment explanation
Indices: 73537653--73537697 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
73537643 AAGAAAACCG
*
73537653 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
*
73537668 GATAGAA-AAACCCAA
1 AATA-AAGAAACCCAA
73537683 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
73537698 GATACGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.64, C:0.18, G:0.09, T:0.09
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:73539941 original size:21 final size:21
Alignment explanation
Indices: 73539915--73539977 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
73539905 TTGGTATTTG
73539915 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
73539936 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
73539957 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
73539978 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:73542452 original size:50 final size:49
Alignment explanation
Indices: 73542334--73542468 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 49
73542324 AAGGTTATTT
* *
73542334 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCTACCAATTATCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGATACCAATTATCC
* * * *
73542383 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAT-CGAAGTT-TCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA--TGATACCAA-TTATCC
73542433 GGTACGCATAGTAGCCTGCACTTAGTACTACACATG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATG
73542469 CGACCTCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
48 2 0.03
49 31 0.41
50 37 0.49
51 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGATACCAATTATCC
Found at i:73552651 original size:11 final size:11
Alignment explanation
Indices: 73552628--73552666 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
73552618 TTGTAGATTC
73552628 AAAAAAAAT--
1 AAAAAAAATCG
73552637 AAAAAAAATCG
1 AAAAAAAATCG
73552648 AAAAAAAAATCG
1 -AAAAAAAATCG
73552660 AAAAAAA
1 AAAAAAA
73552667 TATTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:73552652 original size:12 final size:12
Alignment explanation
Indices: 73552637--73552666 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
73552627 CAAAAAAAAT
73552637 AAAAAAAATCGA
1 AAAAAAAATCGA
73552649 AAAAAAAATCGA
1 AAAAAAAATCGA
73552661 AAAAAA
1 AAAAAA
73552667 TATTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:73553982 original size:33 final size:33
Alignment explanation
Indices: 73553939--73554004 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
73553929 CGTTCCGTTC
73553939 TTTCCATAATACTTCTTCTACGACTAAGTGGGG
1 TTTCCATAATACTTCTTCTACGACTAAGTGGGG
*
73553972 TTTCCCTAATACTTCTTCTACGACTAAGTGGGG
1 TTTCCATAATACTTCTTCTACGACTAAGTGGGG
73554005 GCAAGGGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (33 bp):
TTTCCATAATACTTCTTCTACGACTAAGTGGGG
Found at i:73561774 original size:14 final size:15
Alignment explanation
Indices: 73561757--73561785 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
73561747 GCACAAAAAT
73561757 TTCACACAT-ATAAA
1 TTCACACATAATAAA
73561771 TTCACACATAATAAA
1 TTCACACATAATAAA
73561786 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:73561919 original size:41 final size:41
Alignment explanation
Indices: 73561860--73561941 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
73561850 ATAGGATCTA
73561860 AATCGGGTTGTTAAATTAGAGCTACAGTTGATGATGATCCC
1 AATCGGGTTGTTAAATTAGAGCTACAGTTGATGATGATCCC
*
73561901 AATCGGGTTGTTACATTAGAGCTACAGTTGATGATGATCCC
1 AATCGGGTTGTTAAATTAGAGCTACAGTTGATGATGATCCC
73561942 GAGAGAGCCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
AATCGGGTTGTTAAATTAGAGCTACAGTTGATGATGATCCC
Found at i:73563112 original size:16 final size:18
Alignment explanation
Indices: 73563081--73563113 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
73563071 AATTACTATT
73563081 TTTTGATTGATTTGATGC
1 TTTTGATTGATTTGATGC
73563099 TTTT-ATTG-TTTGATG
1 TTTTGATTGATTTGATG
73563114 AATACGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.15, C:0.03, G:0.21, T:0.61
Consensus pattern (18 bp):
TTTTGATTGATTTGATGC
Found at i:73564393 original size:20 final size:20
Alignment explanation
Indices: 73564347--73564384 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73564337 AGCTCGTTTC
*
73564347 CAGCTAACTCAAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
*
73564367 CAACTCACTCAAGCTCAA
1 CAGCTCACTCAAGCTCAA
73564385 TTTAGCTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.34, G:0.11, T:0.18
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:73566541 original size:20 final size:21
Alignment explanation
Indices: 73566505--73566546 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
73566495 ATAAGCTCAC
*
73566505 TTGAGTTTGTTTCAAC-TCTT
1 TTGAGCTTGTTTCAACTTCTT
73566525 TTGAGCTTGATTT-AACTTCTT
1 TTGAGCTTG-TTTCAACTTCTT
73566546 T
1 T
73566547 CCAGCTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (21 bp):
TTGAGCTTGTTTCAACTTCTT
Found at i:73566950 original size:22 final size:22
Alignment explanation
Indices: 73566925--73566966 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
73566915 GAAGATTAAT
73566925 TACATACA-TTTGGATTGGAAGA
1 TACATACACTTTGGA-TGGAAGA
*
73566947 TACATCCACTTTGGATGGAA
1 TACATACACTTTGGATGGAA
73566967 CACATGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (22 bp):
TACATACACTTTGGATGGAAGA
Found at i:73573264 original size:30 final size:30
Alignment explanation
Indices: 73573230--73573326 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
