Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 63 of 73
Found at i:14572026 original size:200 final size:199
Alignment explanation
Indices: 14571679--14572174 Score: 617
Period size: 200 Copynumber: 2.5 Consensus size: 199
14571669 ATATATGTCA
* * *
14571679 ATACATTT-TCTAAAAGTATCGACCCCAAAAACGTCGAAACCAATAATTATAATGTAATAGGTAA
1 ATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAA
* * *
14571743 ATTAACAATGTAA-TCGATATAAATATACCAG-TTAATTACAAAACAGTTAAACATAATGTATCG
65 ATTTACAATGTAACT-GGTATAAATATACCAGTTTAATGACAAAACAGTTAAACATAATGTATCG
* *
14571806 ACACTTGTGGAATTTGTGTCGATACCTATTCTCCAGAATGAATGCCCAAACGAGGTGCACGCATA
129 ACACTTGTGAAATATGTGTCGATA-CTATTCTCCAGAATGAATGCCC-AACGAGGTGCACGCATA
14571871 AAGTGCCG
192 AAGTGCCG
* ** *
14571879 ATACATTTATTAAAACTATCGATCCCAAAAACATCGAAAATGATAATTATGATGTAATAGGTAAA
1 ATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAA
* * * * * *
14571944 TTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAGAATAG-TCAACATAATGTATCGAC
66 TTTACAATGTAACTGGTATAAATATACCAGTTTAATGACAAAACAGTTAAACATAATGTATCGAC
* * * *
14572008 ACTTTTTAAATATGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGT
131 ACTTGTGAAATATGTGTCGATACTATTCTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGT
*
14572073 GTCG
196 GCCG
* * * *
14572077 ATACATTTA--AAATTGTATCGATCCTAAAAATATCGAAACCGATAATTATAATGTGATAGGTAA
1 ATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAA
* * * * *
14572140 ATCTGCAATGTTACCGGTATAAATAAACCAGTTTA
65 ATTTACAATGTAACTGGTATAAATATACCAGTTTA
14572175 GTTAGAAAAT
Statistics
Matches: 254, Mismatches: 38, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
196 3 0.01
197 70 0.28
198 33 0.13
199 20 0.08
200 116 0.46
201 12 0.05
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (199 bp):
ATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAA
TTTACAATGTAACTGGTATAAATATACCAGTTTAATGACAAAACAGTTAAACATAATGTATCGAC
ACTTGTGAAATATGTGTCGATACTATTCTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGT
GCCG
Found at i:14572290 original size:64 final size:64
Alignment explanation
Indices: 14572211--14572330 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
14572201 TACCTATTAC
* *
14572211 ATTATATAAGCGCTACCTAATATGTTCTTGTACTTGATAATATTTCCGGTTAAATGCGTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGAACTTGATAATATTTCCGGTTAAATGCGTATTTT
*
14572275 ATTATATAAGCGCTACCTAATATGTTATTGAACTTGATGATATTTCCGGTTAAATG
1 ATTATATAAGCGCTACCTAATATGTTATTGAACTTGATAATATTTCCGGTTAAATG
14572331 ATATAACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATGTTATTGAACTTGATAATATTTCCGGTTAAATGCGTATTTT
Found at i:14574543 original size:20 final size:20
Alignment explanation
Indices: 14574484--14574543 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
14574474 TATAATTTTT
*
14574484 TAATTAGATGAATTTGAATA
1 TAATTAGATTAATTTGAATA
* *
14574504 TGATTAGATTTATTT---T-
1 TAATTAGATTAATTTGAATA
14574520 TAATTAGATTAATTTGAATA
1 TAATTAGATTAATTTGAATA
14574540 TAAT
1 TAAT
14574544 AAAAGTTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 13 0.42
17 1 0.03
19 1 0.03
20 16 0.52
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (20 bp):
TAATTAGATTAATTTGAATA
Found at i:14576259 original size:12 final size:12
Alignment explanation
Indices: 14576242--14576266 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14576232 GGTATGCGCC
14576242 AACAATTGTTGA
1 AACAATTGTTGA
14576254 AACAATTGTTGA
1 AACAATTGTTGA
14576266 A
1 A
14576267 TATTAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AACAATTGTTGA
Found at i:14576716 original size:10 final size:10
Alignment explanation
Indices: 14576701--14576730 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14576691 TTTTGTGAGG
14576701 TTACTATTCA
1 TTACTATTCA
*
14576711 TTACTATCCA
1 TTACTATTCA
14576721 TTACTATTCA
1 TTACTATTCA
14576731 CGTGAATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
TTACTATTCA
Found at i:14577541 original size:15 final size:15
Alignment explanation
Indices: 14577517--14577548 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14577507 TGGCAGATCC
*
14577517 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
14577532 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
14577547 AA
1 AA
14577549 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:14581193 original size:30 final size:30
Alignment explanation
Indices: 14581157--14581217 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
14581147 TTCTCACTAA
14581157 TCTGGTTATA-GAGAAATTACTCGTACTCGG
1 TCTGGTTATAGGA-AAATTACTCGTACTCGG
14581187 TCTGGTTATAGGAAAATTACTCGTACTCGG
1 TCTGGTTATAGGAAAATTACTCGTACTCGG
14581217 T
1 T
14581218 TTATTTCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (30 bp):
TCTGGTTATAGGAAAATTACTCGTACTCGG
Found at i:14589569 original size:187 final size:190
Alignment explanation
Indices: 14589218--14589594 Score: 733
Period size: 187 Copynumber: 2.0 Consensus size: 190
14589208 TTATATTGTA
14589218 CAAGGGCTAAATTTCACTTTTAACTGTAGTTTGACTATTTTACCAAGACTGTCTAGATACTTTAA
1 CAAGGGCTAAATTTCACTTTTAACTGTAGTTTGACTATTTTACCAAGACTGTCTAGATACTTTAA
14589283 CCAAATAGTGTATTAATAAATACATTATAATGATTTCATACACTATGGGCAAGTATGATATTATA
66 CCAAATAGTGTATTAATAAATACATTATAATGATTTCATACACTATGGGCAAGTATGATATTATA
14589348 AGTTCCTTTGTTTACTGGCATGGTAAAATTTTAACAGTATTTTTAAGGTTATCTTGTGTG
131 AGTTCCTTTGTTTACTGGCATGGTAAAATTTTAACAGTATTTTTAAGGTTATCTTGTGTG
14589408 CAAGGGCTAAATTTCAC-TTTAACTGTAGTTTGACTATTTTACCAAGACTGTCTAGATACTTTAA
1 CAAGGGCTAAATTTCACTTTTAACTGTAGTTTGACTATTTTACCAAGACTGTCTAGATACTTTAA
14589472 CCAAATAGTGTATTAAT-AATACATTATAATGA-TTCATACACTATGGGCAAGTATGATATTATA
66 CCAAATAGTGTATTAATAAATACATTATAATGATTTCATACACTATGGGCAAGTATGATATTATA
14589535 AGTTCCTTTGTTTACTGGCATGGTAAAATTTTAACAGTATTTTTAAGGTTATCTTGTGTG
131 AGTTCCTTTGTTTACTGGCATGGTAAAATTTTAACAGTATTTTTAAGGTTATCTTGTGTG
14589595 TTCGATCTCT
Statistics
Matches: 187, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
187 91 0.49
188 15 0.08
189 64 0.34
190 17 0.09
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (190 bp):
CAAGGGCTAAATTTCACTTTTAACTGTAGTTTGACTATTTTACCAAGACTGTCTAGATACTTTAA
CCAAATAGTGTATTAATAAATACATTATAATGATTTCATACACTATGGGCAAGTATGATATTATA
AGTTCCTTTGTTTACTGGCATGGTAAAATTTTAACAGTATTTTTAAGGTTATCTTGTGTG
Found at i:14597673 original size:30 final size:31
Alignment explanation
Indices: 14597617--14597674 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
14597607 TGTACTAAAA
*
14597617 TGAAACAAAACATAAACTTTAGGTATAATTT
1 TGAAACAAAACATAAACTTTAAGTATAATTT
*
14597648 TGAAA-AAAA-ATGAAAGTTTAAGTATAA
1 TGAAACAAAACAT-AAACTTTAAGTATAA
14597675 AAATATACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.08
30 17 0.71
31 5 0.21
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.29
Consensus pattern (31 bp):
TGAAACAAAACATAAACTTTAAGTATAATTT
Found at i:14600326 original size:48 final size:48
Alignment explanation
Indices: 14600255--14600351 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
14600245 ACCAAGTTTA
* * *
14600255 TTACTTGATTAAATAATGTACTAAATGTTATTTAATATATATTTAACT
1 TTACTTGATTAAATAATGTACTAAATGCTATTTAATAGATACTTAACT
14600303 TTACTTGATTAAATAATGTACTAAATGCTATTTAATAGATACTTAACT
1 TTACTTGATTAAATAATGTACTAAATGCTATTTAATAGATACTTAACT
14600351 T
1 T
14600352 GAATTTAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (48 bp):
TTACTTGATTAAATAATGTACTAAATGCTATTTAATAGATACTTAACT
Found at i:14600549 original size:18 final size:17
Alignment explanation
Indices: 14600522--14600567 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
14600512 GTTTCTGGGA
*
14600522 GAATTAGAATCTGTGAAG
1 GAATTGGAATCTGT-AAG
**
14600540 GAATTGGAATCTGTTTG
1 GAATTGGAATCTGTAAG
14600557 GAATTGGAATC
1 GAATTGGAATC
14600568 CAATTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (17 bp):
GAATTGGAATCTGTAAG
Found at i:14604280 original size:116 final size:118
Alignment explanation
Indices: 14604132--14604344 Score: 304
Period size: 116 Copynumber: 1.8 Consensus size: 118
14604122 ATTTTCTTGT
*
14604132 GAAAGCTAAAATAGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAATAGACTTGGAAAATAAAAATGAAATATTGAAAAAGGAGTTAGAGCTTTCAAAAA
* * *
14604197 TGAACTCTGAAAACTTT-GAAAAGAAATTTTCTAATTAAATAAACTTCTTCTA
66 TGAAATCTGAAAACTTTAAAAAAGAAAATTTCTAATTAAATAAACTTCTTCTA
* * * * * *
14604249 GAAA-CTAAAATGGATTTTGAAAATCAAAATGAAATATTGAAGAAGGATTTAGAGCTTTCAAAAA
1 GAAAGCTAAAATAGACTTGGAAAATAAAAATGAAATATTGAAAAAGGAGTTAGAGCTTTCAAAAA
* *
14604313 TGAAATTTGAAAGCTTTAAAAAAGAAAATTTC
66 TGAAATCTGAAAACTTTAAAAAAGAAAATTTC
14604345 GATTTGAAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
116 67 0.81
117 16 0.19
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (118 bp):
GAAAGCTAAAATAGACTTGGAAAATAAAAATGAAATATTGAAAAAGGAGTTAGAGCTTTCAAAAA
TGAAATCTGAAAACTTTAAAAAAGAAAATTTCTAATTAAATAAACTTCTTCTA
Found at i:14609010 original size:64 final size:64
Alignment explanation
Indices: 14608937--14609059 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
14608927 TGACCGTTGG
* * *
14608937 AAGACTTAGTGCATCGGTACATTGAGGGTGCATCGATGCATAAA-ATACATTCGATGTTTCAAAC
1 AAGACTTAGTGCATCGATACACTGAGAGTGCATCGATGCATAAATATAC-TTCGATGTTTCAAAC
* * *
14609001 AAGACTTAGTGCATCGATACACTGATAGTGCATCGATGTATAAATATGCTTCGATGTTT
1 AAGACTTAGTGCATCGATACACTGAGAGTGCATCGATGCATAAATATACTTCGATGTTT
14609060 TGAAAAAGCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 49 0.94
65 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (64 bp):
AAGACTTAGTGCATCGATACACTGAGAGTGCATCGATGCATAAATATACTTCGATGTTTCAAAC
Found at i:14609077 original size:64 final size:64
Alignment explanation
Indices: 14608937--14609123 Score: 168
Period size: 64 Copynumber: 2.9 Consensus size: 64
14608927 TGACCGTTGG
* * * *
14608937 AAGACTTAGTGCATCGGTACATTGAGGGTGCATCGATGCATAAAATACATTCGATGTTTCAAAC
1 AAGACTGAGTGCATCGATACACTGAGAGTGCATCGATGCATAAAATACATTCGATGTTTCAAAC
* * * * *
14609001 AAGACTTAGTGCATCGATACACTGATAGTGCATCGATGTATAAATATGC-TTCGATGTTTTGAAA
1 AAGACTGAGTGCATCGATACACTGAGAGTGCATCGATGCATAAA-ATACATTCGATG-TTTCAAA
14609065 -
64 C
* * * * *
14609065 AAGCCTGGGTGCATCGATGCA-TG-GCTTGTGCATCGGTGCATAAAAT-CAATTCGATGTTT
1 AAGACTGAGTGCATCGATACACTGAG--AGTGCATCGATGCATAAAATAC-ATTCGATGTTT
14609124 TAATATATAT
Statistics
Matches: 102, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 7 0.07
64 85 0.83
65 9 0.09
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
AAGACTGAGTGCATCGATACACTGAGAGTGCATCGATGCATAAAATACATTCGATGTTTCAAAC
Found at i:14609124 original size:64 final size:63
Alignment explanation
Indices: 14608964--14609190 Score: 183
Period size: 64 Copynumber: 3.5 Consensus size: 63
14608954 TACATTGAGG
* ** * * *
14608964 GTGCATCGATGCATAAAAT-ACATTCGATGTTTCAAACAAGACTTAGTGCATCGATACACTGATA
1 GTGCATCGATGCATAAAATCA-ATTCGATGTTTTAAACAAGACTGGGTGCATCGATGCA-TGGTT
* *
14609028 GTGCATCGATGTATAAATATGC--TTCGATGTTTTGAAA-AAGCCTGGGTGCATCGATGCATGGC
1 GTGCATCGATGCATAAA-AT-CAATTCGATGTTTT-AAACAAGACTGGGTGCATCGATGCATGG-
