Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 159 of 295
Found at i:50075282 original size:14 final size:14
Alignment explanation
Indices: 50075249--50075282 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50075239 TTAAGATAAT
50075249 AAAAAAATAAAATA
1 AAAAAAATAAAATA
**
50075263 TGAAAAATAAAATA
1 AAAAAAATAAAATA
50075277 AAAAAA
1 AAAAAA
50075283 TATTCAAAAA
Statistics
Matches: 16, Mismatches: 4, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:50076142 original size:13 final size:13
Alignment explanation
Indices: 50076104--50076166 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 13
50076094 ATTTTTCCTC
50076104 AATATTATCA-T-
1 AATATTATCACTA
* *
50076115 TATATAATC-CTA
1 AATATTATCACTA
50076127 AATATTATCACTA
1 AATATTATCACTA
*
50076140 AATA--AT-TCTA
1 AATATTATCACTA
50076150 AATATTATCACTA
1 AATATTATCACTA
50076163 AATA
1 AATA
50076167 ATTCAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
10 7 0.17
11 10 0.25
12 9 0.22
13 14 0.35
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATTATCACTA
Found at i:50076169 original size:23 final size:23
Alignment explanation
Indices: 50076104--50076175 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
50076094 ATTTTTCCTC
* * *
50076104 AATATTATCATTATATAATCCTA
1 AATATTATCACTAAATAATTCTA
50076127 AATATTATCACTAAATAATTCTA
1 AATATTATCACTAAATAATTCTA
*
50076150 AATATTATCACTAAATAATTCAA
1 AATATTATCACTAAATAATTCTA
50076173 AAT
1 AAT
50076176 TTTAAAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATTATCACTAAATAATTCTA
Found at i:50077001 original size:14 final size:15
Alignment explanation
Indices: 50076963--50077033 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 15
50076953 ATTCAATGGC
*
50076963 CATATTGCAACGGTT
1 CATATTGCAACAGTT
* *
50076978 -AGATTCCAAC-GTT
1 CATATTGCAACAGTT
50076991 CATATTGCAACAGTT
1 CATATTGCAACAGTT
* * *
50077006 -AGATTCCAATAG-T
1 CATATTGCAACAGTT
50077019 CATATTGCAACAGTT
1 CATATTGCAACAGTT
50077034 AGATTTCAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
13 4 0.10
14 34 0.81
15 4 0.10
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (15 bp):
CATATTGCAACAGTT
Found at i:50077060 original size:28 final size:28
Alignment explanation
Indices: 50076963--50077053 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
50076953 ATTCAATGGC
* *
50076963 CATATTGCAACGGTTAGATTCCAACGTT
1 CATATTGCAACAGTTAGATTCCAACGAT
*
50076991 CATATTGCAACAGTTAGATTCCAA-TAGT
1 CATATTGCAACAGTTAGATTCCAACGA-T
*
50077019 CATATTGCAACAGTTAGATTTCAACGAT
1 CATATTGCAACAGTTAGATTCCAACGAT
50077047 CATATTG
1 CATATTG
50077054 TGACAGTCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 55 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (28 bp):
CATATTGCAACAGTTAGATTCCAACGAT
Found at i:50078141 original size:9 final size:9
Alignment explanation
Indices: 50078127--50078159 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
50078117 TAATAAATCA
50078127 TTAATATTC
1 TTAATATTC
50078136 TTAATATTC
1 TTAATATTC
50078145 TTAATTATT-
1 TTAA-TATTC
50078154 TTAATA
1 TTAATA
50078160 AATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 17 0.74
10 4 0.17
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATATTC
Found at i:50078187 original size:31 final size:31
Alignment explanation
Indices: 50078149--50078239 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 31
50078139 ATATTCTTAA
50078149 TTATTTTAATAAATAATTTAATATTAA-AATT
1 TTATTTTAAT-AATAATTTAATATTAATAATT
*
50078180 TTATTTTAATAATAAATTTTAACATTAATAATT
1 TTATTTTAATAAT-AA-TTTAATATTAATAATT
* *
50078213 TAAATTTTAAGTAATATTATTAATATT
1 T-TATTTTAA-TAATAAT-TTAATATT
50078240 TTATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
30 3 0.06
31 12 0.24
32 10 0.20
33 6 0.12
34 15 0.30
35 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TTATTTTAATAATAATTTAATATTAATAATT
Found at i:50078189 original size:19 final size:18
Alignment explanation
Indices: 50078165--50078200 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50078155 TAATAAATAA
*
50078165 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
50078184 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
50078201 ACATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:50078345 original size:13 final size:13
Alignment explanation
Indices: 50078316--50078358 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
50078306 ATGTTTTGTA
50078316 ATATTAAATATAGAT
1 ATATT-AATATA-AT
*
50078331 ATTTTAATATAAT
1 ATATTAATATAAT
50078344 ATATTAATA-AAT
1 ATATTAATATAAT
50078356 ATA
1 ATA
50078359 ATATTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 10 0.38
14 6 0.23
15 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTAATATAAT
Found at i:50080032 original size:10 final size:10
Alignment explanation
Indices: 50080012--50080045 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
50080002 TATCTGTGTT
50080012 TCTCAGTTGTA
1 TCTC-GTTGTA
50080023 TCTCGTTGTA
1 TCTCGTTGTA
50080033 TCTCGTTGTA
1 TCTCGTTGTA
50080043 TCT
1 TCT
50080046 ATTTATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (10 bp):
TCTCGTTGTA
Found at i:50088262 original size:16 final size:16
Alignment explanation
Indices: 50088243--50088276 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50088233 ACCTTAGATT
*
50088243 AGCTCCCCCTTCGAAG
1 AGCTCACCCTTCGAAG
50088259 AGCTCACCCTTCGAAG
1 AGCTCACCCTTCGAAG
50088275 AG
1 AG
50088277 TCGATCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.18
Consensus pattern (16 bp):
AGCTCACCCTTCGAAG
Found at i:50090574 original size:94 final size:92
Alignment explanation
Indices: 50090365--50090589 Score: 217
Period size: 94 Copynumber: 2.4 Consensus size: 92
50090355 GGGGTAAGGT
* *
50090365 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATTTCATAGCTGATGCATGTCCCAG
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAG
* *
50090428 ACATGTCTTACACTGGTTTACATTTCGAG
64 ACATGTCTTACACTGGTCTACATATCGAG
* * * * * * *
50090457 GCCAATGTATGTCCCAAATATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATGTCCCAG
* * *
50090521 ACATGGTCTTATATTGGCTCT-CATAAT-GTG
64 ACAT-GTCTTACACTGG-TCTACAT-ATCGAG
*
50090551 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACA
50090590 CAAATGACCC
Statistics
Matches: 104, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
90 10 0.10
91 12 0.12
92 19 0.18
93 14 0.13
94 46 0.44
95 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (92 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGTCTACATATCGAG
Found at i:50096354 original size:10 final size:10
Alignment explanation
Indices: 50096309--50096368 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
50096299 TAATTTTAGG
50096309 ATTTAT-TTT
1 ATTTATCTTT
50096318 CATTTATCTTT
1 -ATTTATCTTT
*
50096329 AATTATCTTT
1 ATTTATCTTT
*
50096339 AATTATCTTT
1 ATTTATCTTT
*
50096349 GTTTAT-TTGT
1 ATTTATCTT-T
50096359 ATTTATCTTT
1 ATTTATCTTT
50096369 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:50097130 original size:40 final size:40
Alignment explanation
Indices: 50097054--50097133 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
50097044 TTGAAATTCC
* ***
50097054 AATCAAAACTTTTAATTCTGTTTTTTATTTTATTTTTTCA
1 AATCAAAACTTTTAATTATGTTTTTTAAAATATTTTTTCA
*
50097094 AATCAAAACTTTTAATTATATTTTTTTAAAAT-TTTTTTCA
1 AATCAAAACTTTTAATTAT-GTTTTTTAAAATATTTTTTCA
50097134 GGTATGCTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (40 bp):
AATCAAAACTTTTAATTATGTTTTTTAAAATATTTTTTCA
Found at i:50098710 original size:40 final size:40
Alignment explanation
Indices: 50098538--50098703 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
50098528 AACCCAAGTA
* * *
50098538 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
50098577 CCTTCGAGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50098617 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50098657 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
50098697 CCTTCGG
1 CCTTCGG
50098704 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.10
40 105 0.90
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:50100132 original size:13 final size:13
Alignment explanation
Indices: 50100116--50100143 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50100106 TTTATTATTT
50100116 TTAACACAAAATA
1 TTAACACAAAATA
50100129 TTAACACAAAATA
1 TTAACACAAAATA
50100142 TT
1 TT
50100144 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:50102082 original size:76 final size:75
Alignment explanation
Indices: 50101919--50102089 Score: 202
Period size: 76 Copynumber: 2.3 Consensus size: 75
50101909 AAATTATGCA
* *
50101919 AAATATGTTATGAATTGAGACATCACATAAATACAAATTTTTTTCTTTAAACTGAACCACTATAA
1 AAATATGTTATGAATTGAGACATCACACAAATACAAATTTTTTTCTTTAAACTAAACCACTATAA
*
50101984 TAAACTATGT
66 CAAACTATGT
* * * ** *
50101994 AAAATATATTATGAATTGAGACATGACACAAATTCAATATTTTTTTTCTTTTAAGTTAAATCACT
1 -AAATATGTTATGAATTGAGACATCACACAAATACAA-A-TTTTTTTC-TTTAAACTAAACCACT
*
50102059 GTAACAAACTATGT
62 ATAACAAACTATGT
50102073 -AA-ATGTTATGAATTGAG
1 AAATATGTTATGAATTGAG
50102090 GCACGAGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
76 46 0.57
77 3 0.04
78 8 0.10
79 24 0.30
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (75 bp):
AAATATGTTATGAATTGAGACATCACACAAATACAAATTTTTTTCTTTAAACTAAACCACTATAA
CAAACTATGT
Found at i:50105338 original size:31 final size:31
Alignment explanation
Indices: 50105266--50105339 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
50105256 TTAACAATAA
50105266 AATAATTAAAATTGACAACTTATTTCATAGG
1 AATAATTAAAATTGACAACTTATTTCATAGG
* * * *
50105297 AGTTATTAAAATTGACAACTTATTTTATATG
1 AATAATTAAAATTGACAACTTATTTCATAGG
*
50105328 AATAACTAAAAT
1 AATAATTAAAAT
50105340 AACAATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (31 bp):
AATAATTAAAATTGACAACTTATTTCATAGG
Found at i:50106686 original size:31 final size:32
Alignment explanation
Indices: 50106646--50106720 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
50106636 AAAATTTACA
* **
50106646 ATTT-AGTCATTAAATTATTTGAAAG-TTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
*
50106676 ATTTAAGTCATTGAACTATTCAAAAGTTTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
50106708 ATTTAAGTCATTA
1 ATTTAAGTCATTA
