Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 56 of 144
Found at i:11275078 original size:31 final size:30
Alignment explanation
Indices: 11275040--11275108 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
11275030 CCAATAGGAT
* *
11275040 TGTTTTGTCAC-TTTTCGATAATTTTAGTGAC
1 TGTTTTGTCACATTTT-GA-AAGTTGAGTGAC
*
11275071 TGTTTTGTCACATTTTTAAAGTTGAGTGAC
1 TGTTTTGTCACATTTTGAAAGTTGAGTGAC
11275101 TGTTTTGT
1 TGTTTTGT
11275109 TAAATGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 18 0.53
31 12 0.35
32 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (30 bp):
TGTTTTGTCACATTTTGAAAGTTGAGTGAC
Found at i:11276639 original size:4 final size:4
Alignment explanation
Indices: 11276630--11276654 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11276620 TATTATGCCT
11276630 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
11276655 GGATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:11282842 original size:31 final size:31
Alignment explanation
Indices: 11282807--11282868 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11282797 GTAACACCCC
*
11282807 TATACCCGGTTCACACATATAAACCCGGTAT
1 TATACCCAGTTCACACATATAAACCCGGTAT
11282838 TATACCCAGTTCACACATATAAACCCGGTAT
1 TATACCCAGTTCACACATATAAACCCGGTAT
11282869 AAGAGTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (31 bp):
TATACCCAGTTCACACATATAAACCCGGTAT
Found at i:11283905 original size:41 final size:38
Alignment explanation
Indices: 11283805--11283908 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
11283795 TTTGAAGCAA
* *
11283805 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
11283842 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
11283880 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
11283909 CTCAAGGTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:11287008 original size:45 final size:45
Alignment explanation
Indices: 11286943--11287061 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 45
11286933 AAGGCTATAC
* * * *
11286943 ACAAAAA-AAGTAAGACCATAGTTGAAATATGTTATGGCTTAAGG
1 ACAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATAAGG
* * *
11286987 ATAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCATG
1 ACAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATAAGG
* *
11287032 ACAGAAATGAGTAAGACCATGGCTGAAAGA
1 ACAAAAATGAGTAAGACCATAGCTGAAAGA
11287062 CGCTATGACA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 6 0.09
45 58 0.91
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.22
Consensus pattern (45 bp):
ACAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGGCATAAGG
Found at i:11287059 original size:21 final size:21
Alignment explanation
Indices: 11286991--11287059 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
11286981 TTAAGGATAA
*
11286991 AAATGAGTAAGACCATAGCTG
1 AAATGAGTAAGACCATGGCTG
* * * *
11287012 AAA-GATGTTATGGCATCATGACAG
1 AAATGA-G-TA-AG-ACCATGGCTG
11287036 AAATGAGTAAGACCATGGCTG
1 AAATGAGTAAGACCATGGCTG
11287057 AAA
1 AAA
11287060 GACGCTATGA
Statistics
Matches: 34, Mismatches: 9, Indels: 10
0.64 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 14 0.41
22 3 0.09
23 3 0.09
24 10 0.29
25 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (21 bp):
AAATGAGTAAGACCATGGCTG
Found at i:11297010 original size:5 final size:5
Alignment explanation
Indices: 11297000--11297024 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11296990 TTATTATGCG
11297000 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
11297025 TTATTCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:11304901 original size:130 final size:130
Alignment explanation
Indices: 11304668--11304925 Score: 489
Period size: 130 Copynumber: 2.0 Consensus size: 130
11304658 CTTCATCCAT
*
11304668 GATGGTAGTATTTATAATATGGAAGCCAATCATAAGGGTGATGATCCACTCACTTACGATGAGGC
1 GATGGTAGTATTTATAATATGGAAGCCAATCATAAGGGTGATGATCCACTCACTTACGAGGAGGC
11304733 TATACAAGATGTTGATTCCAAGCTTTGGAAATCGGCCATGGATGTCGAGATGGATTCTATAAATG
66 TATACAAGATGTTGATTCCAAGCTTTGGAAATCGGCCATGGATGTCGAGATGGATTCTATAAATG
11304798 GATGGTAGTATTTATAATATGGAAGCCAATCATAAGGGTGATGATCCACTCACTTACGAGGAGGC
1 GATGGTAGTATTTATAATATGGAAGCCAATCATAAGGGTGATGATCCACTCACTTACGAGGAGGC
**
11304863 TATACAAGATGTTGATTCCAAGCTTTGGAAATCGGCCATTTATGTCGAGATGGATTCTATAAA
66 TATACAAGATGTTGATTCCAAGCTTTGGAAATCGGCCATGGATGTCGAGATGGATTCTATAAA
11304926 ATCCAAAACA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (130 bp):
GATGGTAGTATTTATAATATGGAAGCCAATCATAAGGGTGATGATCCACTCACTTACGAGGAGGC
TATACAAGATGTTGATTCCAAGCTTTGGAAATCGGCCATGGATGTCGAGATGGATTCTATAAATG
Found at i:11306544 original size:30 final size:30
Alignment explanation
Indices: 11306510--11306566 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
11306500 AAATTTCACA
*
11306510 TTTTACTA-TTATGTCTTTTATATTTTTGTC
1 TTTTA-TATTTATGTCTTTCATATTTTTGTC
* *
11306540 TTTTATATTTTTTTCTTTCATATTTTT
1 TTTTATATTTATGTCTTTCATATTTTT
11306567 CATGCATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTTATATTTATGTCTTTCATATTTTTGTC
Found at i:11306550 original size:14 final size:15
Alignment explanation
Indices: 11306521--11306566 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
11306511 TTTACTATTA
11306521 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
11306536 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
* *
11306551 TTTCTTTCATATTTT
1 TGTCTTTTATATTTT
11306566 T
1 T
11306567 CATGCATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:11308257 original size:67 final size:69
Alignment explanation
Indices: 11308186--11308320 Score: 202
Period size: 67 Copynumber: 2.0 Consensus size: 69
11308176 TTTAATAGAT
* * * *
11308186 TTAATATTTAATTTAATTTAATGCTTATCTTAAT-AGTATTTTATTAA-TTAATATTAAAGTGAT
1 TTAATATTAAATATAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
11308249 TATC
66 TATC
* *
11308253 TTAATATTAAATATAATTTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATATAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
11308318 TAT
66 TAT
11308321 ATTTAATCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 29 0.48
68 12 0.20
69 19 0.32
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATATAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:11308275 original size:17 final size:20
Alignment explanation
Indices: 11308233--11308277 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11308223 ATTTTATTAA
*
11308233 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATAATC
11308253 TTAATATTAAA-T-ATAAT-
1 TTAATATTAAAGTGATAATC
11308270 TTAATATT
1 TTAATATT
11308278 TATCTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 4 0.17
19 1 0.04
20 11 0.46
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
TTAATATTAAAGTGATAATC
Found at i:11314404 original size:37 final size:37
Alignment explanation
Indices: 11314363--11314440 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
11314353 CATAGTCGGG
* * *
11314363 ATACACCGGCATGAAGCCTAGTAGGCACACAGCCTGA
1 ATACACCGGCACGAAGCCTACTAGGCACACAGCCCGA
11314400 ATACACCGGCACGAAGCCTACTAGGCACACAGCCCGA
1 ATACACCGGCACGAAGCCTACTAGGCACACAGCCCGA
11314437 ATAC
1 ATAC
11314441 TTAGATGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.12
Consensus pattern (37 bp):
ATACACCGGCACGAAGCCTACTAGGCACACAGCCCGA
Found at i:11317408 original size:119 final size:120
Alignment explanation
Indices: 11317189--11317431 Score: 276
Period size: 119 Copynumber: 2.0 Consensus size: 120
11317179 GCTTTCACAA
** * ** * *
11317189 GCTATAATCCAAAATTTCATCCTTGTGTTTGTATCAACTCTGTTACCAATATTTGATGCTTCTCA
1 GCTATAATCCAAAATTTCATCCTCATGTTTGTATCAAATCTGTTACCAATATACGATGCTGCACA
* * ** * * *
11317254 CATGAGCTGTCAAGGATTTGCAACATATGCGGTACC-CAGTCATCGATACGGTAT
66 CACGAGCTGTCAAGGACTCACAACATATGCGGTACCTCAGCCATCAATACAGTAT
* * * *
11317308 GCTATAATCTATAATTTCATTCTCATGTTTGTATCAAATCTGTTACCAGTATACGATGCTGCACA
1 GCTATAATCCAAAATTTCATCCTCATGTTTGTATCAAATCTGTTACCAATATACGATGCTGCACA
* *
11317373 CACGAGTTGTCAAGGACTCACAACATATTTC-GTACCTCAGCCATCAATACAGTAT
66 CACGAGCTGTCAAGGACTCACAACATA-TGCGGTACCTCAGCCATCAATACAGTAT
11317428 -CTAT
1 GCTAT
11317432 GTATATAACT
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
119 85 0.83
120 17 0.17
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (120 bp):
GCTATAATCCAAAATTTCATCCTCATGTTTGTATCAAATCTGTTACCAATATACGATGCTGCACA
CACGAGCTGTCAAGGACTCACAACATATGCGGTACCTCAGCCATCAATACAGTAT
Found at i:11327892 original size:16 final size:17
Alignment explanation
Indices: 11327855--11327896 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
11327845 CCCTATCTTT
11327855 TTTTTATAATTTGTAATA
1 TTTTTAT-ATTTGTAATA
*
11327873 -TTTTATATTT-TACTA
1 TTTTTATATTTGTAATA
11327888 TTTTTATAT
1 TTTTTATAT
11327897 ATTATGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTGTAATA
Found at i:11328049 original size:21 final size:21
Alignment explanation
Indices: 11328003--11328043 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11327993 ATAAAAAATA
*
11328003 TTTAAAATTATTAAATATTAG
1 TTTAAAATAATTAAATATTAG
*
11328024 ATTAAAATAATATAAATATT
1 TTTAAAATAAT-TAAATATT
11328044 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTAAAATAATTAAATATTAG
Found at i:11334118 original size:3 final size:3
Alignment explanation
Indices: 11334110--11334142 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11334100 TATATCCCAA
11334110 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11334143 GAATAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11335202 original size:7 final size:7
Alignment explanation
Indices: 11335179--11335298 Score: 117
Period size: 7 Copynumber: 18.0 Consensus size: 7
11335169 TTCGAAAAAA
11335179 GTCAACG
1 GTCAACG
*
11335186 GTCAA-A
1 GTCAACG
*
11335192 GTCAATG
1 GTCAACG
11335199 GTCAACG
1 GTCAACG
*
11335206 GTCAA-A
1 GTCAACG
11335212 GTCAACG
1 GTCAACG
**
11335219 GTCAGTG
1 GTCAACG
11335226 GTCAACG
1 GTCAACG
11335233 GTCAA--
1 GTCAACG
11335238 GTCAACG
1 GTCAACG
11335245 GTCAACG
1 GTCAACG
*
11335252 GTCAA-A
1 GTCAACG
11335258 GTCAACG
1 GTCAACG
11335265 GTCAACG
1 GTCAACG
*
11335272 GTCAA-A
1 GTCAACG
11335278 GTCAACG
1 GTCAACG
**
11335285 GTCAGTG
1 GTCAACG
11335292 GTCAACG
1 GTCAACG
11335299 TCGGTCAACG
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
5 5 0.06
6 20 0.22
7 65 0.72
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:11335216 original size:26 final size:26
Alignment explanation
Indices: 11335192--11335288 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
11335182 AACGGTCAAA
11335192 GTCAATGGTCAACGGTCAAAGTCAACG
1 GTCAATGGTCAACGGTC-AAGTCAACG
*
11335219 GTCAGTGGTCAACGGTCAAGTCAACG
1 GTCAATGGTCAACGGTCAAGTCAACG
* *
11335245 GTCAACGGTCAA-AGTCAACGGTCAACG
1 GTCAATGGTCAACGGTCAA--GTCAACG
*
11335272 GTCAA-AGTCAACGGTCA
1 GTCAATGGTCAACGGTCA
11335289 GTGGTCAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.08
26 24 0.39
27 32 0.52
ACGTcount: A:0.32, C:0.24, G:0.27, T:0.18
Consensus pattern (26 bp):
GTCAATGGTCAACGGTCAAGTCAACG
Found at i:11335248 original size:46 final size:47
Alignment explanation
Indices: 11335179--11335268 Score: 164
Period size: 46 Copynumber: 1.9 Consensus size: 47
11335169 TTCGAAAAAA
*
11335179 GTCAACGGTCAAAGTCAATGGTCAACGGTCAAAGTCAACGGTCAGTG
1 GTCAACGGTCAAAGTCAACGGTCAACGGTCAAAGTCAACGGTCAGTG
11335226 GTCAACGGTC-AAGTCAACGGTCAACGGTCAAAGTCAACGGTCA
1 GTCAACGGTCAAAGTCAACGGTCAACGGTCAAAGTCAACGGTCA
11335269 ACGGTCAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 32 0.76
47 10 0.24
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (47 bp):
GTCAACGGTCAAAGTCAACGGTCAACGGTCAAAGTCAACGGTCAGTG
Found at i:11335296 original size:20 final size:20
Alignment explanation
Indices: 11335179--11335288 Score: 141
Period size: 20 Copynumber: 5.2 Consensus size: 20
11335169 TTCGAAAAAA
*
11335179 GTCAACGGTCAAAGTCAATG
1 GTCAACGGTCAAAGTCAACG
11335199 GTCAACGGTCAAAGTCAACGGTCAGTG
1 GTCAACGGTCAAAGTCAA----C---G
11335226 GTCAACGGTC-AAGTCAACG
1 GTCAACGGTCAAAGTCAACG
11335245 GTCAACGGTCAAAGTCAACG
1 GTCAACGGTCAAAGTCAACG
11335265 GTCAACGGTCAAAGTCAACG
1 GTCAACGGTCAAAGTCAACG
11335285 GTCA
1 GTCA
11335289 GTGGTCAACG
Statistics
Matches: 81, Mismatches: 1, Indels: 16