14609090 TT
62 TT
* * * *
14609092 GTGCATCGGTGCATAAAATCAATTCGATGTTTTAATATATATATATGGAGTGCATCGATGCATGG
1 GTGCATCGATGCATAAAATCAATTCGATGTTTTAA-ACA-AGA-CTGG-GTGCATCGATGCATGG
14609157 TAT
62 T-T
* * * *
14609160 GTGCATCGGTACACAAAATCCATTCGATGTT
1 GTGCATCGATGCATAAAATCAATTCGATGTT
14609191 CAATTAAAAC
Statistics
Matches: 134, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.01
63 6 0.04
64 71 0.53
65 6 0.04
66 1 0.01
67 4 0.03
68 45 0.34
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATCAATTCGATGTTTTAAACAAGACTGGGTGCATCGATGCATGGTT
Found at i:14611854 original size:23 final size:23
Alignment explanation
Indices: 14611827--14611908 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
14611817 GCTTGGCAGT
14611827 GTGCATGGATGCACATTCAAGGA
1 GTGCATGGATGCACATTCAAGGA
*
14611850 GTGCATCGG-TGCATC-TTC-ATGA
1 GTGCAT-GGATGCA-CATTCAAGGA
* *
14611872 -TGTATCGATGCACATTCAAAGGA
1 GTGCATGGATGCACATTC-AAGGA
* *
14611895 ATGCATAGATGCAC
1 GTGCATGGATGCAC
14611909 CTTAATAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.04
21 11 0.24
22 3 0.07
23 16 0.35
24 14 0.30
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (23 bp):
GTGCATGGATGCACATTCAAGGA
Found at i:14611921 original size:45 final size:44
Alignment explanation
Indices: 14611834--14611928 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
14611824 AGTGTGCATG
* * * * *
14611834 GATGCACATTCAAGGAGTGCATCGGTGCATCTTCATGATGTATC
1 GATGCACATTCAAGGAATGCATAGATGCACCTTAATGATGTATC
14611878 GATGCACATTCAAAGGAATGCATAGATGCACCTTAAT-AGTGTATC
1 GATGCACATTC-AAGGAATGCATAGATGCACCTTAATGA-TGTATC
14611923 GATGCA
1 GATGCA
14611929 TTATGCACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
44 12 0.27
45 32 0.73
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
GATGCACATTCAAGGAATGCATAGATGCACCTTAATGATGTATC
Found at i:14617782 original size:64 final size:64
Alignment explanation
Indices: 14617709--14617894 Score: 214
Period size: 64 Copynumber: 2.9 Consensus size: 64
14617699 CATTGGAAGA
* ** * *
14617709 CTTAGTGCATCGGTACATTGAGGGTGTATCGATGCATAAAATACATTCGATGTTTTAAACAAGC
1 CTTAGTGCATCGATACATTGATAGTGCATCGATGCATAAAATACATTCGATGTTTTAAAAAAGC
* *
14617773 CTTAGTGCATCGATACACTGATAGTGCATCGATGCAT-AAATATGATTCGATGTTTTAAAAAAGC
1 CTTAGTGCATCGATACATTGATAGTGCATCGATGCATAAAATA-CATTCGATGTTTTAAAAAAGC
** * * * * *
14617837 CTGGGTGCATCGATGCATGGCTTGTGCATCGGTGCATAAAAT-CAATTCGATGTTTTAA
1 CTTAGTGCATCGATACATTGATAGTGCATCGATGCATAAAATAC-ATTCGATGTTTTAA
14617895 TATATATATA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 5 0.05
64 94 0.91
65 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (64 bp):
CTTAGTGCATCGATACATTGATAGTGCATCGATGCATAAAATACATTCGATGTTTTAAAAAAGC
Found at i:14618812 original size:14 final size:13
Alignment explanation
Indices: 14618793--14618831 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
14618783 CATATTTTGA
14618793 TTTTTCAAACATTG
1 TTTTTCAAA-ATTG
*
14618807 TTTTTCAAAATAG
1 TTTTTCAAAATTG
14618820 -TTTTCAAAATTG
1 TTTTTCAAAATTG
14618832 CCCATTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 3 0.13
14 9 0.39
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (13 bp):
TTTTTCAAAATTG
Found at i:14622409 original size:60 final size:60
Alignment explanation
Indices: 14622311--14622424 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
14622301 ATTTTATAAT
* *
14622311 TTTTAATAGTCAAAGGACTCAACAAAGAAGCTCTCTATAGTCATGGG-ACCATTTTGTTAC
1 TTTTAATAGTCAAAGGACTCAACAAAGAAGATCTCTATAGT-AGGGGAACCATTTTGTTAC
* ** *
14622371 TTTTAATAGTCGAAGGACTCAGTAAAGAATTATC-CTATAGTAGGGGAACCATTT
1 TTTTAATAGTCAAAGGACTCAACAAAGAA-GATCTCTATAGTAGGGGAACCATTT
14622425 GTGTAATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 4 0.09
60 40 0.87
61 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (60 bp):
TTTTAATAGTCAAAGGACTCAACAAAGAAGATCTCTATAGTAGGGGAACCATTTTGTTAC
Found at i:14625036 original size:25 final size:24
Alignment explanation
Indices: 14625008--14625054 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14624998 TATATAAACA
* *
14625008 TATATTAAAATAAGGTAAATAATTT
1 TATAATAAAA-AAGATAAATAATTT
14625033 TATAATAAAAAAGATAAATAAT
1 TATAATAAAAAAGATAAATAAT
14625055 CCAATAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
TATAATAAAAAAGATAAATAATTT
Found at i:14634986 original size:16 final size:16
Alignment explanation
Indices: 14634965--14634998 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14634955 ACATAATTAT
*
14634965 AATGATTCATTTTTTA
1 AATGATTCATATTTTA
*
14634981 AATGATTGATATTTTA
1 AATGATTCATATTTTA
14634997 AA
1 AA
14634999 AAGTAAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (16 bp):
AATGATTCATATTTTA
Found at i:14637354 original size:21 final size:21
Alignment explanation
Indices: 14637330--14637372 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14637320 CAACGGCTCT
*
14637330 ATTCACTCCCACAACAAGTCA
1 ATTCACTCCCACAACAACTCA
14637351 ATTCACTCCCACAACAACTCA
1 ATTCACTCCCACAACAACTCA
14637372 A
1 A
14637373 ACGGTTGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.40, G:0.02, T:0.19
Consensus pattern (21 bp):
ATTCACTCCCACAACAACTCA
Found at i:14639240 original size:27 final size:27
Alignment explanation
Indices: 14639210--14639287 Score: 65
Period size: 29 Copynumber: 2.9 Consensus size: 27
14639200 ATAAATTTAA
14639210 AATTATAAAAATAAACAAATAAT-TTC
1 AATTATAAAAATAAACAAATAATATTC
* *
14639236 TAATTTATGAAATATAAA-AAAAACATATTC
1 -AA-TTAT-AAAAATAAACAAATA-ATATTC
*
14639266 AAGT-T-AAAATAAACAAATAATA
1 AATTATAAAAATAAACAAATAATA
14639288 ATAATGATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
25 10 0.24
26 4 0.10
27 3 0.07
28 9 0.22
29 12 0.29
30 3 0.07
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (27 bp):
AATTATAAAAATAAACAAATAATATTC
Found at i:14640788 original size:91 final size:91
Alignment explanation
Indices: 14640673--14641020 Score: 482
Period size: 91 Copynumber: 3.8 Consensus size: 91
14640663 ATGATGTTCT
* * * * *
14640673 AAGGTTAAAGAAGATCTTCTCATTATAAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*
14640738 GAACTCTCCACTGGAAATCTTGAACC
66 GAACTCTCCACTGGAAATCTTGAACA
* * *
14640764 AAGGTTGAACGAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
*** * *
14640829 GAACTCTCTGTTGGAAATGC-TGAGCT
66 GAACTCTCCACTGGAAAT-CTTGAACA
* *
14640855 AAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
* * *
14640920 GAACTCTCTACTGGAAATATTTAACA
66 GAACTCTCCACTGGAAATCTTGAACA
* * *
14640946 AAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCGTTGGACGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
14641011 GAACTCTCCA
66 GAACTCTCCA
14641021 TTGGCAATGT
Statistics
Matches: 225, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
91 224 1.00
92 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATCTTGAACA
Found at i:14640965 original size:182 final size:182
Alignment explanation
Indices: 14640671--14641018 Score: 563
Period size: 182 Copynumber: 1.9 Consensus size: 182
14640661 AAATGATGTT
* *
14640671 CTAAGGTTAAAGAAGATCTTCTCATTATAAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATT
1 CTAAGGTTAAACAAGATCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATT
* * * *
14640736 ATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACGAGTTCTTCTCATTATGAACTTATTCT
66 ATGAACTCTCCACTGGAAATATTGAACAAAGGCTGAACAAGTTCTTCTCATTATGAACTTATTCT
*
14640801 CCCTCGTTGGATAAGTTCTTCTCATTATGAACTCTCTGTTGGAAATGCTGAG
131 CCCTCGTTGGACAAGTTCTTCTCATTATGAACTCTCTGTTGGAAATGCTGAG
*
14640853 CTAAGGTTAAACAA-ATTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCAT
1 CTAAGGTTAAACAAGA-TCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCAT
* * * *
14640917 TATGAACTCTCTACTGGAAATATTTAACAAAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTT
65 TATGAACTCTCCACTGGAAATATTGAACAAAGGCTGAACAAGTTCTTCTCATTATGAACTTATTC
*
14640982 TCCCTCGTTGGACGAGTTCTTCTCATTATGAACTCTC
130 TCCCTCGTTGGACAAGTTCTTCTCATTATGAACTCTC
14641019 CATTGGCAAT
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
181 1 0.01
182 151 0.99
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (182 bp):
CTAAGGTTAAACAAGATCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATT
ATGAACTCTCCACTGGAAATATTGAACAAAGGCTGAACAAGTTCTTCTCATTATGAACTTATTCT
CCCTCGTTGGACAAGTTCTTCTCATTATGAACTCTCTGTTGGAAATGCTGAG
Found at i:14641368 original size:30 final size:30
Alignment explanation
Indices: 14641332--14641502 Score: 119
Period size: 30 Copynumber: 5.5 Consensus size: 30
14641322 TAAAATTTCT
* *
14641332 TGTTTCAAGGGAAACAATCTCAAAGGTTGG
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTG
** *
14641362 TGTTTCAAGAGAAACTGTCTCAAAGGTTAG
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTG
* ** **
14641392 TGTTTCAAGATAAACTGTCTCAAGAGAGATAAATCA
1 TGTTTCAAGAGAAACAATCTCAA-AG-G-T---TTG
* *
14641428 TGTTTCAAGGGAAACAATCTCAAAGATTTTG
1 TGTTTCAAGAGAAACAATCTCAAAG-GTTTG
* * * * *
14641459 TGTCTCAAGGGAAACATTTTCAAA-GTTTA
1 TGTTTCAAGAGAAACAATCTCAAAGGTTTG
14641488 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
14641503 TGTCTCAAGG
Statistics
Matches: 114, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
29 16 0.14
30 48 0.42
31 24 0.21
32 1 0.01
33 1 0.01
34 1 0.01
35 3 0.03
36 20 0.18
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATCTCAAAGGTTTG
Found at i:14641492 original size:96 final size:97
Alignment explanation
Indices: 14641332--14641575 Score: 284
Period size: 96 Copynumber: 2.5 Consensus size: 97
14641322 TAAAATTTCT
*
14641332 TGTTTCAAGGGAAACAATCTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
1 TGTTTCAAGGGAAACAATCTCAAAGGTTGGTGTCTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
* *
14641397 CAAGATAAACTGTCTCAAGAGAGA-TAAATCA
66 CAAGAGAAACTGTCTCAAGAGAGACGAAATCA
* * * * *
14641428 TGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTCTCAAGGGAAACAT-TTTCAAAGTTTA-TGT
1 TGTTTCAAGGGAAACAATCTCAAAG-GTTGGTGTCTCAAGAGAAAC-TGTCTCAAAGGTTAGTGT
* **
14641491 TTCAAGAGAAACTGTCTCAAGGGAGACGAAATTT
64 TTCAAGAGAAACTGTCTCAAGAGAGACGAAATCA
** **
14641525 TGTTTCAAGGGAAACTGTCTCAGAAACTT-GT-T-TCAAGAGAAACTGTCTCAA
1 TGTTTCAAGGGAAACAATCTCA-AAGGTTGGTGTCTCAAGAGAAACTGTCTCAA
14641576 GGGAAACAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
93 1 0.01
94 15 0.12
95 1 0.01
96 54 0.43
97 52 0.41
98 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (97 bp):
TGTTTCAAGGGAAACAATCTCAAAGGTTGGTGTCTCAAGAGAAACTGTCTCAAAGGTTAGTGTTT
CAAGAGAAACTGTCTCAAGAGAGACGAAATCA
Found at i:14641581 original size:15 final size:15
Alignment explanation
Indices: 14641529--14641582 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
14641519 AAATTTTGTT
14641529 TCAAGGGAAACTGTC
1 TCAAGGGAAACTGTC
*
14641544 TC-A--GAAACTTGTT
1 TCAAGGGAAAC-TGTC
*
14641557 TCAAGAGAAACTGTC
1 TCAAGGGAAACTGTC
14641572 TCAAGGGAAAC
1 TCAAGGGAAAC
14641583 AAAATTCGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 2 0.06