50106721 GATTGTTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 4 0.11
31 17 0.45
32 17 0.45
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (32 bp):
ATTTAAGTCATTAAACTATTCAAAAGTTTTTT
Found at i:50110042 original size:25 final size:25
Alignment explanation
Indices: 50110014--50110065 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
50110004 TTTGGCTTGA
*
50110014 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
50110039 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
50110064 CA
1 CA
50110066 AATTATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:50116685 original size:31 final size:29
Alignment explanation
Indices: 50116659--50116719 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
50116649 CTAAAATATA
*
50116659 ATAATATTTT-AATATAAGTAATTAAAAT
1 ATAATATTTTAAATATAAATAATTAAAAT
50116687 ATAATATTTTAAATATAAATAATTAAAAT
1 ATAATATTTTAAATATAAATAATTAAAAT
50116716 ATAA
1 ATAA
50116720 ACTATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
ATAATATTTTAAATATAAATAATTAAAAT
Found at i:50116702 original size:14 final size:14
Alignment explanation
Indices: 50116650--50116719 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 14
50116640 ACGTAGTGAC
50116650 TAAAATATAATAATAT
1 TAAAATATAAT-A-AT
**
50116666 TTTAATATAAGTAAT
1 TAAAATATAA-TAAT
*
50116681 TAAAATATAATATT
1 TAAAATATAATAAT
*
50116695 TTAAATATAAATAAT
1 TAAAATAT-AATAAT
50116710 TAAAATATAA
1 TAAAATATAA
50116720 ACTATTATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
14 12 0.27
15 22 0.50
16 9 0.20
17 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (14 bp):
TAAAATATAATAAT
Found at i:50116720 original size:15 final size:15
Alignment explanation
Indices: 50116669--50116720 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
50116659 ATAATATTTT
*
50116669 AATATAAGTAATTAA
1 AATATAAATAATTAA
* *
50116684 AATAT-AATATTTTA
1 AATATAAATAATTAA
50116698 AATATAAATAATTAA
1 AATATAAATAATTAA
50116713 AATATAAA
1 AATATAAA
50116721 CTATTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:50119515 original size:15 final size:15
Alignment explanation
Indices: 50119487--50119523 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
50119477 TACTAGTGCC
* *
50119487 CCACCCCCTTCAAGA
1 CCACCACCTCCAAGA
50119502 CCACCACCTCCAAGA
1 CCACCACCTCCAAGA
50119517 CCACCAC
1 CCACCAC
50119524 GAGTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.57, G:0.05, T:0.08
Consensus pattern (15 bp):
CCACCACCTCCAAGA
Found at i:50126527 original size:158 final size:158
Alignment explanation
Indices: 50125989--50127051 Score: 1529
Period size: 158 Copynumber: 6.7 Consensus size: 158
50125979 GAGTTTTTAA
* * * * *
50125989 GGTTTAGGGTTTTAGTATTTTTT-AAGAAAAAATTAATTTAATTAGAATTGAAGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126053 AAATTAACTATGAAAAT---AAAAA-AATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGATTT
66 AAATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
* **
50126114 TTGATAGTTTTAGGATTGAGGTTTTAGT
131 TTGATTGTTTTAGGATCAAGGTTTTAGT
* *
50126142 GGTTTAGAATTTTTGTG-TTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126206 AAATTAACTATGAAAATAAAAAATA-AATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGATT
66 AAATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
*
50126270 TTGATTGTTTTAGGATCAGGGTTTTAGT
131 TTGATTGTTTTAGGATCAAGGTTTTAGT
* ** * *
50126298 GGTTTTGGATTTTAG-CATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGATGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126362 AAATTAACTATGAAAATAAAAAAAATAACTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGGTT
66 AAATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
* *
50126427 TTGATTGTTTTAAGATCAAAGTTTTAGT
131 TTGATTGTTTTAGGATCAAGGTTTTAGT
* *
50126455 GGTTTTGGATTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* * * *
50126520 AAATTAACTATGAAAATAAAAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTTATGATTAAG
66 AAATTAACTATGAAAAT--AAAAAAAAT-AATTAAATTAGGGTTT-AAGGTTTTTTAAGGTTAGG
*
50126585 GTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
127 GTTTTTGATTGTTTTAGGATCAAGGTTTTAGT
* * *
50126617 GGTTTAGGGTTTTAGT-ATTTTT-AAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126680 AAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAGGGTTTTTTAAAGTTAGGGT
66 AAATTAACTATGAAAAT-AAAAAAAAT-AATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGT
* *
50126745 TTTTGATTGTTTTAGGATTAGGGTTTTAGT
129 TTTTGATTGTTTTAGGATCAAGGTTTTAGT
* * *
50126775 GGTTTAGAATTTTTGTATTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* * *
50126840 AAATTAACTATGAAAAT-AAAAAAGTCAATTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGTT
66 AAATTAACTATGAAAATAAAAAAAAT-AATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTT
*
50126904 TTTGATTGTTTTAGGATTAAGGTTTTAGT
130 TTTGATTGTTTTAGGATCAAGGTTTTAGT
*
50126933 GGTTTAAGG-TTTTTGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAAT
1 GGTTT-AGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAAT
* *
50126997 TAAATTAACTATGAAATTAAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTTA
65 TAAATTAACTATGAAAATAAAAAAAA-TAATTAAATTAGGGTTTAAGGTTTTTTA
50127052 GAGTTTATTA
Statistics
Matches: 828, Mismatches: 66, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
152 5 0.01
153 68 0.08
156 145 0.18
157 77 0.09
158 268 0.32
159 65 0.08
160 123 0.15
161 20 0.02
162 57 0.07
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (158 bp):
GGTTTAGGATTTTAGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
AAATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGTTT
TTGATTGTTTTAGGATCAAGGTTTTAGT
Found at i:50126665 original size:318 final size:313
Alignment explanation
Indices: 50125989--50127051 Score: 1616
Period size: 320 Copynumber: 3.4 Consensus size: 313
50125979 GAGTTTTTAA
* * *
50125989 GGTTTAGGGTTTTAGTATTTTTTAAGAAAAAATTAATTTAATTAGAATTGAAGGTTAATTAATTA
1 GGTTTAGGGTTTTAGTA-TTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
*
50126054 AATTAACTATGAAAAT---AAAAA-AATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGATTTT
65 AATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGGTTTT
* *
50126115 TGATAGTTTTAGGATTGAGGTTTTAGTGGTTTAGAATTTTTGTG-TTTTTAAAGGAAAAATTAAT
130 TGATTGTTTTAGGATTAAGGTTTTAGTGGTTTAGAATTTTTGTGTTTTTTAAAGGAAAAATTAAT
*
50126179 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAAT-AAAAAATAAATTAAATTAGG
195 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGG
* * *
50126243 GTTTAAGGTTTTTTAAGGTTAGGGATTTTGATTGTTTTAGGATCAGGGTTTTAGT
260 GTTTAAGATTTTTT-AGATTAGGGTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
* * * *
50126298 GGTTTTGGATTTTAGCATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGATGGTTAATTAATTA
1 GGTTTAGGGTTTTAGTATTTTTAA-GGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* * *
50126363 AATTAACTATGAAAATAAAAAAAATAACTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGGTTT
65 AATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGGTTTT
* * * * * * *
50126428 TGATTGTTTTAAGATCAAAGTTTTAGTGGTTTTGGATTTTAGTGTTTTTTAAGGGAAAAATTAAT
130 TGATTGTTTTAGGATTAAGGTTTTAGTGGTTTAGAATTTTTGTGTTTTTTAAAGGAAAAATTAAT
50126493 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAAAATCAATTAAATT
195 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAAT---AAAAAAATCAATTAAATT
* *
50126558 AGGGTTTAAAGTTTTTTTATGATTAAGGTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
257 AGGGTTT-AAGATTTTTTA-GATTAGGGTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
*
50126617 GGTTTAGGGTTTTAGTATTTTTAAGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
1 GGTTTAGGGTTTTAGTATTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
*
50126682 ATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGTTTAGGGTTTTTTAAAGTTAGGGTTT
66 ATTAACTATGAAAAT-AAAAAAAAT-AATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGGTTT
* *
50126747 TTGATTGTTTTAGGATTAGGGTTTTAGTGGTTTAGAATTTTTGTATTTTTTAAAGGAAAAATTAA
129 TTGATTGTTTTAGGATTAAGGTTTTAGTGGTTTAGAATTTTTGTGTTTTTTAAAGGAAAAATTAA
*
50126812 TTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAGTCAATTAAATTAG
194 TTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAG
* * *
50126877 GGTTTAAGATTTTTTAAAGTTAGGGTTTTTGATTGTTTTAGGATTAAGGTTTTAGT
259 GGTTTAAGATTTTTTAGA-TTAGGGTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
* * *
50126933 GGTTTAAGGTTTTTGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGGGTTTTAGT-ATTTTT-AAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
*
50126998 AAATTAACTATGAAATTAAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTTA
64 AAATTAACTATGAAAATAAAAAAAA-TAATTAAATTAGGGTTTAGGGTTTTTTA
50127052 GAGTTTATTA
Statistics
Matches: 683, Mismatches: 53, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
308 7 0.01
309 67 0.10
312 5 0.01
313 72 0.11
314 63 0.09
315 1 0.00
316 58 0.08
317 64 0.09
318 135 0.20
319 75 0.11
320 136 0.20
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (313 bp):
GGTTTAGGGTTTTAGTATTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
ATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAGGGTTTTTTAAGGTTAGGGTTTTT
GATTGTTTTAGGATTAAGGTTTTAGTGGTTTAGAATTTTTGTGTTTTTTAAAGGAAAAATTAATT
TAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATCAATTAAATTAGGG
TTTAAGATTTTTTAGATTAGGGTTTTTGATTGTTTTAGGATCAGGGTTTTAGT
Found at i:50126875 original size:478 final size:470
Alignment explanation
Indices: 50125989--50127050 Score: 1575
Period size: 478 Copynumber: 2.2 Consensus size: 470
50125979 GAGTTTTTAA
* * * *
50125989 GGTTTAGGGTTTTAGTATTTTTTAAGAAAAAATTAATTTAATTAGAATTGAAGGTTAATTAATTA
1 GGTTTA-GGTTTTAGTGTTTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTA
* *
50126054 AATTAACTATGAAAAT---AAAAA-AATTAAATTAGGGTTT-AGGGTTTTTTAAGGTTAGGATTT
65 AATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTTAAGATTAGGATTT
* * *
50126114 TTGATAGTTTTAGGATTGAGGTTTTAGTGGTTTAGAATTTTTGTGTTTTTAAAGGAAAAATTAAT
130 TTGATAGTTTTAGGATAGAGGTTTTAGTGGTTTAGAATTTTAGTATTTTTAAAGGAAAAATTAAT
50126179 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAATAAATTAAATTAGGG
195 TTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAATAAATTAAATTAGGG
* * *
50126244 TTTAAGGTTTTTTAAGGTTAGGGATTTTGATTGTTTTAGGATCAGGGTTTTAGTGGTTTTGGATT