0.83 0.01 0.16
Matches are distributed among these distances:
19 11 0.14
20 51 0.63
22 1 0.01
26 7 0.09
27 11 0.14
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (20 bp):
GTCAACGGTCAAAGTCAACG
Found at i:11335419 original size:21 final size:21
Alignment explanation
Indices: 11335351--11335419 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
11335341 CTTGGTTTAA
*
11335351 TTGGTTTGG-TTCAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
*
11335371 TTGGTTAGGTTTTAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
*
11335392 TTGGTTTGGTTTTAAATAGGT
1 TTGGTTTGGTTTTAAATGGGT
11335413 TTGGTTT
1 TTGGTTT
11335420 AAATGAATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 8 0.18
21 36 0.82
ACGTcount: A:0.16, C:0.01, G:0.32, T:0.51
Consensus pattern (21 bp):
TTGGTTTGGTTTTAAATGGGT
Found at i:11335422 original size:15 final size:16
Alignment explanation
Indices: 11335394--11335423 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11335384 AAATGGGTTT
11335394 GGTTTGGTTTTAAATA
1 GGTTTGGTTTTAAATA
11335410 GGTTTGG-TTTAAAT
1 GGTTTGGTTTTAAAT
11335424 GAATGTGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
GGTTTGGTTTTAAATA
Found at i:11335949 original size:17 final size:17
Alignment explanation
Indices: 11335929--11335962 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11335919 AAGGAAAGGA
11335929 AAAAAAGAAAGAAAAAG
1 AAAAAAGAAAGAAAAAG
11335946 AAAAAAGAAAGAAAAAG
1 AAAAAAGAAAGAAAAAG
11335963 GTTTGGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAG
Found at i:11335956 original size:11 final size:10
Alignment explanation
Indices: 11335928--11335961 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11335918 TAAGGAAAGG
11335928 AAAAAAAGAA
1 AAAAAAAGAA
*
11335938 AGAAAAAGAA
1 AAAAAAAGAA
11335948 AAAAGAAAGAA
1 AAAA-AAAGAA
11335959 AAA
1 AAA
11335962 GGTTTGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:11341441 original size:13 final size:13
Alignment explanation
Indices: 11341425--11341449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11341415 TGAAAACCCA
11341425 AAAATAAAATAAT
1 AAAATAAAATAAT
11341438 AAAATAAAATAA
1 AAAATAAAATAA
11341450 ATCTTTAAAT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:11343692 original size:25 final size:25
Alignment explanation
Indices: 11343657--11343750 Score: 134
Period size: 25 Copynumber: 3.8 Consensus size: 25
11343647 AAGCCTAAAT
* *
11343657 AGAATAACGCTCTTATGAGCCAGAC
1 AGAATATCGCTCTTACGAGCCAGAC
* *
11343682 AGAATATCGCTTTTACGAGCCAGAT
1 AGAATATCGCTCTTACGAGCCAGAC
11343707 AGAATATCGCTCTTACGAGCCAGAC
1 AGAATATCGCTCTTACGAGCCAGAC
**
11343732 AGAATATTACTCTTACGAG
1 AGAATATCGCTCTTACGAG
11343751 ATAGATTTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (25 bp):
AGAATATCGCTCTTACGAGCCAGAC
Found at i:11351174 original size:26 final size:25
Alignment explanation
Indices: 11351145--11351193 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11351135 CCAGAACTTA
11351145 GCTCAAACGAGCCTAGACAGAATAAC
1 GCTCAAACGAGCC-AGACAGAATAAC
** *
11351171 GCTCTTATGAGCCAGACAGAATA
1 GCTCAAACGAGCCAGACAGAATA
11351194 TTGCTCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
GCTCAAACGAGCCAGACAGAATAAC
Found at i:11351192 original size:25 final size:25
Alignment explanation
Indices: 11351151--11351311 Score: 187
Period size: 25 Copynumber: 6.4 Consensus size: 25
11351141 CTTAGCTCAA
*
11351151 ACGAGCCTAGACAGAATAACGCTCTT
1 ACGAGCC-AGACAGAATATCGCTCTT
* *
11351177 ATGAGCCAGACAGAATATTGCTCTT
1 ACGAGCCAGACAGAATATCGCTCTT
* * *
11351202 ACGAGCCAAACAAAATATCACTCTT
1 ACGAGCCAGACAGAATATCGCTCTT
* * *
11351227 ACGAGCCAAATAGAATATCACTCTT
1 ACGAGCCAGACAGAATATCGCTCTT
* * * *
11351252 GCGTGCCAGACAAAATATCGTTCTT
1 ACGAGCCAGACAGAATATCGCTCTT
*
11351277 ACGACCCAGACAGAATATCGCTCTT
1 ACGAGCCAGACAGAATATCGCTCTT
11351302 ACGAGCCAGA
1 ACGAGCCAGA
11351312 ATGCAAAGCA
Statistics
Matches: 112, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
25 106 0.95
26 6 0.05
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (25 bp):
ACGAGCCAGACAGAATATCGCTCTT
Found at i:11355215 original size:20 final size:21
Alignment explanation
Indices: 11355190--11355234 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11355180 TTTTTATATT
11355190 ATCAGTAA-TTAGAAAATAAA
1 ATCAGTAAGTTAGAAAATAAA
* *
11355210 ATCAGTAAGTTATAATATAAA
1 ATCAGTAAGTTAGAAAATAAA
11355231 ATCA
1 ATCA
11355235 TGATTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.29
Consensus pattern (21 bp):
ATCAGTAAGTTAGAAAATAAA
Found at i:11361856 original size:17 final size:17
Alignment explanation
Indices: 11361834--11361889 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
11361824 CCAATTTTAA
*
11361834 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
11361851 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
11361868 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
11361885 ATTTT
1 ATTTT
11361890 TGAGTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:11361876 original size:34 final size:35
Alignment explanation
Indices: 11361834--11361902 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
11361824 CCAATTTTAA
* *
11361834 ATTTTAAATTTTAATTTA-TTTTAAGTTTAAATTT
1 ATTTTAAATTTAAACTTATTTTTAAGTTTAAATTT
*
11361868 ATTTTAAATTTAAACTTATTTTTGAGTTTAAATTT
1 ATTTTAAATTTAAACTTATTTTTAAGTTTAAATTT
11361903 GGATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (35 bp):
ATTTTAAATTTAAACTTATTTTTAAGTTTAAATTT
Found at i:11361897 original size:18 final size:17
Alignment explanation
Indices: 11361834--11361899 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
11361824 CCAATTTTAA
* * *
11361834 ATTTTAAATTTTAATTT
1 ATTTTAAGTTTAAACTT
*
11361851 ATTTTAAGTTTAAATTT
1 ATTTTAAGTTTAAACTT
*
11361868 ATTTTAAATTTAAACTT
1 ATTTTAAGTTTAAACTT
*
11361885 ATTTTTGAGTTTAAA
1 A-TTTTAAGTTTAAA
11361900 TTTGGATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 31 0.74
18 11 0.26
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTTAAGTTTAAACTT
Found at i:11361897 original size:24 final size:23
Alignment explanation
Indices: 11361870--11361928 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
11361860 TTAAATTTAT
*
11361870 TTTAAATTTAAACTTATTTTTGAG
1 TTTAAATTTAAACTTA-TTTTGAA
** *
11361894 TTTAAATTTGGATTTATTTTGAA
1 TTTAAATTTAAACTTATTTTGAA
11361917 TTTAAATTTAAA
1 TTTAAATTTAAA
11361929 ATTTAATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAACTTATTTTGAA
Found at i:11361932 original size:24 final size:23
Alignment explanation
Indices: 11361870--11361942 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
11361860 TTAAATTTAT
* *
11361870 TTTAAATTTAAACTTATTTTTGAG
1 TTTAAATTTAAATTTA-TTTTGAA
**
11361894 TTTAAATTTGGATTTATTTTGAA
1 TTTAAATTTAAATTTATTTTGAA
* *
11361917 TTTAAATTTAAAATTTAATTTAAA
1 TTTAAATTT-AAATTTATTTTGAA
11361941 TT
1 TT
11361943 CCAAAATAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 15 0.38
24 25 0.62
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTTATTTTGAA
Found at i:11361938 original size:5 final size:6
Alignment explanation
Indices: 11361829--11361942 Score: 65
Period size: 6 Copynumber: 19.3 Consensus size: 6
11361819 TGAACCCAAT
* * * *
11361829 TTTAAA TTTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * * ** * *
11361876 TTTAAA CTTATT TTTGAG TTTAAA TTTGGA TTT-AT TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
11361923 TTTAAAA TTT-AA TTTAAA TT
1 TTT-AAA TTTAAA TTTAAA TT
11361943 CCAAAATAAC
Statistics
Matches: 81, Mismatches: 21, Indels: 11
0.72 0.19 0.10
Matches are distributed among these distances:
5 16 0.20
6 53 0.65
7 12 0.15
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:11363071 original size:20 final size:20
Alignment explanation
Indices: 11363046--11363089 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
11363036 CACCGAGGAG
11363046 GGCGGCGCGTGACGACGGAC
1 GGCGGCGCGTGACGACGGAC
11363066 GGCGGCGCGTGACGACGGAC
1 GGCGGCGCGTGACGACGGAC
11363086 GGCG
1 GGCG
11363090 ACGGACGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.30, G:0.52, T:0.05
Consensus pattern (20 bp):
GGCGGCGCGTGACGACGGAC
Found at i:11363772 original size:29 final size:29
Alignment explanation
Indices: 11363698--11364110 Score: 234
Period size: 29 Copynumber: 14.1 Consensus size: 29
11363688 AAAAATCATA
*
11363698 TTTTGACCTCTAAACTTTTCTAAAATTACAT
1 TTTTG-CC-CTAAACTTTTCAAAAATTACAT
**
11363729 TTTAACCCCTAAACTTTTCAAAAATTACAT
1 TTT-TGCCCTAAACTTTTCAAAAATTACAT
* * *
11363759 TTTTGCCCTGAAC-TTCCAAAAATTATAT
1 TTTTGCCCTAAACTTTTCAAAAATTACAT
* *
11363787 TTTTGCCCCTCAAACTTCTCAAAAATTATAT
1 TTTTG-CCCT-AAACTTTTCAAAAATTACAT
* *
11363818 TTTTACCCTTAAAC-TTCCAAAAATTACAT
1 TTTTGCCC-TAAACTTTTCAAAAATTACAT
* *
11363847 TTTTACCCTTAAAC-TTCCAAAAATTACAT
1 TTTTGCCC-TAAACTTTTCAAAAATTACAT
* * * *
11363876 TTTTACCCCCAAACTTCTCAACAATTACA-
1 TTTT-GCCCTAAACTTTTCAAAAATTACAT
* ** * *
11363905 TTTTACCCCGAACTTCTCATAAATTACAT
1 TTTTGCCCTAAACTTTTCAAAAATTACAT
* * * *
11363934 TTTTGCCATTGAAC-TTCCAAAAATTATATT
1 TTTTGCC-CTAAACTTTTCAAAAATTACA-T
*
11363964 TTTTGCCCTCAAAC-TTTCAAAAATTATAT
1 TTTTGCCCT-AAACTTTTCAAAAATTACAT
* * * * *
11363993 TTTTACCCTCGAGCTTCT-AAAAATCACAT
1 TTTTGCCCT-AAACTTTTCAAAAATTACAT
* * * *
11364022 TTTTGCCCTTGAACTTCT-AAAAATCAC-G
1 TTTTGCCC-TAAACTTTTCAAAAATTACAT
* * * * *
11364050 TTTTACCCTACATTTTTCCAAAATGACAT
1 TTTTGCCCTAAACTTTTCAAAAATTACAT
** * *
11364079 TTTACCCCTAAAAC-TTTCCAAAATTGCAT
1 TTTTGCCCT-AAACTTTTCAAAAATTACAT
11364108 TTT
1 TTT
11364111 AACCCAAACT
Statistics
Matches: 309, Mismatches: 57, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
27 5 0.02
28 52 0.17
29 148 0.48
30 81 0.26
31 23 0.07
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTTGCCCTAAACTTTTCAAAAATTACAT
Found at i:11363848 original size:88 final size:88
Alignment explanation
Indices: 11363680--11364045 Score: 420
Period size: 88 Copynumber: 4.1 Consensus size: 88
11363670 AAAGTCCCAA
* * * * *
11363680 AACTGTCCAAAAATCATA-TTTTGACCTCTAAACTTTTCTAAAATTACATTTTAACCC-CTAAAC
1 AACT-TCCAAAAATTATATTTTTGCCCTC-AAACTTCTCAAAAATTACATTTTTACCCTC-AAAC
*
11363743 TTTTCAAAAATTACATTTTTGCCC-TG
63 -TTCCAAAAATTACATTTTTGCCCTTG
* *
11363769 AACTTCCAAAAATTATATTTTTGCCCCTCAAACTTCTCAAAAATTATATTTTTACCCTTAAACTT
1 AACTTCCAAAAATTATATTTTTG-CCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTT
* *
11363834 CCAAAAATTACATTTTTACCCTTA
65 CCAAAAATTACATTTTTGCCCTTG
* * * * *
11363858 AACTTCCAAAAATTACATTTTTACCCCCAAACTTCTCAACAATTACA-TTTTACCC-CGAACTTC
1 AACTTCCAAAAATTATATTTTTGCCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTTC
* *
11363921 TCATAAATTACATTTTTGCCATTG
66 -CAAAAATTACATTTTTGCCCTTG
* * *
11363945 AACTTCCAAAAATTATATTTTTTGCCCTCAAACTT-TCAAAAATTATATTTTTACCCTCGAGCTT
1 AACTTCCAAAAATTATA-TTTTTGCCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTT
* *
11364009 CTAAAAATCACATTTTTGCCCTTG
65 CCAAAAATTACATTTTTGCCCTTG
*
11364033 AACTTCTAAAAAT
1 AACTTCCAAAAAT
11364046 CACGTTTTAC
Statistics
Matches: 237, Mismatches: 32, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
86 6 0.03
87 53 0.22
88 108 0.46
89 66 0.28
90 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (88 bp):
AACTTCCAAAAATTATATTTTTGCCCTCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTTC
CAAAAATTACATTTTTGCCCTTG
Found at i:11365486 original size:18 final size:17
Alignment explanation
Indices: 11365445--11365487 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
11365435 CTAGGTTCTC
11365445 TATTTTA-TATCTGTAT
1 TATTTTATTATCTGTAT
11365461 T-TTGTTATTATACTGTAT
1 TATT-TTATTAT-CTGTAT
11365479 TATTTTATT
1 TATTTTATT
11365488 TTGCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 3 0.13
18 12 0.52
19 2 0.09
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (17 bp):
TATTTTATTATCTGTAT
Found at i:11368990 original size:20 final size:19
Alignment explanation
Indices: 11368965--11369067 Score: 88
Period size: 20 Copynumber: 5.4 Consensus size: 19
11368955 GGATTCGATG
*
11368965 AAGAAAAATAAATAAAAAGA
1 AAGAAAAAGAAA-AAAAAGA
* *
11368985 AAGAAAAGACAAAAAAAAAA
1 AAGAAAA-AGAAAAAAAAGA
*
11369005 AAGCAAAAAGAAGAAAGAAGA
1 AAG-AAAAAGAA-AAAAAAGA
*
11369026 AAGAAAAAG-AAAGAAAG-