15 15 0.47
16 5 0.16
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (15 bp):
TCAAGGGAAACTGTC
Found at i:14641644 original size:66 final size:64
Alignment explanation
Indices: 14641463--14641749 Score: 265
Period size: 66 Copynumber: 4.3 Consensus size: 64
14641453 ATTTTGTGTC
* *
14641463 TCAAGGGAAACAT-TTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAATTTTG
1 TCAAGGGAAAC-TGTCTCAAAGTTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTG
14641527 TT
63 TT
** * *
14641529 TCAAGGGAAACTGTCTCAGAA-ACTTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTCGTT
1 TCAAGGGAAACTGTCTCA-AAGTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
* * * *
14641593 TCAAGGGGAA-TGTTCTCAAAGTTTTGTGTTTCAATAGAAACTATCTCAAGGGAGATAAAATTTG
1 TCAAGGGAAACTG-TCTCAAAG-TTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
14641657 TT
63 TT
* * * * *
14641659 TCAAGGGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGATACAAA
1 TCAAGGGAAACTGTC-TCA-A-AG-----TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
14641724 ATTTGTT
58 ATTTGTT
* *
14641731 TTAAGGGAAACTATCTCAA
1 TCAAGGGAAACTGTCTCAA
14641750 GCGAGATAAA
Statistics
Matches: 180, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
63 4 0.02
64 22 0.12
65 31 0.17
66 62 0.34
67 6 0.03
68 1 0.01
69 2 0.01
70 1 0.01
71 2 0.01
72 47 0.26
73 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (64 bp):
TCAAGGGAAACTGTCTCAAAGTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:14641778 original size:39 final size:39
Alignment explanation
Indices: 14641619--14642078 Score: 598
Period size: 39 Copynumber: 12.0 Consensus size: 39
14641609 CAAAGTTTTG
** *
14641619 TGTTTCAATAGAAACTATCTCAAGGGAGATAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * *
14641655 TGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
14641691 TGTTTCAAGGGAAACTGTCTCAA--GAGATACAAA-ATT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATA-AAATCTTC
* *
14641727 TGTTTTAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
14641766 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
*
14641805 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
14641844 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
14641883 TGTTTCGAGGGAAACTATCTCAAGCGAGGTAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
14641922 TGTTTCGAGGGAACCTACCTCAAGCGAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
14641961 TGTTTCAAGGGAAACTACCTCAAGCGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
14642000 TGTTTCAAGGGAAACTACCTCAAGCGAGATAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
** *
14642039 TGTTTCAAGAAAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
14642078 T
1 T
14642079 CTAAAAACAA
Statistics
Matches: 388, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
34 5 0.01
35 3 0.01
36 75 0.19
37 3 0.01
38 8 0.02
39 294 0.76
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:14642197 original size:76 final size:76
Alignment explanation
Indices: 14642048--14642250 Score: 240
Period size: 76 Copynumber: 2.7 Consensus size: 76
14642038 CTGTTTCAAG
* * *
14642048 AAAAACTATCTCAAGCGAGACAAAATCT-TCTCT---AAAAACAATCTTGAGTAAAATGAAATGT
1 AAAAACTATCTCAAGCGAGACAAACTCTGT-TTTAAGAAAAACAATCTTGAGTGAAATGAAATGT
14642109 CTTCTTTCGAGT
65 CTTCTTTCGAGT
*
14642121 AAAAA-TCGTCTCAAGCGAGACTAAACT-TGTTTTAAGAAAAACAATCTTGAGTGAAAT-AAATC
1 AAAAACT-ATCTCAAGCGAGAC-AAACTCTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAAT-
* *
14642183 TTCTTGTTTCGAGT
63 GTCTTCTTTCGAGT
* * *
14642197 AAAAACTATCTCAAGTGAGACAAATTCTGTTTTAAGAAAAACAATCTTAAGTGA
1 AAAAACTATCTCAAGCGAGACAAACTCTGTTTTAAGAAAAACAATCTTGAGTGA
14642251 GGTAAATCCT
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
72 1 0.01
73 21 0.19
74 5 0.05
75 8 0.07
76 75 0.68
77 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (76 bp):
AAAAACTATCTCAAGCGAGACAAACTCTGTTTTAAGAAAAACAATCTTGAGTGAAATGAAATGTC
TTCTTTCGAGT
Found at i:14642249 original size:36 final size:38
Alignment explanation
Indices: 14642146--14642251 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 38
14642136 CGAGACTAAA
* * *
14642146 CTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCTT
1 CTTGTTTTAAGAAAAACAATCTTAAGTGAGACAAA-CTT
** * *
14642185 CTTGTTTCGAGTAAAAACTATCTCAAGTGAGACAAA-TT
1 CTTGTTTTAAG-AAAAACAATCTTAAGTGAGACAAACTT
14642223 C-TGTTTTAAGAAAAACAATCTTAAGTGAG
1 CTTGTTTTAAGAAAAACAATCTTAAGTGAG
14642252 GTAAATCCTC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
36 17 0.31
37 7 0.13
38 3 0.05
39 9 0.16
40 19 0.35
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (38 bp):
CTTGTTTTAAGAAAAACAATCTTAAGTGAGACAAACTT
Found at i:14648691 original size:21 final size:23
Alignment explanation
Indices: 14648667--14648717 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14648657 AGAGAATCGA
14648667 TCCCCCCCTG-A-GGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
**
14648688 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
14648711 TCCCCCC
1 TCCCCCC
14648718 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (23 bp):
TCCCCCCCTGAAGGGGAACCGAT
Found at i:14648725 original size:21 final size:21
Alignment explanation
Indices: 14648699--14648738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14648689 CCCCCTTTGA
*
14648699 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
14648720 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
14648739 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:14654600 original size:478 final size:478
Alignment explanation
Indices: 14653704--14654617 Score: 1720
Period size: 478 Copynumber: 1.9 Consensus size: 478
14653694 AAAAATTCAA
14653704 ACAAGACAACATTCAAGTGCATCAAAAGTTTGTAATGGCTACAATGATTTTTTCTCAGTTTGCAT
1 ACAAGACAACATTCAAGTGCATCAAAAGTTTGTAATGGCTACAATGATTTTTTCTCAGTTTGCAT
14653769 CAGAATGCCCTATCCTCCTTCGAACGTCCATGCCCCTGAATCGATTAAGTGTTGAACCTTGCGCT
66 CAGAATGCCCTATCCTCCTTCGAACGTCCATGCCCCTGAATCGATTAAGTGTTGAACCTTGCGCT
*
14653834 TCAATGCCCCACAATTCTCAGTAGTATGCCCCGAGCTTCCCATGTGGTAGCTACATACTGCATTA
131 TCAATGCCCCACAATTCTCAGTAGTATGCCCCGAGCTTCCCATGTGGTAGCTACATACTCCATTA
* * *
14653899 GCATCATGCCCCTCAGGATATTGAGGCTCTTTCGGTTTAGACCTCACTGGAGTCACGAGATGCTT
196 GCATCATGCCCCTCAGGAAATGGAGGCTCTTTCGGTTTAGACCTCACTGGAGTCACGAGATACTT
*
14653964 TTCAACTAGTACTGGGAGCAGCTCTTCATATGTCATTGGAATTTCACTAATAGGGGTCTTCTCTC
261 TTCAACTAGTACTGGGAGCAGCTCTTCATATGTCATTGGAATATCACTAATAGGGGTCTTCTCTC
*
14654029 GGGTTATTTTATAAGGTTTGGCCCCACGATTAGCTGAATAAGAACTCACTGTATTGACATCGACT
326 GGGTCATTTTATAAGGTTTGGCCCCACGATTAGCTGAATAAGAACTCACTGTATTGACATCGACT
14654094 CAATTCTTAATGTTGGTGCTATCAGAACCTCCTATCTTACCATTCCTAATGGTGGTCCAAAGTGA
391 CAATTCTTAATGTTGGTGCTATCAGAACCTCCTATCTTACCATTCCTAATGGTGGTCCAAAGTGA
14654159 CTTACCAACTTTTTAATGAAAAG
456 CTTACCAACTTTTTAATGAAAAG
* *
14654182 ACAAGACAATATTCAAGTGCATCAAAAGTTTGTAATGGCTACAATGATTTTTTCTCGGTTTGCAT
1 ACAAGACAACATTCAAGTGCATCAAAAGTTTGTAATGGCTACAATGATTTTTTCTCAGTTTGCAT
14654247 CAGAATGCCCTATCCTCCTTCGAACGTCCATGCCCCTGAATCGATTAAGTGTTGAACCTTGCGCT
66 CAGAATGCCCTATCCTCCTTCGAACGTCCATGCCCCTGAATCGATTAAGTGTTGAACCTTGCGCT
14654312 TCAATGCCCCACAATTCTCAGTAGTATGCCCCGAGCTTCCCATGTGGTAGCTACATACTCCATTA
131 TCAATGCCCCACAATTCTCAGTAGTATGCCCCGAGCTTCCCATGTGGTAGCTACATACTCCATTA
*
14654377 GCATCATGCCCCTTAGGAAATGGAGGCTCTTTCGGTTTAGACCTCACTGGAGTCACGAGATACTT
196 GCATCATGCCCCTCAGGAAATGGAGGCTCTTTCGGTTTAGACCTCACTGGAGTCACGAGATACTT
*
14654442 TTCAACTAGTACTGGGAGGAGCTCTTCATATGTCATTGGAATATCACTAATAGGGGTCTTCTCTC
261 TTCAACTAGTACTGGGAGCAGCTCTTCATATGTCATTGGAATATCACTAATAGGGGTCTTCTCTC
* *
14654507 GGGTCATTTTATAAGGTTTGGCCCCATGATTAGTTGAATAAGAACTCACTGTATTGACATCGACT
326 GGGTCATTTTATAAGGTTTGGCCCCACGATTAGCTGAATAAGAACTCACTGTATTGACATCGACT
14654572 CAATTCTTAATGTTGGTGCTATCAGAACCTCCTATCTTACCATTCC
391 CAATTCTTAATGTTGGTGCTATCAGAACCTCCTATCTTACCATTCC
14654618 CCAGAAATAA
Statistics
Matches: 424, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
478 424 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (478 bp):
ACAAGACAACATTCAAGTGCATCAAAAGTTTGTAATGGCTACAATGATTTTTTCTCAGTTTGCAT
CAGAATGCCCTATCCTCCTTCGAACGTCCATGCCCCTGAATCGATTAAGTGTTGAACCTTGCGCT
TCAATGCCCCACAATTCTCAGTAGTATGCCCCGAGCTTCCCATGTGGTAGCTACATACTCCATTA
GCATCATGCCCCTCAGGAAATGGAGGCTCTTTCGGTTTAGACCTCACTGGAGTCACGAGATACTT
TTCAACTAGTACTGGGAGCAGCTCTTCATATGTCATTGGAATATCACTAATAGGGGTCTTCTCTC
GGGTCATTTTATAAGGTTTGGCCCCACGATTAGCTGAATAAGAACTCACTGTATTGACATCGACT
CAATTCTTAATGTTGGTGCTATCAGAACCTCCTATCTTACCATTCCTAATGGTGGTCCAAAGTGA
CTTACCAACTTTTTAATGAAAAG
Found at i:14661279 original size:39 final size:38
Alignment explanation
Indices: 14661236--14661493 Score: 235
Period size: 39 Copynumber: 6.8 Consensus size: 38
14661226 AAGATTCTAA
* * * *
14661236 AAAATAAATTTAATGAATTATTTCTTTTTATAAAATAGG
1 AAAATAAATTCAACGAATTATTTCCTTTTACAAAATA-G
* * *
14661275 AAAATAAATCCAACGATTTA-TT--TTCTA-AAACA-AG
1 AAAATAAATTCAACGAATTATTTCCTTTTACAAA-ATAG
*
14661309 AAAATAAATCCAAC-AAGTTATTTCCTTTTACAAAATAG
1 AAAATAAATTCAACGAA-TTATTTCCTTTTACAAAATAG
* *
14661347 AAAATAAA-TCTAGCGAGTTATTTCCTTTTACAAAATAGG
1 AAAATAAATTC-AACGAATTATTTCCTTTTACAAAATA-G
* * *
14661386 AAAATAAATTCAATGATTTATTTACTTTTACAAAATAG
1 AAAATAAATTCAACGAATTATTTCCTTTTACAAAATAG
* *
14661424 AAAATAAATTCAAC-ACTTTATTTCTTTTTACAAAATAG
1 AAAATAAATTCAACGA-ATTATTTCCTTTTACAAAATAG
** *
14661462 AAAAATAAATTTTACGATTTATTTCCTTTTAC
1 -AAAATAAATTCAACGAATTATTTCCTTTTAC
14661494 GTATCAGAAC
Statistics
Matches: 185, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
33 1 0.01
34 18 0.10
35 6 0.03
36 5 0.03
37 7 0.04
38 71 0.38
39 74 0.40
40 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (38 bp):
AAAATAAATTCAACGAATTATTTCCTTTTACAAAATAG
Found at i:14661356 original size:38 final size:38
Alignment explanation
Indices: 14661253--14661493 Score: 251
Period size: 38 Copynumber: 6.4 Consensus size: 38
14661243 ATTTAATGAA
* *
14661253 TTATTTCTTTTTATAAAATAGGAAAATAAATCCAACGAT
1 TTATTTCCTTTTACAAAATA-GAAAATAAATCCAACGAT
* * *
14661292 TTA-TT--TTCTA-AAACA-AGAAAATAAATCCAACAAG
1 TTATTTCCTTTTACAAA-ATAGAAAATAAATCCAACGAT
* * *
14661326 TTATTTCCTTTTACAAAATAGAAAATAAATCTAGCGAG
1 TTATTTCCTTTTACAAAATAGAAAATAAATCCAACGAT
* *
14661364 TTATTTCCTTTTACAAAATAGGAAAATAAATTCAATGAT
1 TTATTTCCTTTTACAAAATA-GAAAATAAATCCAACGAT
* *
14661403 TTATTTACTTTTACAAAATAGAAAATAAATTCAAC-ACT
1 TTATTTCCTTTTACAAAATAGAAAATAAATCCAACGA-T
* ***
14661441 TTATTTCTTTTTACAAAATAGAAAAATAAATTTTACGAT
1 TTATTTCCTTTTACAAAATAG-AAAATAAATCCAACGAT
14661480 TTATTTCCTTTTAC
1 TTATTTCCTTTTAC
14661494 GTATCAGAAC
Statistics
Matches: 173, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
34 19 0.11
35 6 0.03
36 5 0.03
37 6 0.03
38 75 0.43
39 61 0.35
40 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (38 bp):
TTATTTCCTTTTACAAAATAGAAAATAAATCCAACGAT
Found at i:14661414 original size:77 final size:76
Alignment explanation
Indices: 14661236--14661493 Score: 260