260 TTTAAGGTTTTTTAAAGTTAGGGATTTTGATTGTTTTAGGATCAGGGTTTTAGTGGTTTAGAATT
* *
50126309 TTAGCATTTTTAAGGGAAAAATTAATTTAATTAGAGTTGATGGTTAATTAATTAAATTAACTATG
325 TTAGCATTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATG
* *
50126374 AAAATAAAAAAAATAACTAAATTAGGGTTTAAGGTTTTTTAAGGTTAGGGGTTTTGATTGTTTTA
390 AAAATAAAAAAAATAACTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGGTTTTGATTGTTTTA
50126439 AGATCAAAGTTTTAGT
455 AGATCAAAGTTTTAGT
*
50126455 GGTTTTGGATTTTAGTGTTTTTTAAGGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTTAGG-TTTTAGTGTTTTTTAA-GGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126520 AAATTAACTATGAAAATAAAAAAAAAATCAATTAAATTAGGGTTTAAAGTTTTTTTATGATTAAG
64 AAATTAACTATGAAAAT--AAAAAAAAT-AATTAAATTAGGGTTTAAGGTTTTTTTAAGATT-AG
* ** *
50126585 G-TTTTTGATTGTTTTAGGATCAG-GGTTTTAGTGGTTTAGGGTTTTAGTATTTTT-AAGGGAAA
125 GATTTTTGATAGTTTTAGGAT-AGAGGTTTTAGTGGTTTAGAATTTTAGTATTTTTAAAGGAAAA
*
50126647 ATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAAAATCAATT
189 ATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAAT---AAAAAATAAATT
* * *
50126712 AAATTAGGGTTTAGGGTTTTTTAAAGTTAGGGTTTTTGATTGTTTTAGGATTAGGGTTTTAGTGG
251 AAATTAGGGTTTAAGGTTTTTTAAAGTTAGGGATTTTGATTGTTTTAGGATCAGGGTTTTAGTGG
* *
50126777 TTTAGAATTTTTGTATTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
316 TTTAGAATTTTAGCA-TTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
* * *
50126842 ATTAACTATGAAAAT-AAAAAAGTCAATTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGTTTT
380 ATTAACTATGAAAATAAAAAAAAT-AACTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGGTTT
* * *
50126906 TGATTGTTTTAGGATTAAGGTTTTAGT
444 TGATTGTTTTAAGATCAAAGTTTTAGT
*
50126933 GGTTTAAGGTTTTTGTGTTTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
1 GGTTT-AGGTTTTAGTGTTTTTT-AAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATT
* *
50126998 AAATTAACTATGAAATTAAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTT
64 AAATTAACTATGAAAATAAAAAAAA-TAATTAAATTAGGGTTTAAGGTTTTTT
50127051 AGAGTTTATT
Statistics
Matches: 536, Mismatches: 40, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
465 2 0.00
466 20 0.04
467 53 0.10
472 5 0.01
474 73 0.14
475 57 0.11
476 36 0.07
477 91 0.17
478 195 0.36
479 4 0.01
ACGTcount: A:0.36, C:0.01, G:0.19, T:0.43
Consensus pattern (470 bp):
GGTTTAGGTTTTAGTGTTTTTTAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAA
ATTAACTATGAAAATAAAAAAAATAATTAAATTAGGGTTTAAGGTTTTTTTAAGATTAGGATTTT
TGATAGTTTTAGGATAGAGGTTTTAGTGGTTTAGAATTTTAGTATTTTTAAAGGAAAAATTAATT
TAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAATAAATTAAATTAGGGT
TTAAGGTTTTTTAAAGTTAGGGATTTTGATTGTTTTAGGATCAGGGTTTTAGTGGTTTAGAATTT
TAGCATTTTTAAAGGAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACTATGA
AAATAAAAAAAATAACTAAATTAGGGTTTAAGATTTTTTAAAGTTAGGGGTTTTGATTGTTTTAA
GATCAAAGTTTTAGT
Found at i:50126910 original size:23 final size:23
Alignment explanation
Indices: 50126868--50126916 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
50126858 AAAAAGTCAA
50126868 TTAAATTAGGGTTTAAGATT-TT
1 TTAAATTAGGGTTTAAGATTGTT
**
50126890 TTAAAGTTAGGGTTTTTGATTGTT
1 TTAAA-TTAGGGTTTAAGATTGTT
50126914 TTA
1 TTA
50126917 GGATTAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 13 0.57
24 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (23 bp):
TTAAATTAGGGTTTAAGATTGTT
Found at i:50127308 original size:125 final size:126
Alignment explanation
Indices: 50127077--50127633 Score: 888
Period size: 126 Copynumber: 4.5 Consensus size: 126
50127067 ATTAACTATT
* *
50127077 AATTACGGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * * *
50127142 GAGAATATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGAAGGATGCATTGTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * *
50127203 AATTACGGAAAAAAGGTCCCATGTGGACGCTCTTTTGCTGCAGTAGTATCTGA-AAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * *
50127267 GAGAAGATGTTTCTGAACAAATAGTGTTAAAAAAGTTTCAAGAAGGATGCACTGTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* *
50127328 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATGATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
*
50127393 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGTAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
* * * *
50127454 AATTACGGAAAAAAGCTCCTACGTGAACGTTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * *
50127519 AAGAAGATGTTT-TGAATAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
50127579 AATTACGG-AAAAAGCTCCCACGTGGACGCTC-TTTGCTACAGTAGTATCTGATAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAA
50127634 GCCTTAAACT
Statistics
Matches: 401, Mismatches: 29, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
123 24 0.06
124 20 0.05
125 170 0.42
126 187 0.47
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:50127542 original size:251 final size:251
Alignment explanation
Indices: 50127077--50127633 Score: 886
Period size: 251 Copynumber: 2.2 Consensus size: 251
50127067 ATTAACTATT
* *
50127077 AATTACGGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
* * * *
50127142 GAGAATATGTTTCTGAACAAATAGTGTTAAAAACGCTTCAAGAAGGATGCATTGTTAGCAAAATT
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATT
* * * * *
50127207 ACGGAAAAAAGGTCCCATGTGGACGCTCTTTTGCTGCAGTAGTATCTGAAAAATAAATTTGAGAA
131 ACGGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTATCTGAAAAATAAATTTAAGAA
* *
50127272 GATGTTTCTGAACAAATAGTGTTAAAAAAGTTTCAAGAAGGATGCACTGTCAGCAA
196 GATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
* *
50127328 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATGATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
*
50127393 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGTAAAATT
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATT
* * *
50127458 ACGGAAAAAAGCTCCTACGTGAACGTTCTTTTGCTACAGTAGTATCTGATAAAATAATTTTAAGA
131 ACGGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTATCTGA-AAAATAAATTTAAGA
* * *
50127523 AGATGTTT-TGAATAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTTAGCAA
195 AGATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
50127579 AATTACGG-AAAAAGCTCCCACGTGGACGCTC-TTTGCTACAGTAGTATCTGATAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAA
50127634 GCCTTAAACT
Statistics
Matches: 283, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
249 24 0.08
250 23 0.08
251 215 0.76
252 21 0.07
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (251 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAAATTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATT
ACGGAAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTATCTGAAAAATAAATTTAAGAA
GATGTTTCTGAACAAATAGTGTCAAAAAAGCTTCAAGAAGGATGCACTGTCAGCAA
Found at i:50131259 original size:18 final size:18
Alignment explanation
Indices: 50131233--50131267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50131223 GACTGGGAAA
50131233 AGGAAACATAAAAGGGTT
1 AGGAAACATAAAAGGGTT
* *
50131251 AGGATACATATAAGGGT
1 AGGAAACATAAAAGGGT
50131268 CAAGATACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.20
Consensus pattern (18 bp):
AGGAAACATAAAAGGGTT
Found at i:50131911 original size:14 final size:14
Alignment explanation
Indices: 50131892--50131924 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
50131882 TTATATAGGT
50131892 AATACTAAATAATA
1 AATACTAAATAATA
*
50131906 AATACTAAATATTA
1 AATACTAAATAATA
50131920 AATAC
1 AATAC
50131925 AAAACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (14 bp):
AATACTAAATAATA
Found at i:50142456 original size:23 final size:24
Alignment explanation
Indices: 50142392--50142456 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
50142382 CTGACGGGCT
50142392 TAAATAATTTTAAATTTTCTAAGTTA
1 TAAAT-ATTTT-AATTTTCTAAGTTA
50142418 TAAATATTTTAATTTT-TAA-TTA
1 TAAATATTTTAATTTTCTAAGTTA
* *
50142440 TAATTCATTTTACTTTT
1 TAAAT-ATTTTAATTTT
50142457 ATGCAATGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 7 0.19
23 13 0.36
24 6 0.17
25 5 0.14
26 5 0.14
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (24 bp):
TAAATATTTTAATTTTCTAAGTTA
Found at i:50144731 original size:30 final size:30
Alignment explanation
Indices: 50144674--50144731 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50144664 TTTTTGAGCA
* **
50144674 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
*
50144704 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
50144732 ACGTGAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:50145218 original size:46 final size:46
Alignment explanation
Indices: 50145122--50145288 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
50145112 TGAGAGCCAA
* *
50145122 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACTAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACTAGTCCCAG
*
50145170 TGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-T-GTAACCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACTAGT--CCCAG
* * * * * **
50145216 TGTAAGACATGTCTAGGACATGCACCGGC--TAAGAGTTGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACTAGTCCCAG
*
50145260 TGTAAGACCATGTCTGGGATATGGCATCG
1 TGTAAGA-CATGTCTGGGACAT-GCATCG
50145289 ACACGGATAG
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 16 0.16
45 14 0.14
46 51 0.50
47 14 0.14
48 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACTAGTCCCAG
Found at i:50145634 original size:21 final size:21
Alignment explanation
Indices: 50145609--50145653 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
50145599 TTTATATGCA
50145609 ACTTACTAAGCTTTTATGCTT
1 ACTTACTAAGCTTTTATGCTT
50145630 ACTTACTAAGCTTTTATGCTT
1 ACTTACTAAGCTTTTATGCTT
50145651 ACT
1 ACT
50145654 CCCCTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (21 bp):
ACTTACTAAGCTTTTATGCTT
Found at i:50152393 original size:30 final size:30
Alignment explanation
Indices: 50152336--50152393 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50152326 TTTTAAAGCA
* * **
50152336 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
50152366 TAGGGGCAAAATAGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
50152394 ATGTGAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:50152903 original size:46 final size:45
Alignment explanation