1 AAGAAAAAGAAAAAAAAGA
*
11369043 -AGAAAAAGAAAAGAAA-A
1 AAGAAAAAGAAAAAAAAGA
11369060 AAGAAAAA
1 AAGAAAAA
11369068 AAGAAGAAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.11
17 7 0.10
18 12 0.17
19 1 0.01
20 25 0.36
21 17 0.24
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAAAAAAAGA
Found at i:11369012 original size:7 final size:6
Alignment explanation
Indices: 11368996--11369076 Score: 71
Period size: 6 Copynumber: 13.5 Consensus size: 6
11368986 AGAAAAGACA
* *
11368996 AAAAAA AAAAAG CAAAAAG AAGAAAG AAGAAAG AAAAAG --AAAG AAAGAG
1 AAAAAG AAAAAG -AAAAAG AA-AAAG AA-AAAG AAAAAG AAAAAG AAAAAG
*
11369045 AAAAAG -AAAAG AAAAAAG AAAAA- AAGAAG AAA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAA
11369077 GAGGAGAGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 26 0.41
7 24 0.38
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11369068 original size:20 final size:20
Alignment explanation
Indices: 11368979--11369072 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 20
11368969 AAAATAAATA
11368979 AAAAGAAAGAAAAGACAAAAA-
1 AAAA-AAAGAAAAGA-AAAAAG
*
11369000 AAAAAAAGCAAAAAGAAGAAAG
1 AAAAAAAG--AAAAGAAAAAAG
*
11369022 -AAGAAAGAAAAAGAAAGAAAG
1 AAAAAAAG-AAAAGAAA-AAAG
*
11369043 AGAAAAAGAAAAGAAAAAAG
1 AAAAAAAGAAAAGAAAAAAG
11369063 AAAAAAAGAA
1 AAAAAAAGAA
11369073 GAAAGAGGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
20 25 0.40
21 26 0.42
22 11 0.18
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAAAAG
Found at i:11369077 original size:7 final size:7
Alignment explanation
Indices: 11369011--11369078 Score: 70
Period size: 7 Copynumber: 9.7 Consensus size: 7
11369001 AAAAAAGCAA
11369011 AAAGAAG
1 AAAGAAG
11369018 AAAGAAG
1 AAAGAAG
11369025 AAAGAA-
1 AAAGAAG
11369031 AAAGAAAG
1 AAAG-AAG
11369039 AAAG-AG
1 AAAGAAG
11369045 AAA-AAG
1 AAAGAAG
*
11369051 AAAAGAAA
1 -AAAGAAG
*
11369059 AAAGAAAA
1 AAAG-AAG
11369067 AAAGAAG
1 AAAGAAG
11369074 AAAGA
1 AAAGA
11369079 GGAGAGGAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
6 11 0.21
7 29 0.55
8 13 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:11370074 original size:50 final size:50
Alignment explanation
Indices: 11369994--11370705 Score: 569
Period size: 50 Copynumber: 14.4 Consensus size: 50
11369984 CATATCCTAC
*
11369994 AGGTTGAGGCCGCAACGGTGAACCTGGTACCTTAGAAGATGTGATGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* * * *
11370044 AGGATGAGGTCGCGACGGCGAACCTAGTACCTTAGAAGATGTGATGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* ** ** * *
11370094 AGGTTGAGGCTGCAACGGCGAACCCAGTA-C-TATGAAGATACGAAGAGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTA-GAAGATGTGATGGGAA
* * * * * * * *
11370143 AAGTTGAGGCCGCAACGGCAAATCGGGTACCAT-GAAGATTTGAAGAGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* * * *
11370192 AGGTTGAGGCTGCAACGGTGAACCCT-GTACCTTAAAATATGTGATGGG-A
1 AGGTTGAGGCCGCAACGGCGAA-CCTGGTACCTTAGAAGATGTGATGGGAA
* * * *
11370241 AGGATTGAGGCCACAACGGCGAATCC-GGTACCATA-AAGATGCGAAGGGAA
1 AGG-TTGAGGCCGCAACGGCGAA-CCTGGTACCTTAGAAGATGTGATGGGAA
* * * *
11370291 AAGTTGAGGCCGCAACGGAGAACTTAGTACCTTAGAAGATGTGATGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* ** * * *
11370341 AGGTTTAAACCGTAACGG-GAAACTCGATACCTTAGAAGATGTGATGGG-A
1 AGGTTGAGGCCGCAACGGCGAACCT-GGTACCTTAGAAGATGTGATGGGAA
* * * * * * * *
11370390 AGGATTGAGGCCGTAACAGCGAATCTGATATCAT-GAA-ATATGATAGGAA
1 AGG-TTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* * * * *
11370439 AGGTTGAGGTCGCAACGGCGAACCCGGTACCAT-GAAGATG-AAAGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
11370487 AGGTTGAGGCCGCAACGGCGAA-CTCGGTACCTTAGAAGATGTGATGGG-A
1 AGGTTGAGGCCGCAACGGCGAACCT-GGTACCTTAGAAGATGTGATGGGAA
* * * * ** *
11370536 AGGATTGAGGTCACAACGGTGAATCC-GGTACCAT-GAAGATACGAAGGGAA
1 AGG-TTGAGGCCGCAACGGCGAA-CCTGGTACCTTAGAAGATGTGATGGGAA
* * *
11370586 AGGTTGAGGCCGTAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* * * * * * ** *
11370636 AGGTTGAGGTCGTAACGGGGAATCTAGTACCTTA-AAAACATGACGGGAA
1 AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
* *
11370685 AGATTGAGGCCGCAACAGCGA
1 AGGTTGAGGCCGCAACGGCGA
11370706 GTCTTAAACC
Statistics
Matches: 522, Mismatches: 116, Indels: 49
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.00
48 72 0.14
49 198 0.38
50 244 0.47
51 6 0.01
52 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.18
Consensus pattern (50 bp):
AGGTTGAGGCCGCAACGGCGAACCTGGTACCTTAGAAGATGTGATGGGAA
Found at i:11370280 original size:99 final size:98
Alignment explanation
Indices: 11369994--11370705 Score: 568
Period size: 99 Copynumber: 7.2 Consensus size: 98
11369984 CATATCCTAC
* * *
11369994 AGGTTGAGGCCGCAACGGTGAACCTGGTACCTTAGAAGATGTGATGGGAAAGGA-TGAGGTCGCG
1 AGGTTGAGGCCGCAACGGCGAACCT-GTACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCA
* * *
11370058 ACGGCGAA-CCTAGTACCTTAGAAGATGTGATGGGAA
64 ACGGCGAATCC-GGTACCATA-AAGATGTGAAGGGAA
* * ** * * *
11370094 AGGTTGAGGCTGCAACGGCGAACCCAGTA-C-TATGAAGATACGAAGAGAA-AAGTTGAGGCCGC
1 AGGTTGAGGCCGCAACGGCGAA-CCTGTACCTTA-GAAGATGTGATGGGAAGGA-TTGAGGCCGC
* * * * *
11370156 AACGGCAAATCGGGTACCATGAAGATTTGAAGAGAA
63 AACGGCGAATCCGGTACCATAAAGATGTGAAGGGAA
* * * * *
11370192 AGGTTGAGGCTGCAACGGTGAACCCTGTACCTTAAAATATGTGATGGGAAGGATTGAGGCCACAA
1 AGGTTGAGGCCGCAACGGCGAA-CCTGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAA
*
11370257 CGGCGAATCCGGTACCATAAAGATGCGAAGGGAA
65 CGGCGAATCCGGTACCATAAAGATGTGAAGGGAA
* * * * ** *
11370291 AAGTTGAGGCCGCAACGGAGAACTTAGTACCTTAGAAGATGTGATGGGAAAGG-TTTAAACCGTA
1 AGGTTGAGGCCGCAACGGCGAACCT-GTACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCA
* * * *
11370355 ACGG-GAAACTCGATACCTTAGAAGATGTGATGGG-A
64 ACGGCGAATC-CGGTACCATA-AAGATGTGAAGGGAA
* * * * * * * *
11370390 AGGATTGAGGCCGTAACAGCGAATCTGATATCAT-GAA-ATATGATAGGAAAGG-TTGAGGTCGC
1 AGG-TTGAGGCCGCAACGGCGAACCTG-TACCTTAGAAGATGTGAT-GGGAAGGATTGAGGCCGC
* * *
11370452 AACGGCGAACCCGGTACCATGAAGATG-AAAGGGAA
63 AACGGCGAATCCGGTACCATAAAGATGTGAAGGGAA
* * *
11370487 AGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAGGATTGAGGTCACAA
1 AGGTTGAGGCCGCAACGGCGAAC-CTGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAA
* * **
11370552 CGGTGAATCCGGTACCATGAAGATACGAAGGGAA
65 CGGCGAATCCGGTACCATAAAGATGTGAAGGGAA
* * * *
11370586 AGGTTGAGGCCGTAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAAAGG-TTGAGGTCGTA
1 AGGTTGAGGCCGCAACGGCGAACCTG-TACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCA
* ** * * ** *
11370650 ACGGGGAATCTAGTACCTTAAAAACATGACGGGAA
64 ACGGCGAATCCGGTACCATAAAGATGTGAAGGGAA
* *
11370685 AGATTGAGGCCGCAACAGCGA
1 AGGTTGAGGCCGCAACGGCGA
11370706 GTCTTAAACC
Statistics
Matches: 488, Mismatches: 100, Indels: 49
0.77 0.16 0.08
Matches are distributed among these distances:
96 25 0.05
97 22 0.05
98 117 0.24
99 255 0.52
100 67 0.14
101 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.18
Consensus pattern (98 bp):
AGGTTGAGGCCGCAACGGCGAACCTGTACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGCAAC
GGCGAATCCGGTACCATAAAGATGTGAAGGGAA
Found at i:11370583 original size:295 final size:295
Alignment explanation
Indices: 11369996--11370705 Score: 842
Period size: 295 Copynumber: 2.4 Consensus size: 295
11369986 TATCCTACAG
* * *** *
11369996 GTTGAGGCCGCAACGGTGAACCTGGTACCTTAGAAGATGTGATGGGAAAGGATGAGGTCGCGACG
1 GTTGAGGCCGCAACGGAGAACCT-GTACCTTAGAAGATGTGATGGGAAAGGTTGAAACCGCAACG
* * *
11370061 GCGAACCTAGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCTGCAACGGCGAACCCAGTACTA
65 GCGAAACTAGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACTA
* *
11370126 TGAAGATACGAAGAGAAAAGTTGAGGCCGCAACGGCAAATCGGGTACCATGAAGATTTGAAGAGA
130 TGAAGATACGAAGAGAAAAGTTGAGGCCGCAACGGCAAACCCGGTACCATGAAGA-TTGAAGAGA
* * * *
11370191 AAGGTTGAGGCTGCAACGGTGAACCCTGTACCTTAAAATATGTGATGGGAAGGATTGAGGCCACA
194 AAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACA
*
11370256 ACGGCGAATCCGGTACCATAAAGATGCGAAGGGAAAA
259 ACGGCGAATCCGGTACCATAAAGATACGAAGGGAAAA
* * *
11370293 GTTGAGGCCGCAACGGAGAACTTAGTACCTTAGAAGATGTGATGGGAAAGGTTTAAACCGTAACG
1 GTTGAGGCCGCAACGGAGAACCT-GTACCTTAGAAGATGTGATGGGAAAGGTTGAAACCGCAACG
* * * *
11370358 G-GAAACTCGATACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGTAACAGCGAA-TCTGATA
65 GCGAAACTAG-TACCTTAGAAGATGTGATGGGAAAGG-TTGAGGCCGCAACAGCGAACCCAG-TA
* * * *
11370420 -TCATGAA-ATATGATAG-GAAAGGTTGAGGTCGCAACGGCGAACCCGGTACCATGAAGA-TGAA
127 CT-ATGAAGATACGA-AGAGAAAAGTTGAGGCCGCAACGGCAAACCCGGTACCATGAAGATTG-A
* * *
11370481 AGGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACCTTAGAAGATGTGATGGGAAGGATTGAGG
189 AGAGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGATGGGAAGGATTGAGG
* * * *
11370546 TCACAACGGTGAATCCGGTACCATGAAGATACGAAGGGAAAG
254 CCACAACGGCGAATCCGGTACCATAAAGATACGAAGGGAAAA
* * * *** *
11370588 GTTGAGGCCGTAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACG
1 GTTGAGGCCGCAACGGAGAACCTG-TACCTTAGAAGATGTGATGGGAAAGGTTGAAACCGCAACG
* * * ** * *
11370653 GGGAATCTAGTACCTTA-AAAACATGACGGGAAAGATTGAGGCCGCAACAGCGA
65 GCGAAACTAGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGA
11370706 GTCTTAAACC
Statistics
Matches: 353, Mismatches: 51, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
294 29 0.08
295 162 0.46
296 60 0.17
297 102 0.29
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.18
Consensus pattern (295 bp):
GTTGAGGCCGCAACGGAGAACCTGTACCTTAGAAGATGTGATGGGAAAGGTTGAAACCGCAACGG
CGAAACTAGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACTAT
GAAGATACGAAGAGAAAAGTTGAGGCCGCAACGGCAAACCCGGTACCATGAAGATTGAAGAGAAA
GGTTGAGGCCGCAACGGCGAACCCGGTACCTTAAAAGATGTGATGGGAAGGATTGAGGCCACAAC
GGCGAATCCGGTACCATAAAGATACGAAGGGAAAA
Found at i:11370958 original size:41 final size:41
Alignment explanation
Indices: 11370901--11370992 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 41
11370891 AAACTACATC
* *
11370901 ATTCCAACCTTTTACCCCTAATCAA-AAGGGGCAGATTGAAG
1 ATTCCAATCTTTTACCCCTAATCAAGAA-GGACAGATTGAAG
11370942 ATTCCAATCTTTTACCCCTAATCAAGAAGGACAGATTGAAG
1 ATTCCAATCTTTTACCCCTAATCAAGAAGGACAGATTGAAG
*
11370983 ATTTCAATCT
1 ATTCCAATCT
11370993 CTTATCCCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (41 bp):
ATTCCAATCTTTTACCCCTAATCAAGAAGGACAGATTGAAG
Found at i:11371033 original size:39 final size:39
Alignment explanation
Indices: 11370985--11371920 Score: 567
Period size: 39 Copynumber: 24.1 Consensus size: 39
11370975 GATTGAAGAT
*
11370985 TTCAATCTCTTATCCCGAGCCTGGGGCAGATTACAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * *
11371024 TTCGATCTCTTACCCCGAGCCTGGGGTAAATCATCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
** * * *
11371063 GCCAATCTCTTACCCCGATCATGGGGCAGATTGCAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * * * * *
11371102 TCCGATCTCTTACCCTGAGCCTAGGGTAAATCACCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
** * * * *
11371141 GCCAATCTCTTACCCCGTGCTTGGGGCAGATTGCAGTCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * * *
11371180 TTCGATCTTTTACCCCGAGCTTGGGGCAAATCACCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
** * * * *
11371219 GCCAATCTCTTACCTCAAGCCTAGGGCAGATTGCAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* ** * * * * *
11371258 TTCGATCTCTTACCTTGAGCCTGAGGCAAATCATTA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
* * * * * * *
11371297 GTCAATCTCTTACCTCGATCATGTGGTAGATTGCAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * * * *
11371336 -TCTGATTTCTTACCCTGAGCTTGAGGCAGATCATCA-TCA
1 TTC-AATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
* * *
11371375 -GCAAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCA
1 TTC-AATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * ** * *
11371414 TTCGATCTTTTACCTCGAGCCTAGTACAGATCATCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
** * *
11371453 ACCAATCTCTTACCCCGAACCTGGGGTAGATTACAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * * * * *
11371492 TTCGATCTTTTACCTCGAGCTTAGGGCAAATCATCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
** * *
11371531 GCCAATCTCTTACCCCGAGCCCGGGGCAGATCATCA-CCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCA
* * * * * *