73573220 AGCTCACTCC
73573230 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
73573260 TAGCTCAACTTCAGCTTAAGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* **
73573290 CAGCTCAACTTTAGCTCACGAGCTAAAATT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
73573320 TAGCTCA
1 TAGCTCA
73573327 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:73577101 original size:27 final size:27
Alignment explanation
Indices: 73577071--73577248 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
73577061 ATATTGAGTC
* * * *
73577071 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
73577098 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73577125 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
73577153 CGCATACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
73577180 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
73577207 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
73577234 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73577249 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:73577217 original size:82 final size:81
Alignment explanation
Indices: 73577092--73577247 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
73577082 TGCTATATAA
*
73577092 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
*
73577157 TACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
73577174 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
73577238 CACTTAGTGC
65 CACTTAGTGC
73577248 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:73584137 original size:20 final size:20
Alignment explanation
Indices: 73584114--73584167 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
73584104 AGTTTTTCCC
*
73584114 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
73584134 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
73584154 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
73584168 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:73584149 original size:30 final size:30
Alignment explanation
Indices: 73584114--73584187 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
73584104 AGTTTTTCCC
73584114 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
73584144 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
73584174 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
73584188 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:73584177 original size:20 final size:20
Alignment explanation
Indices: 73584114--73584178 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
73584104 AGTTTTTCCC
* * * *
73584114 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
73584134 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
73584153 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
73584174 AGCTC
1 AGCTC
73584179 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:73586401 original size:57 final size:56
Alignment explanation
Indices: 73586335--73586456 Score: 131
Period size: 57 Copynumber: 2.2 Consensus size: 56
73586325 AAGTCTACAT
* * *
73586335 ACATGCATATGGCCCACTAGG-CCCAACCTA-ATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATCGCCCA-TAGGCCCCAA-CTACATTCATATGGCCCATT-GACCCAAATC
* * * * *
73586392 ATATTCATATCGCCCATCGGCCCCAATTACATTCATATGGCCTATTGACCCCAATC
1 ACATTCATATCGCCCATAGGCCCCAACTACATTCATATGGCCCATTGACCCAAATC
73586448 ACATTCATA
1 ACATTCATA
73586457 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
56 21 0.39
57 33 0.61
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (56 bp):
ACATTCATATCGCCCATAGGCCCCAACTACATTCATATGGCCCATTGACCCAAATC
Found at i:73586413 original size:28 final size:28
Alignment explanation
Indices: 73586335--73586456 Score: 113
Period size: 28 Copynumber: 4.3 Consensus size: 28
73586325 AAGTCTACAT
* *
73586335 ACATGCATATGGCCCACTAGG-CCCAACC
1 ACATTCATATGGCCCA-TAGGCCCCAATC
*
73586363 TA-ATTCATATGGCCCATTAGGCCCAAATC
1 -ACATTCATATGGCCCA-TAGGCCCCAATC
* * * *
73586392 ATATTCATATCGCCCATCGGCCCCAATT
1 ACATTCATATGGCCCATAGGCCCCAATC
* * *
73586420 ACATTCATATGGCCTATTGACCCCAATC
1 ACATTCATATGGCCCATAGGCCCCAATC
73586448 ACATTCATA
1 ACATTCATA
73586457 GTCATGCAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 58 0.75
29 19 0.25
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATAGGCCCCAATC
Found at i:73586674 original size:16 final size:16
Alignment explanation
Indices: 73586653--73586685 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
73586643 CAAACTTTTG
73586653 GCTTTTCGACATTTCA
1 GCTTTTCGACATTTCA
*
73586669 GCTTTTCGGCATTTCA
1 GCTTTTCGACATTTCA
73586685 G
1 G
73586686 GATTTTGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (16 bp):
GCTTTTCGACATTTCA
Found at i:73590810 original size:19 final size:20
Alignment explanation
Indices: 73590784--73590828 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
73590774 TATGGACCAC
*
73590784 TAGGCCCAATCTCATTCATA
1 TAGGCCCAATCACATTCATA
*
73590804 T-GGCCCATTCACATTCATA
1 TAGGCCCAATCACATTCATA
73590823 TAGGCC
1 TAGGCC
73590829 ATCGGCCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (20 bp):
TAGGCCCAATCACATTCATA
Found at i:73591625 original size:30 final size:30
Alignment explanation
Indices: 73591591--73591687 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
73591581 TAAACTAAAA
73591591 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
73591621 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
73591651 TGAGCTAAGGTTTAGCTCGTGAGGTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