Period size: 77 Copynumber: 3.4 Consensus size: 76
14661226 AAGATTCTAA
* * * * * *
14661236 AAAATAAATTTAATGAATTATTTCTTTTTATAAAATAGGAAAATAAATCCAACGATTTA-TT-TT
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAATA-GAAAATAAATCTAACGATTTATTTCTT
*
14661299 CTA-AAACA-A-G
65 TTACAAA-ATAGG
* * * * *
14661309 AAAATAAATCCAACAAGTTATTTCCTTTTACAAAATAGAAAATAAATCTAGCGAGTTATTTCCTT
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAATAGAAAATAAATCTAACGATTTATTT-CTT
14661374 TTACAAAATAGG
65 TTACAAAATAGG
* *
14661386 AAAATAAATTCAATGATTTATTTACTTTTACAAAATAGAAAATAAAT-TCAAC-ACTTTATTTCT
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAATAGAAAATAAATCT-AACGA-TTTATTTC-
*
14661449 TTTTACAAAATAGA
63 TTTTACAAAATAGG
**
14661463 AAAATAAATTTTACGATTTATTTCCTTTTAC
1 AAAATAAATTCAACGATTTATTTCCTTTTAC
14661494 GTATCAGAAC
Statistics
Matches: 153, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
72 18 0.12
73 32 0.21
75 5 0.03
76 7 0.05
77 91 0.59
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (76 bp):
AAAATAAATTCAACGATTTATTTCCTTTTACAAAATAGAAAATAAATCTAACGATTTATTTCTTT
TACAAAATAGG
Found at i:14661581 original size:39 final size:39
Alignment explanation
Indices: 14661517--14661591 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
14661507 ATAAGATTCT
* *
14661517 TAGGAAAATAAATTCAACGATTTATTTTCTTTTACAAAA
1 TAGGAAAATAAATTCAACGACTTATTTCCTTTTACAAAA
* *
14661556 TAGGAAAATAAATTCTATGACTTATTTCCTTTTACA
1 TAGGAAAATAAATTCAACGACTTATTTCCTTTTACA
14661592 TATCATAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (39 bp):
TAGGAAAATAAATTCAACGACTTATTTCCTTTTACAAAA
Found at i:14661589 original size:97 final size:97
Alignment explanation
Indices: 14661422--14661664 Score: 348
Period size: 97 Copynumber: 2.5 Consensus size: 97
14661412 TTTACAAAAT
* * *
14661422 AGAAAATAAATTCAAC-ACTTTA-TTTCTTTTTACAAAATAGAAAAATAAATTTTACGATTTATT
1 AGAAAATAAATTCAACGA-TTTATTTTC-TTTTACAAAATAGGAAAATAAATTCTACGACTTATT
*
14661485 TCCTTTTACGTATCAGAACCATATAAGATTCTTA
64 TCCTTTTACATATCAGAACCATATAAGATTCTTA
* *
14661519 GGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGGAAAATAAATTCTATGACTTATTTC
1 AGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGGAAAATAAATTCTACGACTTATTTC
* *
14661584 CTTTTACATATCATAATCATATAAGATTCTTA
66 CTTTTACATATCAGAACCATATAAGATTCTTA
* *
14661616 AGAAAATAAATAT-AACGATTTATTTTCTTTTACAAAACATGAAAATAAA
1 AGAAAATAAAT-TCAACGATTTATTTTCTTTTACAAAATAGGAAAATAAA
14661665 CCAGTAATTT
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
97 126 0.95
98 6 0.05
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (97 bp):
AGAAAATAAATTCAACGATTTATTTTCTTTTACAAAATAGGAAAATAAATTCTACGACTTATTTC
CTTTTACATATCAGAACCATATAAGATTCTTA
Found at i:14661766 original size:40 final size:39
Alignment explanation
Indices: 14661614--14661773 Score: 143
Period size: 38 Copynumber: 4.2 Consensus size: 39
14661604 ATAAGATTCT
* *
14661614 TAAGAAAATAAATAT-AACGATTTATTTTCTTTTACAAAA
1 TAAGAAAATAAAT-TCAACAATTTATTTCCTTTTACAAAA
* * * ** * *
14661653 CATGAAAATAAA-CCAGTAATTTATTTCCTTTTATAAAG
1 TAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
*
14661691 CAAGAAAATAAATTCAACAATTT-TTT--TTTT-CAAAA
1 TAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
* *
14661726 TAGGAAAATAAAATTCAACAATTTATTTCCTTTTAGAAAA
1 TAAGAAAAT-AAATTCAACAATTTATTTCCTTTTACAAAA
*
14661766 TAAAAAAA
1 TAAGAAAA
14661774 ACAAATCAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
35 10 0.11
36 18 0.19
37 3 0.03
38 32 0.34
39 21 0.22
40 10 0.11
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (39 bp):
TAAGAAAATAAATTCAACAATTTATTTCCTTTTACAAAA
Found at i:14662058 original size:58 final size:57
Alignment explanation
Indices: 14661923--14662154 Score: 225
Period size: 58 Copynumber: 4.0 Consensus size: 57
14661913 CATTCAAGAA
* **
14661923 TTAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCTTTTTAAAAAGATAGAATCAT
1 TTAAGATTCTCAAGAAAATAAA-TTAATAATTTATTT-TCCTTAAAAAGATAGAATCAT
** * * * ** *
14661982 CCATGATTCTCGAGAAAATGAATTGAATAATTTATTTTCCTTACGAAGTTAGAATCAT
1 TTAAGATTCTCAAGAAAATAAATT-AATAATTTATTTTCCTTAAAAAGATAGAATCAT
* * * *
14662040 TTAAGATTCTCAAAAAAATAAATATAATTATTTATTTTCCCTATAAAA-TTAGAATCAT
1 TTAAGATTCTCAAGAAAATAAAT-TAATAATTTATTTTCCTTA-AAAAGATAGAATCAT
* * *
14662098 TTAAGATTTTTAAGGAAATAAATTCAACT-ATTTATTTTCCTTAAAAAGATAGAATCA
1 TTAAGATTCTCAAGAAAATAAATT-AA-TAATTTATTTTCCTTAAAAAGATAGAATCA
14662155 ATGCAAGATT
Statistics
Matches: 140, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
57 5 0.04
58 103 0.74
59 32 0.23
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (57 bp):
TTAAGATTCTCAAGAAAATAAATTAATAATTTATTTTCCTTAAAAAGATAGAATCAT
Found at i:14662400 original size:45 final size:45
Alignment explanation
Indices: 14662323--14662513 Score: 199
Period size: 45 Copynumber: 4.3 Consensus size: 45
14662313 ATTAGCAACT
* * * *
14662323 CAATAATC-ACAAGGAATTAATCTTTTGGTTTTAATTTTTGCAATC
1 CAATAATCGA-AAGAAACTAATCCTTTGATTTTAATTTTTGCAATC
* * * * * *
14662368 CAATTA-CTAAAATAAACTAATCATTTGATTTTAATTTTCGTAATC
1 CAATAATC-GAAAGAAACTAATCCTTTGATTTTAATTTTTGCAATC
* * *
14662413 CAATAATCGAAAGGAACTAATCCTTTGATTCTAATTTTTGCAACC
1 CAATAATCGAAAGAAACTAATCCTTTGATTTTAATTTTTGCAATC
* * *
14662458 CAATAATCGAAAGAAACTAA-CCTTTGATTTTAATTTTCGTAACC
1 CAATAATCGAAAGAAACTAATCCTTTGATTTTAATTTTTGCAATC
14662502 CAATAATCGAAA
1 CAATAATCGAAA
14662514 CCTTGGATTA
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
44 34 0.28
45 86 0.70
46 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (45 bp):
CAATAATCGAAAGAAACTAATCCTTTGATTTTAATTTTTGCAATC
Found at i:14662461 original size:90 final size:89
Alignment explanation
Indices: 14662323--14662513 Score: 251
Period size: 90 Copynumber: 2.1 Consensus size: 89
14662313 ATTAGCAACT
* * * * * * *
14662323 CAATAATC-ACAAGGAATTAATCTTTTGGTTTTAATTTTTGCAATCCAATTA-CTAAAATAAACT
1 CAATAATCGA-AAGGAACTAATCCTTTGATTCTAATTTTTGCAACCCAATAATC-AAAAGAAACT
*
14662386 AATCATTTGATTTTAATTTTCGTAATC
64 AA-CATTTGATTTTAATTTTCGTAACC
*
14662413 CAATAATCGAAAGGAACTAATCCTTTGATTCTAATTTTTGCAACCCAATAATCGAAAGAAACTAA
1 CAATAATCGAAAGGAACTAATCCTTTGATTCTAATTTTTGCAACCCAATAATCAAAAGAAACTAA
*
14662478 CCTTTGATTTTAATTTTCGTAACC
66 CATTTGATTTTAATTTTCGTAACC
14662502 CAATAATCGAAA
1 CAATAATCGAAA
14662514 CCTTGGATTA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
89 34 0.38
90 53 0.60
91 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (89 bp):
CAATAATCGAAAGGAACTAATCCTTTGATTCTAATTTTTGCAACCCAATAATCAAAAGAAACTAA
CATTTGATTTTAATTTTCGTAACC
Found at i:14662502 original size:44 final size:45
Alignment explanation
Indices: 14662381--14662513 Score: 205
Period size: 45 Copynumber: 3.0 Consensus size: 45
14662371 TTACTAAAAT
* *
14662381 AAACTAATCATTTGATTTTAATTTTCGTAATCCAATAATCGAAAG
1 AAACTAATCCTTTGATTTTAATTTTCGTAACCCAATAATCGAAAG
* * * *
14662426 GAACTAATCCTTTGATTCTAATTTTTGCAACCCAATAATCGAAAG
1 AAACTAATCCTTTGATTTTAATTTTCGTAACCCAATAATCGAAAG
14662471 AAACTAA-CCTTTGATTTTAATTTTCGTAACCCAATAATCGAAA
1 AAACTAATCCTTTGATTTTAATTTTCGTAACCCAATAATCGAAA
14662514 CCTTGGATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 33 0.42
45 45 0.58
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (45 bp):
AAACTAATCCTTTGATTTTAATTTTCGTAACCCAATAATCGAAAG
Found at i:14662835 original size:14 final size:14
Alignment explanation
Indices: 14662816--14662866 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
14662806 CATACGCTAG
14662816 TCACCATGCGCCAT
1 TCACCATGCGCCAT
* *
14662830 TCACCATGGGCTAT
1 TCACCATGCGCCAT
**
14662844 TCACCATGCATCAT
1 TCACCATGCGCCAT
14662858 TCACCATGC
1 TCACCATGC
14662867 ATTTGTGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.24, C:0.37, G:0.14, T:0.25
Consensus pattern (14 bp):
TCACCATGCGCCAT
Found at i:14662851 original size:28 final size:28
Alignment explanation
Indices: 14662811--14662865 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
14662801 ATCATCATAC
*
14662811 GCTAGTCACCATGCGCCATTCACCATGG
1 GCTAGTCACCATGCACCATTCACCATGG
* *
14662839 GCTATTCACCATGCATCATTCACCATG
1 GCTAGTCACCATGCACCATTCACCATG
14662866 CATTTGTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (28 bp):
GCTAGTCACCATGCACCATTCACCATGG
Found at i:14663884 original size:21 final size:21
Alignment explanation
Indices: 14663842--14663884 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14663832 TATATGTTTT
*
14663842 ATTTGAGGTAAAATATTTCAC
1 ATTTGAGGTAAAATATTCCAC
*
14663863 ATTTGGGGTTAAAATA-TCCAC
1 ATTTGAGG-TAAAATATTCCAC
14663884 A
1 A
14663885 AGCCCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTTGAGGTAAAATATTCCAC
Found at i:14664192 original size:35 final size:35
Alignment explanation
Indices: 14664146--14664216 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
14664136 TAGTTAAGAG
14664146 TTAGTCTTGCTCTTATGTAATGTTTTATATATATA
1 TTAGTCTTGCTCTTATGTAATGTTTTATATATATA
14664181 TTAGTCTTGCTCTTATGTAATGTTTTATATATATA
1 TTAGTCTTGCTCTTATGTAATGTTTTATATATATA
14664216 T
1 T
14664217 ATATATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.55
Consensus pattern (35 bp):
TTAGTCTTGCTCTTATGTAATGTTTTATATATATA
Found at i:14673271 original size:46 final size:48
Alignment explanation
Indices: 14673219--14673309 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
14673209 AAATTGTCTC
*
14673219 TATTA-TTAGAAATT-TAAAAATTCAAAATATAT-TTAATTTATAATCT
1 TATTATTTA-AAATTATAAAAATTAAAAATATATATTAATTTATAATCT
**
14673265 TATTATTTTAAAATTATAATTATTAAAAATATATATTAATTTATA
1 TATTA-TTTAAAATTATAAAAATTAAAAATATATATTAATTTATA
14673310 TATTTGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
46 5 0.13
47 5 0.13
48 18 0.47
49 10 0.26
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (48 bp):
TATTATTTAAAATTATAAAAATTAAAAATATATATTAATTTATAATCT
Found at i:14673626 original size:3 final size:3
Alignment explanation
Indices: 14673612--14673675 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
14673602 TATTTATATA
* ** *
14673612 AAT AAT AA- AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
14673655 AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
14673676 TTGCAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
2 6 0.12
3 40 0.82
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:14673629 original size:14 final size:14
Alignment explanation
Indices: 14673612--14673675 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
14673602 TATTTATATA
14673612 AATAATAAAATAAT
1 AATAATAAAATAAT
*
14673626 AATAATGAAATAAT
1 AATAATAAAATAAT
* *
14673640 AATTAA-AGCAATAAA
1 AA-TAATA-AAATAAT
14673655 AATAATAATAATAA-
1 AATAATAA-AATAAT
14673669 AATAATA
1 AATAATA
14673676 TTGCAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 25 0.61
15 16 0.39
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:14675008 original size:2 final size:2
Alignment explanation
Indices: 14675001--14675027 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14674991 TGGGCTTGTA