11371570 GTCAATCACTTACCTCGAGCTTGAGGCAGATTGCAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* *
11371609 CT-AATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
*
11371647 TTCAATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* *
11371686 TTCCATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* *
11371725 TTCCATCTCTTACCCCGAGCCTGGGGCAGATCATCA-CCAA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCC-A
* * * *
11371765 TT-AATCACTTACCTCGAGCCTGGAGCAGATTGCAGCCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
* * * * *
11371803 CT-AATCTCTTACGCCGAGCCTGGGGTAAATTGA-AACCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATT-ACAGCCA
* * *
11371841 TTCGATCT-TTACTCCGAGCCTGGGGCAG-TTCATCA-TCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATT-A-CAGCCA
* * * * *
11371879 GTCAATCTCTTACCCCGATCATGGGGCAGATTGCAGTCA
1 TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
11371918 TTC
1 TTC
11371921 GAAGCAATAA
Statistics
Matches: 678, Mismatches: 192, Indels: 54
0.73 0.21 0.06
Matches are distributed among these distances:
37 3 0.00
38 107 0.16
39 547 0.81
40 21 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (39 bp):
TTCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCA
Found at i:11371080 original size:78 final size:78
Alignment explanation
Indices: 11370987--11371832 Score: 819
Period size: 78 Copynumber: 10.9 Consensus size: 78
11370977 TTGAAGATTT
* * *
11370987 CAATCTCTTATCCCGAGCCTGGGGCAGATTACAGCCATTCGATCTCTTACCCCGAGCCTGGGGTA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
11371052 AATCATCATCAGC
66 AATCATCATCAGC
* * * * * *
11371065 CAATCTCTTACCCCGATCATGGGGCAGATTGCAGCCATCCGATCTCTTACCCTGAGCCTAGGGTA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
*
11371130 AATCACCATCAGC
66 AATCATCATCAGC
* * * * *
11371143 CAATCTCTTACCCCGTGCTTGGGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGCTTGGGGCA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
*
11371208 AATCACCATCAGC
66 AATCATCATCAGC
* * * ** *
11371221 CAATCTCTTACCTCAAGCCTAGGGCAGATTGCAGCCATTCGATCTCTTACCTTGAGCCTGAGGCA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
* *
11371286 AATCATTATCAGT
66 AATCATCATCAGC
* * * * * * * * *
11371299 CAATCTCTTACCTCGATCATGTGGTAGATTGCAGCCA-TCTGATTTCTTACCCTGAGCTTGAGGC
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTC-GATCTCTTACCCCGAGCCTGGGGC
*
11371363 AGATCATCATCAGC
65 AAATCATCATCAGC
* * * * * **
11371377 AAATCTCTTACCCCGAGCCTGGGGCAGATTGCAACCATTCGATCTTTTACCTCGAGCCTAGTACA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
* *
11371442 GATCATCATCAAC
66 AATCATCATCAGC
* * * * * * *
11371455 CAATCTCTTACCCCGAACCTGGGGTAGATTACAGCCATTCGATCTTTTACCTCGAGCTTAGGGCA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
11371520 AATCATCATCAGC
66 AATCATCATCAGC
* * * * * * *
11371533 CAATCTCTTACCCCGAGCCCGGGGCAGATCAT-CA-CCAGTCAATCACTTACCTCGAGCTTGAGG
1 CAATCTCTTACCCCGAGCCTGGGGCAGAT--TGCAGCCATTCGATCTCTTACCCCGAGCCTGGGG
* *
11371596 CAGAT--TGCAGCCA-C
64 CAAATCAT-CA-TCAGC
* * * * *
11371610 TAATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATTCAATCTCTTACCCCGAGCCTGAGGCA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
* * * *
11371675 GATTA-CAGCCATTC
66 AATCATCA-TCA-GC
* * *
11371689 C-ATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATTCCATCTCTTACCCCGAGCCTGGGGCA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
* * **
11371753 GATCATCACCAAT
66 AATCATCATCAGC
* * * * * * * *
11371766 TAATCACTTACCTCGAGCCTGGAGCAGATTGCAGCCACT-AATCTCTTACGCCGAGCCTGGGGTA
1 CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
11371830 AAT
66 AAT
11371833 TGAAACCATT
Statistics
Matches: 648, Mismatches: 106, Indels: 29
0.83 0.14 0.04
Matches are distributed among these distances:
75 1 0.00
76 3 0.00
77 91 0.14
78 545 0.84
79 7 0.01
80 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (78 bp):
CAATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTCTTACCCCGAGCCTGGGGCA
AATCATCATCAGC
Found at i:11371636 original size:77 final size:78
Alignment explanation
Indices: 11371533--11371910 Score: 304
Period size: 77 Copynumber: 4.9 Consensus size: 78
11371523 CATCATCAGC
* * * *
11371533 CAATCTCTTACCCCGAGCCCGGGGCAGATCATCA-CCAGTCAATCACTTACCTCGAGCTTGAGGC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCA-CAGCCAGTCAATCACTTACCCCGAGCCTGAGGC
*
11371597 AGATTGCAGCCACT
65 AGATTACAGCCACT
* * *
11371611 -AATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATTCAATCTCTTACCCCGAGCCTGAGGCA
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACAGCCAGTCAATCACTTACCCCGAGCCTGAGGCA
*
11371675 GATTACAGCCATT
66 GATTACAGCCACT
* * * * * *
11371688 CCATCTCTTACCCCGAGCCTGAGGCAGATTACAGCCATTCCATCTCTTACCCCGAGCCTGGGGCA
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCACAGCCAGTCAATCACTTACCCCGAGCCTGAGGCA
* *
11371753 GATCATCA-CCAAT
66 GATTA-CAGCCACT
* * * ** * * * * *
11371766 TAATCACTTACCTCGAGCCTG-GAGCAGATTGCAGCCACT-AATCTCTTACGCCGAGCCTGGGGT
1 CAATCTCTTACCCCGAGCCTGAG-GCAGATCACAGCCAGTCAATCACTTACCCCGAGCCTGAGGC
* * *
11371829 AAATTGA-AACCATT
65 AGATT-ACAGCCACT
* * * * * * * * *
11371843 CGATCT-TTACTCCGAGCCTGGGGCAGTTCATCA-TCAGTCAATCTCTTACCCCGATCATGGGGC
1 CAATCTCTTACCCCGAGCCTGAGGCAGATCA-CAGCCAGTCAATCACTTACCCCGAGCCTGAGGC
11371906 AGATT
65 AGATT
11371911 GCAGTCATTC
Statistics
Matches: 250, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
76 23 0.09
77 124 0.50
78 101 0.40
79 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (78 bp):
CAATCTCTTACCCCGAGCCTGAGGCAGATCACAGCCAGTCAATCACTTACCCCGAGCCTGAGGCA
GATTACAGCCACT
Found at i:11372368 original size:6 final size:6
Alignment explanation
Indices: 11372334--11372433 Score: 53
Period size: 6 Copynumber: 16.8 Consensus size: 6
11372324 TGAACCCAAT
* * * *
11372334 TTTAAA TTTTAAA TTTTAA TTTATA -TTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * * * * *
11372381 TTTAAA CTTATT TTTGAG TTTAGA TTT-AT TTTGAA TTTAAA TTTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
11372429 TTTAA
1 TTTAA
11372434 TTAAAAGTCC
Statistics
Matches: 67, Mismatches: 22, Indels: 9
0.68 0.22 0.09
Matches are distributed among these distances:
5 10 0.15
6 45 0.67
7 12 0.18
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:11372371 original size:17 final size:17
Alignment explanation
Indices: 11372339--11372425 Score: 86
Period size: 17 Copynumber: 5.1 Consensus size: 17
11372329 CCAATTTTAA
* *
11372339 ATTTTAAATTTTAATTT
1 ATTTTAAGTTTAAATTT
*
11372356 ATATTAAGTTTAAATTT
1 ATTTTAAGTTTAAATTT
* *
11372373 ATTTTAAATTTAAACTT
1 ATTTTAAGTTTAAATTT
* *
11372390 ATTTTTGAGTTTAGATTT
1 A-TTTTAAGTTTAAATTT
11372408 ATTTTGAA-TTTAAATTT
1 ATTTT-AAGTTTAAATTT
11372425 A
1 A
11372426 AAATTTAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
17 42 0.75
18 14 0.25
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTAAGTTTAAATTT
Found at i:11372408 original size:35 final size:34
Alignment explanation
Indices: 11372339--11372421 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
11372329 CCAATTTTAA
* *
11372339 ATTTTAAATTTTAATTTATATTAAGTTTAAATTT
1 ATTTTAAATTTAAACTTATATTAAGTTTAAATTT
* * *
11372373 ATTTTAAATTTAAACTTATTTTTGAGTTTAGATTT
1 ATTTTAAATTTAAACTTA-TATTAAGTTTAAATTT
*
11372408 ATTTTGAATTTAAA
1 ATTTTAAATTTAAA
11372422 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 16 0.38
35 26 0.62
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (34 bp):
ATTTTAAATTTAAACTTATATTAAGTTTAAATTT
Found at i:11374311 original size:29 final size:30
Alignment explanation
Indices: 11374159--11374426 Score: 223
Period size: 29 Copynumber: 9.2 Consensus size: 30
11374149 CAAAAATCAT
* * * **
11374159 ATTTTGACCTCTAAACTTTTCCAAAATTGT
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
* * * *
11374189 ATTTTGACCCTTAAACTTCTCAAAAATTAT
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
* *
11374219 ATTTTTGCCCCTAAACTTC-CAAAAATTAC
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
* *
11374248 ATTTTTACCCCTAAACTTC-CAAAAATTAT
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
*
11374277 ATTTTTACCCCTAAACTTCTCCAAAATTGC
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
* * * *
11374307 ATTTTTACCTC-GAACTTCTCAAAAATCAC
1 ATTTTTACCCCTAAACTTCTCCAAAATTAC
* *
11374336 ATTTTTACCCC-AAA-TTTTCCGAAAATGA-
1 ATTTTTACCCCTAAACTTCTCC-AAAATTAC
* *
11374364 AATTTTACCTCTAAAACTT-TCCAAAATTAC
1 ATTTTTACCCCT-AAACTTCTCCAAAATTAC
* *
11374394 ATTTTAACCCC-AAAC-TCTCCGAAACTT-C
1 ATTTTTACCCCTAAACTTCTCC-AAAATTAC
11374422 ATTTT
1 ATTTT
11374427 CGACCCTTTT
Statistics
Matches: 199, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 26 0.13
29 98 0.49
30 72 0.36
31 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
ATTTTTACCCCTAAACTTCTCCAAAATTAC
Found at i:11374555 original size:14 final size:14
Alignment explanation
Indices: 11374520--11374557 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11374510 TGATTCATAA
11374520 TTCGTAT-TTTATT
1 TTCGTATATTTATT
11374533 TTC-TCATATTTATT
1 TTCGT-ATATTTATT
11374547 TTCGTATATTT
1 TTCGTATATTT
11374558 GTTCATTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.05
13 5 0.23
14 15 0.68
15 1 0.05
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (14 bp):
TTCGTATATTTATT
Found at i:11375341 original size:29 final size:26
Alignment explanation
Indices: 11375304--11375357 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11375294 AATTTTTCTC
*
11375304 TAAATTAATTTAATTTTAATTAAATTATT
1 TAAAATAA-TTAATTTT--TTAAATTATT
11375333 TAAAATAATTAATTTTTTAAATTAT
1 TAAAATAATTAATTTTTTAAATTAT
11375358 AAAAAAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
28 8 0.33
29 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAAATAATTAATTTTTTAAATTATT
Found at i:11375351 original size:17 final size:18
Alignment explanation
Indices: 11375320--11375353 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11375310 AATTTAATTT
11375320 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
11375338 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
11375354 TTATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:11375483 original size:33 final size:34
Alignment explanation
Indices: 11375418--11375504 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 34
11375408 CCCAAACCTC
*
11375418 AAGGTTCAAGGTTTGTG-TTTGAGATTTAAGGTTT
1 AAGGTTC-AGGTTTGGGTTTTGAGATTTAAGGTTT
* *
11375452 AAGGTTCGGGTTTGGGTTTTGA-ATTTGAGGTTT
1 AAGGTTCAGGTTTGGGTTTTGAGATTTAAGGTTT
*
11375485 AAGGTTTAGGTTTAGGGTTT
1 AAGGTTCAGGTTT-GGGTTT
11375505 ATAGTTTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 28 0.61
34 18 0.39
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (34 bp):
AAGGTTCAGGTTTGGGTTTTGAGATTTAAGGTTT
Found at i:11375489 original size:7 final size:7
Alignment explanation
Indices: 11375479--11375617 Score: 72
Period size: 7 Copynumber: 19.7 Consensus size: 7
11375469 TTTGAATTTG
11375479 AGGTTTA
1 AGGTTTA
11375486 AGGTTT-
1 AGGTTTA
11375492 AGGTTTA
1 AGGTTTA
*
11375499 GGGTTTA
1 AGGTTTA
* *
11375506 TAGTTTTG
1 -AGGTTTA
*
11375514 AGGATT-
1 AGGTTTA
*
11375520 AGTGTTCA
1 AG-GTTTA
11375528 A-GTTTA
1 AGGTTTA
*
11375534 TGGTTTA
1 AGGTTTA
*
11375541 AGGGTTA
1 AGGTTTA
11375548 GAGGTTATA
1 -AGGTT-TA
* *
11375557 GGGTATA
1 AGGTTTA
*
11375564 A-ATTTA
1 AGGTTTA
*
11375570 GGGTTTA
1 AGGTTTA
11375577 AGGTTTA
1 AGGTTTA
*
11375584 AGATTTAA
1 AGGTTT-A
11375592 AGGTTTA
1 AGGTTTA
*
11375599 GGGTTTTA
1 AGG-TTTA
11375607 A-GTTTA
1 AGGTTTA
11375613 AGGTT
1 AGGTT
11375618 CTATATTTTG
Statistics
Matches: 96, Mismatches: 25, Indels: 22
0.67 0.17 0.15
Matches are distributed among these distances:
6 20 0.21
7 52 0.54
8 22 0.23
9 2 0.02
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (7 bp):
AGGTTTA
Found at i:11375570 original size:22 final size:22
Alignment explanation
Indices: 11375545--11375602 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
11375535 GGTTTAAGGG
11375545 TTAGAGGTTATAGGGTATAA-AT
1 TTAGAGGTT-TAGGGTATAAGAT
* *
11375567 TTAG-GGTTTAAGGTTTAAGAT
1 TTAGAGGTTTAGGGTATAAGAT
*
11375588 TTAAAGGTTTAGGGT
1 TTAGAGGTTTAGGGT
11375603 TTTAAGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.27
21 9 0.30
22 13 0.43
