Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 71 of 167
Found at i:22546369 original size:144 final size:145
Alignment explanation
Indices: 22546068--22546341 Score: 396
Period size: 144 Copynumber: 1.9 Consensus size: 145
22546058 TTTTTAAAAA
* *
22546068 AAAAGAG-AAGTTTA-AATTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAAGAAAAGTTT
1 AAAAGAGAAATTTTAGACTTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAAGAAAAGTTT
* *
22546131 AAATTTTTTAAAATAAAGTATTGATCTTTTTCAACTATTTCGAAATAAACCTTTGAATTTTAAGA
66 AAATTTTTTAAAACAAAATATTGATCTTTTTCAACTATTTCGAAATAAACCTTTGAATTTTAAGA
22546196 AAAATAATTTTTTTT
131 AAAATAATTTTTTTT
* * * *
22546211 AAAAGAGAAATTTTAGACTTTTTAAAAT-AAAATTTAGTTTTTTTGTCGTTTTAAAGGAAAAGTT
1 AAAAGAGAAATTTTAGACTTTTTAAAATAAAAATCTA-TTTTTTAGTCATTTTAAAAGAAAAGTT
* * * *
22546275 TAAA-TTTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCGAAA-AAAGCTTTGATTTTTAGG
65 TAAATTTTTTAAAACAAAATATTGATCTTTTTCAACTATTTCGAAATAAACCTTTGAATTTTAAG
22546338 AAAA
130 AAAA
22546342 TTAGTGATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
143 26 0.22
144 51 0.44
145 39 0.34
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (145 bp):
AAAAGAGAAATTTTAGACTTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAAAAGAAAAGTTT
AAATTTTTTAAAACAAAATATTGATCTTTTTCAACTATTTCGAAATAAACCTTTGAATTTTAAGA
AAAATAATTTTTTTT
Found at i:22547307 original size:27 final size:27
Alignment explanation
Indices: 22547253--22547314 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
22547243 TAGTTAAGTG
* **
22547253 TTACATTTTAATGAAACTATAATTTTT
1 TTACATTTTAATGAAACCATAAGGTTT
22547280 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGTTT
*
22547307 TTATATTT
1 TTACATTT
22547315 GGATTTAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGTTT
Found at i:22554170 original size:30 final size:30
Alignment explanation
Indices: 22554134--22554195 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
22554124 CAAGTAGCCG
22554134 AAGCTAGTTTAAATCGCACACTTACTGCCA
1 AAGCTAGTTTAAATCGCACACTTACTGCCA
* *
22554164 AAGCTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTACTGCCA
22554194 AA
1 AA
22554196 ACTTTCGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTACTGCCA
Found at i:22562461 original size:24 final size:24
Alignment explanation
Indices: 22562430--22562487 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
22562420 GCTGATGAAC
22562430 AGTAAGCTC-GATCGAGCTAAAAAT
1 AGTAAGCTCTGAT-GAGCTAAAAAT
* * *
22562454 AGTAAGCTCTGATGAGTTGAGAAT
1 AGTAAGCTCTGATGAGCTAAAAAT
22562478 AGTAAGCTCT
1 AGTAAGCTCT
22562488 TACGAGCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTGATGAGCTAAAAAT
Found at i:22563837 original size:16 final size:16
Alignment explanation
Indices: 22563816--22563870 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
22563806 GGATTTAGCC
22563816 TTTAGTTCAGACGGGA
1 TTTAGTTCAGACGGGA
* *
22563832 TTTAGTTCAGATGAGA
1 TTTAGTTCAGACGGGA
*
22563848 TTTA-TCTCGGACGGGA
1 TTTAGT-TCAGACGGGA
*
22563864 CTTAGTT
1 TTTAGTT
22563871 TTTCAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (16 bp):
TTTAGTTCAGACGGGA
Found at i:22564900 original size:17 final size:18
Alignment explanation
Indices: 22564873--22564912 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
22564863 CTTTCTCAAT
22564873 TGGGTCATGTGGGCCACA
1 TGGGTCATGTGGGCCACA
*
22564891 TGGG-CATGTGGTCCACA
1 TGGGTCATGTGGGCCACA
*
22564908 CGGGT
1 TGGGT
22564913 GAACCACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.15, C:0.23, G:0.40, T:0.23
Consensus pattern (18 bp):
TGGGTCATGTGGGCCACA
Found at i:22571170 original size:21 final size:22
Alignment explanation
Indices: 22571134--22571176 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
22571124 AAAATTAATC
22571134 AATTAAACTTTAATTAACCAAA
1 AATTAAACTTTAATTAACCAAA
* *
22571156 AATTAATC-TTAATTAGCCAAA
1 AATTAAACTTTAATTAACCAAA
22571177 GTTAGTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
AATTAAACTTTAATTAACCAAA
Found at i:22573247 original size:28 final size:28
Alignment explanation
Indices: 22573210--22573285 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
22573200 TCATTCGATC
*
22573210 TTTCCCACACTAAGTGCCATTCTCAATA
1 TTTCGCACACTAAGTGCCATTCTCAATA
* * *
22573238 TTTTGCACACTATGTGTCATTCTCAATA
1 TTTCGCACACTAAGTGCCATTCTCAATA
22573266 TTTCGCACACTAAGTGCCAT
1 TTTCGCACACTAAGTGCCAT
22573286 ATTTGATGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (28 bp):
TTTCGCACACTAAGTGCCATTCTCAATA
Found at i:22573366 original size:40 final size:40
Alignment explanation
Indices: 22573322--22573400 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
22573312 GTACATAGCT
22573322 GAAGCTAT-CTCAAA-TCGCACACTAAGTGCCAAATTTAGTC
1 GAAGCTATAC-CAAACT-GCACACTAAGTGCCAAATTTAGTC
* * *
22573362 GAAGCTATACCGAACTGCACACTAAGTGTCATATTTAGT
1 GAAGCTATACCAAACTGCACACTAAGTGCCAAATTTAGT
22573401 TGATATGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
GAAGCTATACCAAACTGCACACTAAGTGCCAAATTTAGTC
Found at i:22576954 original size:8 final size:8
Alignment explanation
Indices: 22576941--22576967 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22576931 ACAACGGGAA
22576941 AATTTTTG
1 AATTTTTG
22576949 AATTTTTG
1 AATTTTTG
22576957 AATTTTTG
1 AATTTTTG
22576965 AAT
1 AAT
22576968 CCTCTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (8 bp):
AATTTTTG
Found at i:22579596 original size:36 final size:36
Alignment explanation
Indices: 22579526--22579598 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
22579516 AGTAATTTAT
* *
22579526 GGAGTGTATTATGGAGAGATATTAGGATAAAATCAA
1 GGAGTGTATTATGGAGAGAAATTAGGAGAAAATCAA
*
22579562 GGAGTG-ATTTATGGAGA-AAATTAAGGAGAGAATCAA
1 GGAGTGTA-TTATGGAGAGAAATT-AGGAGAAAATCAA
22579598 G
1 G
22579599 AATTTGGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 5 0.16
36 27 0.84
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (36 bp):
GGAGTGTATTATGGAGAGAAATTAGGAGAAAATCAA
Found at i:22581244 original size:41 final size:40
Alignment explanation
Indices: 22581192--22581272 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 40
22581182 CAAAAGCCGA
* *
22581192 AAGAGTGTGTGAATCCACACACATTGATTTGACCGTAGGT
1 AAGAGTGTGTGAATCCACACACATTGATTTAACCATAGGT
*
22581232 NAAGAGTGTGTGAATCCACATACATTGATTTAACCATAGGT
1 -AAGAGTGTGTGAATCCACACACATTGATTTAACCATAGGT
22581273 CGGCAAATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.28
Consensus pattern (40 bp):
AAGAGTGTGTGAATCCACACACATTGATTTAACCATAGGT
Found at i:22582687 original size:27 final size:27
Alignment explanation
Indices: 22582628--22582687 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
22582618 AAACGAGATA
** *
22582628 GGCCCAAATGATTCTATTATGGGTTGT
1 GGCCCAAATGATAATATAATGGGTTGT
*
22582655 GACCCAAATGATAATATAATGGGCTT-T
1 GGCCCAAATGATAATATAATGGG-TTGT
22582682 GGCCCA
1 GGCCCA
22582688 CTTATGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (27 bp):
GGCCCAAATGATAATATAATGGGTTGT
Found at i:22585373 original size:46 final size:46
Alignment explanation
Indices: 22585306--22585472 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
22585296 TGTAACCCGC
*
22585306 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
22585352 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * *
22585402 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
22585445 CTATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
22585473 TAGTTCGGAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
46 56 0.55
47 27 0.27
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:22585420 original size:93 final size:93
Alignment explanation
Indices: 22585314--22585484 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
22585304 GCCCATAAGT
* * *
22585314 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22585379 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
22585407 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
22585472 CTAGTTCGGATGC
66 CGAGCTCGGATGC
22585485 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:22585500 original size:46 final size:45
Alignment explanation
Indices: 22585311--22585500 Score: 117
Period size: 46 Copynumber: 4.1 Consensus size: 45
22585301 CCCGCCCATA
* ****
22585311 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCC-T
*
22585356 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* * *
22585406 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCTAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATC-CT
*
22585449 AAGTGAACTCGGACTCAACTCAACTAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
22585496 AGTGA
1 AGTGA
22585501 CATGTCACTT
Statistics
Matches: 117, Mismatches: 11, Indels: 32
0.73 0.07 0.20
Matches are distributed among these distances:
41 1 0.01
43 7 0.06
44 1 0.01
46 64 0.55
47 29 0.25
48 6 0.05
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:22588012 original size:23 final size:20
Alignment explanation
Indices: 22587963--22588013 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 20
22587953 GACTGTGATC
22587963 ATATGATTGTGTTCTAACTG
1 ATATGATTGTGTTCTAACTG
*
22587983 ACT-TGATTGTGGTTGTACAACTG
1 A-TATGATTGT-GTTCT--AACTG
22588006 ATATGATT
1 ATATGATT
22588014 TTAATATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 1 0.04
23 11 0.44
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (20 bp):
ATATGATTGTGTTCTAACTG
Found at i:22588353 original size:25 final size:27
Alignment explanation
Indices: 22588307--22588358 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
22588297 TTGAAGATTC
* *
22588307 TGTGTCGATCATATTTACCCATGGCTG
1 TGTGCCGATCATATTTACCCATCGCTG
*
22588334 TGTGCCGATTATA-TTA-CCATCGCTG
1 TGTGCCGATCATATTTACCCATCGCTG
22588359 ATGGCTATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TGTGCCGATCATATTTACCCATCGCTG
Found at i:22590356 original size:31 final size:31
Alignment explanation
Indices: 22590319--22590380 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22590309 TTAAAGATAG
22590319 AGCAGAGAGCTTTGTGTCATAAAATCAATTA
1 AGCAGAGAGCTTTGTGTCATAAAATCAATTA
22590350 AGCAGAGAGCTTTGTGTCATAAAATCAATTA
1 AGCAGAGAGCTTTGTGTCATAAAATCAATTA
22590381 TGATTTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (31 bp):
AGCAGAGAGCTTTGTGTCATAAAATCAATTA
Found at i:22591015 original size:2 final size:2
Alignment explanation
Indices: 22591008--22591036 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22590998 TTTTGAAAAC
22591008 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
22591037 AATGGGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22591125 original size:14 final size:14
Alignment explanation
Indices: 22591106--22591136 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22591096 AAAAGGTTAA
22591106 AGAAAGAGAGAGAG
1 AGAAAGAGAGAGAG
22591120 AGAAAGAGAGAGAG
1 AGAAAGAGAGAGAG
22591134 AGA
1 AGA