14675001 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14675028 ATAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14675308 original size:76 final size:76
Alignment explanation
Indices: 14675172--14675734 Score: 984
Period size: 76 Copynumber: 7.4 Consensus size: 76
14675162 ATGAAATATT
* * * *
14675172 GAAATCATCTTGCACTGAAGGGCTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
1 GAAA-CATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCC
14675237 GAAGGCTTTTTG
65 GAAGGCTTTTTG
*
14675249 GAAACATCATGCACTGCAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
14675314 AAGGCTTTTTG
66 AAGGCTTTTTG
14675325 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
14675390 AAGGCTTTTTG
66 AAGGCTTTTTG
*
14675401 GAAACATCATGCACTGCAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
14675466 AATGCTTTTTG
66 AAGGCTTTTTG
*
14675477 GAAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
14675542 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
14675553 GAAACATCATGCACTACAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
14675618 AATGCTTTTTG
66 AAGGCTTTTTG
*
14675629 GAAACATCATGCACTGCAAGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
14675693 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
14675704 GAAACATCATGCACTGTAAGACTTACAGATG
1 GAAACATCATGCACTGCAGGACTTACAGATG
14675735 TGGGAAATAG
Statistics
Matches: 468, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
75 59 0.13
76 405 0.87
77 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (76 bp):
GAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:14676060 original size:168 final size:167
Alignment explanation
Indices: 14675737--14676064 Score: 559
Period size: 167 Copynumber: 2.0 Consensus size: 167
14675727 TACAGATGTG
* *
14675737 GGAAATAGTTTATTAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTT
1 GGAAATAATTTATTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTT
** *
14675802 TTAGAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTG
66 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTG
14675867 ATTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 ATTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
14675904 GGAAATAATTTATTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TT
1 GGAAATAATTTATTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTT
* * *
14675968 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTTATTTTGTTTTCTGAAATAACATGT
66 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTAT-TTTTC-AAAATAACATGT
14676033 TGATTGGGTAACATGCCCCAATCTCAAGATAA
129 TGATTGGGTAACATGCCCCAATCTCAAGATAA
14676065 TGCTAATTTT
Statistics
Matches: 151, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
166 43 0.28
167 65 0.43
168 43 0.28
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (167 bp):
GGAAATAATTTATTAAGTAAAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTT
TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTG
ATTGGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
Found at i:14676607 original size:22 final size:22
Alignment explanation
Indices: 14676582--14676636 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
14676572 CATAAAGCTT
14676582 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
14676604 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
14676626 TCATCTTTGAA
1 TCATCTTTGAA
14676637 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:14677145 original size:54 final size:53
Alignment explanation
Indices: 14676994--14677148 Score: 174
Period size: 50 Copynumber: 3.0 Consensus size: 53
14676984 CAGAATAACT
* * *
14676994 AGTTCGTAAAACATTTGACAACATATGCATCA-TCTCATGTGGTTTCTGCTCAG
1 AGTTCGTAAAACATTTGACAACACATTCATCATTTTC-TGTGGTTTCTGCTCAG
* * * *
14677047 A--T-ATAAAACACTTGACAACACATTCATCCTTTTATGTGGTTTCTGCTCAG
1 AGTTCGTAAAACATTTGACAACACATTCATCATTTTCTGTGGTTTCTGCTCAG
* * *
14677097 ATGTTCGTAAAGCATTTGACAACACATTCATCATTTTCTGTTGCTTCTGCTC
1 A-GTTCGTAAAACATTTGACAACACATTCATCATTTTCTGTGGTTTCTGCTC
14677149 GAATTGCTGG
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
50 39 0.47
51 3 0.04
53 2 0.02
54 39 0.47
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (53 bp):
AGTTCGTAAAACATTTGACAACACATTCATCATTTTCTGTGGTTTCTGCTCAG
Found at i:14679394 original size:106 final size:106
Alignment explanation
Indices: 14679209--14679421 Score: 356
Period size: 106 Copynumber: 2.0 Consensus size: 106
14679199 GATCATGCAG
* * * *
14679209 TTCATCTTTCAATTCCAATGATTGGTTCTGGGTTTCCTACCGAACCATATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGTTTCATACCAAACCAGATCAGATAACTCAAAGA
14679274 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
* *
14679315 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTT-ATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCT-GGGTTTCATACCAAACCAGATCAGATAACTCAAAG
14679379 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
14679421 T
1 T
14679422 GAGAACGTGG
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
106 94 0.94
107 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (106 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGTTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
Found at i:14686826 original size:2 final size:2
Alignment explanation
Indices: 14686819--14686856 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14686809 TATTATTTAT
*
14686819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14686857 AATAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14686872 original size:3 final size:3
Alignment explanation
Indices: 14686857--14686921 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
14686847 TATTTATATA
* * ** *
14686857 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
14686901 AAT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
14686922 TTGCAAATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:14688235 original size:2 final size:2
Alignment explanation
Indices: 14688228--14688284 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
14688218 TGGGCTTGTA
14688228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14688270 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
14688285 ATTTTAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14689236 original size:51 final size:50
Alignment explanation
Indices: 14689169--14689415 Score: 259
Period size: 51 Copynumber: 4.8 Consensus size: 50
14689159 GACATGTACA
*
14689169 TACTTACATCGGTGTAAGTATGTGTTAAGTGCTACACTCTTTTATTTTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACT-TTTTATTTTATT
*
14689220 TACTTACACCGTTGTAAGTATGTGTTAAGTGCTACA-TTTTT-TTTTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATT
* * * * * *
14689268 CACTTATATCGGTGT-AGTATGCGTTAAGTGCTACATTTGTTTTGTTTTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGTGCTACA-CT-TTTTATTTTATT
* *
14689319 TAC-TACGCCGGTGTAAGTATGTGTTAAGTGTTACACTTGTTTATTTTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTT-TTTATTTTATT
* * * *
14689369 CACTAACACTGATGTAATGTAAGTATGTGTTAAGTGCTACATTTTTT
1 TACTTACACCG--G---TGTAAGTATGTGTTAAGTGCTACACTTTTT
14689416 TGTAATAGGT
Statistics
Matches: 163, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
47 19 0.12
48 18 0.11
49 6 0.04
50 26 0.16
51 65 0.40
53 1 0.01
55 3 0.02
56 25 0.15
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (50 bp):
TACTTACACCGGTGTAAGTATGTGTTAAGTGCTACACTTTTTATTTTATT
Found at i:14689297 original size:98 final size:102
Alignment explanation
Indices: 14689170--14689372 Score: 290
Period size: 98 Copynumber: 2.0 Consensus size: 102
14689160 ACATGTACAT
* *
14689170 ACTTACATCGGTGTAAGTATGTGTTAAGTGCTACA-CTCTTTTATTTTATTTACTTACACCGTTG
1 ACTTACATCGGTGTAAGTATGCGTTAAGTGCTACATCTCTTTTATTTTATTTAC-TACACCGGTG
14689234 TAAGTATGTGTTAAGTGCTACA-TT-TTT-TTTTATTC
65 TAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
* * * * *
14689269 ACTTATATCGGTGT-AGTATGCGTTAAGTGCTACATTTGTTTTGTTTTATTTACTACGCCGGTGT
1 ACTTACATCGGTGTAAGTATGCGTTAAGTGCTACATCTCTTTTATTTTATTTACTACACCGGTGT
*
14689333 AAGTATGTGTTAAGTGTTACACTTGTTTATTTTATTC
66 AAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
14689370 ACT
1 ACT
14689373 AACACTGATG
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
98 48 0.52
99 30 0.33
100 3 0.03
101 11 0.12
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.47
Consensus pattern (102 bp):
ACTTACATCGGTGTAAGTATGCGTTAAGTGCTACATCTCTTTTATTTTATTTACTACACCGGTGT
AAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTC
Found at i:14689797 original size:14 final size:16
Alignment explanation
Indices: 14689773--14689814 Score: 61
Period size: 14 Copynumber: 2.8 Consensus size: 16
14689763 CCGTTAATAA
*
14689773 ATTAAATTTTTAA-TT
1 ATTATATTTTTAATTT
14689788 ATT-TATTTTTAATTT
1 ATTATATTTTTAATTT
14689803 ATTATATTTTTA
1 ATTATATTTTTA
14689815 CATAAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTATATTTTTAATTT
Found at i:14689878 original size:20 final size:19
Alignment explanation
Indices: 14689825--14689878 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
14689815 CATAAATAAC
14689825 TTAATATAAGTTTTTAT-TAT
1 TTAATA-AA-TTTTTATATAT
*
14689845 TT-AT-AATTTATATATAT
1 TTAATAAATTTTTATATAT
14689862 TTAATAAATTTTT-TATA
1 TTAATAAATTTTTATATA
14689879 CAAATAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 6 0.21
17 7 0.24
18 6 0.21
19 8 0.28
20 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTAATAAATTTTTATATAT
Found at i:14689917 original size:62 final size:65
Alignment explanation
Indices: 14689777--14689917 Score: 143
Period size: 62 Copynumber: 2.2 Consensus size: 65
14689767 TAATAAATTA
* * * * * *
14689777 AATTTTTAATTATTTATTTTTAATTTATTATATTTTTACATAAATAACTTAATATAAGTTTTTAT
1 AATTTTTAATT-TTTATATATAATTTAATAAATTTTTACACAAATAAATTAATATAAGTTTTTAT
14689842 T
65 T
* *
14689843 -ATTTATAA--TTTATATAT-ATTTAATAAATTTTTTATACAAATAAATTAATAT-A-TTTTT-T
1 AATTTTTAATTTTTATATATAATTTAATAAA-TTTTTACACAAATAAATTAATATAAGTTTTTAT
14689901 T
65 T
14689902 AATTTTTAATTTTTAT
1 AATTTTTAATTTTTAT
14689918 TTCTTTGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
59 2 0.03
60 12 0.19
61 9 0.15
62 32 0.52
65 7 0.11
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (65 bp):
AATTTTTAATTTTTATATATAATTTAATAAATTTTTACACAAATAAATTAATATAAGTTTTTATT
Found at i:14690088 original size:2 final size:2
Alignment explanation
Indices: 14690081--14690139 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
14690071 GATTTTTGAA
14690081 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14690121 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
14690140 GTTTTGAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14690243 original size:37 final size:36
Alignment explanation
Indices: 14690157--14690557 Score: 376
Period size: 37 Copynumber: 11.1 Consensus size: 36
14690147 AAACGATTTT
* * **