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (22 bp):
TTAGAGGTTTAGGGTATAAGAT
Found at i:11375617 original size:14 final size:15
Alignment explanation
Indices: 11375573--11375617 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
11375563 AAATTTAGGG
*
11375573 TTTAAGGTTTAAGAT
1 TTTAAGGTTTAAGGT
* *
11375588 TTAAAGGTTTAGGGT
1 TTTAAGGTTTAAGGT
11375603 TTTAA-GTTTAAGGT
1 TTTAAGGTTTAAGGT
11375617 T
1 T
11375618 CTATATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (15 bp):
TTTAAGGTTTAAGGT
Found at i:11375660 original size:21 final size:22
Alignment explanation
Indices: 11375622--11375673 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
11375612 AAGGTTCTAT
* * *
11375622 ATTTTGGGTTTATCG-TTTGGG
1 ATTTTAGGTTCATCGTTTTAGG
*
11375643 ATTTTAGGTTCATGGTTTTAGG
1 ATTTTAGGTTCATCGTTTTAGG
11375665 -TTTTAGGTT
1 ATTTTAGGTT
11375674 TAGGGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.29, T:0.54
Consensus pattern (22 bp):
ATTTTAGGTTCATCGTTTTAGG
Found at i:11376500 original size:19 final size:19
Alignment explanation
Indices: 11376476--11376513 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11376466 ATATAATAAA
11376476 TAAATTGTAAAAATTACTT
1 TAAATTGTAAAAATTACTT
*
11376495 TAAATTGTATAAATTACTT
1 TAAATTGTAAAAATTACTT
11376514 AAGATTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TAAATTGTAAAAATTACTT
Found at i:11378636 original size:21 final size:21
Alignment explanation
Indices: 11378612--11378659 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
11378602 ATTTAATTTT
11378612 TTATTT-TGATATTCAAAAAAA
1 TTATTTATGATATT-AAAAAAA
*
11378633 TTATTTATTATATT-AAAAAA
1 TTATTTATGATATTAAAAAAA
11378653 -TATTTAT
1 TTATTTAT
11378660 ATTTACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
20 6 0.24
21 6 0.24
22 6 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATTTATGATATTAAAAAAA
Found at i:11378651 original size:22 final size:21
Alignment explanation
Indices: 11378612--11378652 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11378602 ATTTAATTTT
*
11378612 TTATTTTGATATTCAAAAAAA
1 TTATTTTGATATTAAAAAAAA
*
11378633 TTATTTATTATATTAAAAAA
1 TTATTT-TGATATTAAAAAA
11378653 TATTTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTATTTTGATATTAAAAAAAA
Found at i:11378662 original size:21 final size:22
Alignment explanation
Indices: 11378611--11378662 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
11378601 TATTTAATTT
*
11378611 TTTATTTTGATATTCAAAAAAA
1 TTTATATTGATATTCAAAAAAA
*
11378633 TTATTTATT-ATATT-AAAAAATA
1 TT-TATATTGATATTCAAAAAA-A
11378655 TTTATATT
1 TTTATATT
11378663 TACAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATATTGATATTCAAAAAAA
Found at i:11380905 original size:19 final size:19
Alignment explanation
Indices: 11380876--11380925 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
11380866 ATTAAGTTTT
11380876 TTTTATAATTTTTATAACAA
1 TTTT-TAATTTTTATAACAA
* *
11380896 TTTTTAA-TTTTATAATAT
1 TTTTTAATTTTTATAACAA
11380914 TTTATTAATTTT
1 TTT-TTAATTTT
11380926 ATTGTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 12 0.46
19 7 0.27
20 7 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTTATAACAA
Found at i:11380908 original size:18 final size:19
Alignment explanation
Indices: 11380885--11380927 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11380875 TTTTTATAAT
11380885 TTTTATAACAATTT-TTAA
1 TTTTATAACAATTTATTAA
* *
11380903 TTTTATAATATTTTATTAA
1 TTTTATAACAATTTATTAA
11380922 TTTTAT
1 TTTTAT
11380928 TGTTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAACAATTTATTAA
Found at i:11380926 original size:19 final size:19
Alignment explanation
Indices: 11380876--11380927 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
11380866 ATTAAGTTTT
11380876 TTTTA-TAATTTTTATAACA
1 TTTTATTAA-TTTTATAACA
* *
11380895 ATTT-TTAATTTTATAATA
1 TTTTATTAATTTTATAACA
11380913 TTTTATTAATTTTAT
1 TTTTATTAATTTTAT
11380928 TGTTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATTAATTTTATAACA
Found at i:11380935 original size:19 final size:19
Alignment explanation
Indices: 11380899--11380954 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
11380889 ATAACAATTT
*
11380899 TTAATTTTATAATATTTTA
1 TTAATTTTATTATATTTTA
* *
11380918 TTAATTTTATTGTTTTTTA
1 TTAATTTTATTATATTTTA
*
11380937 TTGAGTTTTATTA-ATTTT
1 TT-AATTTTATTATATTTT
11380955 CGCCACTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTAATTTTATTATATTTTA
Found at i:11382394 original size:180 final size:179
Alignment explanation
Indices: 11381980--11383360 Score: 2330
Period size: 180 Copynumber: 7.7 Consensus size: 179
11381970 TTTCTCAGTC
11381980 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * * * *
11382045 ATGGAATTCATTAGAGTCAGCTAGGACTATCTTTTTCGGATTTTGAGTTTAATTGAGAAACATCA
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
* * *
11382110 AGAAAACGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGATC
131 AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
*
11382159 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGGCAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
*
11382224 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACCTGAGAAACATCA
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
11382289 AGTAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
131 AG-AAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * *
11382339 GCATGTCGATTGACATCTCGTGTTGTCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
11382404 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTT-GGATTTTGAGTTTACTTGAGAAACATC
11382469 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
130 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* *
11382519 GCTTGTGGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
**
11382584 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTCAGATTTTGAGTTTACTTGAGAAACATCA
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
11382649 AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
131 AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * *
11382698 GTATGTCGATTGGCATCTTGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * *
11382763 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTCGAGTTTGCTTGAGAAACATC
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTT-GGATTTTGAGTTTACTTGAGAAACATC
*
11382828 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTC
130 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * * * *
11382878 ACTTTTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* *
11382943 GTGGAATTCATTAGTGTCAGTTGGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
11383008 AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
131 AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * *
11383057 GCATGTCGATTGGCATCTTGTGTTATCATTGCTAGGTTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
11383122 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTT-GGATTTTGAGTTTACTTGAGAAACATC
*
11383187 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTC
130 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * * * *
11383237 ACTTTTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATT
1 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * *
11383302 GTGGAATTCATTAGTGTCAGCTGGGAGTATCTTTTCTCGGATTTTGAGTTTCCTTGAGA
66 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTT-TTGGATTTTGAGTTTACTTGAGA
11383361 CTTTATTGTT
Statistics
Matches: 1130, Mismatches: 67, Indels: 9
0.94 0.06 0.01
Matches are distributed among these distances:
179 463 0.41
180 637 0.56
181 30 0.03
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (179 bp):
GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCA
AGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
Found at i:11382686 original size:359 final size:359
Alignment explanation
Indices: 11381980--11384812 Score: 4092
Period size: 359 Copynumber: 8.0 Consensus size: 359
11381970 TTTCTCAGTC
*
11381980 GCATGTAGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * *
11382045 ATGGAATTCATTAGAGTCAGCTAGGACTATC-TTTTTCGGATTTTGAGTTTAATTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
* * * *
11382109 AAGAAAACGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGATCGCATGTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
* *
11382174 TCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGGCAAGATTGTGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
* *
11382239 GTCAGCTAGGAGTATCTTTTTTGGATTTTGAGTTTACCTGAGAAACATCAAGTAAAATGAGTTTC
261 GTCAGCTAGGAGTATCTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAG-AAAATGAGTTTC
11382304 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
325 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* *
11382339 GCATGTCGATTGACATCTCGTGTTGTCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
*
11382404 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
** *
11382469 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTTGCTTGTGGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
* *
11382534 TCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTGTGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
*
11382599 GTCAGCTAGGAGTATCTTTTTCAGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
261 GTCAGCTAGGAGTATCTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
11382664 TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
326 TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* *
11382698 GTATGTCGATTGGCATCTTGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* *
11382763 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTCGAGTTTGCTTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
*
11382828 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTTTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
11382893 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
* * *
11382958 GTCAGTTGGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
261 GTCAGCTAGGAGTATCTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
11383023 TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
326 TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* *
11383057 GCATGTCGATTGGCATCTTGTGTTATCATTGCTAGGTTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
*
11383122 GTGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
*
11383187 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTTTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
11383252 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
* * ** *
11383317 GTCAGCTGGGAGTATCTTTTCTCGGATTTTGAGTTTCCTTGAG--AC-T-----TTAT-TG-TT-
261 GTCAGCTAGGAGTATCTTTT-TCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTC
* * ** * * * *
11383371 CTTG-G-CTTCAATAG-GGTT-GCAT--GTAGGCTG
325 CTTGAGACTT-TATTGTTCTTGGCTTCAATAGGGTT
* * * ** * * * ** * * *
11383401 GCATCTTGTGTTATCATTGCTAG-GCTT-T-TTTG-AATGGAAATC-ATGACA---AGATTATG-
1 GCATGTCG-ATTGGCA-T-CTCGTG-TTATCATTGCTA-GG-CTTCTTTGA-ATGGAAATCATGA
* * *
11383457 ---GA--AT---T--CATTAGGGTCAGCTAGGAGTATCTTTTTT-GGATTTTGAGTTTACTTTAG
59 CAAGATTATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAG
* * *
11383511 AAACATCAAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGATCGCATGTAG
124 AAACATCAAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAG
* * *
11383576 ATTGGCATCTCGTGTTATCATCGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTGTGGAATT
189 ATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATT
*
11383641 CATTAGTGTCAGCTAGGAGTATCTTTTTTC-GATTTTGAGTTTTCTTGAGAAACATCAAGAAAAT
254 CATTAGTGTCAGCTAGGAGTATC-TTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAAT
* *
11383705 GAGTTTCCTAGAGACTTTGTTGTTCTTGGCTTCAATAGGGTT
318 GAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
11383747 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * * * *
11383812 ATGGAATTCATTAGTGTTAGTTTGGAGTATC-TTTTTCGGATTTCGAGTTTACGTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
** *
11383876 -----AATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTTGCATGTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
* * *
