Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 204 of 240
Found at i:62082600 original size:46 final size:46
Alignment explanation
Indices: 62082533--62082671 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
62082523 CATGGCAAAG
*
62082533 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
*
62082579 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
** * *
62082625 TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
62082671 T
1 T
62082672 ATAGCAATGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:62092058 original size:15 final size:15
Alignment explanation
Indices: 62092038--62092067 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62092028 AGCTTACATC
62092038 ATGATTTTAAAATAT
1 ATGATTTTAAAATAT
*
62092053 ATGATTTTTAAATAT
1 ATGATTTTAAAATAT
62092068 TAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
ATGATTTTAAAATAT
Found at i:62098319 original size:80 final size:80
Alignment explanation
Indices: 62098195--62098360 Score: 323
Period size: 80 Copynumber: 2.1 Consensus size: 80
62098185 CCTACATATT
*
62098195 AATTCTTCTGCAATTTCCCAGAATTTTAATGAGCAAACAAAACAAATTCCAAAATTCACTTAAAA
1 AATTCCTCTGCAATTTCCCAGAATTTTAATGAGCAAACAAAACAAATTCCAAAATTCACTTAAAA
62098260 AATTGATGCCATCAA
66 AATTGATGCCATCAA
62098275 AATTCCTCTGCAATTTCCCAGAATTTTAATGAGCAAACAAAACAAATTCCAAAATTCACTTAAAA
1 AATTCCTCTGCAATTTCCCAGAATTTTAATGAGCAAACAAAACAAATTCCAAAATTCACTTAAAA
62098340 AATTGATGCCATCAA
66 AATTGATGCCATCAA
62098355 AATTCC
1 AATTCC
62098361 ACAAAGGAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (80 bp):
AATTCCTCTGCAATTTCCCAGAATTTTAATGAGCAAACAAAACAAATTCCAAAATTCACTTAAAA
AATTGATGCCATCAA
Found at i:62109293 original size:2 final size:2
Alignment explanation
Indices: 62109286--62109311 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62109276 GTTTAAAGTA
62109286 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
62109312 GAGAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62115441 original size:124 final size:123
Alignment explanation
Indices: 62115253--62115661 Score: 518
Period size: 124 Copynumber: 3.3 Consensus size: 123
62115243 AAACGATGCC
* * * * * *
62115253 GTTTCACTACA-GGAAGTAAGTTTTTTTAGTAGCGTTTTGATTGAAAATGCCGTAAAGGTGATAC
1 GTTTCACTACAGGGAATTAAG--TTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATAC
* * * * *
62115317 ATTAGTGGCGTTTTTTATAAACGCCGCAAAATTGCAATACCAATTCGAGTTAAACATCGTT
64 ATTAGTGGC-TTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
* * * *
62115378 GTTTCACTACA-GAACATTAAATTTTTAGTGGCATTTTGACTGAAAACGCTGCAAAGGTTATACA
1 GTTTCACTACAGGGA-ATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACA
* * *
62115442 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATTCAAATTTGACTTAAACGGT-GTT
65 TTAGTGGCTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAAC-GTCGTT
* * *
62115501 GTTTCACTACAGGGAATTAAGGTTTTAGTGGCGTTTTGACCGAAAACGCCGCAAAGGTTATACAA
1 GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACAT
* * *
62115566 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTC
66 TAGTGGC-TTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
*
62115625 GTTTCACTATAGGGAATTAAGTTTTTAGTGGCGTTTT
1 GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTT
62115662 TCATAAACGC
Statistics
Matches: 246, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
123 104 0.42
124 125 0.51
125 13 0.05
126 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (123 bp):
GTTTCACTACAGGGAATTAAGTTTTTAGTGGCGTTTTGACTGAAAACGCCGCAAAGGTTATACAT
TAGTGGCTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGTCGTT
Found at i:62115709 original size:84 final size:85
Alignment explanation
Indices: 62115566--62115745 Score: 308
Period size: 84 Copynumber: 2.1 Consensus size: 85
62115556 GGTTATACAA