14690157 TTTTGAAAATGTATATATTATATAG--TTTGAAATTA
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAACA
*
14690192 TTTTGAAAAATTATATAATATATGGTTTTTAAAAACA
1 TTTTG-AAAATTATATAATATATAGTTTTTAAAAACA
*
14690229 TTTTGAAAACTTATATAATATATCGTTTTTAAAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTT-AAAAACA
14690267 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
* * *
14690303 TTTTTAAAA-TATATAATGTATGGTTTTTAAAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
* *
14690338 TTTTAAAAATATATATATTATATAGTTTTT-AAAACA
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAACA
*
14690374 TTTTGAATA-TATAT-ATATATAGTTTTT-AAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
* * *
14690407 TTTTGAAAATATATATATTATATAATTTTTTTAAAACA
1 TTTTGAAAAT-TATATAATATAT-AGTTTTTAAAAACA
* * *
14690445 TTTTGAAAATTATATAATATATGATTTTTTTTTGAAAATA
1 TTTTGAAAATTATATAATATAT-A---GTTTTTAAAAACA
* * *
14690485 TTTT--AAA-TATATAATATAT-GGTTTCAAAATA-T
1 TTTTGAAAATTATATAATATATAGTTTTTAAAA-ACA
* * * *
14690517 TTTTGAAAATATATATATTATGTAGTTTTTGAAAATA
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAACA
14690554 TTTT
1 TTTT
14690558 TATATATATA
Statistics
Matches: 309, Mismatches: 35, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
32 10 0.03
33 27 0.09
34 8 0.03
35 54 0.17
36 53 0.17
37 107 0.35
38 35 0.11
40 15 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAAACA
Found at i:14690573 original size:110 final size:110
Alignment explanation
Indices: 14690168--14690557 Score: 330
Period size: 109 Copynumber: 3.6 Consensus size: 110
14690158 TTTGAAAATG
* ** * * *
14690168 TATATAT-TATATA-GTTTGAAATTATTTTGAAAA-AT-TATATAATATATGGTTTTTAAAAACA
1 TATATATATATATAGGTTTCAAAACATTTTGAAAATATATATATTATATA-AGTTTTTGAAAACA
**
14690229 TTTTGAAAACTTATATAATATATCG---TTTTTAAAAAACATTTTGAAA
65 TTTTGAAAA-TTATATAATATAT-GATTTTTTTTTAAAACATTTT-AAA
* * * * * *
14690275 -ATTATATAATATATAGTTTTTAAAAACATTTTTAAAATATATA-A-TGTAT-GGTTTTTAAAAA
1 TA-TATAT-ATATATAG-GTTTCAAAACATTTTGAAAATATATATATTATATAAGTTTTTGAAAA
* ** *
14690336 CATTTT-AAAA--ATAT-ATATATTATATAGTTTTTAAAACATTTTGAA
63 CATTTTGAAAATTATATAATATATGAT-TTTTTTTTAAAACATTTTAAA
* * * *
14690381 TATATATATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAATTTTTTTAAAACAT
1 TATATATATATATAGGTTTCAAAACATTTTGAAAATATATATATTATATAAGTTTTTGAAAACAT
*
14690446 TTTGAAAATTATATAATATATGATTTTTTTTTGAAAATATTTTAAA
66 TTTGAAAATTATATAATATATGATTTTTTTTT-AAAACATTTTAAA
* * *
14690492 TATATA-ATATAT-GGTTTCAAAATATTTTTGAAAATATATATATTATGT-AGTTTTTGAAAATA
1 TATATATATATATAGGTTTCAAAACA-TTTTGAAAATATATATATTATATAAGTTTTTGAAAACA
14690554 TTTT
65 TTTT
14690558 TATATATATA
Statistics
Matches: 231, Mismatches: 31, Indels: 40
0.76 0.10 0.13
Matches are distributed among these distances:
104 30 0.13
105 13 0.06
106 12 0.05
107 34 0.15
108 8 0.03
109 48 0.21
110 38 0.16
111 43 0.19
112 3 0.01
113 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (110 bp):
TATATATATATATAGGTTTCAAAACATTTTGAAAATATATATATTATATAAGTTTTTGAAAACAT
TTTGAAAATTATATAATATATGATTTTTTTTTAAAACATTTTAAA
Found at i:14690589 original size:9 final size:8
Alignment explanation
Indices: 14690575--14690642 Score: 52
Period size: 9 Copynumber: 8.2 Consensus size: 8
14690565 ATAATAATAG
14690575 TATTATTAT
1 TATTATT-T
14690584 TATTATTT
1 TATTATTT
14690592 TATTCATTT
1 TATT-ATTT
14690601 TATTTATTTT
1 TA-TTA-TTT
*
14690611 TATT-TAT
1 TATTATTT
14690618 TA-TATGTT
1 TATTAT-TT
*
14690626 TTTTATTT
1 TATTATTT
14690634 TATT-TTT
1 TATTATTT
14690641 TA
1 TA
14690643 ATTCCTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 10 0.20
8 12 0.24
9 19 0.39
10 7 0.14
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (8 bp):
TATTATTT
Found at i:14690613 original size:19 final size:18
Alignment explanation
Indices: 14690589--14690632 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
14690579 ATTATTATTA
* *
14690589 TTTTATTCATTTTATTTAT
1 TTTTATTCATTATATGT-T
*
14690608 TTTTATTTATTATATGTT
1 TTTTATTCATTATATGTT
14690626 TTTTATT
1 TTTTATT
14690633 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTCATTATATGTT
Found at i:14690613 original size:24 final size:25
Alignment explanation
Indices: 14690580--14690639 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
14690570 AATAGTATTA
*
14690580 TTATTATTATTTTATTCAT-T-TTAT
1 TTATTTTTATTTTATT-ATATGTTAT
*
14690604 TTATTTTTA-TTTATTATATGTTTT
1 TTATTTTTATTTTATTATATGTTAT
14690628 TTA-TTTTATTTT
1 TTATTTTTATTTT
14690640 TTAATTCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 12 0.39
24 17 0.55
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (25 bp):
TTATTTTTATTTTATTATATGTTAT
Found at i:14690641 original size:14 final size:14
Alignment explanation
Indices: 14690586--14690641 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
14690576 ATTATTATTA
**
14690586 TTATTTTATTCATT
1 TTATTTTATTTTTT
14690600 TTA-TTTATTTTTAT
1 TTATTTTATTTTT-T
* *
14690614 TTATTATATGTTTT
1 TTATTTTATTTTTT
14690628 TTATTTTATTTTTT
1 TTATTTTATTTTTT
14690642 AATTCCTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 7 0.21
14 20 0.59
15 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTT
Found at i:14690974 original size:21 final size:21
Alignment explanation
Indices: 14690924--14690974 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
14690914 ACGGGAATGA
*
14690924 CCCCGTTGCTATCGAAAACAG
1 CCCCGTTGGTATCGAAAACAG
14690945 CCCCGTTGGTATCGAAAACAG
1 CCCCGTTGGTATCGAAAACAG
14690966 CCCCGTTGG
1 CCCCGTTGG
14690975 GGGCTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (21 bp):
CCCCGTTGGTATCGAAAACAG
Found at i:14691922 original size:13 final size:13
Alignment explanation
Indices: 14691891--14691915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14691881 GATCCTCTAA
14691891 TATTTTTTTATTT
1 TATTTTTTTATTT
14691904 TATTTTTTTATT
1 TATTTTTTTATT
14691916 ATTTTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:14697334 original size:32 final size:32
Alignment explanation
Indices: 14697288--14697360 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
14697278 AATTCAAAGC
*
14697288 TCAATTTCACAACGAATGAGCCATCCACGATT
1 TCAACTTCACAACGAATGAGCCATCCACGATT
14697320 TCAACTTCACAACGAATGAGCCATCCACGATT
1 TCAACTTCACAACGAATGAGCCATCCACGATT
14697352 TCAACTTCA
1 TCAACTTCA
14697361 TGATGAAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (32 bp):
TCAACTTCACAACGAATGAGCCATCCACGATT
Found at i:14697677 original size:85 final size:85
Alignment explanation
Indices: 14697453--14697793 Score: 461
Period size: 85 Copynumber: 4.0 Consensus size: 85
14697443 CCAAGGACAT
* * * *
14697453 CATAACTCAAAGGCAAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTATATTCAGCTC
1 CATAACTC-AAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTC
14697518 AAAGGCATATCAAATTTACAG
65 AAAGGCATATCAAATTTACAG
* * * * * *
14697539 CATAGCTCAAGG-GAGAAGGGCTATCTGTCAACAAAGACCTTTGAGTTCAATTACACTAACCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
14697603 AAGGCATATCAAATTTACAG
66 AAGGCATATCAAATTTACAG
* *
14697623 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
* *
14697688 AAAGCATATCAAATCTACAG
66 AAGGCATATCAAATTTACAG
* * * * * *
14697708 CATAGCTCAAGGCGAGAAGGGCTATATGTCAATAAATACCTTCGAGTTTGATTCCATTCAGCT-A
1 CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
*
14697772 AAGGGCATGTCAAATTTACAG
66 AA-GGCATATCAAATTTACAG
14697793 C
1 C
14697794 TTGGCTTAAG
Statistics
Matches: 222, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
84 77 0.35
85 138 0.62
86 7 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
CATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
AAGGCATATCAAATTTACAG
Found at i:14698557 original size:41 final size:43
Alignment explanation
Indices: 14698503--14698608 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 43
14698493 CTCATTTTCA
* ** * *
14698503 TTTGAATTATATATATATATATAT-TTTTTTTGCAAATGA-TT
1 TTTGAAATATATATATATATATATATAGTTTTGAAAACGATTT
14698544 TTTGAAATATATATATA-ATATATATAGTTTTGAAAACGATTT
1 TTTGAAATATATATATATATATATATAGTTTTGAAAACGATTT
*
14698586 TTTGAAA-ATGTATATAT-TATATA
1 TTTGAAATATATATATATATATATA
14698609 GTTTGAAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 6 0.11
41 41 0.73
42 9 0.16
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (43 bp):
TTTGAAATATATATATATATATATATAGTTTTGAAAACGATTT
Found at i:14698600 original size:43 final size:42
Alignment explanation
Indices: 14698503--14698642 Score: 122
Period size: 41 Copynumber: 3.5 Consensus size: 42
14698493 CTCATTTTCA
* ** * *
14698503 TTTGAATTATATATAT-ATATATATTTTTTTTGCAAATGATT
1 TTTGAAATATATATATAATATATATTAGTTTTGAAAACGATT
14698544 TTTGAAATATATATATAATATATA-TAGTTTTGAAAACGATTT
1 TTTGAAATATATATATAATATATATTAGTTTTGAAAACGA-TT
* *
14698586 TTTGAAA-ATGTATAT-AT-TATA-TAG-TTTGAAATC-A-T
1 TTTGAAATATATATATAATATATATTAGTTTTGAAAACGATT
14698621 TTTGAAA-ACT-TATATAATATAT
1 TTTGAAATA-TATATATAATATAT
14698643 GGTTTTAAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
35 14 0.16
36 3 0.03
37 4 0.05
38 8 0.09
39 7 0.08
40 2 0.02
41 33 0.38
42 16 0.18
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (42 bp):
TTTGAAATATATATATAATATATATTAGTTTTGAAAACGATT
Found at i:14698635 original size:35 final size:36
Alignment explanation
Indices: 14698543--14698754 Score: 146
Period size: 35 Copynumber: 5.6 Consensus size: 36
14698533 TGCAAATGAT
* **
14698543 TTTTGAAATATATATATAATATATATAGTTTTGAAAACGA
1 TTTTGAAA-AT-TATATAATATATA-CGTTTAAAAAAC-A
* * *
14698583 TTTTTTGAAAATGTATATATTATATA-GTTT-GAAATCA
1 --TTTTGAAAAT-TATATAATATATACGTTTAAAAAACA
*
14698620 TTTTGAAAACTTATATAATATAT-GGTTTTAAAAAAAACA
1 TTTTGAAAA-TTATATAATATATACG-TTT--AAAAAACA
* * *
14698659 TTTTGAAAATTATATAATATATACCTTTTAAAAATA
1 TTTTGAAAATTATATAATATATACGTTTAAAAAACA
* *
14698695 TTTTGAAAA-TATATAATATATGA-TTTTTAAAAACA
1 TTTTGAAAATTATATAATATAT-ACGTTTAAAAAACA
*
14698730 TTTTGAAAACATATATATATATATA
1 TTTTGAAAA-TTATATA-ATATATA
14698755 TATATATATA
Statistics
Matches: 147, Mismatches: 12, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
35 52 0.35
36 20 0.14
37 8 0.05
38 27 0.18
39 18 0.12
41 14 0.10
42 8 0.05
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
TTTTGAAAATTATATAATATATACGTTTAAAAAACA
Found at i:14698712 original size:73 final size:70
Alignment explanation
Indices: 14698585--14698754 Score: 191
Period size: 73 Copynumber: 2.3 Consensus size: 70
14698575 GAAAACGATT
* * *
14698585 TTTTGAAAATGTATATATTATATAGTTTGAAATCATTTTGAAAACTTATATAATATATGGTTTTA
1 TTTTGAAAAT-TATATAATATATAGTTTAAAATCATTTTGAAAAC-TATATAATATATGATTTT-
14698650 AAAAAAACA
63 -AAAAAACA
*
14698659 TTTTGAAAATTATATAATATATACCTTTTAAAAAT-ATTTTGAAAA-TATATAATATATGATTTT
1 TTTTGAAAATTATATAATATATA--GTTT-AAAATCATTTTGAAAACTATATAATATATGATTTT
*
14698722 TAAAAACA
63 AAAAAACA
*
14698730 TTTTGAAAACATATATATATATATA
1 TTTTGAAAA-TTATATA-ATATATA
14698755 TATATATATA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
71 16 0.19