11383936 TCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTGTGTAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
*
11384001 GCCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTC
261 GTCAGCTAGGAGTATC-TTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTC
*
11384066 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTC
325 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* *
11384101 GCATGT--A--GACATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAACCATGACAAGATT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* *
11384162 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTTGGATTTTGAGTTTACTTAAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
* * *
11384227 AAGAAAATGAGTTTCCTTGAGATTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
* * * * *
11384292 TCTTGTGTTATCATTGCTAGGCTTCTTTGAATGTAAATCATGACAAGATTATGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
* * * * *
11384357 GTCAGTTTGGAGTATCTTTTTCGGATTTCGAGTTTACGTGAGAAACATCAAGAAAATGAATTTCC
261 GTCAGCTAGGAGTATCTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
* * * *
11384422 TTGAGATTTTATAGTTCTTGGGTTCAATAGGGTC
326 TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
* * * * *
11384456 GTATGTAGATTGGCATCTTGTGTTATCATTGCTAGGCTTCTTTGAATGTAAATCATGACAAGCTT
1 GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
* * * * *
11384521 ATGGAATTCATTAGTGTCAGTTTGGAGTATC-TTTTTCGGATTTCGAGTTCACGTGAGAAACATC
66 ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
* *
11384585 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCA
131 AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
* * * *
11384650 TCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCTTGACAAGATTATGGAATTCATTAGT
196 TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
* *
11384715 GTCAGTTAGGAGTATCTTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTC
261 GTCAGCTAGGAGTATC-TTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTC
11384780 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGG
325 CTTGAGACTTTATTGTTCTTGGCTTCAATAGGG
11384813 GATGTTGGTA
Statistics
Matches: 2244, Mismatches: 170, Indels: 120
0.89 0.07 0.05
Matches are distributed among these distances:
330 18 0.01
331 166 0.07
332 34 0.02
333 1 0.00
337 1 0.00
338 2 0.00
339 3 0.00
340 2 0.00
341 3 0.00
342 3 0.00
343 16 0.01
344 21 0.01
345 24 0.01
346 21 0.01
347 16 0.01
348 4 0.00
349 4 0.00
350 82 0.04
351 32 0.01
352 3 0.00
353 145 0.06
354 78 0.03
355 82 0.04
356 132 0.06
357 7 0.00
358 214 0.10
359 905 0.40
360 225 0.10
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (359 bp):
GCATGTCGATTGGCATCTCGTGTTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATT
ATGGAATTCATTAGTGTCAGCTAGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATC
AAGAAAATGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTGTAGATTGGCA
TCTCGTGTTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGT
GTCAGCTAGGAGTATCTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAATGAGTTTCC
TTGAGACTTTATTGTTCTTGGCTTCAATAGGGTT
Found at i:11383473 original size:152 final size:151
Alignment explanation
Indices: 11383194--11383503 Score: 485
Period size: 152 Copynumber: 2.0 Consensus size: 151
11383184 ATCAAGAAAA
* * *
11383194 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACTTTTAGATTGGCATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACATGTAGACTGGCATCTCGTG
* * *
11383259 TTATCATTGCTAGGCTTCTTTGAACGGAAATCATGTCAAGATTGTGGAATTCATTAGTGTCAGCT
66 TTATCATTGCTAGGCTTCTTTGAACGGAAATCATGACAAGATTATGGAATTCATTAGGGTCAGCT
*
11383324 GGGAGTATCTTTTCTCGGATTT
131 AGGAGTATCTTTT-TCGGATTT
** * *
11383346 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTTGCATGTAGGCTGGCATCTTGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACATGTAGACTGGCATCTCGTG
* *
11383411 TTATCATTGCTAGGCTTTTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGGGTCAGCT
66 TTATCATTGCTAGGCTTCTTTGAACGGAAATCATGACAAGATTATGGAATTCATTAGGGTCAGCT
*
11383476 AGGAGTATCTTTTTTGGATTT
131 AGGAGTATCTTTTTCGGATTT
11383497 TGAGTTT
1 TGAGTTT
11383504 ACTTTAGAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
151 14 0.10
152 130 0.90
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (151 bp):
TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCACATGTAGACTGGCATCTCGTG
TTATCATTGCTAGGCTTCTTTGAACGGAAATCATGACAAGATTATGGAATTCATTAGGGTCAGCT
AGGAGTATCTTTTTCGGATTT
Found at i:11383646 original size:179 final size:179
Alignment explanation
Indices: 11383346--11384812 Score: 2376
Period size: 179 Copynumber: 8.2 Consensus size: 179
11383336 TCTCGGATTT
* ** *
11383346 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTTGCATGTAGGCTGGCATCTTGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* *
11383411 TTATCATTGCTAGGCTTTTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGGGTCAGCT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
*
11383476 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTTAGAAACATCAAGAAAA
131 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
*
11383525 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGATCGCATGTAGATTGGCATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* *
11383590 TTATCATCGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTGTGGAATTCATTAGTGTCAGCT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
* *
11383655 AGGAGTATCTTTTTTCGATTTTGAGTTTTCTTGAGAAACATCAAGAAAA
131 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
* * * *
11383704 TGAGTTTCCTAGAGACTTTGTTGTTCTTGGCTTCAATAGGGTTGCATGTCGATTGGCATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* *
11383769 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTTAGTT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
* * * *
11383834 TGGAGTATCTTTTTCGGATTTCGAGTTTACGTGAGAAACATC-----AA
131 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
*
11383878 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTTGCATGTAGATTGGCATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* * *
11383943 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTGTGTAATTCATTAGTGCCAGCT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
11384008 AGGAGTATCTTTTTTCGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
131 AGGAGTATCTTTTTT-GGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
11384058 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGA----CATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
*
11384119 TTATCATTGCTAGGCTTCTTTGAATGGAAACCATGACAAGATTATGGAATTCATTAGTGTCAGCT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
*
11384184 AGGAGTATCTTTTTTTGGATTTTGAGTTTACTTAAGAAACATCAAGAAAA
131 AGGAGTATC-TTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
* *
11384234 TGAGTTTCCTTGAGATTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTTGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* *
11384299 TTATCATTGCTAGGCTTCTTTGAATGTAAATCATGACAAGATTATGGAATTCATTAGTGTCAGTT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
* * * *
11384364 TGGAGTATCTTTTTCGGATTTCGAGTTTACGTGAGAAACATCAAGAAAA
131 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
* * * * * *
11384413 TGAATTTCCTTGAGATTTTATAGTTCTTGGGTTCAATAGGGTCGTATGTAGATTGGCATCTTGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* * *
11384478 TTATCATTGCTAGGCTTCTTTGAATGTAAATCATGACAAGCTTATGGAATTCATTAGTGTCAGTT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
* * * * *
11384543 TGGAGTATCTTTTTCGGATTTCGAGTTCACGTGAGAAACATCAAGAAAA
131 AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
11384592 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
* *
11384657 TTATCATTGCTAGGCTTCTTTGAATGGAAATCTTGACAAGATTATGGAATTCATTAGTGTCAGTT
66 TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
11384722 AGGAGTATCTTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
131 AGGAGTATC-TTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
11384772 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGG
1 TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGG
11384813 GATGTTGGTA
Statistics
Matches: 1201, Mismatches: 75, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
174 137 0.11
175 25 0.02
176 163 0.14
177 6 0.00
179 662 0.55
180 208 0.17
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (179 bp):
TGAGTTTCCTTGAGACTTTATTGTTCTTGGCTTCAATAGGGTCGCATGTAGATTGGCATCTCGTG
TTATCATTGCTAGGCTTCTTTGAATGGAAATCATGACAAGATTATGGAATTCATTAGTGTCAGCT
AGGAGTATCTTTTTTGGATTTTGAGTTTACTTGAGAAACATCAAGAAAA
Found at i:11390558 original size:40 final size:40
Alignment explanation
Indices: 11390503--11390588 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
11390493 GGACCATTGC
*
11390503 TTATGTGGTGAGAATGGTCTATCTAATAATTTCTCGCTTA
1 TTATATGGTGAGAATGGTCTATCTAATAATTTCTCGCTTA
*
11390543 TTATATGGTGGGAATGGTCTATCTAATAATTTCTCGCTTA
1 TTATATGGTGAGAATGGTCTATCTAATAATTTCTCGCTTA
11390583 TTATAT
1 TTATAT
11390589 TATGCGGAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.44
Consensus pattern (40 bp):
TTATATGGTGAGAATGGTCTATCTAATAATTTCTCGCTTA
Found at i:11395937 original size:36 final size:36
Alignment explanation
Indices: 11395886--11396010 Score: 189
Period size: 36 Copynumber: 3.5 Consensus size: 36
11395876 CATTATGCTT
* * *
11395886 TAATCGAGACATAAGCAATCACATAACCTTACGCTC
1 TAATCGAGACGTAAGCAATCACATAGCCTTACACTC
*
11395922 TAATCGAGACGTAAGCAATCACATAGCCTTACCCTC
1 TAATCGAGACGTAAGCAATCACATAGCCTTACACTC
*
11395958 TAATTGAGACGTAAGCAATCACATAGCCTTACACTC
1 TAATCGAGACGTAAGCAATCACATAGCCTTACACTC
11395994 TAA-CTGAGACGTAAGCA
1 TAATC-GAGACGTAAGCA
11396011 TTCCAAAGCG
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 82 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.22
Consensus pattern (36 bp):
TAATCGAGACGTAAGCAATCACATAGCCTTACACTC
Found at i:11401581 original size:17 final size:17
Alignment explanation
Indices: 11401555--11401590 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11401545 ATTCTTTTTA
*
11401555 TTATATTAATAAATATT
1 TTATAGTAATAAATATT
*
11401572 TTATAGTAATTAATATT
1 TTATAGTAATAAATATT
11401589 TT
1 TT
11401591 TTAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATAGTAATAAATATT
Found at i:11402497 original size:18 final size:16
Alignment explanation
Indices: 11402461--11402503 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
11402451 GTTTTAAGTT
11402461 TATAATATTTTATAATA
1 TATAAT-TTTTATAATA
*
11402478 TATTATTTTTATATATTA
1 TATAATTTTTATA-A-TA
11402496 TATAATTT
1 TATAATTT
11402504 AAAACACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATAATTTTTATAATA
Found at i:11407418 original size:57 final size:55
Alignment explanation
Indices: 11407316--11407451 Score: 125
Period size: 57 Copynumber: 2.4 Consensus size: 55
11407306 ATTTTTCAGG
* * * * *
11407316 TCATTT-T-CATTTTCATTCTCATTTTGGAGAGAACCAATTTTATTTCTAAATGATT
1 TCATTTCTCCATTTACATTTTCATTTTGGAGAAAACCAA-TTCATTTCCAAATG-TT
11407371 TCATTTCTCCATTTACATTTTCATTTTGGAGAAAACCTTAA-TCATTTCCAAATGTT
1 TCATTTCTCCATTTACATTTTCATTTTGGAGAAAACC--AATTCATTTCCAAATGTT
*
11407427 TGATATTTCTCCATTTTACAATTTT
1 T--CATTTCTCCA-TTTAC-ATTTT
11407452 TGTTCATTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
55 6 0.09
56 4 0.06
57 36 0.54
58 9 0.13
59 7 0.10
60 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (55 bp):
TCATTTCTCCATTTACATTTTCATTTTGGAGAAAACCAATTCATTTCCAAATGTT
Found at i:11408162 original size:308 final size:308
Alignment explanation
Indices: 11407600--11408216 Score: 912
Period size: 308 Copynumber: 2.0 Consensus size: 308
11407590 ACGAAGTAAT
*
11407600 TCCACTATAGTATCGTGACTAAGCTCTCCCCAACGGTATACCATTACGAAATCAACTCAATTAGT
1 TCCACTATAGTATCGTGACTAAGCTCTCCCCAACGGTATACCATTACGAAAGCAACTCAATTAGT
*
11407665 GCTCGTCCAATGACCTTTTCATAAGTGTGTTACCCTCATAGGATATCCTTAATCTCTTTGAGATA
66 GCTCATCCAATGACCTTTTCATAAGTGTGTTACCCTCATAGGATATCCTTAATCTCTTTGAGATA
* * * * *
11407730 ATATTCGTTCTCCCAATATGATCCGATTTTATCTCATGGTAACCATTATATCTTCTTTCATGAAA
131 ATATTCGTTCTACCAATATGATCCGATTTTATCTCATGCTAACCATTACATATTCCTTCATGAAA
* * * *
11407795 AGTCAACCACTATCAAATAGTGATCAAGTCATCCATCACAAAGACGAATGACTCGTGGCCCCGTT
196 AGTCAACCACTATCAAATAGTGATCAAGTCATCCATCACAAAGACAAATGACCCGTGGCCACATT
* * * * *