73591681 TGAGCTA
1 TGAGCTA
73591688 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:73593118 original size:30 final size:30
Alignment explanation
Indices: 73593052--73593120 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
73593042 TTTGTTTCAA
*
73593052 TTTCTTTTTCACTCTCAAATTTCTTTTCGT
1 TTTCTTTTTCAATCTCAAATTTCTTTTCGT
* * *
73593082 TCTCTTTTTCAATCTC-ATTTTCTTTTTCTT
1 TTTCTTTTTCAATCTCAAATTTC-TTTTCGT
73593112 TTTCTTTTT
1 TTTCTTTTT
73593121 GCTTTTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.10, C:0.22, G:0.01, T:0.67
Consensus pattern (30 bp):
TTTCTTTTTCAATCTCAAATTTCTTTTCGT
Found at i:73593199 original size:5 final size:5
Alignment explanation
Indices: 73593189--73593245 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
73593179 CTCTTGCCTC
*
73593189 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
73593236 TCTTT TCTTT
1 TCTTT TCTTT
73593246 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:73593229 original size:15 final size:14
Alignment explanation
Indices: 73593189--73593245 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
73593179 CTCTTGCCTC
*
73593189 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
73593204 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
73593219 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
73593236 TCTTTTCTTT
1 TCTTTTCTTT
73593246 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:73593246 original size:21 final size:21
Alignment explanation
Indices: 73593189--73593256 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
73593179 CTCTTGCCTC
* *
73593189 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
73593210 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
73593231 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
73593251 CTCTTT
1 -TCTTT
73593257 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:73597600 original size:20 final size:20
Alignment explanation
Indices: 73597577--73597629 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
73597567 GCTCCGTCCG
73597577 GCTCAACTCAGCTCATTTGA
1 GCTCAACTCAGCTCATTTGA
*** *
73597597 GCTCGTTTCAGCTCGTTTGA
1 GCTCAACTCAGCTCATTTGA
*
73597617 GCTCAACTGAGCT
1 GCTCAACTCAGCT
73597630 TACTTTCAGC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (20 bp):
GCTCAACTCAGCTCATTTGA
Found at i:73603049 original size:15 final size:15
Alignment explanation
Indices: 73603029--73603076 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
73603019 TCAAAGATGG
73603029 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
73603044 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
73603058 GTTTATGGATATAAA
1 GTTTATGGATATGAA
73603073 GTTT
1 GTTT
73603077 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:73603063 original size:14 final size:14
Alignment explanation
Indices: 73603023--73603066 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
73603013 AAGGATTCAA
73603023 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
73603037 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
73603052 AGATGGGTTTATGG
1 AGATGGGTTTATGG
73603066 A
1 A
73603067 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:73603092 original size:29 final size:29
Alignment explanation
Indices: 73603023--73603082 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
73603013 AAGGATTCAA
*
73603023 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
73603052 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
73603081 AG
1 AG
73603083 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:73605087 original size:27 final size:26
Alignment explanation
Indices: 73605047--73605158 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
73605037 AGGAAGCGTC
*
73605047 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
73605074 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
73605101 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
73605129 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
73605155 CTGG
1 CTGG
73605159 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:73605151 original size:54 final size:54
Alignment explanation
Indices: 73605050--73605156 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
73605040 AAGCGTCCTG
*
73605050 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
* * *
73605104 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
73605157 GGCAGCCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
Found at i:73612750 original size:27 final size:26
Alignment explanation
Indices: 73612710--73612821 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
73612700 AGGAAGTGTC
*
73612710 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
73612737 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
73612764 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
73612792 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
73612818 CTGG
1 CTGG
73612822 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:73612814 original size:54 final size:54
Alignment explanation
Indices: 73612710--73612821 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
73612700 AGGAAGTGTC
*
73612710 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
73612764 CTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATATCTGTT
73612818 CTGG
1 CTGG
73612822 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:73619200 original size:9 final size:9