62115566 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
1 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
62115631 CTATAGGGAATTAAG-TTTT
66 CTATAGGGAATTAAGTTTTT
* * * * *
62115650 TAGTGGCGTTTTTCATAAACGCCGCAAAATTGCAATGCCAATTTGACTTAAACGTCGTCGTTTCA
1 TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
62115715 CTATAGGGAATTAAGTTTTT
66 CTATAGGGAATTAAGTTTTT
62115735 TAGTGGCATTT
1 TAGTGGCATTT
62115746 GGCTTGAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 75 0.84
85 14 0.16
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (85 bp):
TAGTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCA
CTATAGGGAATTAAGTTTTT
Found at i:62115813 original size:209 final size:207
Alignment explanation
Indices: 62115442--62115833 Score: 572
Period size: 209 Copynumber: 1.9 Consensus size: 207
62115432 AGGTTATACA
* *
62115442 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATTCAAATTTGACTTAAACGGTGTTGTTTCA
1 TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATGCAAATTTGACTTAAACGGTGTCGTTTCA
*
62115507 CTACAGGGAATTAAGGTTTTAGTGGCGTTTTGACCGAAAACGCCGCAAAGGTTATACAATAGTGG
66 CTACAGGGAATTAAGGTTTTAGTGGCGATTTGACCGAAAACGCCGCAAAGGTTATACAATAGTGG
*
62115572 CATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGGCGTCGTTTCACTATAG
131 CATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTCGTTTCACTATAG
62115637 GGAATTAAGTTT
196 GGAATTAAGTTT
* * *
62115649 TTAGTGGCGTTTTTCATAAACGCCGCAAAATTGCAATGCCAATTTGACTTAAAC-GTCGTCGTTT
1 TTAGTGGC-ATTTTCATAAACGCCGCAAAATTACAATGCAAATTTGACTTAAACGGT-GTCGTTT
* * * * * * *
62115713 CACTATAGGGAATTAAGTTTTTTAGTGGC-ATTTGGCTTGAAAACGTCGCAAAGGTTATATATTA
64 CACTACAGGGAATTAAG-GTTTTAGTGGCGATTTGAC-CGAAAACGCCGCAAAGGTTATACAATA
* * * *
62115777 GTGGCGTTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGATTTAAACGACGTC
127 GTGGCATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTC
62115834 ATTTTGTTAG
Statistics
Matches: 163, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
207 10 0.06
208 68 0.42
209 85 0.52
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (207 bp):
TTAGTGGCATTTTCATAAACGCCGCAAAATTACAATGCAAATTTGACTTAAACGGTGTCGTTTCA
CTACAGGGAATTAAGGTTTTAGTGGCGATTTGACCGAAAACGCCGCAAAGGTTATACAATAGTGG
CATTTTTCATAAACGCCGCAAAAATACAATACCAATTTGACTTAAACGACGTCGTTTCACTATAG
GGAATTAAGTTT
Found at i:62116032 original size:37 final size:36
Alignment explanation
Indices: 62116013--62116097 Score: 62
Period size: 37 Copynumber: 2.3 Consensus size: 36
62116003 AGTTTATGAT
* * * *
62116013 TTAGGATTTATGATTTTTAAGGTTCAATGTTTAAGGT
1 TTAGGATTTA-GAGTTTTAAGATTCAAAGTTTAAGAT
* * * * *
62116050 TTAGGGTTTAGAGTTTTAAGGTTGAAGGTTTAGAGTT
1 TTAGGATTTAGAGTTTTAAGATTCAAAGTTTA-AGAT
*
62116087 TTAGGGTTTAG
1 TTAGGATTTAG
62116098 GATTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 19 0.45
37 23 0.55
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (36 bp):
TTAGGATTTAGAGTTTTAAGATTCAAAGTTTAAGAT
Found at i:62116070 original size:22 final size:22
Alignment explanation
Indices: 62116042--62116103 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
62116032 AGGTTCAATG
62116042 TTTAAGGTTTAGGGTTTAGAGT
1 TTTAAGGTTTAGGGTTTAGAGT
* *
62116064 TTTAAGGTTGAAGGTTTAGAGT
1 TTTAAGGTTTAGGGTTTAGAGT
* *
62116086 TTTAGGGTTTAGGATTTA
1 TTTAAGGTTTAGGGTTTA
62116104 TTTCCGTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTTAAGGTTTAGGGTTTAGAGT
Found at i:62116072 original size:15 final size:15
Alignment explanation
Indices: 62116028--62116097 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
62116018 ATTTATGATT
* *
62116028 TTTAAGGTTCA-ATG
1 TTTAAGGTTTAGAGG
62116042 TTTAAGGTTTAG-GG
1 TTTAAGGTTTAGAGG
*
62116056 TTTAGAGTTTTA-AGG
1 TTTA-AGGTTTAGAGG
* *
62116071 TTGAAGGTTTAGAGT
1 TTTAAGGTTTAGAGG
*
62116086 TTTAGGGTTTAG
1 TTTAAGGTTTAG