22591137 GATGGTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (14 bp):
AGAAAGAGAGAGAG
Found at i:22593007 original size:11 final size:11
Alignment explanation
Indices: 22592980--22593009 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22592970 TGAAATTTTC
*
22592980 TCAAAATTCTA
1 TCAAATTTCTA
22592991 TCAAATTTCTA
1 TCAAATTTCTA
22593002 TCAAATTT
1 TCAAATTT
22593010 GTTTGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (11 bp):
TCAAATTTCTA
Found at i:22593008 original size:32 final size:32
Alignment explanation
Indices: 22592948--22593009 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
22592938 AATATTCCCT
* *
22592948 TCAAAAATCTATCGAATTTCATTGAAATTTTC
1 TCAAAAATCTATCAAATTTCATTCAAATTTTC
*
22592980 TCAAAATTCTATCAAATTTC-TATCAAATTT
1 TCAAAAATCTATCAAATTTCAT-TCAAATTT
22593010 GTTTGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (32 bp):
TCAAAAATCTATCAAATTTCATTCAAATTTTC
Found at i:22593209 original size:48 final size:48
Alignment explanation
Indices: 22593145--22593243 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
22593135 AGTGATAATT
*
22593145 TTAAATTTTCAATACTATTCGATATTTT-TTTAATTTATGCAAATT-TAA
1 TTAAATTTGCAATACTATTCGATATTTTATTT-ATTTATGC-AATTATAA
* *
22593193 TTAAATTTGCAATACTATTTGGTATTTTATTTATTTATGCAATTATAA
1 TTAAATTTGCAATACTATTCGATATTTTATTTATTTATGCAATTATAA
22593241 TTA
1 TTA
22593244 CAATGTCAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
47 4 0.09
48 39 0.85
49 3 0.07
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (48 bp):
TTAAATTTGCAATACTATTCGATATTTTATTTATTTATGCAATTATAA
Found at i:22594889 original size:18 final size:18
Alignment explanation
Indices: 22594866--22594908 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
22594856 TGCTAGGTGC
22594866 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
22594884 GTATCCTAGCTCTTATAT
1 GTATCCTAGCCCTTATAT
*
22594902 GTTTCCT
1 GTATCCT
22594909 TTTCTTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:22598174 original size:126 final size:126
Alignment explanation
Indices: 22598011--22598518 Score: 712
Period size: 126 Copynumber: 4.0 Consensus size: 126
22598001 TTATAGCCTC
* * * *
22598011 ATTTTTCTACGAAGTACTGTAGCAAAAGAGAGTCCACGTGGGAGCTTTTTTCTGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTACTG
* * * *
22598076 ATAGTGCATTCTGCTTAAAGTGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
22598137 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTCTTTTCTGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTACTG
* * **
22598202 ACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCATTATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * ** * **
22598263 ATTTTTCTATGAACTACTATAGCAAAAGAGCGTTCACGTAAGAGCTTTTTCCAAAAATTTTACTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTACTG
* *
22598328 ACAGTGCATCCTGCTTGAAGTGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * **
22598389 ATTTTTCTACGAACTACTGTAGTAAAAGAGCGTCCATATGGGAGC-TTTTTCTAGAAATTTTACT
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCT-GAAATTTTACT
* * *
22598453 GACAATGCATCCTGCTTGAAGCGTTTTTCAATACTATTTGTTCAGAAACGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCG-TTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
22598516 ATT
1 ATT
22598519 CTTGCAAAAA
Statistics
Matches: 335, Mismatches: 45, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 5 0.01
126 291 0.87
127 39 0.12
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGAAATTTTACTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:22599064 original size:20 final size:20
Alignment explanation
Indices: 22599039--22599108 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
22599029 ACCATTATGT
22599039 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAAATTTA
* *
22599059 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCCTAAA--TTTA
22599081 ATCAA-T--CCCT-AATTTA
1 ATCAATTAACCCTAAATTTA
22599097 ATCAATTAACCC
1 ATCAATTAACCC
22599109 CAATACCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 7 0.17
17 1 0.02
18 2 0.05
19 7 0.17
20 16 0.39
21 1 0.02
22 7 0.17
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (20 bp):
ATCAATTAACCCTAAATTTA
Found at i:22599132 original size:34 final size:36
Alignment explanation
Indices: 22599053--22599132 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
22599043 ATTAACCCTA
*
22599053 AATTTAATCAATTAACCCTAAACCCTAAATCAATCCCT
1 AATTTAATCAATTAACCCCAAACCCTAAATC-AT-CCT
22599091 AATTTAATCAATTAACCCCAATACCCTAAA-C-T-CT
1 AATTTAATCAATTAACCCCAA-ACCCTAAATCATCCT
22599125 AATTTAAT
1 AATTTAAT
22599133 ATTTAGTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
34 10 0.25
36 1 0.03
38 21 0.52
39 8 0.20
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.31
Consensus pattern (36 bp):
AATTTAATCAATTAACCCCAAACCCTAAATCATCCT
Found at i:22610064 original size:30 final size:28
Alignment explanation
Indices: 22610030--22610101 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
22610020 CATTATGTAC
*
22610030 TTAATGTAAAATTTGTTTTTCATAATATAA
1 TTAATATAAAATTT-TTTTTCATAA-ATAA
* * *
22610060 TTAATATAAACATATTTTTTCGTTAATAA
1 TTAATATAAA-ATTTTTTTTCATAAATAA
22610089 TTAATATAAAATT
1 TTAATATAAAATT
22610102 ACTTCCCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.06
29 14 0.39
30 17 0.47
31 3 0.08
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (28 bp):
TTAATATAAAATTTTTTTTCATAAATAA
Found at i:22612983 original size:51 final size:51
Alignment explanation
Indices: 22612897--22613014 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
22612887 TGAGTACTTC
* *
22612897 TGATCAGTGACATGTGATAAGTGGTAGCCTCAGCTACACTTACCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTACCTGATCAG
* * *
22612948 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTACCTGATCAG
* *
22612999 TGACAAGTGATAAGTG
1 TGATAAGTGACAAGTG
22613015 NNNNNNNNNN
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTACCTGATCAG
Found at i:22635327 original size:234 final size:234
Alignment explanation
Indices: 22634918--22635387 Score: 940
Period size: 234 Copynumber: 2.0 Consensus size: 234
22634908 TATCTATGCA
22634918 TTTGGAAATTATACATCTATACATAAATTTCTTGACATGGAAATTCAATAGCTGTATACATTAAC
1 TTTGGAAATTATACATCTATACATAAATTTCTTGACATGGAAATTCAATAGCTGTATACATTAAC
22634983 TTGTTTTAAAAATTGATGATGTGTGAGCTTATTATTAGTGACAACTGCTAAACTATGCAGTGGTC
66 TTGTTTTAAAAATTGATGATGTGTGAGCTTATTATTAGTGACAACTGCTAAACTATGCAGTGGTC
22635048 TAGAATTGCACCAAAACCTTGTTTTATATATATATATATATTATGTTGCGTAAGATTATTAATTT
131 TAGAATTGCACCAAAACCTTGTTTTATATATATATATATATTATGTTGCGTAAGATTATTAATTT
22635113 GTGAAATAAATTAAAATTATGGTTTATTCATAACTTATT
196 GTGAAATAAATTAAAATTATGGTTTATTCATAACTTATT
22635152 TTTGGAAATTATACATCTATACATAAATTTCTTGACATGGAAATTCAATAGCTGTATACATTAAC
1 TTTGGAAATTATACATCTATACATAAATTTCTTGACATGGAAATTCAATAGCTGTATACATTAAC
22635217 TTGTTTTAAAAATTGATGATGTGTGAGCTTATTATTAGTGACAACTGCTAAACTATGCAGTGGTC
66 TTGTTTTAAAAATTGATGATGTGTGAGCTTATTATTAGTGACAACTGCTAAACTATGCAGTGGTC
22635282 TAGAATTGCACCAAAACCTTGTTTTATATATATATATATATTATGTTGCGTAAGATTATTAATTT
131 TAGAATTGCACCAAAACCTTGTTTTATATATATATATATATTATGTTGCGTAAGATTATTAATTT
22635347 GTGAAATAAATTAAAATTATGGTTTATTCATAACTTATT
196 GTGAAATAAATTAAAATTATGGTTTATTCATAACTTATT
22635386 TT
1 TT
22635388 CATGTTATCC
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 236 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (234 bp):
TTTGGAAATTATACATCTATACATAAATTTCTTGACATGGAAATTCAATAGCTGTATACATTAAC
TTGTTTTAAAAATTGATGATGTGTGAGCTTATTATTAGTGACAACTGCTAAACTATGCAGTGGTC
TAGAATTGCACCAAAACCTTGTTTTATATATATATATATATTATGTTGCGTAAGATTATTAATTT
GTGAAATAAATTAAAATTATGGTTTATTCATAACTTATT
Found at i:22637722 original size:22 final size:22
Alignment explanation
Indices: 22637696--22637739 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22637686 CAATTATATC
**
22637696 AATTTTTAATAGTAAAATAAAT
1 AATTTTTAATAAAAAAATAAAT
22637718 AATTTTTAATAAAAAAATAAAT
1 AATTTTTAATAAAAAAATAAAT
22637740 TTCACTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AATTTTTAATAAAAAAATAAAT
Found at i:22637785 original size:16 final size:19
Alignment explanation
Indices: 22637750--22637786 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22637740 TTCACTTTGA
22637750 TTTAATATATAAAAACTAG
1 TTTAATATATAAAAACTAG
22637769 TTTAATA-A-AAAAA-TAG
1 TTTAATATATAAAAACTAG
22637785 TT
1 TT
22637787 ATGATGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 1 0.06
19 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTAATATATAAAAACTAG
Found at i:22638668 original size:6 final size:6
Alignment explanation
Indices: 22638659--22638703 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
22638649 TAATTAAATA
22638659 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA
22638704 ATAATATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:22639772 original size:1 final size:1
Alignment explanation
Indices: 22639768--22639803 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
22639758 TCCCCATTTT
22639768 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22639804 CCATTCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22643326 original size:46 final size:46
Alignment explanation
Indices: 22643274--22643442 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
22643264 TTTGTATGCT
22643274 AGTGTAAGACATGTCTGAGACATGCATCGGCTATATTATGAGAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCTATATTATGAGAGCC
* * * *
22643320 AGTGTAAGACCATGTCTGGGACATGGAATCGGC-AT-TGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTATAT--TATGAGAGCC
* ** *
22643368 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGAGACATGCATCGG-CTATATTATG-AGAGCC
*
22643414 AGTGTAAGACATGTCT-AGGACATCCATCG
1 AGTGTAAGACATGTCTGA-GACATGCATCG
22643443 ACTACGAGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
46 47 0.46
47 31 0.30
48 24 0.24
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCTATATTATGAGAGCC
Found at i:22643451 original size:46 final size:43
Alignment explanation
Indices: 22643274--22643490 Score: 141
Period size: 46 Copynumber: 4.7 Consensus size: 43
22643264 TTTGTATGCT
* ** *
22643274 AGTGTAAGACATGTCT-GAGACATGCATCGGCTATATTATGAGAGCC
1 AGTGTAAGACATGTCTAG-GACATGCATCGACTCGA-GAT--GAGCC
* * * * *
22643320 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGATACGA-GAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGAC-TCG--A-GATGAGCC
* *
22643368 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATC-GACTCGAGATG--AGCC
* * **
22643414 AGTGTAAGACATGTCTAGGACATCCATCGACTACGAGATGCGTT
1 AGTGTAAGACATGTCTAGGACATGCATCGACT-CGAGATGAGCC
22643458 AGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGAC
22643491 AAGGATATGT
Statistics
Matches: 141, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.09
45 17 0.12
46 58 0.41
47 28 0.20
48 21 0.15
49 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACTCGAGATGAGCC
Found at i:22645549 original size:59 final size:59
Alignment explanation
Indices: 22645452--22645571 Score: 181
Period size: 59 Copynumber: 2.0 Consensus size: 59
22645442 CCTACCTCCT
* *
22645452 ACGATTCCTCAGTATGTCCCTGTAGCTCTGCAATGAGTGGATATGGTTAGG-AGAGAGAA
1 ACGATTCCTCAGTATGTCCCTGTAGCTCCGCAAGGAGTGGATATGGTTAGGAAG-GAGAA
*
22645511 ACGATTCCTTAGTATG-CCCTAGTAGCTCCGCAAGGAGTGGATATGGTTAGGAAGGAGAA
1 ACGATTCCTCAGTATGTCCCT-GTAGCTCCGCAAGGAGTGGATATGGTTAGGAAGGAGAA
22645570 AC
1 AC
22645572 CTCCAATACG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
58 4 0.07
59 50 0.89
60 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (59 bp):
ACGATTCCTCAGTATGTCCCTGTAGCTCCGCAAGGAGTGGATATGGTTAGGAAGGAGAA
Found at i:22648645 original size:46 final size:45
Alignment explanation
Indices: 22648496--22648662 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
22648486 TTTGTGTACT
* *
22648496 AGTGTAAGACATGTCTTGGACATGCATCGG-CTGCATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTG-A-GATGAGAGCC
* * * * *
22648542 AGTGTAAGACCATGTCTGGGATATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGATGAGAGCC
*
22648590 AGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATG-AGAGCC
*
22648636 AGTGTAAGACATGTCTGGGATATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
22648663 TGACTACGAG
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 49 0.49
47 25 0.25
48 22 0.22
49 1 0.01
50 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATGAGAGCC
Found at i:22648673 original size:46 final size:46
Alignment explanation
Indices: 22648538--22648689 Score: 143
Period size: 46 Copynumber: 3.3 Consensus size: 46
22648528 GCATTATGAG
* * *
22648538 AGCCAGTGTAAGACCATGTCTGGGATATGGCATTGGC-ATTGAGACG-A
1 AGCCAGTGTAAGA-CATGTCTGGGATAT-GCATTGACTA-CGAGATGTA
* * * * *
22648585 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCCT-CGAGATGTA
1 -AGCCAGTGTAAGACATGTCTGGGATATGCAT-TGACTACGAGATGTA
22648632 AGCCAGTGTAAGACATGTCTGGGATATGCATTGACTACGAGATGT-
1 AGCCAGTGTAAGACATGTCTGGGATATGCATTGACTACGAGATGTA
*
22648677 -GTCAGTGTAAGAC
1 AGCCAGTGTAAGAC
22648690 CATATTTGAG
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
44 12 0.14
45 3 0.03
46 45 0.52
47 15 0.17
48 12 0.14
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGATATGCATTGACTACGAGATGTA
Found at i:22650803 original size:30 final size:31
Alignment explanation
Indices: 22650767--22650830 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
22650757 CAATACGATT
22650767 TATTGAGTA-CTTTTAAGAATTATGGTATTA
1 TATTGAGTAGCTTTTAAGAATTATGGTATTA
22650797 TATTGAGTAGCTTTTAAGAATTATGGTATTA
1 TATTGAGTAGCTTTTAAGAATTATGGTATTA
22650828 TAT
1 TAT
22650831 GTATTCCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (31 bp):
TATTGAGTAGCTTTTAAGAATTATGGTATTA
Found at i:22652198 original size:21 final size:21
Alignment explanation
Indices: 22652173--22652214 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22652163 TTAATTTTCT
22652173 TATATCTTTGAAGCCTTATAA
1 TATATCTTTGAAGCCTTATAA
22652194 TATATCTTTGAAGCCTTATAA
1 TATATCTTTGAAGCCTTATAA
22652215 AGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TATATCTTTGAAGCCTTATAA
Found at i:22655282 original size:77 final size:77
Alignment explanation
Indices: 22655155--22655576 Score: 699
Period size: 77 Copynumber: 5.5 Consensus size: 77
22655145 ATAAAGATGA
* * *
22655155 TTAAAACCTTAAAATATCTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
22655220 ATGAAGGGTTAC
66 ATGAAGGGTTAC
22655232 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
22655297 ATGAAGGGTTAC
66 ATGAAGGGTTAC
22655309 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
22655374 ATGAAGGGTTAC
66 ATGAAGGGTTAC
22655386 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
22655451 ATGAAGGGTTAC
66 ATGAAGGGTTAC
* *
22655463 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAA-TTCTTAAATCATGG-GAAAAATACTTAAT
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTC-TACATC-TGGAAAAAAATACTTAAT
* * *
22655526 TTATTAAAGGTCAC
64 TTATGAAGGGTTAC
* * *
22655540 -TAAAACTTTAAAGAGT-TTTAAGGAATTAAGTAATTTC
1 TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTC
22655577 CTAAACCAAG
Statistics
Matches: 331, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
75 16 0.05
76 20 0.06
77 292 0.88
78 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (77 bp):
TTAAAACCTTAAAGTGTGTTTAAGAAATTAAGTAATTTCTACATCTGGAAAAAAATACTTAATTT
ATGAAGGGTTAC
Found at i:22655810 original size:173 final size:172
Alignment explanation
Indices: 22655521--22655867 Score: 631
Period size: 173 Copynumber: 2.0 Consensus size: 172
22655511 GGAAAAATAC
22655521 TTAATTTATTAAAGGTCACTAAAACTTTAAAGAGTTTTAAGGAATTAAGTAATTTCCTAAACCAA
1 TTAATTTATTAAAGGTCACTAAAACTTTAAAGAGTTTTAAGGAATTAAGTAATTTCCTAAACCAA
*
22655586 GAAAAAACTACACTAAGAGTTACTTAAATCCTTAATGGCACTTTAAGAAATTAAGAAATTCCTAA
66 GAAAAAAATACACTAAGAGTTACTTAAATCCTTAATGGCACTTTAAGAAATTAAGAAATTCCTAA
22655651 AGCATGAGAAAATTATTGATAACATGTTAAATCTGCATGATTT
131 AGCATGAG-AAATTATTGATAACATGTTAAATCTGCATGATTT
*
22655694 TTAATTTATTAAAGTTCACTAAAACTTTAAAGAGTTTTAAGGAATTAAGTAATTTCCTAAACCAA
1 TTAATTTATTAAAGGTCACTAAAACTTTAAAGAGTTTTAAGGAATTAAGTAATTTCCTAAACCAA
*
22655759 GAAAAAAATACTCTAAGAGTTACTTAAATCCTTAATGGCACTTTAAGAAATTAAGAAATTCCTAA
66 GAAAAAAATACACTAAGAGTTACTTAAATCCTTAATGGCACTTTAAGAAATTAAGAAATTCCTAA
* * *
22655824 ATCATGAGAAATTATTGATAACATGTTAAATTTGCATTATTT
131 AGCATGAGAAATTATTGATAACATGTTAAATCTGCATGATTT
22655866 TT
1 TT
22655868 TTTCTATTTA
Statistics
Matches: 168, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
172 34 0.20
173 134 0.80
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (172 bp):
TTAATTTATTAAAGGTCACTAAAACTTTAAAGAGTTTTAAGGAATTAAGTAATTTCCTAAACCAA
GAAAAAAATACACTAAGAGTTACTTAAATCCTTAATGGCACTTTAAGAAATTAAGAAATTCCTAA
AGCATGAGAAATTATTGATAACATGTTAAATCTGCATGATTT
Found at i:22659101 original size:16 final size:16
Alignment explanation
Indices: 22659064--22659105 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22659054 TTAATCATAT
*
22659064 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22659080 TT-AAATATATTATAA
1 TTAAAATATATTATAA
22659095 TTAAAATATAT
1 TTAAAATATAT
22659106 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22659112 original size:14 final size:15
Alignment explanation
Indices: 22659073--22659114 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22659063 TTTAAACATA
*
22659073 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22659088 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22659102 A-TATAATTTAATA
1 ATTATAATTAAATA
22659115 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22659164 original size:61 final size:61
Alignment explanation
Indices: 22659099--22659286 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
22659089 TTATAATTAA
22659099 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
22659160 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
22659219 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
22659280 AATATAT
1 AATATAT
22659287 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:22659207 original size:120 final size:121
Alignment explanation
Indices: 22659067--22659359 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 121
22659057 ATCATATTTA
22659067 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
22659132 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
22659187 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
22659252 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
22659308 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
22659360 TAAAATAATT
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 164 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:22659232 original size:14 final size:15
Alignment explanation
Indices: 22659183--22659234 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22659173 ATAAAATATA
22659183 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
22659198 TATTAAATATATTAT
1 AATTAAATATATTAT
22659213 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
22659226 AATTTAATA
1 AATTAAATA
22659235 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:22659429 original size:26 final size:28
Alignment explanation
Indices: 22659400--22659460 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
22659390 CATGAATTTG
*
22659400 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
22659426 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
22659454 TAAAATT
1 TATAATT
22659461 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:22663191 original size:40 final size:40
Alignment explanation
Indices: 22663127--22663228 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
22663117 GTGTTATACT
* *
22663127 CTTC-GTCTAGTGTGTTTCGGTTGGATTAGCTCTTACGAG
1 CTTCTGTCTAGTGTGTTTCGATTGGATTACCTCTTACGAG
**
22663166 CTTCTGTCTAGTGTGTTTCGATTGGATTACCTCTTTTGAG
1 CTTCTGTCTAGTGTGTTTCGATTGGATTACCTCTTACGAG
*
22663206 CTTCTGTCTGGTGTG-TTCGATTG
1 CTTCTGTCTAGTGTGTTTCGATTG
22663229 ATTTGACAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 12 0.21
40 45 0.79
ACGTcount: A:0.11, C:0.18, G:0.26, T:0.45
Consensus pattern (40 bp):
CTTCTGTCTAGTGTGTTTCGATTGGATTACCTCTTACGAG
Found at i:22666509 original size:18 final size:20
Alignment explanation
Indices: 22666473--22666519 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
22666463 AGTTGTAAGT
22666473 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
22666493 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
22666512 ATGATATA
1 AT-ATATA
22666520 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:22667043 original size:101 final size:101
Alignment explanation
Indices: 22666868--22667150 Score: 397
Period size: 101 Copynumber: 2.8 Consensus size: 101
22666858 TCGTCGTGAG
* * *
22666868 TCACGTGTGTAATACTAAGTGCATGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
22666933 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCAA
66 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCAA
***
22666969 TCACGTGTGTAGTACTAAGTGTGGGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
* * **
22667034 TAAGTGCAGGCTACTATGCGTATCCGTTAACTTTGA
66 TAAGTGCAGGCTACTATGCATACCCGTTAACTTCAA
* * * * * *
22667070 TCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA-AGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGA-TCGCATGTGTAGTA
*
22667134 CTAAGTGTAGGCTACTA
65 CTAAGTGCAGGCTACTA
22667151 CGTGTACCAG
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 1 0.01
101 161 0.99
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGATCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGTTAACTTCAA
Found at i:22667211 original size:50 final size:50
Alignment explanation
Indices: 22666868--22667200 Score: 316
Period size: 50 Copynumber: 6.6 Consensus size: 50
22666858 TCGTCGTGAG
* * * *