11407860 TACTTTTCATCAACTATGTACTTCCACTAAGAGAATATCATTTACCCA
261 TACTTTCCATCAACCATGTAATGCCAATAAGAGAATATCATTTACCCA
* * *
11407908 TCCACTATAGTATCGTGACTAAGCTCTCTCCAACGGTATACCATTATGAAAGCAACTCGATTAGT
1 TCCACTATAGTATCGTGACTAAGCTCTCCCCAACGGTATACCATTACGAAAGCAACTCAATTAGT
* * * ** *
11407973 GTTCATCTAATGA-TTTTGTCATAAGTGTGTTACCCTCATAGGATATTTTTAATCTCTTTGGGAT
66 GCTCATCCAATGACCTTT-TCATAAGTGTGTTACCCTCATAGGATATCCTTAATCTCTTTGAGAT
* * *
11408037 AATATTCGTTCTACTAATATGATTCTATTTTATCTCATGCTAACCATTACATATTCCTTCATGAA
130 AATATTCGTTCTACCAATATGATCCGATTTTATCTCATGCTAACCATTACATATTCCTTCATGAA
* * * *
11408102 AATTCAATCACTATCAAATAGTGATCAAGTCATCTATCACAAAGACAAATGACCCGTGGCCATAT
195 AAGTCAACCACTATCAAATAGTGATCAAGTCATCCATCACAAAGACAAATGACCCGTGGCCACAT
* *
11408167 TTACTTTCCATCAACCATGTAATGCCAATGAGAGGATATCATTTACCCA
260 TTACTTTCCATCAACCATGTAATGCCAATAAGAGAATATCATTTACCCA
11408216 T
1 T
11408217 GTCTCGAGCA
Statistics
Matches: 274, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
307 3 0.01
308 271 0.99
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (308 bp):
TCCACTATAGTATCGTGACTAAGCTCTCCCCAACGGTATACCATTACGAAAGCAACTCAATTAGT
GCTCATCCAATGACCTTTTCATAAGTGTGTTACCCTCATAGGATATCCTTAATCTCTTTGAGATA
ATATTCGTTCTACCAATATGATCCGATTTTATCTCATGCTAACCATTACATATTCCTTCATGAAA
AGTCAACCACTATCAAATAGTGATCAAGTCATCCATCACAAAGACAAATGACCCGTGGCCACATT
TACTTTCCATCAACCATGTAATGCCAATAAGAGAATATCATTTACCCA
Found at i:11413552 original size:20 final size:20
Alignment explanation
Indices: 11413515--11413552 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11413505 CATTATTAAG
*
11413515 TTTAATTAACCATTTTTAGC
1 TTTAATTAACCATATTTAGC
11413535 TTTAATTAAACC-TATTTA
1 TTTAATT-AACCATATTTA
11413553 TAACCAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAATTAACCATATTTAGC
Found at i:11416141 original size:11 final size:11
Alignment explanation
Indices: 11416125--11416166 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
11416115 CAAGTCAAAT
*
11416125 CGTTGACCGGC
1 CGTTGACCGAC
11416136 CGTTGACCGAC
1 CGTTGACCGAC
* *
11416147 AGTTGATCGAC
1 CGTTGACCGAC
11416158 CGTTGACCG
1 CGTTGACCG
11416167 TTGACTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (11 bp):
CGTTGACCGAC
Found at i:11416854 original size:2 final size:2
Alignment explanation
Indices: 11416847--11416884 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11416837 GAGGCAAAAC
11416847 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
11416885 GATAATCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11417263 original size:3 final size:3
Alignment explanation
Indices: 11417255--11417304 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11417245 TTACATCATT
11417255 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11417303 TT
1 TT
11417305 TTGGTTTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11423349 original size:13 final size:13
Alignment explanation
Indices: 11423331--11423358 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11423321 TGATCGACCG
11423331 TTGATCGTTGACT
1 TTGATCGTTGACT
11423344 TTGATCGTTGACT
1 TTGATCGTTGACT
11423357 TT
1 TT
11423359 TTCGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGATCGTTGACT
Found at i:11424420 original size:3 final size:3
Alignment explanation
Indices: 11424412--11424446 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11424402 TTACATCATT
*
11424412 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11424447 TTGGTTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11428087 original size:33 final size:33
Alignment explanation
Indices: 11428029--11428112 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
11428019 GTAGTCCGCA
* * * **
11428029 GGGATAATAAACACAAAATAAAGGTAATCTGTT
1 GGGATAGTAAACACAGAACAAAGGTAATCCATT
* *
11428062 GGGATAGTAAACACAGAACAGAGGTAGTCCATT
1 GGGATAGTAAACACAGAACAAAGGTAATCCATT
* *
11428095 GGGACAGTAAACATAGAA
1 GGGATAGTAAACACAGAA
11428113 TAGATAATCC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (33 bp):
GGGATAGTAAACACAGAACAAAGGTAATCCATT
Found at i:11428132 original size:31 final size:32
Alignment explanation
Indices: 11428061--11428145 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
11428051 GGTAATCTGT
* * * * *
11428061 TGGGATAGTAAACACAGAACAGAGGTAGTCCAT
1 TGGGACAGTAAACATAGAATAGA-GTAATCCAC
11428094 TGGGACAGTAAACATAGAATAGA-TAATCCAC
1 TGGGACAGTAAACATAGAATAGAGTAATCCAC
*
11428125 TGGGACAGAAAACATAGAATA
1 TGGGACAGTAAACATAGAATA
11428146 TATAGTTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 26 0.57
33 20 0.43
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.18
Consensus pattern (32 bp):
TGGGACAGTAAACATAGAATAGAGTAATCCAC
Found at i:11431655 original size:16 final size:15
Alignment explanation
Indices: 11431634--11431663 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11431624 TTTAATATAA
11431634 ATATAAATATTTATTT
1 ATATAAAT-TTTATTT
11431650 ATATAAATTTTATT
1 ATATAAATTTTATT
11431664 AAGATCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATAAATTTTATTT
Found at i:11431975 original size:82 final size:82
Alignment explanation
Indices: 11431845--11432292 Score: 492
Period size: 82 Copynumber: 5.5 Consensus size: 82
11431835 ATTTGTTTCA
*
11431845 GGATTTATTT-CTCGTTGTTTAACAGATTTTATTCTATTTGATTTTATTT-CAACAACGAGAATA
1 GGATTTATTTCCT-GCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCCAA-AACGAGAATA
11431908 AATAAATAAATCTGTTTAG
64 AATAAATAAATCTGTTTAG
*
11431927 GGATTTATTTCCTGCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCCAAAACGAGAATAAG
1 GGATTTATTTCCTGCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCCAAAACGAGAATAAA
* *
11431992 TAAATAAATTTGTTTCG
66 TAAATAAATCTGTTTAG
** *
11432009 GGATTTATTATCC-GCCATTTAACAGGTTTTATTCTATTTGATTTTATTTCCAAAACGAGAATAA
1 GGATTTATT-TCCTGCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCCAAAACGAGAATAA
*
11432073 GA-AAATAAATTTGTTTCA-
65 -ATAAATAAATCTGTTT-AG
* *
11432091 GGATTTATCT-CTCGCTGTTTAATAGATTTTATTCTATTTGATTTTATTTCCAAAAACGAGAATA
1 GGATTTATTTCCT-GCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCC-AAAACGAGAATA
* *
11432155 AGTAAATAAATCTGTTTTG
64 AATAAATAAATCTGTTTAG
* *
11432174 GGATTTA-TTCCTG-TCGTTTAACAGATTTTATT-TCATTTTGATTTTGTTTTCAAATA--A-AA
1 GGATTTATTTCCTGCT-GTTTAACAGATTTTATTCT-A-TTTGATTTTATTTCCAAA-ACGAGAA
* * * *
11432233 TAAGTTAACTAAATTTGTTTCG
62 TAA-ATAAATAAATCTGTTTAG
* * *
11432255 GGATTTA-TTCCCG-TCGATTAACAGATTATATTCTATTT
1 GGATTTATTTCCTGCT-GTTTAACAGATTTTATTCTATTT
11432293 TTGGATTTTA
Statistics
Matches: 321, Mismatches: 28, Indels: 36
0.83 0.07 0.09
Matches are distributed among these distances:
80 9 0.03
81 48 0.15
82 207 0.64
83 57 0.18
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (82 bp):
GGATTTATTTCCTGCTGTTTAACAGATTTTATTCTATTTGATTTTATTTCCAAAACGAGAATAAA
TAAATAAATCTGTTTAG
Found at i:11432072 original size:164 final size:164
Alignment explanation
Indices: 11431830--11432292 Score: 574
Period size: 164 Copynumber: 2.8 Consensus size: 164
11431820 TAAATTTGGA
* *
11431830 AAAT-AATTTGTTTCAGGATTTATTTCTCGTTGTTTAACAGATTTTATTCTATTTGATTTTATTT
1 AAATAAATTTGTTTCGGGATTTATTTC-CGTCGTTTAACAGATTTTATTCTATTTGATTTTATTT
*
11431894 CAACAACGAGAATAA-ATAAATAAATCTGTTTAGGGATTTATTTCCTGCTGTTTAACAGATTTTA
65 CAA-AACGAGAATAAGATAAATAAATTTGTTTAGGGATTTATTTCCTGCTGTTTAACAGATTTTA
11431958 TTCTATTTGATTTTATTTCC-AAAACGAGAATAAGT
129 TTCTATTTGATTTTATTTCCAAAAACGAGAATAAGT
* * *
11431993 AAATAAATTTGTTTCGGGATTTATTATCCGCCATTTAACAGGTTTTATTCTATTTGATTTTATTT
1 AAATAAATTTGTTTCGGGATTTATT-TCCGTCGTTTAACAGATTTTATTCTATTTGATTTTATTT
* *
11432058 CCAAAACGAGAATAAGA-AAATAAATTTGTTTCA-GGATTTATCT-CTCGCTGTTTAATAGATTT
65 -CAAAACGAGAATAAGATAAATAAATTTGTTT-AGGGATTTATTTCCT-GCTGTTTAACAGATTT
11432120 TATTCTATTTGATTTTATTTCCAAAAACGAGAATAAGT
127 TATTCTATTTGATTTTATTTCCAAAAACGAGAATAAGT
* * *
11432158 AAATAAATCTGTTTTGGGATTTA-TTCCTGTCGTTTAACAGATTTTATT-TCATTTTGATTTTGT
1 AAATAAATTTGTTTCGGGATTTATTTCC-GTCGTTTAACAGATTTTATTCT-A-TTTGATTTT-A
* * * * *
11432221 TTTCAAATA--A-AATAAGTTAACTAAATTTGTTTCGGGATTTA-TTCCCG-TCGATTAACAGAT
62 TTTCAAA-ACGAGAATAAGATAAATAAATTTGTTTAGGGATTTATTTCCTGCT-GTTTAACAGAT
*
11432281 TATATTCTATTT
125 TTTATTCTATTT
11432293 TTGGATTTTA
Statistics
Matches: 262, Mismatches: 22, Indels: 32
0.83 0.07 0.10
Matches are distributed among these distances:
162 1 0.00
163 38 0.15
164 163 0.62
165 56 0.21
166 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (164 bp):
AAATAAATTTGTTTCGGGATTTATTTCCGTCGTTTAACAGATTTTATTCTATTTGATTTTATTTC
AAAACGAGAATAAGATAAATAAATTTGTTTAGGGATTTATTTCCTGCTGTTTAACAGATTTTATT
CTATTTGATTTTATTTCCAAAAACGAGAATAAGT
Found at i:11450190 original size:17 final size:17
Alignment explanation
Indices: 11450168--11450225 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
11450158 ATTGATAGGA
11450168 TAAAATAAATATGGTTG
1 TAAAATAAATATGGTTG
*** *
11450185 TAAAATAAAT-TAAATA
1 TAAAATAAATATGGTTG
*
11450201 AAAAATTAAATATGGTTG
1 TAAAA-TAAATATGGTTG
11450219 TAAAATA
1 TAAAATA
11450226 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (17 bp):
TAAAATAAATATGGTTG
Found at i:11450269 original size:16 final size:17
Alignment explanation
Indices: 11450227--11450292 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 17
11450217 TGTAAAATAT
* *
11450227 TTAATTTTAAAATTAAAA
1 TTAAATTTAAAAAT-AAA
*
11450245 TTTAATTTAAAAATAAA
1 TTAAATTTAAAAATAAA
*
11450262 -TAAATTT-AAATTAAA
1 TTAAATTTAAAAATAAA
*
11450277 TTAATTTTAAAAATAA
1 TTAAATTTAAAAATAA
11450293 GAATAAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 7 0.18
16 12 0.31
17 9 0.23
18 11 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAAAATAAA
Found at i:11450282 original size:15 final size:16
Alignment explanation
Indices: 11450227--11450288 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 16
11450217 TGTAAAATAT
11450227 TTAATTTTAAAATTAAAA
1 TTAA-TTTAAAATT-AAA
*
11450245 TTTAATTTAAAAATAAA
1 -TTAATTTAAAATTAAA
*
11450262 TAAATTT-AAATTAAA
1 TTAATTTAAAATTAAA
11450277 TTAATTTTAAAA
1 TTAA-TTTAAAA
11450289 ATAAGAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 10 0.27
16 9 0.24
17 6 0.16
18 8 0.22
19 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAATTTAAAATTAAA
Found at i:11450641 original size:60 final size:59
Alignment explanation
Indices: 11450529--11450652 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 59
11450519 ATTTCGAAAG
* * * * *
11450529 TTTTTTTAATCAGATAAAGAAGTGTTGGTCATTAGTGTGTCAATATTAAAAAAAATTAT
1 TTTTTTTAATCAGATAAAGAAGTATTGGTCATCAGTGTGTCAACACTAAAAAAAATTAA
* *
11450588 TTTTTTTAATCAGATAAAGAGAGTATTGGTCATCAGTGTGTCAACACTCAAAAAATTTAA
1 TTTTTTTAATCAGATAAAGA-AGTATTGGTCATCAGTGTGTCAACACTAAAAAAAATTAA
11450648 TTTTT
1 TTTTT
11450653 ATCTGATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 20 0.35
60 37 0.65
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (59 bp):
TTTTTTTAATCAGATAAAGAAGTATTGGTCATCAGTGTGTCAACACTAAAAAAAATTAA
Found at i:11455433 original size:18 final size:21
Alignment explanation
Indices: 11455405--11455445 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
11455395 GTATGTTATA
11455405 TTAACAATTAA-TTAA-AATT
1 TTAACAATTAATTTAATAATT
11455424 TTAA-AATTAATTTAATAATT
1 TTAACAATTAATTTAATAATT
11455444 TT
1 TT
11455446 TAGAAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAACAATTAATTTAATAATT
Found at i:11455946 original size:18 final size:18
Alignment explanation
Indices: 11455919--11455956 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11455909 TCCTACGTGG
11455919 CAGTCCAACTAG-ATTTT
1 CAGTCCAACTAGAATTTT
*
11455936 CAGTGCCAACTTGAATTTT
1 CAGT-CCAACTAGAATTTT
11455955 CA
1 CA
11455957 AATGGAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (18 bp):
CAGTCCAACTAGAATTTT
Found at i:11457863 original size:6 final size:7
Alignment explanation
Indices: 11457842--11457867 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11457832 AGGACCGAAA
11457842 TTAATTT
1 TTAATTT
11457849 TTAATTT
1 TTAATTT
11457856 TTAATTT
1 TTAATTT
11457863 TTAAT
1 TTAAT
11457868 AGTCTATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:11460069 original size:68 final size:68
Alignment explanation
Indices: 11459958--11460155 Score: 218
Period size: 68 Copynumber: 2.9 Consensus size: 68