72 6 0.07
73 36 0.42
74 10 0.12
75 13 0.15
76 4 0.05
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (70 bp):
TTTTGAAAATTATATAATATATAGTTTAAAATCATTTTGAAAACTATATAATATATGATTTTAAA
AAACA
Found at i:14698747 original size:2 final size:2
Alignment explanation
Indices: 14698740--14698809 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
14698730 TTTTGAAAAC
14698740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14698782 AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14698810 ATTTTTAAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 66 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14698970 original size:38 final size:39
Alignment explanation
Indices: 14698794--14698976 Score: 179
Period size: 38 Copynumber: 4.8 Consensus size: 39
14698784 ATATATATAT
* *
14698794 ATATATATATTATATAATTTTTAAAAC-GTTTTGAAAAC
1 ATATATATATTATATAGTTTTTAAAACATTTTTGAAAAC
*
14698832 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAAAAC
1 ATATATATATTATATAGTTTTTAAAACATTTTTG-AAAAC
* *
14698871 TATATATATATTATATAATTTTTGAAAACATTTTT--TAA-
1 -ATATATATATTATATAGTTTTT-AAAACATTTTTGAAAAC
* *
14698909 ATATATA-A-TATATAG-TTTCAAAATATTTTTG-AAA-
1 ATATATATATTATATAGTTTTTAAAACATTTTTGAAAAC
* *
14698943 ATATATATATTATGTAGTTTTTGAAAATATTTTT
1 ATATATATATTATATAGTTTTT-AAAACATTTTT
14698977 ATATATAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
33 10 0.08
34 12 0.10
35 7 0.06
36 7 0.06
37 10 0.08
38 41 0.33
39 7 0.06
40 20 0.16
41 6 0.05
42 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (39 bp):
ATATATATATTATATAGTTTTTAAAACATTTTTGAAAAC
Found at i:14698988 original size:71 final size:73
Alignment explanation
Indices: 14698832--14698989 Score: 191
Period size: 71 Copynumber: 2.2 Consensus size: 73
14698822 TTTTGAAAAC
*
14698832 ATATAT-ATAATATATAGTTTTTAAAACATTTTGAAAAACTATATATATATTATATAATTTTTGA
1 ATATATAATAATATATAGTTTTCAAAACATTTTG-AAAAC-ATATATATATTATATAATTTTTGA
14698896 AAACATTTTT
64 AAACATTTTT
* * * *
14698906 -TAAATATATAATATATAG-TTTCAAAATATTTTTG-AAA-ATATATATATTATGTAGTTTTTGA
1 ATATATA-ATAATATATAGTTTTCAAAACA-TTTTGAAAACATATATATATTATATAATTTTTGA
*
14698967 AAATATTTTT
64 AAACATTTTT
14698977 ATATATAATAATA
1 ATATATAATAATA
14698990 ATAATAATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
71 37 0.51
72 5 0.07
73 7 0.10
74 8 0.11
75 16 0.22
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (73 bp):
ATATATAATAATATATAGTTTTCAAAACATTTTGAAAACATATATATATTATATAATTTTTGAAA
ACATTTTT
Found at i:14699003 original size:3 final size:3
Alignment explanation
Indices: 14698997--14699059 Score: 51
Period size: 3 Copynumber: 20.3 Consensus size: 3
14698987 ATAATAATAA
14698997 TAT TAT TAT TAT TAT TAT T-T TAT TCAT T-T TAT TCAT T-T TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT TA-T TAT
*
14699042 TTT TATT TAT TAT ATAT T
1 TAT TA-T TAT TAT -TAT T
14699060 TTTTATTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
2 6 0.12
3 29 0.58
4 15 0.30
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:14699009 original size:9 final size:8
Alignment explanation
Indices: 14698999--14699068 Score: 63
Period size: 9 Copynumber: 8.2 Consensus size: 8
14698989 AATAATAATA
14698999 TTATTATT
1 TTATTATT
14699007 ATTATTATT
1 -TTATTATT
14699016 TTATTCATT
1 TTATT-ATT
14699025 TTATTCATT
1 TTATT-ATT
14699034 TTATTTATTT
1 TTA-TTA-TT
*
14699044 TTATT-TA
1 TTATTATT
14699051 TTATATATT
1 TTAT-TATT
14699060 TT-TTATT
1 TTATTATT
14699067 TT
1 TT
14699069 CTTTTTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
7 11 0.20
8 7 0.13
9 29 0.54
10 7 0.13
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:14699036 original size:18 final size:16
Alignment explanation
Indices: 14698999--14699068 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 16
14698989 AATAATAATA
14698999 TTATTATTATTATTATT
1 TTATTATT-TTATTATT
14699016 TTATTCATTTTATTCATT
1 TTATT-ATTTTATT-ATT
*
14699034 TTATTTATTTTTATT-TA
1 TTA-TTA-TTTTATTATT
14699051 TTATATATTTT-TTATT
1 TTAT-TATTTTATTATT
14699067 TT
1 TT
14699069 CTTTTTTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
15 2 0.04
16 8 0.18
17 16 0.36
18 10 0.22
19 9 0.20
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTATTTTATTATT
Found at i:14699487 original size:18 final size:19
Alignment explanation
Indices: 14699466--14699510 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
14699456 TCGAAGGCAA
14699466 CAACACATCACAAAA-AAC
1 CAACACATCACAAAATAAC
*
14699484 CAACA-ACCACAAAATAAC
1 CAACACATCACAAAATAAC
14699502 CAA-ACATCA
1 CAACACATCA
14699511 GCCAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (19 bp):
CAACACATCACAAAATAAC
Found at i:14700318 original size:8 final size:8
Alignment explanation
Indices: 14700305--14700345 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
14700295 GATCCCCTAA
14700305 TATTTTTT
1 TATTTTTT
*
14700313 TATTTTGT
1 TATTTTTT
14700321 TATTTTATT
1 TATTTT-TT
*
14700330 TATTTTAT
1 TATTTTTT
14700338 TATTTTTT
1 TATTTTTT
14700346 CTTTCGGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (8 bp):
TATTTTTT
Found at i:14700333 original size:17 final size:16
Alignment explanation
Indices: 14700305--14700345 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
14700295 GATCCCCTAA
*
14700305 TATTTTTTTATTTTGT
1 TATTTTTTTATTTTAT
14700321 TATTTTATTTATTTTAT
1 TATTTT-TTTATTTTAT
14700338 TATTTTTT
1 TATTTTTT
14700346 CTTTCGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (16 bp):
TATTTTTTTATTTTAT
Found at i:14701080 original size:53 final size:53
Alignment explanation
Indices: 14700920--14701147 Score: 230
Period size: 51 Copynumber: 4.5 Consensus size: 53
14700910 CGATCGCGAC
*** * *
14700920 AGTATGTGTTAAGTG-T-TACACTTTTTTATTTTATTTACTTACACCATTGTA
1 AGTATGTGTTAAGTGCTATATTGTTTTTTATTTTATTCACTTACACCAGTGTA
* * *
14700971 AGTA--CG-TAAGTACT-TCA-T-TTTTTTATTTTATTCAGTTACACCAGTGT-
1 AGTATGTGTTAAGTGCTAT-ATTGTTTTTTATTTTATTCACTTACACCAGTGTA
* **
14701018 AGTATGTGTTAAGTGCTATATTGTTTTTTGTTTTATTCACTTACACTGGTGTA
1 AGTATGTGTTAAGTGCTATATTGTTTTTTATTTTATTCACTTACACCAGTGTA
* *
14701071 AGTATGTGTTAAGTGTTATACTTG---TTTATTTTATTCACTTACACCAATGTA
1 AGTATGTGTTAAGTGCTATA-TTGTTTTTTATTTTATTCACTTACACCAGTGTA
14701122 AGTATGTGTTAAGTGCTATATT-TTTT
1 AGTATGTGTTAAGTGCTATATTGTTTT
14701148 GTAGTATGAA
Statistics
Matches: 146, Mismatches: 18, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
47 4 0.03
48 31 0.21
49 4 0.03
50 11 0.08
51 48 0.33
52 26 0.18
53 19 0.13
54 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.50
Consensus pattern (53 bp):
AGTATGTGTTAAGTGCTATATTGTTTTTTATTTTATTCACTTACACCAGTGTA
Found at i:14706664 original size:18 final size:18
Alignment explanation
Indices: 14706638--14706680 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
14706628 CAAGGAGGAG
14706638 GATTCTGCTAAGATACCA
1 GATTCTGCTAAGATACCA
*
14706656 GATTTTGCTAAGATACCA
1 GATTCTGCTAAGATACCA
14706674 GATTCTG
1 GATTCTG
14706681 ATGCCAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (18 bp):
GATTCTGCTAAGATACCA
Found at i:14710935 original size:26 final size:25
Alignment explanation
Indices: 14710904--14710974 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 25
14710894 CCTCTTAAAT
14710904 TTTTAACTTTTTCTTTTCTCTTTC-
1 TTTTAACTTTTTCTTTTCTCTTTCA
*
14710928 -TTT-A-TTAATT-TTTTCTCTTTCA
1 TTTTAACTT-TTTCTTTTCTCTTTCA
*
14710950 TTTTAACTTTTACTTTTTCTCTTTC
1 TTTTAACTTTTTC-TTTTCTCTTTC
14710975 CTTCATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 13 0.35
22 3 0.08
23 6 0.16
24 2 0.05
25 2 0.05
26 11 0.30
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:14714283 original size:24 final size:24
Alignment explanation
Indices: 14714254--14714303 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14714244 TGGTGGTTGA
*
14714254 TTTAATGGT-TGATTGAATTTTATT
1 TTTAATGGTAT-ATTGAAGTTTATT
*
14714278 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTGAAGTTTATT
14714302 TT
1 TT
14714304 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTGAAGTTTATT
Found at i:14718765 original size:16 final size:17
Alignment explanation
Indices: 14718736--14718768 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
14718726 TCATATCTCC
14718736 AACAAAATTTTACTATT
1 AACAAAATTTTACTATT
14718753 AACAAAA-TTTACTATT
1 AACAAAATTTTACTATT
14718769 CATGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AACAAAATTTTACTATT
Found at i:14720245 original size:26 final size:27
Alignment explanation
Indices: 14720216--14720286 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
14720206 AAATAAAAAT
14720216 AAAATATTTTTAAATTAAGTTAATA-A
1 AAAATATTTTTAAATTAAGTTAATATA
*
14720242 AAAATATATTT-AA-TAAGTTAATATA
1 AAAATATTTTTAAATTAAGTTAATATA
*
14720267 AAAACAATTTTTAAAGTTAA
1 AAAA-TATTTTTAAA-TTAA
14720287 TATATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.27
25 7 0.19
26 15 0.41
27 2 0.05
29 3 0.08
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (27 bp):
AAAATATTTTTAAATTAAGTTAATATA
Found at i:14720258 original size:24 final size:27
Alignment explanation
Indices: 14720216--14720270 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 27
14720206 AAATAAAAAT
*
14720216 AAAATATTTTTAAATTAAGTTAATA-A
1 AAAATATATTTAAATTAAGTTAATATA
14720242 AAAATATATTT-AA-TAAGTTAATATA
1 AAAATATATTTAAATTAAGTTAATATA
14720267 AAAA
1 AAAA
14720271 CAATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 10 0.37
25 7 0.26
26 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAATATATTTAAATTAAGTTAATATA
Found at i:14720276 original size:24 final size:24
Alignment explanation
Indices: 14720231--14720290 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
14720221 ATTTTTAAAT
*
14720231 TAAGTTAATA-AAAAATATATTTAA
1 TAAGTTAATATAAAAACATATTT-A
*
14720255 TAAGTTAATATAAAAACA-ATTTT
1 TAAGTTAATATAAAAACATATTTA
14720278 TAAAGTTAATATA
1 T-AAGTTAATATA
14720291 TTAAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.03
24 25 0.78
25 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (24 bp):
TAAGTTAATATAAAAACATATTTA
Found at i:14720494 original size:44 final size:43
Alignment explanation
Indices: 14720414--14720507 Score: 143
Period size: 44 Copynumber: 2.2 Consensus size: 43
14720404 TTGATTAAAC
* *
14720414 TTTTATTTAATTATAATTTTTTATATATTTTGTTTCTTAATGT
1 TTTTATTTAATTATAACTTTTTATATATTGTGTTTCTTAATGT
* *
14720457 TTTTATTTAATTATGTACTTTTTATTTATTGTGTTTCTTAATGT
1 TTTTATTTAATTAT-AACTTTTTATATATTGTGTTTCTTAATGT
14720501 TTTTATT
1 TTTTATT
14720508 ATTTAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 14 0.30
44 32 0.70
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.68
Consensus pattern (43 bp):
TTTTATTTAATTATAACTTTTTATATATTGTGTTTCTTAATGT
Found at i:14720553 original size:13 final size:13
Alignment explanation
Indices: 14720532--14720575 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
14720522 ATTGTAACAT
14720532 TTTTATTTAA-TG
1 TTTTATTTAATTG