22666868 TCACGTGTGTAATACTAAGTGCATGCTACTACGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
* * ** * *
22666918 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCA-A
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--T-AGA
* **
22666969 TCACGTGTGTAGTACTAAGTGTGGGCTACTACGTGTACCAGATTGATAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
* * * * *
22667019 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCC-G-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGA--TAGA
** * * * *
22667070 TCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA-A
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
* * *
22667119 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGG
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
*
22667170 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
22667201 TGCATACCAG
Statistics
Matches: 223, Mismatches: 48, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
49 8 0.04
50 139 0.62
51 71 0.32
52 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA
Found at i:22667432 original size:16 final size:16
Alignment explanation
Indices: 22667411--22667442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22667401 AGAATGGAGT
22667411 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
22667427 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
22667443 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:22675183 original size:48 final size:47
Alignment explanation
Indices: 22675109--22675343 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 47
22675099 GAAAAATGGG
* **
22675109 TGATATGTGTGCTAGTGTAAGGCCATGTCTGGGACATGGCATTGGCGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-T
* *
22675157 TGATATGTGTGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCT
* * * *
22675204 AGATTATGAAAGT-C-AGTGTAAGACCATGTCTGGGACATGACATCAACAT
1 TGA-TATG--TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-T
* * * * *
22675253 TGAGACGAGGGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CT
* * * * *
22675301 CGACATGTGAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCA
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCA
22675344 ACAATTTACC
Statistics
Matches: 158, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
46 2 0.01
47 10 0.06
48 139 0.88
49 5 0.03
50 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCT
Found at i:22675289 original size:96 final size:95
Alignment explanation
Indices: 22675122--22675346 Score: 256
Period size: 96 Copynumber: 2.3 Consensus size: 95
22675112 TATGTGTGCT
* *** * * * * *
22675122 AGTGTAAGGCCATGTCTGGGACATGGCATTGGCGTTGATATGTGTGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAACATTGAGACGAGGGCTAGTGTAAGACCATGTCT
* * *
22675187 GAGACATGGCATC-GGCTAGATTATGAAAGTC
65 GAGACATGGCATCAGCCTAGA-CATGAAAGCC
22675218 AGTGTAAGACCATGTCTGGGACATGACATCAACATTGAGACGAGGGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCAACATTGAGACGAGGGCTAGTGTAAGACCATGTCT
* **
22675283 -AGGACATGGCATCAGCCTCGACATGTGAGCC
65 GA-GACATGGCATCAGCCTAGACATGAAAGCC
*
22675314 AGTGTAAGACCATGTCTAGGACATGCATCAACA
1 AGTGTAAGACCATGTCTGGGACATGCATCAACA
22675347 ATTTACCCTC
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
95 10 0.09
96 95 0.86
97 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAACATTGAGACGAGGGCTAGTGTAAGACCATGTCTG
AGACATGGCATCAGCCTAGACATGAAAGCC
Found at i:22681592 original size:49 final size:49
Alignment explanation
Indices: 22681533--22681630 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
22681523 CAATTTAGTC
*
22681533 CTTCAGAACCTCATTTTCACAAATTAGCCCAAATAACTCTATTTCATCA
1 CTTCAAAACCTCATTTTCACAAATTAGCCCAAATAACTCTATTTCATCA
22681582 CTTCAAAACCTCATTTTCACAAATTAGCCCAAATAACTCTATTTCATCA
1 CTTCAAAACCTCATTTTCACAAATTAGCCCAAATAACTCTATTTCATCA
22681631 AAAATCTAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (49 bp):
CTTCAAAACCTCATTTTCACAAATTAGCCCAAATAACTCTATTTCATCA
Found at i:22681626 original size:27 final size:28
Alignment explanation
Indices: 22681547--22681632 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 28
22681537 AGAACCTCAT
22681547 TTTCA-CAAATTAGCCCAAATAACTCTA
1 TTTCATCAAATTAGCCCAAATAACTCTA
* *
22681574 TTTCATC-ACTT----CAAA-ACCTC-A
1 TTTCATCAAATTAGCCCAAATAACTCTA
22681595 TTTTCA-CAAATTAGCCCAAATAACTCTA
1 -TTTCATCAAATTAGCCCAAATAACTCTA
22681623 TTTCATCAAA
1 TTTCATCAAA
22681633 AATCTAAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 19
0.66 0.06 0.28
Matches are distributed among these distances:
21 2 0.04
22 12 0.27
23 4 0.09
26 4 0.09
27 17 0.38
28 6 0.13
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (28 bp):
TTTCATCAAATTAGCCCAAATAACTCTA
Found at i:22684839 original size:36 final size:36
Alignment explanation
Indices: 22684788--22684859 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
22684778 AGAATTATAT
*
22684788 CAAATTCGTCAAAAGGCAAAAGCATCAGATCAGCAG
1 CAAATTCGTCAAAAGGCAAAAGCATCAGACCAGCAG
*
22684824 CAAATTCGTCGAAAGGCAAAAGCATCAGACCAGCAG
1 CAAATTCGTCAAAAGGCAAAAGCATCAGACCAGCAG
22684860 GAAAACAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (36 bp):
CAAATTCGTCAAAAGGCAAAAGCATCAGACCAGCAG
Found at i:22699437 original size:45 final size:45
Alignment explanation
Indices: 22699388--22699490 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
22699378 TTTCAGTCAG
22699388 GGTCTTACTCATTTATATTATGATGCCATAGCATATTTCAACCAT
1 GGTCTTACTCATTTATATTATGATGCCATAGCATATTTCAACCAT
* * *
22699433 GGTCTTACTCATTTCTATTATGATGCCATAGCATCTTTCAACTAT
1 GGTCTTACTCATTTATATTATGATGCCATAGCATATTTCAACCAT
*
22699478 GGTCTTACACATT
1 GGTCTTACTCATT
22699491 GTAGGTGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (45 bp):
GGTCTTACTCATTTATATTATGATGCCATAGCATATTTCAACCAT
Found at i:22701427 original size:28 final size:28
Alignment explanation
Indices: 22701353--22701480 Score: 157
Period size: 28 Copynumber: 4.5 Consensus size: 28
22701343 CATGAGATTG
* * **
22701353 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
* *
22701382 GCACTAAGTTTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
22701410 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
22701439 GCACTCAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
22701467 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
22701481 GACTTAGTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 43 0.51
29 42 0.49
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:22701442 original size:57 final size:57
Alignment explanation
Indices: 22701353--22701480 Score: 168
Period size: 57 Copynumber: 2.2 Consensus size: 57
22701343 CATGAGATTG
* *
22701353 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTTTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * * *
22701410 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTCAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
22701467 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
22701481 GACTTAGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:22716874 original size:27 final size:27
Alignment explanation
Indices: 22716843--22716903 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
22716833 ATACTGAGTC
22716843 ATTTCTT-ACGAGTTTGCCATACATC-TT
1 ATTTCTTCA-GAGTTTGCCATAC-TCATT
*
22716870 ATTTCTTCAGGGTTTGCCATACTCATT
1 ATTTCTTCAGAGTTTGCCATACTCATT
22716897 ATTTCTT
1 ATTTCTT
22716904 TTAGGGTCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.06
27 28 0.90
28 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (27 bp):
ATTTCTTCAGAGTTTGCCATACTCATT
Found at i:22719630 original size:47 final size:45
Alignment explanation
Indices: 22719567--22719733 Score: 163
Period size: 47 Copynumber: 3.6 Consensus size: 45
22719557 TGTGTGCTAG
*
22719567 TGTAAGACATGTCTGGGACATGCATCAGCCACAATATGATAGCTAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACAA-ATGATAGCCAA
* * * **
22719613 TGTAAGACCGTGTCTGGGACATGGCATCAGCGTAGAGAATGAGCGCCAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACA-AATGATAGCCAA
** * * *
22719662 TGTAAGACATGTCTGGGACATGCATTGGCCTCGACGATGATAGCCAT
1 TGTAAGACATGTCTGGGACATGCATCAGCCAC-A-AATGATAGCCAA
*
22719709 TGTAAGACGTGTCTGGGACATGCAT
1 TGTAAGACATGTCTGGGACATGCAT
22719734 TGGCTAAGAG
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
46 7 0.07
47 52 0.53
48 21 0.21
49 17 0.17
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACAAATGATAGCCAA
Found at i:22719856 original size:49 final size:47
Alignment explanation
Indices: 22719565--22719877 Score: 217
Period size: 49 Copynumber: 6.6 Consensus size: 47
22719555 CTTGTGTGCT
* * *
22719565 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAT-ATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
* * * * **
22719611 AATGTAAGACCGTGTCTGGGACATGGCATCAGCGTAGA-GAATGAGCGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGATG-ATGATAGCC
* ** *
22719660 AATGTAAGACATGTCTGGGACATGCATTGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
* * * * * * * *
22719707 ATTGTAAGACGTGTCTGGGACATGCAT-TGGCTAAGA-GTTG-TTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGATGATGATAGCC
* * * * *
22719751 AGTGTAAGGCATGTCTGGGACATGCATCAG-CACGTATAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AT-GATGATAGCC
* *
22719799 AGTATAAGACCATGTCTGGGACATGGCATTAGCCTCGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGATGATGATAGCC
* *
22719848 AGTGTAAGACCATATCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
22719878 GGCAACATAT
Statistics
Matches: 207, Mismatches: 45, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.00
44 26 0.13
45 3 0.01
46 16 0.08
47 57 0.28
48 31 0.15
49 62 0.30
50 8 0.04
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGATGATAGCC
Found at i:22720728 original size:55 final size:55
Alignment explanation
Indices: 22720642--22720776 Score: 166
Period size: 55 Copynumber: 2.5 Consensus size: 55
22720632 GCACTTAAAA
* ** * *
22720642 TTTAAAGTCAGTGTTGTACACGGACATGCCACA-TGG-GCATGTGTCATGGTCGTGT
1 TTTAAAGCCAGTGTTGTACACGGGTAGGCCACACTGGAG--TGTGTCATGGCCGTGT
*
22720697 TTTAATGCCAGTGTTGTACACGGGTAGGCCACACTGGAGTGTGTCATGGCCGTGT
1 TTTAAAGCCAGTGTTGTACACGGGTAGGCCACACTGGAGTGTGTCATGGCCGTGT
* *
22720752 TTTAAAGTCAGTGTTGCACACGGGT
1 TTTAAAGCCAGTGTTGTACACGGGT
22720777 TAAGGGCACA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 65 0.94
56 3 0.04
57 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (55 bp):
TTTAAAGCCAGTGTTGTACACGGGTAGGCCACACTGGAGTGTGTCATGGCCGTGT
Found at i:22723429 original size:145 final size:145
Alignment explanation
Indices: 22723231--22723504 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
22723221 AACTCGAGGT
* *
22723231 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22723296 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
22723361 ATTTCAAGTTCGCAA
131 ATTTCAAGTTCGCAA
*
22723376 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