62116098 GATTTATTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
14 21 0.48
15 23 0.52
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.44
Consensus pattern (15 bp):
TTTAAGGTTTAGAGG
Found at i:62116890 original size:24 final size:25
Alignment explanation
Indices: 62116829--62116891 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
62116819 CGTCGACTGT
* * * *
62116829 CTCCTCTGCTGTATCGTCGTTGACC
1 CTCCTCTGCCGCATCGCCGTTGACA
*
62116854 CTCCTCTGTCGCATCGCCGTT-ACA
1 CTCCTCTGCCGCATCGCCGTTGACA
62116878 CTCCTCTGCCGCAT
1 CTCCTCTGCCGCAT
62116892 TGGCGTGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 15 0.47
25 17 0.53
ACGTcount: A:0.10, C:0.41, G:0.17, T:0.32
Consensus pattern (25 bp):
CTCCTCTGCCGCATCGCCGTTGACA
Found at i:62118175 original size:42 final size:43
Alignment explanation
Indices: 62117969--62118186 Score: 167
Period size: 43 Copynumber: 5.1 Consensus size: 43
62117959 TTAGCTTATG
* ** * * * *
62117969 TTTTTGGGAAAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCG
1 TTTTTGTGAAAAGCGTTGCTAAAGGTCATGTTCTATAGTGGCA
* **** * *
62118012 TTTGTGTG-AAAGCGCCATTAAATGTCATGTTCTTTAGTGGCA
1 TTTTTGTGAAAAGCGTTGCTAAAGGTCATGTTCTATAGTGGCA
* *
62118054 TTTATTG-GAAAAGCGTTGCTAAAGGTCATGTTCTTTAGCT-ACA
1 TTT-TTGTGAAAAGCGTTGCTAAAGGTCATGTTCTATAG-TGGCA
* * * * * *
62118097 TTTGTGTTAAAAGCGCTGCTAGAGGTTATGTTCTATAGTGGCG
1 TTTTTGTGAAAAGCGTTGCTAAAGGTCATGTTCTATAGTGGCA
*
62118140 TTTTTGTGAGAAA-CGTTGCTAAAGGTCATG-TCTATAGTGGCG
1 TTTTTGTGA-AAAGCGTTGCTAAAGGTCATGTTCTATAGTGGCA
62118182 TTTTT
1 TTTTT
62118187 CACATAAACG
Statistics
Matches: 141, Mismatches: 28, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
42 52 0.37
43 85 0.60
44 4 0.03
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (43 bp):
TTTTTGTGAAAAGCGTTGCTAAAGGTCATGTTCTATAGTGGCA
Found at i:62118196 original size:42 final size:43
Alignment explanation
Indices: 62118113--62118196 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
62118103 TTAAAAGCGC
* * ***
62118113 TGCTAGAGGTTATGTTCTATAGTGGCGTTTTTGTGAGAAACGT
1 TGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAACGT
*
62118156 TGCTAAAGGTCATG-TCTATAGTGGCGTTTTTCACATAAACG
1 TGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAACG
62118197 CCGCAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 23 0.66
43 12 0.34
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (43 bp):
TGCTAAAGGTCATGTTCTATAGTGGCGTTTTTCACAGAAACGT
Found at i:62119982 original size:25 final size:27
Alignment explanation
Indices: 62119946--62120009 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 27
62119936 TAATTTACAC
*
62119946 AATA-AAACATTTATTATT-AAATA-T
1 AATATAAATATTTATTATTAAAATATT
* *
62119970 GATATATATATTTATTATTAAAATATT
1 AATATAAATATTTATTATTAAAATATT
62119997 AATATAAATATTT
1 AATATAAATATTT
62120010 CCAATAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 5 0.16
27 12 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATATAAATATTTATTATTAAAATATT
Found at i:62123428 original size:13 final size:15
Alignment explanation
Indices: 62123410--62123441 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
62123400 AAACATTTTT
62123410 AATTAAA-TAAA-AA
1 AATTAAATTAAATAA
62123423 AATTAAATTAAATAA
1 AATTAAATTAAATAA
62123438 AATT
1 AATT
62123442 TCCCCCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 4 0.24
15 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAATTAAATAA
Found at i:62125866 original size:4 final size:4
Alignment explanation
Indices: 62125857--62125882 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62125847 AAGGGTTAAT
62125857 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
62125883 GGTTAGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:62126989 original size:15 final size:16