Indices: 50152781--50152904 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 45
50152771 TTATGAGAGC
* *
50152781 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTG
1 CAGTGTAAGACCAT-TCTGGGACATGGCATCGGCA-TAAGACGAGTG
* * *
50152828 CTAGTGTAAGACACGTT-TGGAACAT-GCATCGGC-TAAGA-GTTGTG
1 C-AGTGTAAGAC-CATTCTGGGACATGGCATCGGCATAAGACG-AGTG
50152872 TCAGTGTAAGACCATATCTGGGACATGGCATCG
1 -CAGTGTAAGACCAT-TCTGGGACATGGCATCG
50152905 ACACAGATAG
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
43 3 0.05
44 18 0.29
45 8 0.13
46 14 0.22
47 7 0.11
48 11 0.17
49 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACCATTCTGGGACATGGCATCGGCATAAGACGAGTG
Found at i:50171083 original size:3 final size:3
Alignment explanation
Indices: 50171075--50171110 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50171065 TTTATTAACT
50171075 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50171111 ATATATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:50171124 original size:19 final size:20
Alignment explanation
Indices: 50171102--50171140 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50171092 ATAATAATAA
*
50171102 TAATAATAAATATAT-TATT
1 TAATAACAAATATATATATT
50171121 TAATAACAAATATATATATT
1 TAATAACAAATATATATATT
50171141 ACAATTGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAACAAATATATATATT
Found at i:50171545 original size:25 final size:27
Alignment explanation
Indices: 50171511--50171572 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 27
50171501 TGGCTTTAAT
*
50171511 TTAATTTAATTCATAATATGATATTTATAA
1 TTAA-TTAATTAATAATAT-AT-TTTATAA
50171541 TTAATTAATTTAATAATATATTTTATAA
1 TTAATTAA-TTAATAATATATTTTATAA
50171569 TTAA
1 TTAA
50171573 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 11 0.37
29 6 0.20
30 13 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAATTAATTAATAATATATTTTATAA
Found at i:50171579 original size:20 final size:21
Alignment explanation
Indices: 50171546--50171586 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
50171536 TATAATTAAT
*
50171546 TAATTTAATAATATAT-TTTA
1 TAATTAAATAATATATATTTA
*
50171566 TAATTAAATTATATATATTTA
1 TAATTAAATAATATATATTTA
50171587 CATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAAATAATATATATTTA
Found at i:50174122 original size:21 final size:22
Alignment explanation
Indices: 50174092--50174138 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
50174082 CTTAATTAAC
*
50174092 TAATTAAAACATTATTAAAT-T
1 TAATTAAAACATAATTAAATAT
* *
50174113 TAATTTAAACATAATTTAATAT
1 TAATTAAAACATAATTAAATAT
50174135 TAAT
1 TAAT
50174139 GGAATTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAAAACATAATTAAATAT
Found at i:50174514 original size:95 final size:95
Alignment explanation
Indices: 50174351--50174540 Score: 274
Period size: 95 Copynumber: 2.0 Consensus size: 95
50174341 TATCAACTCC
* * * * ** **
50174351 GTAAATATTTCTATTTTATATTTATGGACTTGGTTTATGTTTTATGGAAATGAGGTTCTAAAATC
1 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTATGTTTTACAGAAATGAAATTCTAAAATC
*
50174416 ATATTTTTCAACACCATTGAAAATCGAGTT
66 ATATTTTTCAACACCATTAAAAATCGAGTT
50174446 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTACTG-TTTACAGAAATGAAATTCTAAAAT
1 GTAAATATTCCTATTTTATATTTACGAACTTAGTTTA-TGTTTTACAGAAATGAAATTCTAAAAT
*
50174510 CATATTTTTTAACACCATTAAAAATCGAGTT
65 CATATTTTTCAACACCATTAAAAATCGAGTT
50174541 ATTACAGATC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 82 0.98
96 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (95 bp):
GTAAATATTCCTATTTTATATTTACGAACTTAGTTTATGTTTTACAGAAATGAAATTCTAAAATC
ATATTTTTCAACACCATTAAAAATCGAGTT
Found at i:50174800 original size:19 final size:19
Alignment explanation
Indices: 50174761--50174802 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50174751 AGTTTAGTTG
* *
50174761 TATATATTAATTAATATAT
1 TATATATTAATTAAAAAAT
*
50174780 TATATATTTATTAAAAAAT
1 TATATATTAATTAAAAAAT
50174799 TATA
1 TATA
50174803 ACCTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTAATTAAAAAAT
Found at i:50175108 original size:26 final size:26
Alignment explanation
Indices: 50175056--50175107 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
50175046 ATTAAATTGT
*
50175056 AGTTTGAAAAAAAAAATCATTTAAAA
1 AGTTTGAAAAAAAAAACCATTTAAAA
50175082 AGTTTG-AAAAAAAAACCATTTAAAA
1 AGTTTGAAAAAAAAAACCATTTAAAA
50175107 A
1 A
50175108 AAACAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (26 bp):
AGTTTGAAAAAAAAAACCATTTAAAA
Found at i:50185444 original size:19 final size:20
Alignment explanation
Indices: 50185398--50185445 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
50185388 TTGTTTTATC
*
50185398 TATTTTGTTTTCTATTTTCTG
1 TATTTTCTTTTC-ATTTTCTG
50185419 T-TGTTTCTTTTC-TTTTCTG
1 TAT-TTTCTTTTCATTTTCTG
50185438 TATTTTCT
1 TATTTTCT
50185446 ATATTTCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 13 0.54
20 2 0.08
21 9 0.38
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.73
Consensus pattern (20 bp):
TATTTTCTTTTCATTTTCTG
Found at i:50193136 original size:3 final size:3
Alignment explanation
Indices: 50193119--50193184 Score: 96
Period size: 3 Copynumber: 22.0 Consensus size: 3
50193109 CAAAACACAA
* * *
50193119 AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
50193167 AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
50193185 GGGGTTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50193293 original size:18 final size:21
Alignment explanation
Indices: 50193269--50193313 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
50193259 AAGGAATATG
50193269 TATATATG-TAAAAA-AATAAA
1 TATATA-GATAAAAATAATAAA
*
50193289 TATATAGATAAAAATAATACA
1 TATATAGATAAAAATAATAAA
50193310 TATA
1 TATA
50193314 AAATCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
TATATAGATAAAAATAATAAA
Found at i:50195258 original size:44 final size:44
Alignment explanation
Indices: 50195191--50195706 Score: 311
Period size: 44 Copynumber: 11.8 Consensus size: 44
50195181 TCCACTGCAG
* * *
50195191 TCTGCTCCGCTGCAACTTTAAGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* *
50195235 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* ** * * * *** *
50195279 CCCACTCTACTGTAACTTC-AGAGAGATAGGATTTGCTGTGTTCAG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAA
* * * * **
50195324 TCTGCTCTATTGCAACTTCAAAGAGATAAGAATTGTAACTTTGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * * * * * *
50195368 TCTGCTCCACTGCAACTTTAGGGAAATGAGATTTGTAGCTTTAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * * *
50195412 T-TCGCTCTACTGCAACTTC-AGAGAGATAGGATTTGCTATCTTCAG
1 TCT-GCTCCACTGCAACTTCAAG-GAGATAAGATTTG-TAACTTCAA
** * *
50195457 TCTGCTTTATTGTAACTTC-AGAGAGAT-A-A---G--ACTTCAA
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTAACTTCAA
* * * *
50195494 TCTACTCCACCGCAACTTC-AGGAAGATAAGATTTGTAATTTTCGA
1 TCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGTAA-CTTCAA
* * * *
50195539 TCTACTCCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* ** ** *
50195583 TCTGCTCCACTGCAACTTCAAGGAGATAAAATTCACTATTTTCGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATT-TGTAACTTCAA
* * * * * **
50195628 TCTACTCCACTGCAACTTTAGGGAGATGAGATTAGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
* * *
50195672 TCTACTCCACTTCAACTT-TAGAGAGATAAGATTTG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG
50195707 CCATATTCCA
Statistics
Matches: 360, Mismatches: 93, Indels: 38
0.73 0.19 0.08
Matches are distributed among these distances:
36 1 0.00
37 24 0.07
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 6 0.02
44 194 0.54
45 127 0.35
46 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAA
Found at i:50195401 original size:89 final size:89
Alignment explanation
Indices: 50195230--50195439 Score: 205
Period size: 89 Copynumber: 2.4 Consensus size: 89
50195220 GACTTGTAAC
* * * * * * *
50195230 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACCCACTCTACTGTAAC
1 TTCAGTCTGCTCTACTGCAACTTCAAAGAGATAAGAATTGTAACTTTAACCCACTCCACTGCAAC
*
50195295 TTCAGAGAGATAGGATTTGCT-G-T
66 TTCAGAGAAATAGGATTTG-TAGCT
* * * **
50195318 GTTCAGTCTGCTCTATTGCAACTTCAAAGAGATAAGAATTGTAACTTTGATCTGCTCCACTGCAA
1 -TTCAGTCTGCTCTACTGCAACTTCAAAGAGATAAGAATTGTAACTTTAACCCACTCCACTGCAA
* *
50195383 CTTTAGGGAAAT-GAGATTTGTAGCT
65 CTTCAGAGAAATAG-GATTTGTAGCT
*
50195408 TT-AGT-TCGCTCTACTGCAACTTCAGAGAGATA
1 TTCAGTCT-GCTCTACTGCAACTTCAAAGAGATA
50195440 GGATTTGCTA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
87 1 0.01
88 28 0.28
89 70 0.70
90 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (89 bp):
TTCAGTCTGCTCTACTGCAACTTCAAAGAGATAAGAATTGTAACTTTAACCCACTCCACTGCAAC
TTCAGAGAAATAGGATTTGTAGCT
Found at i:50195429 original size:133 final size:133
Alignment explanation
Indices: 50195201--50195707 Score: 422
Period size: 133 Copynumber: 3.9 Consensus size: 133
50195191 TCTGCTCCGC
* * * *
50195201 TGCAACTTTAAGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
* * *
50195266 TTTGTAGCTTTAACCCACTCTACTGTAACTTCAGAGAGATAGGATTTGCTGTGTTCAGTCTGCTC
66 TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGCTC
50195331 TAT
131 TAT
** * * *
50195334 TGCAACTTCAAAGAGATAAGAATTGTAACTTTGATCTGCTCCACTGCAACTTTAGGGAAATGAGA
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
*** * *
50195399 TTTGTAGCTTTAGTTCGCTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGCTT
66 TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGCTC
50195464 TAT
131 TAT
* * * *
50195467 TGTAACTTCAGAGAGAT---AA--G--ACTTCAATCTACTCCACCGCAACTTC-AGGAAGATAAG
1 TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAA-ATAAG
** * * * * * * * * * *
50195524 ATTTGTAATTTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-ATAACTTCAATCTGC
65 ATTTGTAGCTTT-AACCCACTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGC
* *
50195588 TCCAC
129 TCTAT
* * ** * * * * * *
50195593 TGCAACTTCAAGGAGATAA-AATTCACTATTTTCGATCTACTCCACTGCAACTTTAGGGAGATGA
1 TGCAACTTCAAAGAGATAAGAATT--GTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAA
* * * * * * * * *
50195657 GATTAGTGGCTTCAATCTACTCCACTTCAACTTTAGAGAGATAAGATTTGC
64 GATTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAGAGATAGGATTTGC
50195708 CATATTCCAA
Statistics
Matches: 296, Mismatches: 66, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