22723441 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
22723505 TACTTTAAAC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAA
Found at i:22723523 original size:29 final size:30
Alignment explanation
Indices: 22723489--22723560 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
22723479 ATCAACCACG
*
22723489 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
22723518 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
22723547 CACACTTAGTGCCA
1 CACACTTAGTGCCA
22723561 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:22728928 original size:18 final size:18
Alignment explanation
Indices: 22728905--22728957 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
22728895 GAAATTGCAT
*
22728905 ACTGTTTACTGTTA-TCGC
1 ACTGTTTACTATTACT-GC
22728923 ACTGTTTACTATTACTGC
1 ACTGTTTACTATTACTGC
22728941 ACTGTTTACTATTACTG
1 ACTGTTTACTATTACTG
22728958 TAATGGGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 32 0.97
19 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTATTACTGC
Found at i:22729440 original size:18 final size:18
Alignment explanation
Indices: 22729419--22729455 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22729409 AGTATAACGA
*
22729419 TTTGAAATTAAATAATTT
1 TTTGAAAATAAATAATTT
*
22729437 TTTGAAAATGAATAATTT
1 TTTGAAAATAAATAATTT
22729455 T
1 T
22729456 CAGAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
TTTGAAAATAAATAATTT
Found at i:22735290 original size:15 final size:15
Alignment explanation
Indices: 22735270--22735302 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22735260 ACATAATGAA
22735270 TAACATGTGTTTCAC
1 TAACATGTGTTTCAC
22735285 TAACATGTGTTTCAC
1 TAACATGTGTTTCAC
22735300 TAA
1 TAA
22735303 TATCAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (15 bp):
TAACATGTGTTTCAC
Found at i:22750420 original size:88 final size:86
Alignment explanation
Indices: 22750141--22751371 Score: 976
Period size: 86 Copynumber: 14.9 Consensus size: 86
22750131 TTATTTCTGC
* ** * * * *
22750141 TTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCGCATGCCGATGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACGCTGAGGTATTTTC
* *
22750206 AATTTCTGTTTTTAA-TTC-ATGT
64 AAATTCTGTTTTCAATTTCTAT-T
* *
22750228 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * *
22750293 ATTCTGTTTTTAATCTATATT
66 ATTCTGTTTTCAATTTCTATT
* **
22750314 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATACTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-CACACGCTGAGGTATTTTC
22750379 AAATTCTGTTTTCAATTTCTATT
64 AAATTCTGTTTTCAATTTCTATT
* ** * *
22750402 TTTCCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
*
22750467 TTTCTGGTTTTC-A-----A--
66 ATTCT-GTTTTCAATTTCTATT
* * *
22750481 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * ** **
22750542 AATCTATTTTTTTATTTCTGCT
66 ATTCT-GTTTTCAATTTCTATT
* *
22750564 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
*
22750628 TTTCTGGTTTTC-A-----A--
66 ATTCT-GTTTTCAATTTCTATT
* * *
22750642 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * ** **
22750703 AATCTATTTTTTTATTTCTGCT
66 ATTCT-GTTTTCAATTTCTATT
* *
22750725 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
*
22750789 TTTCTGGTTTTC-A-----A--
66 ATTCT-GTTTTCAATTTCTATT
* * *
22750803 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * ** **
22750864 AATCTATTTTTTTATTTCTGCT
66 ATTCT-GTTTTCAATTTCTATT
* *
22750886 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
*
22750950 TTTCTGGTTTTC-A-----A--
66 ATTCT-GTTTTCAATTTCTATT
* * *
22750964 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * ** **
22751025 AATCTATTTTTTTATTTCTGCT
66 ATTCT-GTTTTCAATTTCTATT
* *
22751047 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
*
22751111 TTTCTGGTTTTC-A-----A--
66 ATTCT-GTTTTCAATTTCTATT
* * *
22751125 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* * ** **
22751186 AATCTATTTTTTTATTTCTGCT
66 ATTCT-GTTTTCAATTTCTATT
* * *
22751208 TTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAG
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
* *
22751272 TTTCTGTTTTTCAAATTTCTGTT
66 ATTCTG-TTTTC-AATTTCTATT
* * * ** * * *
22751295 TGTCAAGAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGCGCTAAGCTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA--CGCTGAGGTATTTTC
*
22751360 AATTTCTGTTTT
64 AAATTCTGTTTT
22751372 TAGTATATGT
Statistics
Matches: 936, Mismatches: 134, Indels: 146
0.77 0.11 0.12
Matches are distributed among these distances:
75 318 0.34
76 5 0.01
81 1 0.00
85 31 0.03
86 384 0.41
87 64 0.07
88 110 0.12
89 4 0.00
90 19 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA
ATTCTGTTTTCAATTTCTATT
Found at i:22750583 original size:161 final size:161
Alignment explanation
Indices: 22750318--22751286 Score: 1742
Period size: 161 Copynumber: 6.0 Consensus size: 161
22750308 TATATTTTTC
* * * * ** *
22750318 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATACTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCC-CCAG-GACACGCTGAGGTATTTTCAAAA
* ** ** **
22750383 TCT-GTTTTCAATTTCTATTTTTCCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
64 TCTATTTTTTTATTTCTGCTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
22750447 ACACGCTGAGGTAATTTCAATTTCTGGTTTTCAA
128 ACACGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22750481 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
22750546 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
22750611 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
131 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22750642 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
22750707 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
22750772 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
131 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22750803 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
22750868 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
22750933 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
131 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22750964 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
22751029 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
22751094 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
131 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22751125 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
22751190 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
22751255 TGCTGAGGTATTTTCAGTTTCTGTTTTTCAA
131 CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
22751286 A
1 A
22751287 TTTCTGTTTG
Statistics
Matches: 787, Mismatches: 18, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
161 736 0.94
162 17 0.02
163 34 0.04
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGATCCCCAGGACACGCTGAGGTATTTTCAAAATC
TATTTTTTTATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGGTTTTCAA
Found at i:22753246 original size:18 final size:18
Alignment explanation
Indices: 22753213--22753259 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
22753203 ATTAAATTTG
*
22753213 TAATATTA--ATTCTATT
1 TAATATTATTATTATATT
22753229 TAATATTATTATTATATT
1 TAATATTATTATTATATT
*
22753247 TACTATTATTATT
1 TAATATTATTATT
22753260 TATAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 8 0.30
18 19 0.70
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATTATTATTATATT
Found at i:22758918 original size:46 final size:46
Alignment explanation
Indices: 22758851--22759216 Score: 502
Period size: 46 Copynumber: 8.0 Consensus size: 46
22758841 AGTGTGCTCT
*
22758851 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
22758897 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
22758943 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
22758989 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
22759035 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
22759081 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
22759127 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
22759173 ATGACA-GAAAATG-AGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTA-TAAGACCATGGTTGAAAGATACCATGGCA
22759217 TCATGTCAAA
Statistics
Matches: 296, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 2 0.01
46 294 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:22759523 original size:16 final size:17
Alignment explanation
Indices: 22759502--22759534 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22759492 ATGATGGAGC
22759502 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
22759518 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
22759535 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:22760429 original size:53 final size:54
Alignment explanation
Indices: 22760345--22760452 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 54
22760335 TCCGACGAGG
* *
22760345 TAACTCTCTACTCTTTCTTTGTGTCTCTGC-TTTAATTTTTGCATCATCTTCAT
1 TAACTCTCTACTCATTCTTTGTGTCTCTGCTTTTAATTTTTGCATAATCTTCAT
*
22760398 TAACTCTCTACTCATTCTTTGTGTCTTTGCTTTTAATTTTTGCATAATCTTCAT
1 TAACTCTCTACTCATTCTTTGTGTCTCTGCTTTTAATTTTTGCATAATCTTCAT
22760452 T
1 T
22760453 TCTATAAAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 28 0.55
54 23 0.45
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.54
Consensus pattern (54 bp):
TAACTCTCTACTCATTCTTTGTGTCTCTGCTTTTAATTTTTGCATAATCTTCAT
Found at i:22765304 original size:20 final size:19
Alignment explanation
Indices: 22765270--22765313 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
22765260 AGAAATAAAC
*
22765270 ATGAGATGAGAAATGAGAT
1 ATGAAATGAGAAATGAGAT
22765289 ATGAAATGATGAAATGAGAT
1 ATGAAATGA-GAAATGAGAT
22765309 ATGAA
1 ATGAA
22765314 TCTTGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (19 bp):
ATGAAATGAGAAATGAGAT
Found at i:22770092 original size:34 final size:34
Alignment explanation
Indices: 22770054--22770119 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
22770044 ATTAAATTTT
22770054 CTAATGTGATATTTTGAAATTAAAAAAAATTATC
1 CTAATGTGATATTTTGAAATTAAAAAAAATTATC
22770088 CTAATGTGATATTTTGAAATTAAAAAAAATTA
1 CTAATGTGATATTTTGAAATTAAAAAAAATTA
22770120 CTTGATAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (34 bp):
CTAATGTGATATTTTGAAATTAAAAAAAATTATC
Found at i:22770687 original size:24 final size:24
Alignment explanation
Indices: 22770658--22770705 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
22770648 ATTTAAATAT
22770658 TAAAATATGCTCTAAGTCCCTATA
1 TAAAATATGCTCTAAGTCCCTATA
* *
22770682 TAAAATATGCTTTAAGTCTCTATA
1 TAAAATATGCTCTAAGTCCCTATA
22770706 CACTCCGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (24 bp):
TAAAATATGCTCTAAGTCCCTATA
Found at i:22782755 original size:40 final size:40
Alignment explanation
Indices: 22782708--22782976 Score: 306