Alignment explanation
Indices: 62126964--62126996 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62126954 TATCCCTTTC
*
62126964 TTTATATTTTATTATA
1 TTTATATTTTATGATA
62126980 TTTA-ATTTTATGATA
1 TTTATATTTTATGATA
62126995 TT
1 TT
62126997 ATTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATATTTTATGATA
Found at i:62127709 original size:20 final size:20
Alignment explanation
Indices: 62127680--62127719 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
62127670 CCCTAGCCCT
*
62127680 GCCACTGCCACGGTCACGTC
1 GCCACCGCCACGGTCACGTC
*
62127700 GCCACCGCCATGGTCACGTC
1 GCCACCGCCACGGTCACGTC
62127720 ACTGCCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.45, G:0.25, T:0.15
Consensus pattern (20 bp):
GCCACCGCCACGGTCACGTC
Found at i:62131309 original size:27 final size:27
Alignment explanation
Indices: 62131256--62131311 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
62131246 ATATATATTC
* *
62131256 AATTATAAAAATGCAACACGCACTTTT
1 AATTATAAAAATACAACACACACTTTT
* * *
62131283 AATTATAAAAATATAACACATATTTTT
1 AATTATAAAAATACAACACACACTTTT
62131310 AA
1 AA
62131312 GCACTAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (27 bp):
AATTATAAAAATACAACACACACTTTT
Found at i:62131354 original size:15 final size:15
Alignment explanation
Indices: 62131327--62131356 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62131317 AAATAAATTT
62131327 AAATATTTAAAAAAC
1 AAATATTTAAAAAAC
62131342 AAATCATTTAAAAAA
1 AAAT-ATTTAAAAAA
62131357 ATGCGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATATTTAAAAAAC
Found at i:62133981 original size:30 final size:29
Alignment explanation
Indices: 62133945--62134014 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 29
62133935 CATATATTTA
*
62133945 ATTATAAAAATGCAATACACATTATTTTTT
1 ATTATAAAAATGCAATACACAAT-TTTTTT
* *
62133975 ATTATAAAAATGTAATACATAATTTTTTT
1 ATTATAAAAATGCAATACACAATTTTTTT
62134004 ATTATAAAAAT
1 ATTATAAAAAT
62134015 ATAACACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTATAAAAATGCAATACACAATTTTTTT
Found at i:62134002 original size:29 final size:29
Alignment explanation
Indices: 62133945--62134030 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
62133935 CATATATTTA
* * *
62133945 ATTATAAAAATGCAATACACATTATTTTTT
1 ATTATAAAAATGTAATACATAAT-TTTTTT
62133975 ATTATAAAAATGTAATACATAATTTTTTT
1 ATTATAAAAATGTAATACATAATTTTTTT
* * *
62134004 ATTATAAAAATATAACACATACTTTTT
1 ATTATAAAAATGTAATACATAATTTTT
62134031 AAGCACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 30 0.60
30 20 0.40
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTATAAAAATGTAATACATAATTTTTTT
Found at i:62135948 original size:32 final size:32
Alignment explanation
Indices: 62135911--62135973 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
62135901 GAATTTGAAT
* *
62135911 TTCGAGGTAA-TCGAATCAAGTTATTTGAGTTA
1 TTCGAGGTAACTCGAAT-AAATAATTTGAGTTA
*
62135943 TTCGAGTTAACTCGAATAAATAATTTGAGTT
1 TTCGAGGTAACTCGAATAAATAATTTGAGTT
62135974 CCGAGTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (32 bp):
TTCGAGGTAACTCGAATAAATAATTTGAGTTA
Found at i:62136142 original size:19 final size:20
Alignment explanation
Indices: 62136113--62136151 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62136103 ATAACAAAAA
62136113 CAAAATAATTT-TCAAAAATT
1 CAAAATAATTTAT-AAAAATT
62136133 CAAAAT-ATTTATAAAAATT
1 CAAAATAATTTATAAAAATT
62136152 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAATAATTTATAAAAATT
Found at i:62136165 original size:17 final size:18
Alignment explanation
Indices: 62136126--62136177 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
62136116 AATAATTTTC
* * *
62136126 AAAAATTCAAAATATTTAT
1 AAAAATT-ATAATTTTTAA
62136145 AAAAATTAT-ATTTTTAA
1 AAAAATTATAATTTTTAA
62136162 AAAAATTATAATTTTT