125 4 0.01
126 63 0.21
127 27 0.09
128 3 0.01
130 2 0.01
133 162 0.55
134 32 0.11
135 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (133 bp):
TGCAACTTCAAAGAGATAAGAATTGTAACTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA
TTTGTAGCTTTAACCCACTCTACTGCAACTTCAGAGAGATAGGATTTGCTATCTTCAGTCTGCTC
TAT
Found at i:50195557 original size:45 final size:44
Alignment explanation
Indices: 50195488--50195706 Score: 199
Period size: 45 Copynumber: 4.9 Consensus size: 44
50195478 AGAGATAAGA
*
50195488 CTTCAATCTACTCCACCGCAACTTCAGGAAGATAAGATTTGTAAT
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGT-AT
* * * * * *
50195533 TTTCGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTATAA
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
* * **
50195577 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAAATTCACTAT
1 CTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAGATT-TGTAT
* * * * * * **
50195622 TTTCGATCTACTCCACTGCAACTTTAGGGAGATGAGATTAGTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
* *
50195666 CTTCAATCTACTCCACTTCAACTTTA-GAGAGATAAGATTTG
1 CTTCAATCTACTCCACTGCAACTTCAGGA-AGATAAGATTTG
50195707 CCATATTCCA
Statistics
Matches: 140, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.01
44 69 0.49
45 70 0.50
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAT
Found at i:50195638 original size:89 final size:89
Alignment explanation
Indices: 50195487--50195689 Score: 268
Period size: 89 Copynumber: 2.3 Consensus size: 89
50195477 GAGAGATAAG
* * **
50195487 ACTTCAATCTACTCCACCGCAACTTCAGGAAGATAAGATTTGTAATTTTCGATCTACTCCACTGC
1 ACTTCAATCTACTCCACTGCAACTTCAGGAAGATAAAATTACTAATTTTCGATCTACTCCACTGC
50195552 AACTTCAGGGAGATAAGATCTA-TA
66 AACTTCAGGGAGATAAGAT-TAGTA
*
50195576 ACTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAAATTCACT-ATTTTCGATCTACTCCACT
1 ACTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAAATT-ACTAATTTTCGATCTACTCCACT
* * *
50195639 GCAACTTTAGGGAGATGAGATTAGTG
64 GCAACTTCAGGGAGATAAGATTAGTA
* *
50195665 GCTTCAATCTACTCCACTTCAACTT
1 ACTTCAATCTACTCCACTGCAACTT
50195690 TAGAGAGATA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
88 2 0.02
89 94 0.94
90 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (89 bp):
ACTTCAATCTACTCCACTGCAACTTCAGGAAGATAAAATTACTAATTTTCGATCTACTCCACTGC
AACTTCAGGGAGATAAGATTAGTA
Found at i:50199222 original size:19 final size:19
Alignment explanation
Indices: 50199200--50199243 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
50199190 TTAAAAGTAT
*
50199200 TAAAATTAATATAAACTT-A
1 TAAAATT-ATATAAAATTCA
50199219 TAAAAATTATATAAAATTCA
1 T-AAAATTATATAAAATTCA
50199239 TAAAA
1 TAAAA
50199244 ATTTGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAATTATATAAAATTCA
Found at i:50199224 original size:20 final size:20
Alignment explanation
Indices: 50199180--50199246 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
50199170 CATACAAATA
* *
50199180 ATAAAAGTTAT-TAAAAGT-
1 ATAAAAATTATATAAAATTC
* *
50199198 ATTAAAATTAATATAAACTT-
1 ATAAAAATT-ATATAAAATTC
50199218 ATAAAAATTATATAAAATTC
1 ATAAAAATTATATAAAATTC
50199238 ATAAAAATT
1 ATAAAAATT
50199247 TGAATTGGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.17
19 11 0.28
20 22 0.55
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAAAATTATATAAAATTC
Found at i:50199236 original size:10 final size:10
Alignment explanation
Indices: 50199180--50199246 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
50199170 CATACAAATA
50199180 ATAAAAGTTAT
1 ATAAAA-TTAT
*
50199191 -TAAAAGTAT
1 ATAAAATTAT
50199200 -TAAAATTAAT
1 ATAAAATT-AT
*
50199210 ATAAACTTAT
1 ATAAAATTAT
50199220 A-AAAATTAT
1 ATAAAATTAT
50199229 ATAAAATTCAT
1 ATAAAATT-AT
50199240 A-AAAATT
1 ATAAAATT
50199247 TGAATTGGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
9 17 0.35
10 22 0.46
11 9 0.19
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:50199372 original size:18 final size:18
Alignment explanation
Indices: 50199349--50199384 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50199339 AACCAATATT
*
50199349 TTTTTAATGTTTTTTTTA
1 TTTTTAATGTTTTATTTA
50199367 TTTTTAATGTTTTATTTA
1 TTTTTAATGTTTTATTTA
50199385 ATTGAACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTAATGTTTTATTTA
Found at i:50199658 original size:9 final size:9
Alignment explanation
Indices: 50199644--50199844 Score: 101
Period size: 9 Copynumber: 21.7 Consensus size: 9
50199634 TTTTATGATG
50199644 TTTTTATAA
1 TTTTTATAA
50199653 TTTTTATAA
1 TTTTTATAA
*
50199662 GTTTATATCAA
1 -TTTTTAT-AA
*
50199673 TTTTAAT-A
1 TTTTTATAA
50199681 TTTTTATAA
1 TTTTTATAA
50199690 CTTTTTATAA
1 -TTTTTATAA
*
50199700 TTTTTATTA
1 TTTTTATAA
50199709 TTTTTA-AGA
1 TTTTTATA-A
* * *
50199718 ATTCTAAAA
1 TTTTTATAA
*
50199727 CTTTTTAAAA
1 -TTTTTATAA
*
50199737 ATTTTA-AA
1 TTTTTATAA
*
50199745 TATTTAAAATAA
1 T-TTT--TATAA
* *
50199757 GTTTAATTAA
1 TTTTTA-TAA
50199767 -TTTTATAA
1 TTTTTATAA
50199775 -TTTTATAA
1 TTTTTATAA
*
50199783 TATTTATAA
1 TTTTTATAA
*
50199792 GTTTTCATAA
1 -TTTTTATAA
*
50199802 TTTTT-TTA
1 TTTTTATAA
50199810 TATTTT-TAA
1 T-TTTTATAA
50199819 TTTTTATAAGA
1 TTTTTAT-A-A
*
50199830 TTTTTATGA
1 TTTTTATAA
50199839 TTTTTA
1 TTTTTA
50199845 ATCATTATTT
Statistics
Matches: 152, Mismatches: 22, Indels: 36
0.72 0.10 0.17
Matches are distributed among these distances:
8 27 0.18
9 70 0.46
10 39 0.26
11 14 0.09
12 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50199676 original size:28 final size:28
Alignment explanation
Indices: 50199644--50199714 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
50199634 TTTTATGATG
*
50199644 TTTTTATAATTTTTATAAGTTTATATCAA
1 TTTTTATAATTTTTATAACTTTATAT-AA
* *
50199673 TTTTAAT-ATTTTTATAACTTTTTATAA
1 TTTTTATAATTTTTATAACTTTATATAA
*
50199700 TTTTTATTATTTTTA
1 TTTTTATAATTTTTA
50199715 AGAATTCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.22
28 23 0.62
29 6 0.16
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTATAATTTTTATAACTTTATATAA
Found at i:50199695 original size:19 final size:19
Alignment explanation
Indices: 50199673--50199734 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
50199663 TTTATATCAA
50199673 TTTTAATATTTTTATAACT
1 TTTTAATATTTTTATAACT
*
50199692 TTTT-ATAATTTTTATTA-T
1 TTTTAAT-ATTTTTATAACT
* * * *
50199710 TTTTAAGAATTCTAAAACT
1 TTTTAATATTTTTATAACT
50199729 TTTTAA
1 TTTTAA
50199735 AAATTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTTTATAACT
Found at i:50199714 original size:37 final size:37
Alignment explanation
Indices: 50199644--50199742 Score: 101
Period size: 37 Copynumber: 2.7 Consensus size: 37
50199634 TTTTATGATG
* *
50199644 TTTTTATAA-TTTTTATAAGTTTATATCAATTTTAATA
1 TTTTTATAACTTTTTATAA-TTTTTATCAATTTTAAGA
* *
50199681 TTTTTATAACTTTTTATAATTTTTATTATTTTTAAGA
1 TTTTTATAACTTTTTATAATTTTTATCAATTTTAAGA
* * * * *
50199718 ATTCTAAAACTTTTTAAAAATTTTA
1 TTTTTATAACTTTTTATAATTTTTA
50199743 AATATTTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 43 0.83
38 9 0.17
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (37 bp):
TTTTTATAACTTTTTATAATTTTTATCAATTTTAAGA
Found at i:50199843 original size:36 final size:38
Alignment explanation
Indices: 50199767--50199843 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
50199757 GTTTAATTAA
50199767 TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
1 TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
* * *
50199805 TTTTAT-ATTTT-TAATTTTTATAAGATTTTTATGATTT
1 TTTTATAATTTTATAATATTTATAAG-TTTTCATAATTT
50199842 TT
1 TT
50199844 AATCATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 12 0.34
37 17 0.49
38 6 0.17
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (38 bp):
TTTTATAATTTTATAATATTTATAAGTTTTCATAATTT
Found at i:50201575 original size:19 final size:19
Alignment explanation
Indices: 50201553--50201671 Score: 112
Period size: 19 Copynumber: 6.2 Consensus size: 19
50201543 CGTACAAAGC
*
50201553 GCATACTCGCACACGAAGT
1 GCATACTAGCACACGAAGT
* * *
50201572 GCATTCTAGCACACAAAGC
1 GCATACTAGCACACGAAGT
* *
50201591 ACATACTGGCACACGAAGT
1 GCATACTAGCACACGAAGT
* *
50201610 GCATTCTAGCGCACGAAGT
1 GCATACTAGCACACGAAGT
* * *
50201629 GCATTCTAGCGCACGATGT
1 GCATACTAGCACACGAAGT
* *
50201648 ACATATCTGGCACACGAAGT
1 GCATA-CTAGCACACGAAGT
50201668 GCAT
1 GCAT
50201672 CCTGACGCAT
Statistics
Matches: 79, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
19 65 0.82
20 14 0.18
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (19 bp):
GCATACTAGCACACGAAGT
Found at i:50201644 original size:38 final size:38
Alignment explanation
Indices: 50201553--50201671 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
50201543 CGTACAAAGC
* * *
50201553 GCATACTCGCACACGAAGTGCATTCTAGCACACAAAGC
1 GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
* * *
50201591 ACATACTGGCACACGAAGTGCATTCTAGCGCACGAAGT
1 GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
* * * * *
50201629 GCATTCTAGCGCACGATGTACATATCTGGCACACGAAGT
1 GCATACTAGCACACGAAGTGCAT-TCTAGCACACGAAGT
50201668 GCAT
1 GCAT
50201672 CCTGACGCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
38 50 0.75
39 17 0.25
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (38 bp):
GCATACTAGCACACGAAGTGCATTCTAGCACACGAAGT
Found at i:50203145 original size:14 final size:14
Alignment explanation
Indices: 50203126--50203155 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50203116 GTCATTTAGG
50203126 CCAACCAAACTGGC
1 CCAACCAAACTGGC
50203140 CCAACCAAACTGGC
1 CCAACCAAACTGGC
50203154 CC
1 CC
50203156 GGTGACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:50208266 original size:14 final size:14
Alignment explanation
Indices: 50208247--50208276 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50208237 GTCATTTAGG
50208247 CCAACCAAACTGGC
1 CCAACCAAACTGGC
50208261 CCAACCAAACTGGC
1 CCAACCAAACTGGC
50208275 CC
1 CC
50208277 GGTGACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:50209994 original size:27 final size:27
Alignment explanation
Indices: 50209956--50210013 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
50209946 ATAATATGAA
50209956 ATATAAATTTACAGAAAAGTAACATGC
1 ATATAAATTTACAGAAAAGTAACATGC
50209983 ATATAAATTTACAGAAAAGTAACATGC
1 ATATAAATTTACAGAAAAGTAACATGC