Period size: 40 Copynumber: 6.7 Consensus size: 40
22782698 GCTACTTGCC
*
22782708 CAAATGCCTTCGGGACTTAGCCCGGTCATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
22782748 CAAATGCCTTCGGGACTTAACCCAGTTATTGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
22782788 CAAATCCCTTCGGGACTTAACCCGGTTATTGTAGCTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
22782828 CAATTGCCTTCGGGACTTAACCCGGTTATTGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
22782868 CAATTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
22782908 CAATTGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** *
22782948 CAAATGCCTTCGAAACTTAGCCCAGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
22782977 TATCCGAATA
Statistics
Matches: 202, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.00
40 200 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:22786391 original size:27 final size:27
Alignment explanation
Indices: 22786361--22786538 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22786351 ATATTGAGTC
* * * *
22786361 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22786388 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22786415 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22786443 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22786470 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22786497 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22786524 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22786539 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22786500 original size:82 final size:81
Alignment explanation
Indices: 22786382--22786537 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22786372 TGCTATATAA
* *
22786382 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22786447 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22786464 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22786528 CACTTAGTGC
65 CACTTAGTGC
22786538 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22790602 original size:93 final size:93
Alignment explanation
Indices: 22790443--22790613 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
22790433 GCCCATAAGT
* * *
22790443 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22790508 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
22790536 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22790601 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22790614 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22790610 original size:46 final size:46
Alignment explanation
Indices: 22790435--22790610 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
22790425 TGTAACCCGC
* * *
22790435 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
22790481 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
22790531 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
22790574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22790611 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:22801205 original size:21 final size:22
Alignment explanation
Indices: 22801181--22801234 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
22801171 CTGGCTTGTT
*
22801181 TTATTTTTATTTT-TTCCCTTA
1 TTATTTTTATTTTATTCCATTA
*
22801202 TTATTGTTATTTTATTCCATTA
1 TTATTTTTATTTTATTCCATTA
*
22801224 TT-TATTTATTT
1 TTATTTTTATTT
22801235 ATTACTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (22 bp):
TTATTTTTATTTTATTCCATTA
Found at i:22801272 original size:3 final size:3
Alignment explanation
Indices: 22801264--22801338 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
22801254 CAAATTTTAG
* * *
22801264 ATT ATT ATT ATT ATT AGT ATT GTT ATT ATT ATT ATT ATT GTT ATT -TAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* *
22801312 ATT ATT GTT -TT CATC ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT
22801339 GTTTATGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
2 3 0.05
3 54 0.92
4 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22801314 original size:18 final size:18
Alignment explanation
Indices: 22801268--22801341 Score: 89
Period size: 18 Copynumber: 4.1 Consensus size: 18
22801258 TTTTAGATTA
*
22801268 TTATTATTATTAGTATTG
1 TTATTATTATTATTATTG
22801286 TTATTATTATTATTATTG
1 TTATTATTATTATTATTG
*
22801304 TTATT-TATATTATTGTT-
1 TTATTAT-TATTATTATTG
*
22801321 TTCATCATTATTATTATTG
1 TT-ATTATTATTATTATTG
22801340 TT
1 TT
22801342 TATGCATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
17 3 0.06
18 42 0.88
19 3 0.06
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.65
Consensus pattern (18 bp):
TTATTATTATTATTATTG
Found at i:22811970 original size:45 final size:45
Alignment explanation
Indices: 22811901--22812648 Score: 232
Period size: 44 Copynumber: 16.5 Consensus size: 45
22811891 GGTGAATCTT
* *
22811901 ATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCGCTAAGTCTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
*** * *
22811946 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAAC-AAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCCACTAAGTCTA
* * * * * *
22811991 ATCTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTA-TAAATCCT-
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGT-CTA
* ** * *
22812035 ATAC-CCCTGAACTTGCAGTGG-G-ATGGATTGAAATCATTATAGCGAATCTT
1 AT-CTCCCTGAAGTTGCAGTGGAGCA--GATTGAAGCCACTA-A--G--TCTA
* *
22812085 ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTACTAAGTCTA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
* *** * *
22812130 ATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
* ** * * * *
22812174 AT-TTCCTCGAAGTTGCAGTGGAATAGATTAAAGCTA-TGAGTTACAA
1 ATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAGCCACTAAG-T-CTA
* * * * * *
22812220 ATCTTATCTCCTCGAAGTTGCAGAT-GAGAAGATTGTAGACGCGAA-TCTT
1 ATC---TC-CCT-GAAGTTGCAG-TGGAGCAGATTGAAGCCACTAAGTCTA
* * * * * * *
22812269 ATCT-TCTAAAGTTGCAGTGAAGCAGATTAAAGCTAC-AAGTATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
* * * * * **
22812312 ATCGCTCTGAAGTTGCAGTGGAGTAGATTGAAGTCAC-AAATCCC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
* * ** * * *
22812356 ATAC-CCCTGAAGTTGCAGTGG-GACGGATTAAAGTTATTATGGCGAATCTT
1 AT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCCACTA-----AGTCTA
* * *
22812406 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAC-AAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
* * * * ** * *
22812450 ATC-CCCTTGAAGTTGCAATGGACCAGACTAAAGATAGCGAA-TCTT
1 ATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAAGTCTA
* * * * * * *
22812495 ATCTCTCTGAAATTGCAGTAGAGCAGATTAAAGCTA-T-AGACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAG-TCTA
* * * ** * *
22812539 ATCTCCCTAAAGTTGTAGTGGAGCAGGTTG-AGTTTAC-AAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACTAAGTCTA
* * * *
22812583 ATCTCCTTGAAGTTGCGGTGGA-CTAGATTGAAGCCACGAA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGCCACTAAGTCTA
*
22812627 ATCTCCCTGAAGTTGTAGTGGA
1 ATCTCCCTGAAGTTGCAGTGGA
22812649 ATAGATTAAA
Statistics
Matches: 524, Mismatches: 127, Indels: 105
0.69 0.17 0.14
Matches are distributed among these distances:
42 5 0.01
43 39 0.07
44 225 0.43
45 142 0.27
46 12 0.02
47 1 0.00
49 10 0.02
50 62 0.12
51 25 0.05
52 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAAGTCTA
Found at i:22812151 original size:184 final size:183
Alignment explanation
Indices: 22811863--22812210 Score: 527
Period size: 184 Copynumber: 1.9 Consensus size: 183
22811853 ACAGTCAAAG
* * * *
22811863 TTGCAGTGAGATGGATTGAAATCATTATGGTGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
1 TTGCAGTGAGATGGATTGAAATCATTATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
*
22811928 TTGAAGCCGCTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTAT
66 TTGAAGCCACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAT-ACAAATCTTAT
*
22811993 CT-CTCTGAAGTTACAGTAGAGCAGATTAAAGCTATAAATCCTATACCCCTGAAC
130 CTCCTC-GAAGTTACAGTAGAACAGATTAAAGCTATAAATCCTATACCCCTGAAC
*
22812047 TTGCAGTGGGATGGATTGAAATCATTATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
1 TTGCAGTGAGATGGATTGAAATCATTATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
* * * * * *
22812112 TTGAAGCTACTAAGTCTAATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAATCTTATT
66 TTGAAGCCACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATACAAATCTTATC
* * *
22812177 TCCTCGAAGTTGCAGTGGAATAGATTAAAGCTAT
131 TCCTCGAAGTTACAGTAGAACAGATTAAAGCTAT
22812211 GAGTTACAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
183 35 0.24
184 112 0.76
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (183 bp):
TTGCAGTGAGATGGATTGAAATCATTATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
TTGAAGCCACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATACAAATCTTATC
TCCTCGAAGTTACAGTAGAACAGATTAAAGCTATAAATCCTATACCCCTGAAC
Found at i:22812202 original size:44 final size:44
Alignment explanation
Indices: 22811894--22812344 Score: 165
Period size: 45 Copynumber: 9.9 Consensus size: 44
22811884 TCATTATGGT
**
22811894 GAATCTTATCTTCCT-GAAGTTGCAGTGGAGCAGATTGAAGCCGC
1 GAATCTTAT-TTCCTCGAAGTTGCAGTGGAGCAGATTGAAGATGC
* * * * *
22811938 TAAGTCTAATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAAATAAC
1 GAA-TCTTATTTCCTC-GAAGTTGCAGTGGAGCAGATTGAAGAT-GC
* * * * * * **
22811984 AAATCTTATCT-CTCTGAAGTTACAGTAGAGCAGATTAAAGCTAT
1 GAATCTTATTTCCTC-GAAGTTGCAGTGGAGCAGATTGAAGATGC
* * * * * *
22812028 AAATCCTA-TACCCCTGAACTTGCAGTGG-G-ATGGATTGAAATCATTATAGC
1 GAATCTTATTTCCTC-GAAGTTGCAGTGGAGCA--GATTG--A--A-GAT-GC
* * * *
22812078 GAATCTTATCTCC-CTGAAGTTACAGTGGAGCAGATTGAAGCTAC
1 GAATCTTATTTCCTC-GAAGTTGCAGTGGAGCAGATTGAAGATGC
* *
22812122 TAAGTCTAATCTTCCT-GAAGTTGCAGTGGAGCAGATTGAAGATGC
1 GAA-TCTTAT-TTCCTCGAAGTTGCAGTGGAGCAGATTGAAGATGC
** *
22812167 GAATCTTATTTCCTCGAAGTTGCAGTGGAATAGATTAAAGCTATGAGTTAC
1 GAATCTTATTTCCTCGAAGTTGCAGTGGAGCAGATTGAAG--AT--G---C
* * * * *
22812218 AAATCTTATCTCCTCGAAGTTGCAGAT-GAGAAGATTGTAGACGC
1 GAATCTTATTTCCTCGAAGTTGCAG-TGGAGCAGATTGAAGATGC
* * * * *
22812262 GAATCTTATCTT-CT-AAAGTTGCAGTGAAGCAGATTAAAGCTAC
1 GAATCTTAT-TTCCTCGAAGTTGCAGTGGAGCAGATTGAAGATGC
* *
22812305 -AA--GTATTATCGCTCTGAAGTTGCAGTGGAGTAGATTGAAG
1 GAATCTTATT-TC-CTC-GAAGTTGCAGTGGAGCAGATTGAAG
22812345 TCACAAATCC
Statistics
Matches: 302, Mismatches: 69, Indels: 72
0.68 0.16 0.16
Matches are distributed among these distances:
39 1 0.00
40 4 0.01
42 6 0.02
43 25 0.08
44 93 0.31
45 95 0.31
46 10 0.03
47 1 0.00
48 3 0.01
49 2 0.01
50 24 0.08
51 36 0.12
52 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
GAATCTTATTTCCTCGAAGTTGCAGTGGAGCAGATTGAAGATGC
Found at i:22812266 original size:184 final size:181
Alignment explanation
Indices: 22811863--22812353 Score: 471
Period size: 184 Copynumber: 2.7 Consensus size: 181
22811853 ACAGTCAAAG
* * * *