11459948 ATGCCAGGAT
* * * * *
11459958 AGTAAACATGGAATTATATTGTGTAAGACCATAGCTGAACTATGGCAACATATGAAGTCCACGAG
1 AGTAAACATGGGATCATATTGTGTAAGACCATAGTTGAGCTATGACAACATATGAAGTCCACGAG
11460023 AAC
66 AAC
* * * ** *
11460026 AGTAAACATGGGATCATATTGCGTAAAACCATAGTTGGGCTATGACAACATATGAAGTCTGCTAG
1 AGTAAACATGGGATCATATTGTGTAAGACCATAGTTGAGCTATGACAACATATGAAGTCCACGAG
**
11460091 GCC
66 AAC
* * * * *
11460094 AATAAACATGAGACCATATTGTGTAAGACCATA-TCTTAGCTATGACAAAATATGAAGTCCAC
1 AGTAAACATGGGATCATATTGTGTAAGACCATAGT-TGAGCTATGACAACATATGAAGTCCAC
11460156 CAAGATGGTG
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
67 1 0.01
68 105 0.99
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (68 bp):
AGTAAACATGGGATCATATTGTGTAAGACCATAGTTGAGCTATGACAACATATGAAGTCCACGAG
AAC
Found at i:11461048 original size:29 final size:29
Alignment explanation
Indices: 11460982--11461049 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
11460972 ACGCTTGCAA
* * *
11460982 AAGAGAGAAAAAAAACACAAAGGCAAAAGC
1 AAGAG-GACAAAAAACACAAAGACAAAAAC
*
11461012 AA-AAGACAAAAAACA-ACAAGACAAAAAC
1 AAGAGGACAAAAAACACA-AAGACAAAAAC
11461040 AAGAGGACAA
1 AAGAGGACAA
11461050 GCAAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 21 0.68
29 7 0.23
30 2 0.06
ACGTcount: A:0.69, C:0.15, G:0.16, T:0.00
Consensus pattern (29 bp):
AAGAGGACAAAAAACACAAAGACAAAAAC
Found at i:11461049 original size:14 final size:14
Alignment explanation
Indices: 11460992--11461041 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
11460982 AAGAGAGAAA
*
11460992 AAAAAC-ACAAAGGC
1 AAAAACAAC-AAGAC
*
11461006 AAAAGCAA-AAGAC
1 AAAAACAACAAGAC
11461019 AAAAAACAACAAGAC
1 -AAAAACAACAAGAC
11461034 AAAAACAA
1 AAAAACAA
11461042 GAGGACAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 20 0.67
15 6 0.20
ACGTcount: A:0.72, C:0.18, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAACAACAAGAC
Found at i:11462406 original size:16 final size:16
Alignment explanation
Indices: 11462387--11462421 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
11462377 CGGTTATATG
*
11462387 TATTTGTATCTTGTTA
1 TATTTGTATCTTGTCA
11462403 TATTTGTATCTTGTCA
1 TATTTGTATCTTGTCA
11462419 TAT
1 TAT
11462422 ATTATTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (16 bp):
TATTTGTATCTTGTCA
Found at i:11472487 original size:29 final size:27
Alignment explanation
Indices: 11472450--11472527 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 27
11472440 AAATTTTAAA
* *
11472450 TTTATAATAATAAAATTATACTTATTTCT
1 TTTAAAAT-ATAAAATTATACTTA-ATCT
* *
11472479 TTTAAAATATAAAAATTTTATTTAATCT
1 TTTAAAATAT-AAAATTATACTTAATCT
*
11472507 TTTAAAAATTATAAAAATATA
1 TTT-AAAA-TATAAAATTATA
11472528 AATTATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 8 0.20
29 29 0.73
30 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTAAAATATAAAATTATACTTAATCT
Found at i:11473166 original size:31 final size:32
Alignment explanation
Indices: 11473130--11473218 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
11473120 GGATGCCAAA
*
11473130 AAGTTTTAAGTACTAACTTA-AAAAAAGTGTC
1 AAGTTTTAAGTACTAAATTAGAAAAAAGTGTC
*
11473161 AAG-TTTAAGTACTAAATTAGGAAAAAGTGTC
1 AAGTTTTAAGTACTAAATTAGAAAAAAGTGTC
* * *
11473192 AA-TTTTGAGTACCAAATTGGATAAAAA
1 AAGTTTTAAGTACTAAATTAGA-AAAAA
11473219 AAGTTTAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 15 0.31
31 29 0.59
32 5 0.10
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (32 bp):
AAGTTTTAAGTACTAAATTAGAAAAAAGTGTC
Found at i:11474942 original size:21 final size:24
Alignment explanation
Indices: 11474894--11474942 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
11474884 GTATTTGATA
*
11474894 TGTAATCTTTAGAAGATATGATTT
1 TGTAATCTTTAGAAGATATGAATT
11474918 TGTAATC-TTAG-AGAT-TGAATT
1 TGTAATCTTTAGAAGATATGAATT
11474939 TGTA
1 TGTA
11474943 GATAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 4 0.17
24 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (24 bp):
TGTAATCTTTAGAAGATATGAATT
Found at i:11479813 original size:21 final size:24
Alignment explanation
Indices: 11479765--11479813 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
11479755 GTATTTGATA
*
11479765 TGTAATCTTTAGAAGATATGATTT
1 TGTAATCTTTAGAAGATATGAATT
11479789 TGTAATC-TTAG-AGAT-TGAATT
1 TGTAATCTTTAGAAGATATGAATT
11479810 TGTA
1 TGTA
11479814 GATAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 4 0.17
24 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (24 bp):
TGTAATCTTTAGAAGATATGAATT
Found at i:11487720 original size:10 final size:10
Alignment explanation
Indices: 11487705--11487729 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11487695 GATATTAAAA
11487705 TTGATGAGTT
1 TTGATGAGTT
11487715 TTGATGAGTT
1 TTGATGAGTT
11487725 TTGAT
1 TTGAT
11487730 TATTAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (10 bp):
TTGATGAGTT
Found at i:11489437 original size:79 final size:79
Alignment explanation
Indices: 11489242--11489470 Score: 235
Period size: 79 Copynumber: 2.9 Consensus size: 79
11489232 ATAAACAAAC
* * * * * * * * **
11489242 AATCATGACACCCAATGCCCAGCAGATAAACCGCAAATGTGAGCCCAGCTCTAGTTGGATT-AAC
1 AATCCTGACACCCAGTGCCTAGCGGACAAACAGCAAATGTGAGACCAACTCTAGTCAG-TTAAAC
** * *
11489306 CAACAAATATCTGTCA
65 TGAC-AATGTCCGTCA
* * * *
11489322 AATCCTGACACCCAGTGCCTAGCGGATAAACAGCAAATGTGAGCCCAATTCTAGTCAGTTAAATT
1 AATCCTGACACCCAGTGCCTAGCGGACAAACAGCAAATGTGAGACCAACTCTAGTCAGTTAAACT
11489387 GACAATGTCCGTCA
66 GACAATGTCCGTCA
* * * *
11489401 AATCCTGGCATCCAGTGCCTAGCGGACAAACCGCAAATGTGAGACCAGCTCTAGTCAGTTAAACT
1 AATCCTGACACCCAGTGCCTAGCGGACAAACAGCAAATGTGAGACCAACTCTAGTCAGTTAAACT
11489466 GACAA
66 GACAA
11489471 CATAATTTAT
Statistics
Matches: 126, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 73 0.58
80 53 0.42
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (79 bp):
AATCCTGACACCCAGTGCCTAGCGGACAAACAGCAAATGTGAGACCAACTCTAGTCAGTTAAACT
GACAATGTCCGTCA
Found at i:11491108 original size:24 final size:24
Alignment explanation
Indices: 11491074--11491205 Score: 122
Period size: 24 Copynumber: 5.5 Consensus size: 24
11491064 ATAAGTTGAG
*
11491074 CAAGCTAACGAGCATAAACGTATA
1 CAAGCTGACGAGCATAAACGTATA
* * * *
11491098 TAATCTGACGAGCATAAACGTGTG
1 CAAGCTGACGAGCATAAACGTATA
* * * *
11491122 CAAGCTAACGAGCGTAAACGTGTG
1 CAAGCTGACGAGCATAAACGTATA
*
11491146 CAAGCTGACAAG-AGTAAACGTATA
1 CAAGCTGACGAGCA-TAAACGTATA
* * * *
11491170 TAAGCTGACGAGCACAAACGTGTG
1 CAAGCTGACGAGCATAAACGTATA
11491194 CAAGCTGACGAG
1 CAAGCTGACGAG
11491206 TGTAAATATA
Statistics
Matches: 86, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 85 0.99
25 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (24 bp):
CAAGCTGACGAGCATAAACGTATA
Found at i:11491154 original size:48 final size:48
Alignment explanation
Indices: 11491073--11491211 Score: 154
Period size: 48 Copynumber: 2.9 Consensus size: 48
11491063 TATAAGTTGA
* ** * *
11491073 GCAAGCTAACGAGCATAAACGTATATAATCTGACGAGCA-TAAACGTGT
1 GCAAGCTAACGAGCATAAACGTGTGCAAGCTGACGAG-AGTAAACGTAT
* *
11491121 GCAAGCTAACGAGCGTAAACGTGTGCAAGCTGACAAGAGTAAACGTAT
1 GCAAGCTAACGAGCATAAACGTGTGCAAGCTGACGAGAGTAAACGTAT
** * * *
11491169 ATAAGCTGACGAGCACAAACGTGTGCAAGCTGACGAGTGTAAA
1 GCAAGCTAACGAGCATAAACGTGTGCAAGCTGACGAGAGTAAA
11491212 TATATATAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 75 0.99
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (48 bp):
GCAAGCTAACGAGCATAAACGTGTGCAAGCTGACGAGAGTAAACGTAT
Found at i:11491218 original size:48 final size:48
Alignment explanation
Indices: 11491123--11491221 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 48
11491113 AAACGTGTGC
** *
11491123 AAGCTAACGAGCGTAAACGTGTGCAAGCTGACAAGAGTAAACGTATAT
1 AAGCTAACGAGCACAAACGTGTGCAAGCTGACAAGAGTAAACATATAT
* * * *
11491171 AAGCTGACGAGCACAAACGTGTGCAAGCTGACGAGTGTAAATATATAT
1 AAGCTAACGAGCACAAACGTGTGCAAGCTGACAAGAGTAAACATATAT
11491219 AAG
1 AAG
11491222 TTGATAAGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (48 bp):
AAGCTAACGAGCACAAACGTGTGCAAGCTGACAAGAGTAAACATATAT
Found at i:11491236 original size:72 final size:72
Alignment explanation
Indices: 11491088--11491245 Score: 199
Period size: 72 Copynumber: 2.2 Consensus size: 72
11491078 CTAACGAGCA
* * * * *
11491088 TAAACGTATATAATCTGACGAGCATAAACGTGTGCAAGCTAACGAGCGTAAACGTGTGCAAGCTG
1 TAAACGTATATAAGCTGACGAGCACAAACGTGTGCAAGCTAACGAGCGTAAACATATACAAGCTG
*
11491153 ACAAGAG
66 ACAAGAC
* * * * *
11491160 TAAACGTATATAAGCTGACGAGCACAAACGTGTGCAAGCTGACGAGTGTAAATATATATAAGTTG
1 TAAACGTATATAAGCTGACGAGCACAAACGTGTGCAAGCTAACGAGCGTAAACATATACAAGCTG
* *
11491225 ATAAGCC
66 ACAAGAC
11491232 TAAACGTATATAAG
1 TAAACGTATATAAG
11491246 AGGTTAAGCA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (72 bp):
TAAACGTATATAAGCTGACGAGCACAAACGTGTGCAAGCTAACGAGCGTAAACATATACAAGCTG
ACAAGAC
Found at i:11491237 original size:48 final size:49
Alignment explanation
Indices: 11491136--11491238 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
11491126 CTAACGAGCG
* *
11491136 TAAACGTGTGCAAGCTGACAAGAGTAAACGTATATAAGCTGACGAGCAC
1 TAAACGTGTGCAAGCTGACAAGAGTAAACATATATAAGCTGACAAGCAC
* * * * *
11491185 -AAACGTGTGCAAGCTGACGAGTGTAAATATATATAAGTTGATAAGC-C
1 TAAACGTGTGCAAGCTGACAAGAGTAAACATATATAAGCTGACAAGCAC
11491232 TAAACGT
1 TAAACGT
11491239 ATATAAGAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (49 bp):
TAAACGTGTGCAAGCTGACAAGAGTAAACATATATAAGCTGACAAGCAC
Found at i:11495663 original size:26 final size:25
Alignment explanation
Indices: 11495614--11495676 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
11495604 CGGTAAAGCG
*
11495614 TAATTCTATCTGGGCTCATATGAGC
1 TAATTCTGTCTGGGCTCATATGAGC
* * *
11495639 TAATTCCTGTCTGGGCTCGTTTGAGT
1 TAATT-CTGTCTGGGCTCATATGAGC
11495665 TAAATTCTGTCT
1 T-AATTCTGTCT
11495677 AGGTTCGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.16
26 23 0.72
27 4 0.12
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (25 bp):
TAATTCTGTCTGGGCTCATATGAGC
Found at i:11495684 original size:26 final size:26
Alignment explanation
Indices: 11495640--11495711 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
11495630 CATATGAGCT
* * *
11495640 AATTCCTGTCTGGGCTCGTTTGAGTTA
1 AATT-CTGTCTAGGCTCGTATAAGTTA
*
11495667 AATTCTGTCTAGGTTCGTATAAGTTA
1 AATTCTGTCTAGGCTCGTATAAGTTA
* *
11495693 ATTTCTATCTAGGCTCGTA
1 AATTCTGTCTAGGCTCGTA
11495712 AGAGCTAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
AATTCTGTCTAGGCTCGTATAAGTTA
Found at i:11495733 original size:26 final size:27
Alignment explanation
Indices: 11495698--11495772 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
11495688 AGTTAATTTC
11495698 TATCTAGGCTCGTAAGAGCTAACT-TT
1 TATCTAGGCTCGTAAGAGCTAACTCTT
* *
11495724 TATTTGGGCTCGTAAGAGCTAA-TCTT
1 TATCTAGGCTCGTAAGAGCTAACTCTT
* *
11495750 TGTCTAGGCTTGTAAGAGCTAAC
1 TATCTAGGCTCGTAAGAGCTAAC
11495773 CTCTAGAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (27 bp):
TATCTAGGCTCGTAAGAGCTAACTCTT
Found at i:11496361 original size:12 final size:12
Alignment explanation
Indices: 11496346--11496377 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11496336 ACAGCCTGGA
11496346 ACACGGGCCACC
1 ACACGGGCCACC
*
11496358 ACACTGGCCACC
1 ACACGGGCCACC
11496370 ACACGGGC
1 ACACGGGC
11496378 GTGTGCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.47, G:0.25, T:0.03
Consensus pattern (12 bp):
ACACGGGCCACC
Found at i:11505905 original size:25 final size:24
Alignment explanation
Indices: 11505866--11505917 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
11505856 TAGCTCTCTG
*
11505866 TTCTTTCTTCTTTTATTTCTTTTGT
1 TTCTTTCTTCTTTTA-TTCTTTTAT
11505891 TTCTTTCTT-TCTTTATTCTTTTAT
1 TTCTTTCTTCT-TTTATTCTTTTAT
11505915 TTC
1 TTC
11505918 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (24 bp):
TTCTTTCTTCTTTTATTCTTTTAT
Found at i:11505942 original size:3 final size:3
Alignment explanation
Indices: 11505934--11505974 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
11505924 ATATATTAGT
* *
11505934 TAA TAA TAA TAA TAA TAA T-A TAA TAC TAA TTA -AA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11505975 TTATATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Done.