1 AAAAATTATAATTTTT
62136178 TATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.52
18 7 0.24
19 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTATAATTTTTAA
Found at i:62137964 original size:40 final size:39
Alignment explanation
Indices: 62137842--62137966 Score: 110
Period size: 40 Copynumber: 3.2 Consensus size: 39
62137832 TCGATGAGAC
* *
62137842 ACTGGGTGTCAAATTATTACTTCGGATAAATTCGATAAGGT
1 ACTGGGTGTC-AATTATTACTTCGGAT-TATCCGATAAGGT
** * * * **
62137883 ACTGGGTACCAA-T-TTACTTCGGTTTAGCCGATGAGAC
1 ACTGGGTGTCAATTATTACTTCGGATTATCCGATAAGGT
* *
62137920 ACTGGGTGTCAACTTATTGCTTCGAATTATCCGATAAGGT
1 ACTGGGTGTCAA-TTATTACTTCGGATTATCCGATAAGGT
62137960 ACTGGGT
1 ACTGGGT
62137967 ACTAAATTGG
Statistics
Matches: 63, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
37 17 0.27
38 10 0.16
39 2 0.03
40 26 0.41
41 8 0.13
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
ACTGGGTGTCAATTATTACTTCGGATTATCCGATAAGGT
Found at i:62138168 original size:15 final size:16
Alignment explanation
Indices: 62138143--62138175 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62138133 TATCCCTTTC
*
62138143 TTTATATTTTATTATA
1 TTTATATTTTATGATA
62138159 TTTA-ATTTTATGATA
1 TTTATATTTTATGATA
62138174 TT
1 TT
62138176 ATTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATATTTTATGATA
Found at i:62139114 original size:113 final size:113
Alignment explanation
Indices: 62138865--62139159 Score: 296
Period size: 112 Copynumber: 2.6 Consensus size: 113
62138855 TTACCATCCT
* *
62138865 GCGCCGCAAAATCTCA-AGACCAAAACGCATCGTTTTTGTCTTGATGTATACTAGAATTAGTGGC
1 GCGCCGCAAAATAT-ATA-ACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGC
* * ** * * ** **
62138929 GATTATGAGCAAACGCCGCTAAAGCAAGTATTAGTGGCGCATTGTGGGAA
64 GCTTATCAAAAAACGCCACTAAAACAAGTATTAGTGGCGCATTACGAAAA
* * * *
62138979 GCGCCGCAAAA-A-ACTCCACAAAAACGCATCGTTTTGGTAC-CGATGTATATTAGAATTAGTGG
1 GCGCCGCAAAATATA-T-AACCAAAACGCATCGTTTTGGT-CTTGATGTATACTAGAATTAGTGG
*
62139041 CGCTTA-CAAAAAACGCCACTAAAACAAGTCTTAGTGGCGC-TTACGAAAA
63 CGCTTATCAAAAAACGCCACTAAAACAAGTATTAGTGGCGCATTACGAAAA
** * * *
62139090 GCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATAGTAGAATTAGTGGTG
1 GCGCCGCAAAATAT-ATAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
62139155 CTTAT
65 CTTAT
62139160 TAGAAGTGCC
Statistics
Matches: 147, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
111 18 0.12
112 71 0.48
113 45 0.31
114 13 0.09
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (113 bp):
GCGCCGCAAAATATATAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGC
TTATCAAAAAACGCCACTAAAACAAGTATTAGTGGCGCATTACGAAAA
Found at i:62139246 original size:75 final size:75
Alignment explanation
Indices: 62139071--62139246 Score: 210
Period size: 75 Copynumber: 2.3 Consensus size: 75
62139061 AAAACAAGTC
* * * *
62139071 TTAGTGGCGCTTACGAAAAGCGCCGCAAAATATGATAACCAAAACGCAGAGTTTTGATCTTGATG
1 TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
* *
62139136 TATAGTAGAA
66 TATAATACAA
** * * * * *
62139146 TTAGTGGTGCTTATTAGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGCGTTTTGGTCTTGATG
1 TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
62139211 TATAATACAA
66 TATAATACAA
*
62139221 TTAGTGGTG-TTAGGGAAAAACGCCGC
1 TTAGTGGTGCTTA-GGAAAAGCGCCGC
62139247 TAAAGCATAA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 3 0.04
75 80 0.96
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (75 bp):
TTAGTGGTGCTTAGGAAAAGCGCCGCAAAAAATCATAACCAAAACGCAGAGTTTTGATCTTGATG
TATAATACAA
Found at i:62139509 original size:115 final size:114
Alignment explanation
Indices: 62139161--62139777 Score: 581
Period size: 115 Copynumber: 5.4 Consensus size: 114
62139151 GGTGCTTATT
* * * *