22811863 TTGCAGTGAGATGGATTGAAATCATTATGGTGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA
1 TTGCAGTGAGATAGATTG--ATCATGATAGCGAATCTTATC-TCCTGAAGTTGCAGTGGAGCAGA
** *
22811928 TTGAAGCCGCTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAAATCTTAT
63 TTGAAGCTACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTAT
*
22811993 CTCTCTGAAGTTACAGTAGAGCAGATTAAAGCTATAAATCCTATACCCCTGAAC
128 CTCTCTGAAGTTACAGTAGAACAGATTAAAGCTATAAATCCTATACCCCTGAAC
* * * *
22812047 TTGCAGTGGGATGGATTGAAATCATTATAGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGA
1 TTGCAGTGAGATAGATTG--ATCATGATAGCGAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGA
* * *
22812112 TTGAAGCTACTAAGTCTAATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-GCGAATCTTAT
63 TTGAAGCTACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTAT
* * * * * * *
22812176 TTC-CTCGAAGTTGCAGTGGAATAGATTAAAGCTATGAGTTACAAATCTTAT-CTCCTCGAAG
128 CTCTCT-GAAGTTACAGTAGAACAGATTAAAGC--T-A--T--AAATCCTATACCCCT-GAAC
* * * *
22812237 TTGCAGATGAGA-AGATTG-T-A-GA-CGCGAATCTTATCTTCTAAAGTTGCAGTGAAGCAGATT
1 TTGCAG-TGAGATAGATTGATCATGATAGCGAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATT
* * * * * * *
22812297 AAAGCTAC-AAGTATTATCGCTCTGAAGTTGCAGTGGAGTAGATTGAAG-TCACAAATC
65 GAAGCTACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATC
22812354 CCATACCCCT
Statistics
Matches: 260, Mismatches: 35, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
181 1 0.00
182 41 0.16
183 61 0.23
184 121 0.47
185 2 0.01
186 2 0.01
187 1 0.00
188 1 0.00
189 4 0.02
190 22 0.08
191 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (181 bp):
TTGCAGTGAGATAGATTGATCATGATAGCGAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTG
AAGCTACTAAGTCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTC
TCTGAAGTTACAGTAGAACAGATTAAAGCTATAAATCCTATACCCCTGAAC
Found at i:22812267 original size:95 final size:93
Alignment explanation
Indices: 22812134--22812757 Score: 235
Period size: 95 Copynumber: 6.8 Consensus size: 93
22812124 AGTCTAATCT
* * *
22812134 TCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCGAATCTTAT-TTCCTCGAAGTTGCAGTGGAA-
1 TCCTGAAGTTGCAGTGGAGAAGATTGAAGACGCGAATCTTATCTT-CT-AAAGTTGCAGT-GAAG
*
22812197 TAGATTAAAGCTATGAGTTACAAATCTTATC
63 CAGATTAAAGCTATGAGTTACAAATCTTATC
*
22812228 TCCTCGAAGTTGCAGAT-GAGAAGATTGTAGACGCGAATCTTATCTTCTAAAGTTGCAGTGAAGC
1 TCCT-GAAGTTGCAG-TGGAGAAGATTGAAGACGCGAATCTTATCTTCTAAAGTTGCAGTGAAGC
* *
22812292 AGATTAAAGC-------TACAAGTATTATC
64 AGATTAAAGCTATGAGTTACAAATCTTATC
* * * * * ** ** * *
22812315 GCTCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAATCCCATACCCCTGAAGTTGCAGTG-GGA
1 TC-CTGAAGTTGCAGTGGAGAAGATTGAAGACGCGAATCTTAT-CTTCTAAAGTTGCAGTGAAG-
* * * ** *
22812379 CGGATTAAAGTTATTA-TGGCGAATCTTATC
63 CAGATTAAAGCTATGAGTTACAAATCTTATC
* * * * * ** * * * *
22812409 TCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAC-AAGTCTTATCCCCTTGAAGTTGCAATGGAC
1 T-CCTGAAGTTGCAGTGGAGAAGATTGAAGACGCGAA-TCTTATCTTC-TAAAGTTGCAGTGAAG
* *
22812473 CAGACTAAAG--AT-AG---CGAATCTTATC
63 CAGATTAAAGCTATGAGTTACAAATCTTATC
* * * * *** * * * *
22812498 TCTCTGAAATTGCAGTAGAGCAGATTAAAG-CTATAGACCTTATCTCCCTAAAGTTGTAGTGGAG
1 TC-CTGAAGTTGCAGTGGAGAAGATTGAAGACGCGA-ATCTTATCT-TCTAAAGTTGCAGTGAAG
22812562 CAG------G-T-TGAGTTTACAAATCTTATC
63 CAGATTAAAGCTATGAG-TTACAAATCTTATC
* ** * * * * *
22812586 TCCTTGAAGTTGCGGTGGACTAGATTGAAGCCACGAATCTTATCTCCCTGAAGTTGTAGTGGAA-
1 TCC-TGAAGTTGCAGTGGAGAAGATTGAAGACGCGAATCTTATCT-TCTAAAGTTGCAGT-GAAG
* *
22812650 TAGATTAAAGCTACGAGTTACAAATCTTATC
63 CAGATTAAAGCTATGAGTTACAAATCTTATC
* * * * * * * * ** *
22812681 TCCCCGAAGTTACAGAGGAGTAGATTGTAGATGTGAATCTTATCTCCCTAAAGTTGCAACGGAGC
1 T-CCTGAAGTTGCAGTGGAGAAGATTGAAGACGCGAATCTTATCT-TCTAAAGTTGCAGTGAAGC
*
22812746 AGATTGAAGCTA
64 AGATTAAAGCTA
22812758 CAAGTCTTAT
Statistics
Matches: 407, Mismatches: 81, Indels: 83
0.71 0.14 0.15
Matches are distributed among these distances:
83 2 0.00
84 2 0.00
86 1 0.00
87 43 0.11
88 83 0.20
89 62 0.15
90 3 0.01
91 1 0.00
92 2 0.00
93 9 0.02
94 86 0.21
95 105 0.26
96 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (93 bp):
TCCTGAAGTTGCAGTGGAGAAGATTGAAGACGCGAATCTTATCTTCTAAAGTTGCAGTGAAGCAG
ATTAAAGCTATGAGTTACAAATCTTATC
Found at i:22812482 original size:94 final size:89
Alignment explanation
Indices: 22812318--22812528 Score: 228
Period size: 94 Copynumber: 2.3 Consensus size: 89
22812308 TATTATCGCT
* * * * *
22812318 CTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAATCCCATACCCCTGAAGTTGCAGTGGGACGGA
1 CTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCCCATACCCCTGAAGTTGCAATGGGACAGA
*
22812383 TTAAAGTTATTATGGCGAATCTTATCTCC
66 CTAAAG--A-TA--GCGAATCTTATCTCC
* * **
22812412 CTGAAGTTACAGTGGAGCAGATTAAAGCCACAAGTCTTAT-CCCCTTGAAGTTGCAAT-GGACCA
1 CTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCCCATACCCC-TGAAGTTGCAATGGGA-CA
*
22812475 GACTAAAGATAGCGAATCTTATCTCT
64 GACTAAAGATAGCGAATCTTATCTCC
* *
22812501 CTGAAATTGCAGTAGAGCAGATTAAAGC
1 CTGAAGTTGCAGTGGAGCAGATTAAAGC
22812529 TATAGACCTT
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
89 39 0.39
91 2 0.02
92 1 0.01
93 7 0.07
94 52 0.51
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
CTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCCCATACCCCTGAAGTTGCAATGGGACAGA
CTAAAGATAGCGAATCTTATCTCC
Found at i:22812563 original size:44 final size:44
Alignment explanation
Indices: 22812264--22812788 Score: 187
Period size: 44 Copynumber: 11.6 Consensus size: 44
22812254 GTAGACGCGA
* *
22812264 ATCTTATCT-TCTAAAGTTGCAGTGAAGCAGATTAAAGCTACA-
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAG
* * * * * * *
22812306 AGTATTATCGCTCTGAAGTTGCAGTGGAGTAGATTGAAG-TCACAA
1 A-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT-ACAG
** * * * *
22812351 ATCCCATAC-CCCTGAAGTTGCAGTGG-GACGGATTAAAGTTATTATGGCG
1 ATCTTAT-CTCCCTAAAGTTGCAGTGGAG-CAGATTAAAGCTA-CA----G
* * *
22812400 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCACA-
1 -ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAG
* * * * *
22812444 AGTCTTATC-CCCTTGAAGTTGCAATGGACCAGACTAAAGATAGC-G
1 A-TCTTATCTCCC-TAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAG
* * *
22812489 AATCTTATCTCTCTGAAA-TTGCAGTAGAGCAGATTAAAGCTATAG
1 -ATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCTACAG
* * * * * *
22812534 ACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTT-GAGTTTACAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-CTACAG
* * * * *
22812578 ATCTTATCTCCTTGAAGTTGCGGTGGA-CTAGATTGAAGCCAC-G
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGC-AGATTAAAGCTACAG
* * **
22812621 AATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTACGAG
1 -ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC-AG
** * * * ** * **
22812667 TTACAAATCTTATCTCCCCGAAGTTACAGAGGAGTAGATTGTAGAT-GTG
1 ------ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAG
** *
22812716 AATCTTATCTCCCTAAAGTTGCAACGGAGCAGATTGAAGCTACA-
1 -ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAG
* * * *
22812760 AGTCTTATCTCTCTGAAGTTACAGCGGAG
1 A-TCTTATCTCCCTAAAGTTGCAGTGGAG
22812789 TGGATCGAAG
Statistics
Matches: 360, Mismatches: 85, Indels: 74
0.69 0.16 0.14
Matches are distributed among these distances:
42 1 0.00
43 19 0.05
44 231 0.64
45 35 0.10
46 6 0.02
49 3 0.01
50 31 0.09
51 34 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAG
Found at i:22812721 original size:227 final size:225
Alignment explanation
Indices: 22812082--22812788 Score: 667
Period size: 227 Copynumber: 3.1 Consensus size: 225
22812072 TATAGCGAAT
* * *
22812082 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTACTAAGTCTAATCTTCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAATCTAATC-TCCTGAAGTTGCA
* * *
22812147 GTGGAGCAGATTGAAGATGCGAATCTTAT-TTCCTCGAAGTTGCAGTGGAATAGATTAAAGCTAT
64 GTGGA-CAGATTGAAGATACGAATCTTATCTCCCT-GAAGTTGCAGTGGAATAGATTAAAGCTAC
* * *
22812211 GAGTTACAAATCTTATCTCCTCGAAGTTGCAGATGAGAAGATTGTAGACGCGAATCTTATCT-TC
127 GAGTTACAAATCTTATCTCCCCGAAGTTGCAGAGGAGAAGATTGTAGATGCGAATCTTATCTCTC
22812275 TAAAGTTGCAGTGAAGCAGATTAAAGCTACAAGTA
192 TAAAGTTGCAGTG-AGCAGATTAAAGCTACAAGTA
* * * * ** *
22812310 -TTATCGCTCTGAAGTTGCAGTGGAGTAGATTGAAGTCACAAATCCCATACCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTAAT-CTCCTGAAGTTGCAG
* * * **
22812374 TGGGACGGATTAAAGTTATTATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG
65 T-GGACAGATTGAAG--A-TA---CGAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAG
* * ** * **
22812439 C--C-----ACAAGTCTTATC-CCCTTGAAGTTGCA-ATGGACCAGACTAAAGATAGCGAATCTT
123 CTACGAGTTACAAATCTTATCTCCC-CGAAGTTGCAGA-GGAGAAGATTGTAGAT-GCGAATCTT
*
22812495 ATCTCTCTGAAA-TTGCAGTAGAGCAGATTAAAGCTA-TAG-A
185 ATCTCTCT-AAAGTTGCAGT-GAGCAGATTAAAGCTACAAGTA
* * * *
22812535 CCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTG-AGTTTACAAATCTTATCTCCTTGAAGTTGC
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTACAAATCTAATCTCC-TGAAGTTGC
* ** *
22812599 GGTGGACTAGATTGAAGCCACGAATCTTATCTCCCTGAAGTTGTAGTGGAATAGATTAAAGCTAC
63 AGTGGAC-AGATTGAAGATACGAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAC
* * * *
22812664 GAGTTACAAATCTTATCTCCCCGAAGTTACAGAGGAGTAGATTGTAGATGTGAATCTTATCTCCC
127 GAGTTACAAATCTTATCTCCCCGAAGTTGCAGAGGAGAAGATTGTAGATGCGAATCTTATCTCTC
*
22812729 TAAAGTTGCAACG-GAGCAGATTGAAGCTACAAGT-
192 TAAAGTTGC-A-GTGAGCAGATTAAAGCTACAAGTA
* * *
22812763 CTTATCTCTCTGAAGTTACAGCGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
22812789 TGGATCGAAG
Statistics
Matches: 380, Mismatches: 65, Indels: 69
0.74 0.13 0.13
Matches are distributed among these distances:
221 38 0.10
223 1 0.00
224 4 0.01
225 30 0.08
226 55 0.14
227 171 0.45
228 38 0.10
229 6 0.02
232 33 0.09
233 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (225 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTAATCTCCTGAAGTTGCAGT
GGACAGATTGAAGATACGAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACGAGT
TACAAATCTTATCTCCCCGAAGTTGCAGAGGAGAAGATTGTAGATGCGAATCTTATCTCTCTAAA
GTTGCAGTGAGCAGATTAAAGCTACAAGTA
Found at i:22817829 original size:21 final size:21
Alignment explanation
Indices: 22817790--22817865 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
22817780 AGAATCTAAG
22817790 TTGTGTGAAAGAGTG-ACACGC
1 TTGTGTGAAAGAG-GCACACGC
22817811 TTGTGTGAAAGAGGCACACGGCC
1 TTGTGTGAAAGAGGCACAC-G-C
* * *
22817834 ATGTG-G-TAGAGACACACGC
1 TTGTGTGAAAGAGGCACACGC
*
22817853 TTGTGTGATAGAG
1 TTGTGTGAAAGAG
22817866 TTACATGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
19 5 0.11
20 3 0.07
21 31 0.67
22 2 0.04
23 5 0.11
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (21 bp):
TTGTGTGAAAGAGGCACACGC
Found at i:22826619 original size:23 final size:23
Alignment explanation
Indices: 22826593--22826683 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 23
22826583 TCAGCTCGTA