Alignment explanation
Indices: 73619186--73619223 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
73619176 AATTTTAAAG
73619186 AGAATGAAA
1 AGAATGAAA
73619195 AGAATGAAA
1 AGAATGAAA
*
73619204 AGAAAGAAA
1 AGAATGAAA
*
73619213 AGAGTGAAA
1 AGAATGAAA
73619222 AG
1 AG
73619224 GTGTGCGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (9 bp):
AGAATGAAA
Found at i:73625796 original size:20 final size:19
Alignment explanation
Indices: 73625760--73625808 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
73625750 TAACTTATTC
*
73625760 CTAGCTCATCCAACTCACAA
1 CTAGCTCA-ACAACTCACAA
*
73625780 CTAGCTCAACAAGCTCACAT
1 CTAGCTCAACAA-CTCACAA
*
73625800 CTAACTCAA
1 CTAGCTCAA
73625809 TTCCAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.37, C:0.37, G:0.06, T:0.20
Consensus pattern (19 bp):
CTAGCTCAACAACTCACAA
Found at i:73628535 original size:43 final size:43
Alignment explanation
Indices: 73628474--73628565 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
73628464 CTCACTCCGG
* *
73628474 AACAAGTCCATGAGGACCAAATCAAATTGAAAAATTCTGTTAA
1 AACAAGTCCATGAGGACCAAATCAAACTAAAAAATTCTGTTAA
73628517 AACAAGTCCATGAGGACCAAATCAAACTAAAAAATTCTGTTAA
1 AACAAGTCCATGAGGACCAAATCAAACTAAAAAATTCTGTTAA
73628560 AA-AAGT
1 AACAAGT
73628566 GAGGAAAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (43 bp):
AACAAGTCCATGAGGACCAAATCAAACTAAAAAATTCTGTTAA
Found at i:73635755 original size:13 final size:14
Alignment explanation
Indices: 73635722--73635765 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
73635712 TTAAAGAAGC
73635722 AACTCATTAAATTA
1 AACTCATTAAATTA
*
73635736 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
73635749 AACTCATTTAATTA
1 AACTCATTAAATTA
73635763 AAC
1 AAC
73635766 CAAGATGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:73635799 original size:70 final size:70
Alignment explanation
Indices: 73635719--73635938 Score: 215
Period size: 70 Copynumber: 3.2 Consensus size: 70
73635709 TAATTAAAGA
*
73635719 AGCAACTCATTAAATTAAATTCATTAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAA
1 AGCAACTCATTAAATTAAATTCATAAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAA
73635784 TGACC
66 TGACC
* * * * * *
73635789 AGCAACTCATT-TATTAAACT-A-AAAACTCATGCAC-CAATAAATT-AACCTAGTAACT-AGAT
1 AGCAACTCATTAAATTAAATTCATAAAA-T-A--AACTCATTTAATTAAACCAAG--A-TGAG-T
* *
73635848 T-AATTAAAGA--
58 TGTATTAATGACC
*
73635858 AGCAACTCATTAAATTAAATTCATCAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAA
1 AGCAACTCATTAAATTAAATTCATAAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAA
73635923 TGACC
66 TGACC
73635928 AGCAACTCATT
1 AGCAACTCATT
73635939 TATTAATCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
67 6 0.05
68 14 0.12
69 32 0.28
70 43 0.37
71 14 0.12
72 6 0.05
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.30
Consensus pattern (70 bp):
AGCAACTCATTAAATTAAATTCATAAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAA
TGACC
Found at i:73635829 original size:139 final size:139
Alignment explanation
Indices: 73635673--73635949 Score: 536
Period size: 139 Copynumber: 2.0 Consensus size: 139
73635663 AATGAACTTT
73635673 AACTCATGCACCAATAAATTAACCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAA
1 AACTCATGCACCAATAAATTAACCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAA
*
73635738 TTCATTAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAATGACCAGCAACTCATTTAT
66 TTCATCAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAATGACCAGCAACTCATTTAT
73635803 TAAACTAAA
131 TAAACTAAA
73635812 AACTCATGCACCAATAAATTAACCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAA
1 AACTCATGCACCAATAAATTAACCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAA
73635877 TTCATCAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAATGACCAGCAACTCATTTAT
66 TTCATCAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAATGACCAGCAACTCATTTAT
*
73635942 TAATCTAA
131 TAAACTAA
73635950 GAGGCTTAAA
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 136 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.30
Consensus pattern (139 bp):
AACTCATGCACCAATAAATTAACCTAGTAACTAGATTAATTAAAGAAGCAACTCATTAAATTAAA
TTCATCAAATAAACTCATTTAATTAAACCAAGATGAGTTGTATTAATGACCAGCAACTCATTTAT
TAAACTAAA
Found at i:73635903 original size:14 final size:14
Alignment explanation
Indices: 73635861--73635904 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
73635851 TTAAAGAAGC
73635861 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
73635875 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
73635888 AACTCATTTAATTA
1 AACTCATTAAATTA
73635902 AAC
1 AAC
73635905 CAAGATGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:73638140 original size:40 final size:40
Alignment explanation
Indices: 73638077--73638344 Score: 412
Period size: 40 Copynumber: 6.7 Consensus size: 40
73638067 AGGTCTCGAC
73638077 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
73638116 GATGTATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
73638156 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
73638196 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
73638236 GATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
73638276 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
73638316 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
73638345 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 4 0.02
40 208 0.98
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Done.