62139161 AGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATAATACAATTAGT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* ** * *
62139226 GGTG-TTA-GGGAAAAACGCCGCTAAAGCATAAC-ATTAGCGGCGATTTTTT
66 GGCGCTTACTAG-AAAACGCCGCTAAAGCAT-ACTATTAGCGGCG-CTTTTG
* * *
62139275 AGAAGCGCCGCAAAATATCTTAACCAAAAAGCAGAC--TTTGATCTTGAAGTATACTAGAATTAG
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAG-CGTTTTGGTCTTGATGTATACTAGAATTAG
*** ** * *
62139338 TGGCGAAAACTA-AAAACGCCGCTAAAGTGTACTATTAGCGGGGCGTTTAG
65 TGGCGCTTACTAGAAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
* * * *
62139388 AGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTAGT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* ** * *
62139453 GGCGCTTACTAGAAAACACCGCTAAATAATAGTATTAGCGGCGCTTTGCG
66 GGCGCTTACTAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCTTT-TG
* * * * * *
62139503 ATAAGCGCCGCAAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTTGAGGTGTATTAGAATTA
1 AGAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTA
* * *
62139565 GTGGCGCTTA-TGGAAAAACGCTGCTAAAGCATACTATTAGCGGCGCGTTTTT
64 GTGGCGCTTACTAG-AAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
* * * * ** * *
62139617 AGAAGCGCTGCAAAATATATTAACTAAAACGCTGCGTTTAAGTCTTGATGTATACTGGAATTAGC
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
* * * ** *
62139682 GGCGCTCACGAGAAATCGGTGCTAAAGCATATTATTAGCGGCGCTTTTTG
66 GGCGCTTACTAGAAAACGCCGCTAAAGCATACTATTAGCGGCGC-TTTTG
*
62139732 GGAAGCGCCGCAAAATATCTTAACCAAAACGCA-CAGTTTTGGTCTT
1 AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGC-GTTTTGGTCTT
62139778 AACCATGCAT
Statistics
Matches: 403, Mismatches: 82, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
112 3 0.01
113 87 0.22
114 155 0.38
115 156 0.39
116 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (114 bp):
AGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGT
GGCGCTTACTAGAAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTG
Found at i:62139623 original size:114 final size:113
Alignment explanation
Indices: 62139145--62139777 Score: 537
Period size: 114 Copynumber: 5.5 Consensus size: 113
62139135 GTATAGTAGA
* * * * * *
62139145 ATTAGTGGTGCTTATTAGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGCGTTTTGGTCTTGAT
1 ATTAGCGGCGCTTTTTAGAAGCGCCGCAAAATATC-TAACCAAAACGCAGAGTTTTGGTCTTGAT
* * * *
62139210 GTATAATACAATTAGTGGTG-TTAGGGAAAAACGCCGCTAAAGCATAAC-
65 GTATACTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTAAAGCAT-ACT
* * * *
62139258 ATTAGCGGCGATTTTTTAGAAGCGCCGCAAAATATCTTAACCAAAAAGCAGA-CTTTGATCTTGA
1 ATTAGCGGCG-CTTTTTAGAAGCGCCGCAAAATATC-TAACCAAAACGCAGAGTTTTGGTCTTGA
* *** **
62139322 AGTATACTAGAATTAGTGGCGAAAACT--AAAAACGCCGCTAAAGTGTACT
64 TGTATACTAGAATTAGTGGCGCTTA-TGGAAAAACGCCGCTAAAGCATACT
* ** * * * *
62139371 ATTAGCGGGGCGTTTAGAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGA
1 ATTAGCGGCGC-TTTTTAGAAGCGCCGCAAAATATC-TAACCAAAACGCAGAGTTTTGGTCTTGA
* * * ** *
62139436 TGTATACTATAATTAGTGGCGCTTACTAG-AAAACACCGCTAAATAATAGT
64 TGTATACTAGAATTAGTGGCGCTTA-TGGAAAAACGCCGCTAAAGCATACT
** * *
62139486 ATTAGCGGCGCTTTGCGATAAGCGCCGCAAGATATGC-ACACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTT-TTAGAAGCGCCGCAAAATAT-CTA-ACCAAAACGCAGAGTTTTGGTCTTG
* * * *
62139549 AGGTGTATTAGAATTAGTGGCGCTTATGGAAAAACGCTGCTAAAGCATACT
63 ATGTATACTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTAAAGCATACT
* * * * * **
62139600 ATTAGCGGCGCGTTTTTAGAAGCGCTGCAAAATATATTAACTAAAACGCTGCGTTTAAGTCTTGA
1 ATTAGCGGCGC-TTTTTAGAAGCGCCGCAAAATAT-CTAACCAAAACGCAGAGTTTTGGTCTTGA
* * * * * ** *
62139665 TGTATACTGGAATTAGCGGCGCTCA-CGAGAAATCGGTGCTAAAGCATATT
64 TGTATACTAGAATTAGTGGCGCTTATGGA-AAAACGCCGCTAAAGCATACT
* *
62139715 ATTAGCGGCGCTTTTTGGGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTT
1 ATTAGCGGCGCTTTTT-AGAAGCGCCGCAAAATATC-TAACCAAAACGCAGAGTTTTGGTCTT