22826593 ATTCAACTAAT-TGGAGCTTACTG
1 ATTCAACTAATAT-GAGCTTACTG
* *
22826616 ATTCAGCTCATATGAGCTTACTG
1 ATTCAACTAATATGAGCTTACTG
* *
22826639 -TTCAGCTCGATA-GAGCTTACTG
1 ATTCAACT-AATATGAGCTTACTG
* *
22826661 TTTCAGCTCAATA-GAGCTTACTG
1 ATTCAACT-AATATGAGCTTACTG
22826684 TTTATTAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
22 17 0.28
23 43 0.70
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (23 bp):
ATTCAACTAATATGAGCTTACTG
Found at i:22826684 original size:23 final size:22
Alignment explanation
Indices: 22826606--22826686 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 22
22826596 CAACTAATTG
*
22826606 GAGCTTACTGATTCAGCTCATA
1 GAGCTTACTGTTTCAGCTCATA
22826628 TGAGCTTACTG-TTCAGCTCGATA
1 -GAGCTTACTGTTTCAGCTC-ATA
22826651 GAGCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTC-ATA
22826674 GAGCTTACTGTTT
1 GAGCTTACTGTTT
22826687 ATTAGCTCCG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
22 18 0.33
23 37 0.67
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTTCAGCTCATA
Found at i:22826877 original size:20 final size:20
Alignment explanation
Indices: 22826852--22826896 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
22826842 AATAAGTTAA
*
22826852 GTTGAAATGGATGAATTACT
1 GTTGAAATGAATGAATTACT
22826872 GTTGAAATGAATGAATTACT
1 GTTGAAATGAATGAATTACT
*
22826892 ATTGA
1 GTTGA
22826897 TACGGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (20 bp):
GTTGAAATGAATGAATTACT
Found at i:22832316 original size:11 final size:11
Alignment explanation
Indices: 22832300--22832324 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22832290 TCTTAGTTGC
22832300 TAGTGAAATGA
1 TAGTGAAATGA
22832311 TAGTGAAATGA
1 TAGTGAAATGA
22832322 TAG
1 TAG
22832325 ACACTAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGTGAAATGA
Found at i:22835766 original size:38 final size:39
Alignment explanation
Indices: 22835714--22835807 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
22835704 CAACCAAGTA
** *
22835714 CCTTCGGGGTTTAGCCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
22835752 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
22835792 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
22835808 CNNNNNNNNN
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 13 0.27
39 14 0.29
40 22 0.45
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:22845454 original size:40 final size:40
Alignment explanation
Indices: 22845367--22845511 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
22845357 GGATATAGCT
* *
22845367 ACTCGCTCAAATGCCTTCGGGACATAGCCC-G-----GTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
* **
22845401 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
* *
22845441 ACTCGCACCAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
* *
22845480 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
22845512 TTATCATCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
34 27 0.29
35 1 0.01
39 32 0.34
40 33 0.35
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
Found at i:22845461 original size:74 final size:71
Alignment explanation
Indices: 22845341--22845475 Score: 173
Period size: 74 Copynumber: 1.9 Consensus size: 71
22845331 AAATCACGTA
* *
22845341 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTAACTCG
1 CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGAC-TAGCCCGG-AACTCG
22845406 CACAAATG
64 CACAAATG
* * * *
22845414 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACCAATGCCTTCGGGACTTGCCCGGAACT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTAGCCCGGAACT
22845476 AGTCACTAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
72 4 0.07
73 20 0.37
74 30 0.56
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (71 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTAGCCCGGAACTCGCA
CAAATG
Found at i:22850204 original size:18 final size:19
Alignment explanation
Indices: 22850181--22850216 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
22850171 GAAATTTCAC
22850181 GAAAAAAAAGGA-AAGAAA
1 GAAAAAAAAGGAGAAGAAA
22850199 GAAAAAAAAGGAGAAGAA
1 GAAAAAAAAGGAGAAGAA
22850217 GCAGCCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAGGAGAAGAAA
Found at i:22852553 original size:58 final size:58
Alignment explanation
Indices: 22852463--22852579 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
22852453 TTAGTAAACC
22852463 TATACTTAGTGCATTCTACTAACATCATCGAAGATGAAGAAAATAAATAGTCAGAGTA
1 TATACTTAGTGCATTCTACTAACATCATCGAAGATGAAGAAAATAAATAGTCAGAGTA
22852521 TATACTTAGTGCATTCTACTAACATCATCGAAGATGAAGAAAATAAATAGTCAGAGTA
1 TATACTTAGTGCATTCTACTAACATCATCGAAGATGAAGAAAATAAATAGTCAGAGTA
22852579 T
1 T
22852580 TGACCTATAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (58 bp):
TATACTTAGTGCATTCTACTAACATCATCGAAGATGAAGAAAATAAATAGTCAGAGTA
Found at i:22857699 original size:45 final size:45
Alignment explanation
Indices: 22857625--22857710 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
22857615 TTTTCCACCA
* *
22857625 AGTATAAATAATTAACAATAAATACTATGTGATTTACTTAAATTT
1 AGTATAAATAATTAACAATAAATAATATGTAATTTACTTAAATTT
* * * * *
22857670 AGTATAAATAATTTATATTATATAATATGTAATTTAGTTAA
1 AGTATAAATAATTAACAATAAATAATATGTAATTTACTTAA
22857711 TTAGACAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (45 bp):
AGTATAAATAATTAACAATAAATAATATGTAATTTACTTAAATTT
Found at i:22858195 original size:12 final size:12
Alignment explanation
Indices: 22858178--22858211 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22858168 CGGCTCGCCC
22858178 ATATTAATTTTT
1 ATATTAATTTTT
*
22858190 ATATTATTTTTT
1 ATATTAATTTTT
22858202 ATA-TAATTTT
1 ATATTAATTTT
22858212 AAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:22858235 original size:18 final size:18
Alignment explanation
Indices: 22858214--22858252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22858204 ATAATTTTAA
*
22858214 AAAAATA-TATAAACCATC
1 AAAAATACTA-AAAACATC
22858232 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
22858250 AAA
1 AAA
22858253 TAAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:22858464 original size:11 final size:11
Alignment explanation
Indices: 22858433--22858472 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
22858423 ACAATAACAA
*
22858433 CAAAATAGTAG
1 CAAAATAATAG
*
22858444 CAAGATAATAG
1 CAAAATAATAG
*
22858455 TAAAATAATAG
1 CAAAATAATAG
22858466 CAAAATA
1 CAAAATA
22858473 GGGAGAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:22859240 original size:12 final size:12
Alignment explanation
Indices: 22859223--22859247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22859213 ATAATTTAAA
22859223 AATTAAAAAATT
1 AATTAAAAAATT
22859235 AATTAAAAAATT
1 AATTAAAAAATT
22859247 A
1 A
22859248 TAACCCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:22861633 original size:27 final size:26
Alignment explanation
Indices: 22861585--22861664 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
22861575 AAAGTAACCA
*
22861585 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
22861611 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * **
22861638 ATAAAGCATTTTAAAATCTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
22861664 A
1 A
22861665 CAAAGCAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:22863482 original size:31 final size:31
Alignment explanation
Indices: 22863436--22863503 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
22863426 AAAAATATAG
* * * *
22863436 AAATTAGACTCTTTTTAAAAGGTTGATGGTT
1 AAATTTGACTATTTTTAAAAGGTTGAGGGTC
22863467 AAATTTGACTATTTTTAAAAGGTTGAGGGTC
1 AAATTTGACTATTTTTAAAAGGTTGAGGGTC
22863498 AAATTT
1 AAATTT
22863504 ACCATTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (31 bp):
AAATTTGACTATTTTTAAAAGGTTGAGGGTC
Found at i:22863673 original size:3 final size:3
Alignment explanation
Indices: 22863667--22863697 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22863657 TTTGATGATA
22863667 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
22863698 TTTGTAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:22872862 original size:41 final size:41
Alignment explanation
Indices: 22872787--22872905 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
22872777 ACAATTTAGT
* *
22872787 CCTTAGCCCATC-TCAG-TACAGTATCAAATATGTAGTAGGA
1 CCTTAGCCCATCAT-AGTTTCAGTGTCAAATATGTAGTAGGA
*
22872827 CCTTAGCCCATCATAGTTTCAGTGTCAAATATGTAGTAGGG
1 CCTTAGCCCATCATAGTTTCAGTGTCAAATATGTAGTAGGA
* * *
22872868 CCTTAGCCCATCACAGTATCAGTGGC-AATCATGTAGTA
1 CCTTAGCCCATCATAGTTTCAGTGTCAAAT-ATGTAGTA
22872906 TTTAGTAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
40 17 0.24
41 53 0.76
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (41 bp):
CCTTAGCCCATCATAGTTTCAGTGTCAAATATGTAGTAGGA
Found at i:22876129 original size:13 final size:13
Alignment explanation
Indices: 22876111--22876135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22876101 TTAGTAGCTT
22876111 AATTGATTATTTC
1 AATTGATTATTTC
22876124 AATTGATTATTT
1 AATTGATTATTT
22876136 GTGGCTGAAT
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:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
AATTGATTATTTC
Found at i:22879679 original size:37 final size:37
Alignment explanation
Indices: 22879623--22879697 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
22879613 ACATAAGTAT
*
22879623 GCATCAAATTTACTGTCACTAGCCATTCCAATGGCTA
1 GCATCAAATTTACTATCACTAGCCATTCCAATGGCTA
*
22879660 GCATTAAATTTACTATCACTAGCCATTCCAATGGCTA
1 GCATCAAATTTACTATCACTAGCCATTCCAATGGCTA
22879697 G
1 G
22879698 TTACAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (37 bp):
GCATCAAATTTACTATCACTAGCCATTCCAATGGCTA
Found at i:22881935 original size:40 final size:40
Alignment explanation
Indices: 22881841--22881985 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
22881831 TACTCGAATG
*
22881841 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
22881882 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
22881922 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
22881962 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
22881986 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:22898063 original size:48 final size:48
Alignment explanation
Indices: 22897975--22898072 Score: 110
Period size: 48 Copynumber: 2.0 Consensus size: 48
22897965 AGTCTACATA
* * * * *
22897975 CCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATGTCGGTG
1 CCGATGCCATATCCCAGACATGGTCTTATACAAAGCCTCATATCGATG
*
22898023 CCGATGCCATGTCCCAGACATGGTC-T-TACAATAGACCTCATATCGATG
1 CCGATGCCATATCCCAGACATGGTCTTATACAA-AG-CCTCATATCGATG
22898071 CC
1 CC
22898073 ATGTCCCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
46 4 0.10
47 3 0.07
48 35 0.83
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CCGATGCCATATCCCAGACATGGTCTTATACAAAGCCTCATATCGATG
Done.