50210010 ATAT
1 ATAT
50210014 CATGAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (27 bp):
ATATAAATTTACAGAAAAGTAACATGC
Found at i:50214665 original size:21 final size:20
Alignment explanation
Indices: 50214641--50214753 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
50214631 ATTTGTCTTA
*
50214641 AATCGATTCTTTGCTTATTTG
1 AATCGATTCTTTG-TTGTTTG
* *
50214662 AATCGATTGTTTTGTTGATTG
1 AATCGATT-CTTTGTTGTTTG
* *
50214683 ACTCAATTCTTTTTGTTGTTTG
1 AATCGATTC--TTTGTTGTTTG
* *
50214705 AATCGATTGTTTATTGTTTG
1 AATCGATTCTTTGTTGTTTG
50214725 AATCGATTCTTTGTTGTTT-
1 AATCGATTCTTTGTTGTTTG
50214744 AACTCGATTC
1 AA-TCGATTC
50214754 AAACGCCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 34 0.45
21 19 0.25
22 20 0.27
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTG
Found at i:50214734 original size:42 final size:43
Alignment explanation
Indices: 50214641--50214742 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
50214631 ATTTGTCTTA
*
50214641 AATCGATTC--TTTGCTTATTTGAATCGATTGTTTTGTTGATTG
1 AATCGATTCTTTTTG-TTATTTGAATCGATTGTTTTATTGATTG
* * * *
50214683 ACTCAATTCTTTTTGTTGTTTGAATCGATTG-TTTATTGTTTG
1 AATCGATTCTTTTTGTTATTTGAATCGATTGTTTTATTGATTG
50214725 AATCGATTCTTTGTTGTT
1 AATCGATTCTTT-TTGTT
50214743 TAACTCGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.52
43 20 0.40
44 4 0.08
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (43 bp):
AATCGATTCTTTTTGTTATTTGAATCGATTGTTTTATTGATTG
Found at i:50218239 original size:48 final size:47
Alignment explanation
Indices: 50218087--50218252 Score: 149
Period size: 48 Copynumber: 3.4 Consensus size: 47
50218077 ACTTAATCAC
* * * * *
50218087 TTTAATATTAAATTAATATAATATTTATCAAGATACATATTAGATTAAA
1 TTTAATATTAAATTAATAAAATA-CTATTAAGATA-TTATTAAATTAAA
* * * *
50218136 TTTAATA-TAATCTTATTAAAATAGTATTAAGATATTA--AACTTAATCA
1 TTTAATATTAA-ATTAATAAAATACTATTAAGATATTATTAAATTAA--A
*
50218183 CTTCAATATTAAATTAATAAAATACTATTAAGATATGTATTAAATTAAA
1 -TTTAATATTAAATTAATAAAATACTATTAAGATAT-TATTAAATTAAA
*
50218232 TTTAATATTAAATTATTAAAA
1 TTTAATATTAAATTAATAAAA
50218253 AATATTATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
45 5 0.05
47 3 0.03
48 58 0.62
49 22 0.23
51 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (47 bp):
TTTAATATTAAATTAATAAAATACTATTAAGATATTATTAAATTAAA
Found at i:50218252 original size:96 final size:97
Alignment explanation
Indices: 50218072--50218252 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 97
50218062 TTCAACTATG
* * * *
50218072 ATTAAACTTAATCACTTTAATATTAAATTAATATAATATTTATCAAGATACATATTAGATTAAAT
1 ATTAAACTTAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATACATATTAAATTAAAT
*
50218137 TTAATATAATCTTATTAAAATAGTATTAAGAT
66 TTAATATAATATTATTAAAATAGTATTAAGAT
* **
50218169 ATTAAACTTAATCACTTCAATATTAAATTAATAAAATA-CTATTAAGATATGTATTAAATTAAAT
1 ATTAAACTTAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATACATATTAAATTAAAT
50218233 TTAATATTAA-ATTATTAAAA
66 TTAATA-TAATATTATTAAAA
50218253 AATATTATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
96 36 0.48
97 39 0.52
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.41
Consensus pattern (97 bp):
ATTAAACTTAATCACTTCAATATTAAATTAATAAAATATCTATCAAGATACATATTAAATTAAAT
TTAATATAATATTATTAAAATAGTATTAAGAT
Found at i:50220647 original size:22 final size:21
Alignment explanation
Indices: 50220608--50220653 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
50220598 AGGGCGGTGG
*
50220608 CAATGGTGGTGCAAGGTGGTAA
1 CAATGGTGATGCAAGGTGG-AA
* *
50220630 CAATGGTGATGTATGGTGGAA
1 CAATGGTGATGCAAGGTGGAA
50220651 CAA
1 CAA
50220654 AATGGGCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.30, C:0.09, G:0.37, T:0.24
Consensus pattern (21 bp):
CAATGGTGATGCAAGGTGGAA
Found at i:50223852 original size:5 final size:5
Alignment explanation
Indices: 50223842--50223879 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
50223832 TTTGTGTGTT
50223842 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
50223880 CACAAATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:50223867 original size:14 final size:14
Alignment explanation
Indices: 50223842--50223878 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50223832 TTTGTGTGTT
50223842 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
50223857 TTTTATTTATTTTA
1 TTTTATTTATTTTA
50223871 TTTTATTT
1 TTTTATTT
50223879 TCACAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:50223867 original size:19 final size:19
Alignment explanation
Indices: 50223843--50223879 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50223833 TTGTGTGTTT
50223843 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTATTTTA
50223862 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
50223880 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTATTTTATTTTATTTTA
Found at i:50227018 original size:27 final size:27
Alignment explanation
Indices: 50226988--50227165 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50226978 ATATTGAGTC
* * * *
50226988 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50227015 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50227042 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50227070 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50227097 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50227124 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50227151 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50227166 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:50227127 original size:82 final size:81
Alignment explanation
Indices: 50227009--50227164 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50226999 TGCTATATAA
* *
50227009 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50227074 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50227091 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50227155 CACTTAGTGC
65 CACTTAGTGC
50227165 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:50231685 original size:4 final size:5
Alignment explanation
Indices: 50231671--50231710 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
50231661 TTGTGTGTTC
50231671 TTTAT TTTA- TTTA- TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
50231711 TCACAAACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:50237713 original size:29 final size:29
Alignment explanation
Indices: 50237620--50237762 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 29
50237610 TAAAATCACA
* * *
50237620 ATGGTTGTTACCATCCCTTTCCATAGTTAG
1 ATGGTCGTCACCATCCCTTTTCATAGTT-G
* * * * *
50237650 ATAGTCG-AAGCTATCCCTTTCCATATTTTG
1 ATGGTCGTCA-CCATCCCTTTTCATA-GTTG
* *
50237680 ATGGTCGTCACCGTCCTTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
* *
50237709 TTGGTCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCCTTTTCATAGTTG
*
50237738 ATGGTCATCACCATCCCTTTTCATA
1 ATGGTCGTCACCATCCCTTTTCATA
50237763 ATTTGATAGC
Statistics
Matches: 91, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
29 51 0.56
30 37 0.41
31 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTG
Found at i:50237784 original size:30 final size:30
Alignment explanation
Indices: 50237750--50237817 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
50237740 GGTCATCACC
** *
50237750 ATCCCTTTTCATAATTTGATAGCTAAAGCT
1 ATCCCTTTTCATAATTCAATAGCCAAAGCT
* *
50237780 ATCCCTTTTCATAGTTCAATAGCCGAAGCT
1 ATCCCTTTTCATAATTCAATAGCCAAAGCT
50237810 ATCCCTTT
1 ATCCCTTT
50237818 CATTAGTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCAATAGCCAAAGCT
Found at i:50240501 original size:14 final size:14
Alignment explanation
Indices: 50240482--50240511 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50240472 GTAGGGAAGG
50240482 TTACAATCCAAATC
1 TTACAATCCAAATC
50240496 TTACAATCCAAATC
1 TTACAATCCAAATC
50240510 TT
1 TT
50240512 CCACAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (14 bp):
TTACAATCCAAATC
Found at i:50248361 original size:24 final size:25
Alignment explanation
Indices: 50248334--50248382 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
50248324 TATTTTTATG
50248334 AAATTACATATTAATA-TAATAATA
1 AAATTACATATTAATACTAATAATA
* *
50248358 AAATTATATTTTAATACCTAATAAT
1 AAATTACATATTAATA-CTAATAAT
50248383 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTACATATTAATACTAATAATA
Found at i:50250957 original size:22 final size:21
Alignment explanation
Indices: 50250932--50250976 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
50250922 ATTAAACTTC
50250932 AAAATAAAAAAAATATTTAAAA
1 AAAATAAAAAAAATA-TTAAAA
** *
50250954 AAAATATTAATAATATTAAAA
1 AAAATAAAAAAAATATTAAAA
50250975 AA
1 AA
50250977 GTATTTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAAAAAATATTAAAA
Found at i:50250963 original size:12 final size:13
Alignment explanation
Indices: 50250936--50250961 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50250926 AACTTCAAAA
50250936 TAAAAAAAATATT
1 TAAAAAAAATATT
50250949 TAAAAAAAATATT
1 TAAAAAAAATATT
50250962 AATAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAAAAATATT
Found at i:50254240 original size:28 final size:28
Alignment explanation
Indices: 50254208--50254269 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
50254198 AAATTGAAGG
*
50254208 TTTAAAGATCTCT-TTTATTGTTTAACAA
1 TTTAAAAATCT-TATTTATTGTTTAACAA
* * *
50254236 TTTAAAAATGTTATTTATTGTTTAATAG
1 TTTAAAAATCTTATTTATTGTTTAACAA
50254264 TTTAAA
1 TTTAAA
50254270 TTTGGCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (28 bp):
TTTAAAAATCTTATTTATTGTTTAACAA
Found at i:50254279 original size:28 final size:28
Alignment explanation
Indices: 50254221--50254280 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
50254211 AAAGATCTCT
**
50254221 TTTATTGTTTAACAATTTAAAAATGTTA
1 TTTATTGTTTAACAATTTAAAAATGGCA
* * **
50254249 TTTATTGTTTAATAGTTTAAATTTGGCA
1 TTTATTGTTTAACAATTTAAAAATGGCA
50254277 TTTA
1 TTTA
50254281 CTATTTAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTATTGTTTAACAATTTAAAAATGGCA
Found at i:50255112 original size:16 final size:15
Alignment explanation
Indices: 50255091--50255123 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
50255081 TCATCTTAAC
50255091 AACTAACTAACTGTCT
1 AACTAACTAACTG-CT