14720544 TTTCTATTTAATTG
1 TTT-TATTTAATTG
14720558 TTTTATTT-ATT-
1 TTTTATTTAATTG
14720569 TTTTATT
1 TTTTATT
14720576 ATTTAGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 12 0.40
14 5 0.17
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (13 bp):
TTTTATTTAATTG
Found at i:14722838 original size:15 final size:15
Alignment explanation
Indices: 14722818--14722850 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14722808 GTCAAAGTAT
14722818 TAAATATAA-AATAAA
1 TAAATATAATAA-AAA
14722833 TAAATATAATAAAAA
1 TAAATATAATAAAAA
14722848 TAA
1 TAA
14722851 TTTTACCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATATAATAAAAA
Found at i:14723464 original size:60 final size:61
Alignment explanation
Indices: 14723392--14723530 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 61
14723382 TCTAATTTCC
* * * * *
14723392 TCCCTAAACTATAATTATAATTTTAAATTTGTCCTCAAAC-TTTTGAATATTTTGATTTAA
1 TCCCCAAACTATAATTATAATTCTAAATTAGTCCTCAAACTTTTTGAACATTTTAATTTAA
* * *
14723452 TCCCCAAACTATAACCT-TCATTCTAAATTAGTCCTCAAACTTTTTGAACATTTTAATTTCA
1 TCCCCAAACTATAA-TTATAATTCTAAATTAGTCCTCAAACTTTTTGAACATTTTAATTTAA
* *
14723513 T-CCCAAGCTATATTTATA
1 TCCCCAAACTATAATTATA
14723531 TACTAATTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
59 1 0.02
60 44 0.69
61 19 0.30
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.42
Consensus pattern (61 bp):
TCCCCAAACTATAATTATAATTCTAAATTAGTCCTCAAACTTTTTGAACATTTTAATTTAA
Found at i:14724140 original size:45 final size:46
Alignment explanation
Indices: 14724064--14724157 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 46
14724054 ATATAATATA
14724064 TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
1 TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
*
14724110 TTAAGATTTTATTTTTTTAAAA-TAAATTATTAATAATATTAATAT
1 TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
14724155 TTA
1 TTA
14724158 TGTATTGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 25 0.53
46 22 0.47
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (46 bp):
TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
Found at i:14724171 original size:46 final size:46
Alignment explanation
Indices: 14724064--14724177 Score: 160
Period size: 46 Copynumber: 2.5 Consensus size: 46
14724054 ATATAATATA
*
14724064 TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
1 TTAAGATTATATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
* *
14724110 TTAAGATTTTATTTTTTTAAAA-TAAATTATTAATAATATTAATAT
1 TTAAGATTATATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
*
14724155 TTATGTATTGAT-TTTTTTTAAAA
1 TTAAG-ATT-ATATTTTTTTAAAA
14724178 AATACAGTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
45 26 0.41
46 36 0.57
47 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (46 bp):
TTAAGATTATATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
Found at i:14724181 original size:48 final size:44
Alignment explanation
Indices: 14724064--14724178 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 44
14724054 ATATAATATA
*
14724064 TTAAGATTTTATTTTTTTAAAATTAAATTATTAATAATATTAAGAT
1 TTAAGA-TTT-TTTTTTTAAAAATAAATTATTAATAATATTAAGAT
* *
14724110 TTAAGATTTTATTTTTTTAAAATAAATTATTAATAATATTAATAT
1 TTAAGATTTT-TTTTTTAAAAATAAATTATTAATAATATTAAGAT
*
14724155 TTATGTATTGATTTTTTTTAAAAA
1 TTAAG-ATT--TTTTTTTTAAAAA
14724179 ATACAGTAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 1 0.02
45 38 0.63
46 9 0.15
47 10 0.17
48 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (44 bp):
TTAAGATTTTTTTTTTAAAAATAAATTATTAATAATATTAAGAT
Found at i:14724958 original size:60 final size:59
Alignment explanation
Indices: 14724836--14724968 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 59
14724826 TTAGGTGATC
* *
14724836 ATTTTGTAACTTTTAATAGTAGATGGACTCAACAAATAACGCCCTATAATTTGAGGGGCT
1 ATTTTGTAACTTTTAATAGTAGATAGACTCAACAAATAACACCCTATAA-TTGAGGGGCT
* * *
14724896 ATTTTGTAACTTTTAATAGTCGGTAGACTCAACAAAGTATCACCCTATAGA-T-AGGGGACT
1 ATTTTGTAACTTTTAATAGTAGATAGACTCAACAAA-TAACACCCTATA-ATTGAGGGG-CT
14724956 ATTTGTGT-ACTTT
1 ATTT-TGTAACTTT
14724969 ATCCTTTGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
59 5 0.08
60 45 0.70
61 13 0.20
62 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTAGATAGACTCAACAAATAACACCCTATAATTGAGGGGCT
Found at i:14725361 original size:21 final size:21
Alignment explanation
Indices: 14725313--14725362 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14725303 ATGACTATCA
14725313 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
14725334 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
14725355 CAATGCGA
1 CAATGCGA
14725363 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:14725377 original size:20 final size:21
Alignment explanation
Indices: 14725352--14725403 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14725342 TTTTCCCAAT
*
14725352 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
14725372 TCGCAATGCAAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
14725393 TCGCAATGCGA
1 TCGCAATGCGA
14725404 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:14725416 original size:41 final size:41
Alignment explanation
Indices: 14725389--14725486 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
14725379 GCAAATTTGG
*
14725389 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
14725430 AAAATCGCAACGCGATACTGACTTTCGCAACGAGATAATGC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
14725471 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
14725487 TTTCAAAGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:14725417 original size:20 final size:21
Alignment explanation
Indices: 14725392--14725486 Score: 81
Period size: 20 Copynumber: 4.6 Consensus size: 21
14725382 AATTTGGAAA
* *
14725392 ATCGCAATGCGATACTGAC-T
1 ATCGCAACGCGATAATGACAT
*
14725412 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATAATGAC-AT
*
14725433 ATCGCAACGCGATACTGAC-T
1 ATCGCAACGCGATAATGACAT
* *
14725453 TTCGCAACGAGATAATG-CAT
1 ATCGCAACGCGATAATGACAT
*
14725473 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
14725487 TTTCAAAGCG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.05
20 29 0.49
21 25 0.42
22 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATAATGACAT
Found at i:14725681 original size:22 final size:22
Alignment explanation
Indices: 14725653--14725696 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14725643 CACTCTCTCA
14725653 CCCATCTCCGACAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
* *
14725675 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
14725697 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:14726027 original size:20 final size:20
Alignment explanation
Indices: 14725973--14726031 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
14725963 GTGATTCTCT
**
14725973 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
14725993 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
14726013 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
14726032 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:14727376 original size:18 final size:18
Alignment explanation
Indices: 14727350--14727397 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
14727340 TCCACTTCGG
* *
14727350 GAGCCATCACCTCATCTA
1 GAGCCATCACCTCACCCA
*
14727368 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
14727386 GAGCCATCACCT
1 GAGCCATCACCT
14727398 GATCGACCCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.19
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:14727963 original size:20 final size:20
Alignment explanation
Indices: 14727938--14727983 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
14727928 TAGTTTACTT
14727938 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
14727958 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
*
14727978 TTGCAA
1 TCGCAA
14727984 TGTGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:14728002 original size:19 final size:19
Alignment explanation
Indices: 14727980--14728035 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
14727970 AATGGCTATT
*
14727980 GCAATGTGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
14727999 GCAA--CG-AA--AAAATC
1 GCAATGCGAAATGAAAATC
14728013 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
14728032 GCAA
1 GCAA
14728036 CGACAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
14 10 0.32
16 4 0.13
17 3 0.10
19 14 0.45
ACGTcount: A:0.50, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:14728012 original size:14 final size:14
Alignment explanation
Indices: 14727993--14728051 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
14727983 ATGTGAAATG
14727993 AAAATCGCAACGAA
1 AAAATCGCAACGAA
14728007 AAAATCGCAATGCGAAA
1 AAAATCGCAA--CG-AA
*
14728024 TGAAAATCGCAACGAC
1 --AAAATCGCAACGAA
14728040 AAAATCGCAACG
1 AAAATCGCAACG
14728052 CGAAATAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 22 0.56
16 3 0.08
17 4 0.10
19 10 0.26
ACGTcount: A:0.51, C:0.22, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:14728024 original size:33 final size:33
Alignment explanation
Indices: 14727980--14728068 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
14727970 AATGGCTATT
*
14727980 GCAATGTGAAATGAAAATCGCAACGAAAAAATC
1 GCAATGCGAAATGAAAATCGCAACGAAAAAATC
*
14728013 GCAATGCGAAATGAAAATCGCAACGACAAAATC
1 GCAATGCGAAATGAAAATCGCAACGAAAAAATC
*
14728046 GCAACGCGAAAT-AAAATTCGCAA
1 GCAATGCGAAATGAAAA-TCGCAA
14728069 GTAAACTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
32 4 0.08
33 48 0.92
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.13
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACGAAAAAATC
Found at i:14728444 original size:21 final size:20
Alignment explanation
Indices: 14728418--14728486 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
14728408 CTGTCATCCC
14728418 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* *
14728439 TCAAGAGGCCCCTATCATC-T
1 TCAAGAGTCCCCT-CCATCGT
* *
14728459 CTCAAGAGTCCCCCCCACCGT
1 -TCAAGAGTCCCCTCCATCGT
14728480 TCAAGAG
1 TCAAGAG
14728487 GCCACTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 11 0.28
21 27 0.69
22 1 0.03
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:14728498 original size:41 final size:42
Alignment explanation
Indices: 14728411--14728498 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
14728401 GACTCACCTG
* *
14728411 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
14728453 TCATCTCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTT
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
14728494 TCATC
1 TCATC
14728499 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 23 0.56
42 18 0.44
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.23
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Done.