50255107 AACTAACTAACTGCT
1 AACTAACTAACTGCT
50255122 AA
1 AA
50255124 TTTCTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (15 bp):
AACTAACTAACTGCT
Found at i:50259608 original size:28 final size:28
Alignment explanation
Indices: 50259568--50259623 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50259558 ATGGGTGAAA
50259568 ACCATATTTCTTACTTACTTCATTAACG
1 ACCATATTTCTTACTTACTTCATTAACG
50259596 ACCATATTTCTTACTTACTTCATTAACG
1 ACCATATTTCTTACTTACTTCATTAACG
50259624 CAAGCAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.43
Consensus pattern (28 bp):
ACCATATTTCTTACTTACTTCATTAACG
Found at i:50262863 original size:25 final size:25
Alignment explanation
Indices: 50262818--50262866 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
50262808 AATCAAACTA
* *
50262818 AGACTTAATTAGTATATATAATTTG
1 AGACTTAATTAGCATAAATAATTTG
50262843 AGACTTAATTTA-CATAAATAATTT
1 AGACTTAA-TTAGCATAAATAATTT
50262867 CTTCTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (25 bp):
AGACTTAATTAGCATAAATAATTTG
Found at i:50263406 original size:20 final size:20
Alignment explanation
Indices: 50263361--50263410 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
50263351 TGGGTAGAAA
*
50263361 TATTGATACATCTTTAAAAT
1 TATTGATAAATCTTTAAAAT
*
50263381 TATTGATAAATCTTTAGATAT
1 TATTGATAAATCTTTA-AAAT
50263402 T-TTGATAAA
1 TATTGATAAA
50263411 AACATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (20 bp):
TATTGATAAATCTTTAAAAT
Found at i:50277109 original size:43 final size:43
Alignment explanation
Indices: 50277058--50277181 Score: 140
Period size: 44 Copynumber: 2.9 Consensus size: 43
50277048 TAGGATTCCG
*
50277058 ATATGTGATTTCGTGTAAGACCATGTTTGGGACGTTGACATCA
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGACATCA
* * * ** * *
50277101 ATTTGTGATTTATGTGTAAGACCCTGTCTGGGACAATGGCATCG
1 ATATGTGATTT-CGTGTAAGACCATGTCTGGGACGTTGACATCA
* * *
50277145 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTG
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTG
50277182 GCGTTGTACG
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 30 0.47
44 34 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGACATCA
Found at i:50277133 original size:44 final size:44
Alignment explanation
Indices: 50277058--50277181 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 44
50277048 TAGGATTCCG
* *
50277058 ATATGTGATTT-CGTGTAAGACCATGTTTGGGACGTTGACATCA
1 ATATGTGATTTACGTGTAAGACCCTGTCTGGGACGTTGACATCA
* * ** * *
50277101 ATTTGTGATTTATGTGTAAGACCCTGTCTGGGACAATGGCATCG
1 ATATGTGATTTACGTGTAAGACCCTGTCTGGGACGTTGACATCA
*
50277145 ATATGTGA-TTACATGTAAGACCAC-GTCTGGGACGTTG
1 ATATGTGATTTACGTGTAAGACC-CTGTCTGGGACGTTG
50277182 GCGTTGTACG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
43 33 0.50
44 33 0.50
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (44 bp):
ATATGTGATTTACGTGTAAGACCCTGTCTGGGACGTTGACATCA
Found at i:50278300 original size:51 final size:51
Alignment explanation
Indices: 50278224--50278322 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
50278214 GTCTGTACAC
*
50278224 GAACACTTAACAGTTTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGGAG
1 GAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGGAG
50278275 GAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATG
1 GAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATG
50278323 AAGGTTCAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (51 bp):
GAACACTTAACAGTGTTTAAAGAAATTCTCTCAAACTTGGAGGCCATGGAG
Found at i:50283509 original size:27 final size:27
Alignment explanation
Indices: 50283479--50283656 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50283469 ATATTGAGTC
* * * *
50283479 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50283506 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50283533 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50283561 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50283588 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50283615 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50283642 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50283657 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:50283618 original size:82 final size:81
Alignment explanation
Indices: 50283500--50283655 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50283490 TGCTATATAA
* *
50283500 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50283565 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50283582 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50283646 CACTTAGTGC
65 CACTTAGTGC
50283656 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:50298849 original size:1 final size:1
Alignment explanation
Indices: 50298845--50298874 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
50298835 GGGTGAAAAT
50298845 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
50298875 CGGATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:50298893 original size:1 final size:1
Alignment explanation
Indices: 50298889--50298920 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
50298879 TTTTTTTTTT
50298889 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
50298921 TTACCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:50302345 original size:47 final size:47
Alignment explanation
Indices: 50302282--50302880 Score: 1090
Period size: 47 Copynumber: 12.7 Consensus size: 47
50302272 ATGATAGTAT
*
50302282 GGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302329 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
50302376 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302423 GGCCTAATGGCCGATGTGATGAATGTGAAAGTTTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302470 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302517 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
50302564 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302611 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
50302658 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302705 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
50302752 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
50302799 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
50302848 GGCCTAATGGCCAATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
50302881 CCCGAAGGGC
Statistics
Matches: 536, Mismatches: 13, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 492 0.92
49 40 0.07
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:50302489 original size:22 final size:23
Alignment explanation
Indices: 50302461--50302729 Score: 73
Period size: 22 Copynumber: 11.5 Consensus size: 23
50302451 AAGTTTATAT
50302461 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
50302483 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
50302508 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
50302530 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
*
50302555 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
50302577 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
50302602 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
50302624 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
*
50302649 ATGTGAT-AAGGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
50302671 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
50302696 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
50302718 ATGTGATGAATG
1 ATGTGATGAATG
50302730 TGAAAGTGTA
Statistics
Matches: 157, Mismatches: 74, Indels: 31
0.60 0.28 0.12
Matches are distributed among these distances:
22 42 0.27
23 42 0.27
24 38 0.24
25 35 0.22
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:50303054 original size:37 final size:37
Alignment explanation
Indices: 50302998--50303076 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
50302988 CCGAGCTCTA
* * *
50302998 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
50303035 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
50303072 AAGAC
1 AAGAC
50303077 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:50304952 original size:31 final size:31
Alignment explanation
Indices: 50304914--50304990 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
50304904 TCAGAACTAG
*
50304914 AATCAGAATCAGAATCAGA-ATCAGGTGACAA
1 AATCAGAATCAGAATCA-ATATCAGGTAACAA
* * *
50304945 AATCAGAATCAAAATCAATATTAGGTAACAG
1 AATCAGAATCAGAATCAATATCAGGTAACAA
*
50304976 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
50304991 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAATATCAGGTAACAA
Found at i:50304955 original size:6 final size:6
Alignment explanation
Indices: 50304903--50304937 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
50304893 AAGAAACATT
50304903 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG
50304938 GTGACAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:50305157 original size:27 final size:26
Alignment explanation
Indices: 50305109--50305168 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
50305099 GTGAGGCTGC
*
50305109 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
50305136 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
50305162 CATATAT
1 CAGATAT
50305169 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50305470 original size:27 final size:27
Alignment explanation
Indices: 50305440--50305583 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
50305430 GGGGTAAAAT
* *
50305440 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* ** *
50305467 GGTAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
50305494 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
50305521 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
50305548 GGTATTTTTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
50305575 GGTAATTTT
1 GGTAATTTT
50305584 GTAAATCGAG
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.03
27 94 0.94
28 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:50305595 original size:27 final size:26
Alignment explanation
Indices: 50305565--50305744 Score: 119
Period size: 27 Copynumber: 6.7 Consensus size: 26
50305555 TTACCCTACA
**
50305565 AGGGTATTTTGGTAATTTTGTAAATC
1 AGGGTATTTTGGTAATTTTACAAATC
**** * **
50305591 GAGGGTAAAACGGTAATTCTGTAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
* *
50305618 AGGGGTACTTTGGTAATTTTACAAGTC
1 A-GGGTATTTTGGTAATTTTACAAATC
*** **
50305645 AAGGGTATTTCAATAATTTTACAGGTC
1 -AGGGTATTTTGGTAATTTTACAAATC
** *
50305672 GAGGGTATTTCAGTAATTTCACAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
50305699 AGGGGTATTTTGGTAATTTTACAAA-C
1 A-GGGTATTTTGGTAATTTTACAAATC
50305725 TAGGGGTATTTTGGTAATTT
1 -A-GGGTATTTTGGTAATTT
50305745 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 119 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAATC
Found at i:50305648 original size:81 final size:80
Alignment explanation
Indices: 50305562--50305750 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 80
50305552 TTTTTACCCT
* **
50305562 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCAGGGGTAC
1 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTAC
50305626 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* *** ** ** *** *
50305642 GTCAAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTAT
1 -ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTAC
50305707 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* *
50305723 ACTAGGGGTATTTTGGTAATTTGGTAAA
1 AC-AAGGGTATTTTGGTAATTTTGTAAA
50305751 CTAAAGTATT
Statistics
Matches: 81, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
80 1 0.01
81 77 0.95
82 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (80 bp):
ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACT
TTGGTAATTTTACAA
Found at i:50307710 original size:6 final size:6
Alignment explanation
Indices: 50307692--50307775 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
50307682 AAGAAACATT
* * *
50307692 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
50307741 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCA
50307776 AAATGCGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 50 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:50307769 original size:31 final size:31
Alignment explanation
Indices: 50307676--50307775 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
50307666 TAACCCATTA
* * *
50307676 CAGAATAAGAAACATTATC-AG-AACTAGAAT
1 CAGAATCAGAATCAGTATCAAGTAAC-AGAAT
* * * * *
50307706 CAGAATCAGAATCAGAATTAGGTGACAAAAT
1 CAGAATCAGAATCAGTATCAAGTAACAGAAT
50307737 CAGAATCAGAATCAGTATCAAGTAACAGAAT
1 CAGAATCAGAATCAGTATCAAGTAACAGAAT
*
50307768 CAAAATCA
1 CAGAATCA
50307776 AAATGCGAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
30 14 0.26
31 38 0.70
32 2 0.04
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAAGTAACAGAAT
Found at i:50307775 original size:19 final size:19
Alignment explanation
Indices: 50307701--50307776 Score: 52
Period size: 19 Copynumber: 4.1 Consensus size: 19
50307691 TATCAGAACT
*
50307701 AGAATCAGAATCAGAATC-
1 AGAATCAGAATCAAAATCA
* *
50307719 AGAATTAG-GTGACAAAATC-
1 AGAATCAGAAT--CAAAATCA
**
50307738 AGAATCAGAATCAGTATCA
1 AGAATCAGAATCAAAATCA
50307757 AGTAA-CAGAATCAAAATCA
1 AG-AATCAGAATCAAAATCA
50307776 A
1 A
50307777 AATGCGAATG
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
17 1 0.02
18 12 0.27
19 28 0.64
20 3 0.07
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.18
Consensus pattern (19 bp):
AGAATCAGAATCAAAATCA
Found at i:50307946 original size:27 final size:26
Alignment explanation
Indices: 50307898--50307957 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
50307888 GTGAGGCTGC
*
50307898 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
50307925 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
50307951 CATATAT
1 CAGATAT
50307958 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50308256 original size:27 final size:27
Alignment explanation
Indices: 50308226--50308368 Score: 166
Period size: 27 Copynumber: 5.3 Consensus size: 27
50308216 GGGGTAAAAT
* *
50308226 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
50308253 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
50308280 AGTAATTCTACCCTACAGGGGTATTT-
1 GGTAATTTTACCCTACAAGGGTATTTC
50308306 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
50308333 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
50308360 GGTAATTTT
1 GGTAATTTT
50308369 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
25 3 0.03
26 19 0.19
27 76 0.75
28 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:50308330 original size:53 final size:53
Alignment explanation
Indices: 50308227--50308366 Score: 181
Period size: 53 Copynumber: 2.6 Consensus size: 53
50308217 GGGTAAAATG
* * * * *
50308227 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTAT-TTGGTAATTCTACCCTACAAGGGTATTTCA
* * *
50308281 GTAATTCTACCCTACAGGGGTATTTGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTGGTAATTCTACCCTACAAGGGTATTTCA
*
50308334 GTATTTCTACCCTACAAGGGTATTTTGGTAATT
1 GTAATTCTACCCTACAAGGGTA-TTTGGTAATT
50308367 TTGTAAATCG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 45 0.61
54 29 0.39
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:50308380 original size:27 final size:26
Alignment explanation
Indices: 50308350--50308529 Score: 119
Period size: 27 Copynumber: 6.7 Consensus size: 26
50308340 CTACCCTACA
**
50308350 AGGGTATTTTGGTAATTTTGTAAATC
1 AGGGTATTTTGGTAATTTTACAAATC
**** * **
50308376 GAGGGTAAAACGGTAATTCTGTAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
* *
50308403 AGGGGTACTTTGGTAATTTTACAAGTC
1 A-GGGTATTTTGGTAATTTTACAAATC
*** **
50308430 AAGGGTATTTCAATAATTTTACAGGTC
1 -AGGGTATTTTGGTAATTTTACAAATC
** *
50308457 GAGGGTATTTCAGTAATTTCACAAATC
1 -AGGGTATTTTGGTAATTTTACAAATC
50308484 AGGGGTATTTTGGTAATTTTACAAA-C
1 A-GGGTATTTTGGTAATTTTACAAATC
50308510 TAGGGGTATTTTGGTAATTT
1 -A-GGGTATTTTGGTAATTT
50308530 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 119 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAATC
Found at i:50308438 original size:81 final size:80
Alignment explanation
Indices: 50308347--50308535 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 80
50308337 TTTCTACCCT
* **
50308347 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCAGGGGTAC
1 ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTAC
50308411 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* *** ** ** *** *
50308427 GTCAAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTAT
1 -ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTAC
50308492 TTTGGTAATTTTACAA
65 TTTGGTAATTTTACAA
* *
50308508 ACTAGGGGTATTTTGGTAATTTGGTAAA
1 AC-AAGGGTATTTTGGTAATTTTGTAAA
50308536 CTAAAGTATT
Statistics
Matches: 81, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
80 1 0.01
81 77 0.95
82 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (80 bp):
ACAAGGGTATTTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACT
TTGGTAATTTTACAA
Found at i:50314665 original size:15 final size:15
Alignment explanation
Indices: 50314645--50314700 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
50314635 GTATCTTGGG
50314645 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
50314660 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
50314675 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
50314690 TTTCTTTATTC
1 TTTCTTTATTC
50314701 GTTTTTCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:50314677 original size:30 final size:30
Alignment explanation
Indices: 50314641--50314700 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
50314631 TATCGTATCT
*
50314641 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTTCTTTATTC
50314671 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
50314701 GTTTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:50316785 original size:30 final size:30
Alignment explanation
Indices: 50316727--50316786 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50316717 TTCCCGAGCC
*
50316727 TAGGGGCAAAAGTGTAATTATGCTAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
* *
50316757 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
50316787 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCCAAAGTT
Found at i:50317265 original size:46 final size:46
Alignment explanation
Indices: 50317209--50317331 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
50317199 TGGTTGAGCA
* *
50317209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
*
50317255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
* * *
50317301 -CCCAAGCTCATTGAGTTGAGTCTGAGTTCAC
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAC
50317332 TTAGGGGCGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 4 0.06
46 66 0.94
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
Found at i:50325175 original size:9 final size:9
Alignment explanation
Indices: 50325161--50325462 Score: 315
Period size: 9 Copynumber: 34.7 Consensus size: 9
50325151 TAACTCTAAT
50325161 TAAGTTATG
1 TAAGTTATG
50325170 TAAGTTATG
1 TAAGTTATG
*
50325179 -ATA-TTATA
1 TA-AGTTATG
*
50325187 TATATTTATG
1 TA-AGTTATG
50325197 T-A-TTATG
1 TAAGTTATG
50325204 TAAGTTATG
1 TAAGTTATG
*
50325213 TAAATTATG
1 TAAGTTATG
50325222 TAAGTTCA-G
1 TAAGTT-ATG
*
50325231 TAAGTTATT
1 TAAGTTATG
*
50325240 TGAGTTATG
1 TAAGTTATG
*
50325249 TGAGTTATG
1 TAAGTTATG
50325258 TAAGTTATG
1 TAAGTTATG
*
50325267 TAA---ATA
1 TAAGTTATG
50325273 TAAGTTATG
1 TAAGTTATG
50325282 TAAGTTATG
1 TAAGTTATG
*
50325291 TGAGTTATG
1 TAAGTTATG
*
50325300 CAAGTTATG
1 TAAGTTATG
*
50325309 TAAGTTATA
1 TAAGTTATG
50325318 TAAGTTATG
1 TAAGTTATG
50325327 TAAGTTATG
1 TAAGTTATG
*
50325336 TGAGTTATG
1 TAAGTTATG
50325345 T-A---A-G
1 TAAGTTATG
50325349 TAAGTTATG
1 TAAGTTATG
*
50325358 TGAGTTATG
1 TAAGTTATG
50325367 TAAGTTATG
1 TAAGTTATG
*
50325376 TAAGTTATA
1 TAAGTTATG
50325385 TAAGTTATG
1 TAAGTTATG
*
50325394 TATGTTATG
1 TAAGTTATG
*
50325403 TGAGTTATG
1 TAAGTTATG
**
50325412 TGTGTTATG
1 TAAGTTATG
50325421 TAAGTTATG
1 TAAGTTATG
50325430 TAAGTTATG
1 TAAGTTATG
*
50325439 TAAGTCATG
1 TAAGTTATG
*
50325448 TGAGTTATG
1 TAAGTTATG
50325457 TAAGTT
1 TAAGTT
50325463 CAAGTATATA
Statistics
Matches: 247, Mismatches: 31, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 5 0.02
7 6 0.02
8 10 0.04
9 216 0.87
10 6 0.02
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Done.