62139778 AACCATGCAT
Statistics
Matches: 413, Mismatches: 89, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
112 2 0.00
113 96 0.23
114 164 0.40
115 150 0.36
116 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (113 bp):
ATTAGCGGCGCTTTTTAGAAGCGCCGCAAAATATCTAACCAAAACGCAGAGTTTTGGTCTTGATG
TATACTAGAATTAGTGGCGCTTATGGAAAAACGCCGCTAAAGCATACT
Found at i:62139672 original size:229 final size:227
Alignment explanation
Indices: 62139159--62139777 Score: 670
Period size: 229 Copynumber: 2.7 Consensus size: 227
62139149 GTGGTGCTTA
* * *
62139159 TTAGAAGTGCCGCAAAAAATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATAATACAATTA
1 TTAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTACAATTA
* * * * *
62139224 GTGGTG-TTA-GGGAAAAACGCCGCTAAAGCATAACATTAGCGGCGATTTTTTAGAAGCGCCGCA
66 GTGGCGCTTACGAG-AAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCA
* * *
62139287 AAATATCTTAACCAAAAAGCAGACTTTGATCTTGAAGTATACTAGAATTAGTGGCGAAAACTAAA
130 AAATATC-TAACCAAAACGCAGAGTTTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACTAAA
** *
62139352 AACGCCGCTAAAGTGTACTATTAGCGGGGCGTTT
194 AACGCCGCTAAAGCATACTATTAGCGGCGCGTTT
** * * * *
62139386 AGAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAATTA
1 TTAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTACAATTA
* * ** * ** *
62139451 GTGGCGCTTACTAGAAAACACCGCTAAATAATAGTATTAGCGGCGCTTTGCGATAAGCGCCGCAA
66 GTGGCGCTTACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAA
* * * * ***
62139516 GATATGC-ACACCAAAACGCAGAGTTTGGTCTTGAGGTGTATTAGAATTAGTGGCGCTTA-TGGA
131 AATAT-CTA-ACCAAAACGCAGAGTTTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACT--A
*
62139579 AAAACGCTGCTAAAGCATACTATTAGCGGCGCGTTT
192 AAAACGCCGCTAAAGCATACTATTAGCGGCGCGTTT
* * * * ** **
62139615 TTAGAAGCGCTGCAAAATATATTAACTAAAACGCTGCGTTTAAGTCTTGATGTATACTGGAATTA
1 TTAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTACAATTA
* * * ** * *
62139680 GCGGCGCTCACGAGAAATCGGTGCTAAAGCATATTATTAGCGGCGCTTTTTGGGAAGCGCCGCAA
66 GTGGCGCTTACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAA
*
62139745 AATATCTTAACCAAAACGCACAGTTTTGGTCTT
131 AATATC-TAACCAAAACGCAGAG-TTTGGTCTT
62139778 AACCATGCAT
Statistics
Matches: 318, Mismatches: 65, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
227 63 0.20
228 90 0.28
229 155 0.49
230 10 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (227 bp):
TTAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTACAATTA
GTGGCGCTTACGAGAAAACGCCGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAA
AATATCTAACCAAAACGCAGAGTTTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACTAAAAA
CGCCGCTAAAGCATACTATTAGCGGCGCGTTT
Found at i:62140128 original size:14 final size:15
Alignment explanation
Indices: 62140093--62140132 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
62140083 GGTGTTTTTG
62140093 GTTTAGGGTTTAAAA
1 GTTTAGGGTTTAAAA
*
62140108 GTTTAGGGTTTAAGA
1 GTTTAGGGTTTAAAA
62140123 -TTTAGGGTTT
1 GTTTAGGGTTT
62140133 GGGGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
GTTTAGGGTTTAAAA
Found at i:62140140 original size:14 final size:14
Alignment explanation
Indices: 62140092--62140142 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
62140082 TGGTGTTTTT
62140092 GGTTTAGGGTTTAAA
1 GGTTTAGGGTTT-AA
*
62140107 AGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* **
62140121 GATTTAGGGTTTGG
1 GGTTTAGGGTTTAA
62140135 GGTTTAGG
1 GGTTTAGG
62140143 TCGCTTTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:62141399 original size:44 final size:44
Alignment explanation
Indices: 62141336--62141422 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
62141326 AATAATCTTT
62141336 TTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCCTCCTTC
1 TTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCCTCCTTC
* *
62141380 TTGCCGAATTTCTTGAAATCCCAAATCCCTAAATCGCCTCCTT
1 TTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCCTCCTT
62141423 TCTCCTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.26, C:0.33, G:0.08, T:0.32
Consensus pattern (44 bp):
TTGCCCAATTTCTTGAAATCCCAAATCCATAAATCGCCTCCTTC
Found at i:62143101 original size:34 final size:35
Alignment explanation
Indices: 62143058--62143137 Score: 135
Period size: 34 Copynumber: 2.3 Consensus size: 35
62143048 TTAAATATTT
*
62143058 TATTTTATTTTATTTTAATCACGAAT-TTTTTTAA
1 TATTTTATTTTATTTTAATCACGAATATTTTTAAA
62143092 TATTTTATTTTATTTTAATCACGAATATTTTTAAA
1 TATTTTATTTTATTTTAATCACGAATATTTTTAAA
*
62143127 TATTTAATTTT
1 TATTTTATTTT
62143138 TTTAAAGTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 26 0.60
35 17 0.40
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (35 bp):
TATTTTATTTTATTTTAATCACGAATATTTTTAAA
Found at i:62143183 original size:9 final size:9
Alignment explanation
Indices: 62143154--62143234 Score: 60
Period size: 9 Copynumber: 9.0 Consensus size: 9
62143144 GTTCAAATTT
*
62143154 CATAACTCA
1 CATAACTTA
* *
62143163 CGTAATTTA
1 CATAACTTA
62143172 CATAACTTA
1 CATAACTTA
62143181 CATAA-TT-
1 CATAACTTA
62143188 CATAACTTA
1 CATAACTTA
*
62143197 CATAATTTA
1 CATAACTTA
* *
62143206 AATTTATA-ATA
1 CA--TA-ACTTA
62143217 CATAACTTA
1 CATAACTTA
62143226 CATAACTTA
1 CATAACTTA
62143235 TTAATATTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
7 5 0.09
8 5 0.09
9 40 0.71
11 5 0.09
12 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:62143193 original size:16 final size:16
Alignment explanation
Indices: 62143152--62143230 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
62143142 AAGTTCAAAT
* *
62143152 TTCATAACTCACGTAA
1 TTCATAACTTACATAA
62143168 TTTACATAACTTACATAA
1 -TT-CATAACTTACATAA
62143186 TTCATAACTTACATAA
1 TTCATAACTTACATAA
* *
62143202 TT--TAAATT-TATAA
1 TTCATAACTTACATAA
*
62143215 TACATAACTTACATAA
1 TTCATAACTTACATAA
62143231 CTTATTAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 20 0.39
17 4 0.08
18 12 0.24
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.38
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:62143346 original size:23 final size:22
Alignment explanation
Indices: 62143296--62144086 Score: 86
Period size: 25 Copynumber: 36.0 Consensus size: 22
62143286 TTAAAAATTG
62143296 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
62143319 CTACATACATAAACTTACAT---
1 ATACATACAT-AACTTACATAAC
*
62143339 ATA-ATACATAACTTATATAAC
1 ATACATACATAACTTACATAAC
* * * *
62143360 TTAAATTTAGCA-ATCATATCATAAC
1 ATACA--TA-CATAACTTA-CATAAC
* * *
62143385 TTACATACATAA-ATA-GT-A-
1 ATACATACATAACTTACATAAC
*
62143403 AT-CATATCACAACTTACATAACC
1 ATACATA-CATAACTTACATAA-C
*
62143426 A-ACATA-ATGACTTACATAATAAC
1 ATACATACATAACTTAC---ATAAC
*
62143449 CTACATA-ATAACTTACAT-A-
1 ATACATACATAACTTACATAAC
*
62143468 ATA-ATACATAACATACATAA-
1 ATACATACATAACTTACATAAC
* *
62143488 AT---TAAATAAGTTACATAATAC
1 ATACATACATAACTTACAT-A-AC
* * * *
62143509 ACAAAAACAAAAACTTACATAAC
1 ATACATAC-ATAACTTACATAAC
* * *
62143532 TTACATA-ATATCTTACATAAT
1 ATACATACATAACTTACATAAC
*
62143553 A-ACTTACATAACTTACATAATATC
1 ATACATACATAACTTACAT-A-A-C
*
62143577 TTACATA-ATAACTTACAT-A-
1 ATACATACATAACTTACATAAC
* *
62143596 ATA-ATACATACCCTACATAA-
1 ATACATACATAACTTACATAAC
* *
62143616 AT---TAAATAAGTTACATAATAC
1 ATACATACATAACTTACAT-A-AC
* * * *
62143637 ACAAAAACAAAAACTTACATAAC
1 ATACATAC-ATAACTTACATAAC
* * *
62143660 TTACATA-ATATCTTACATAAT
1 ATACATACATAACTTACATAAC
*
62143681 A-ACTTACATAA--TA-AT-AC
1 ATACATACATAACTTACATAAC
* * *
62143698 ATACCATACATAAATTAAATAAG
1 ATA-CATACATAACTTACATAAC
* ** * *
62143721 TTACATA-ATACACAAAAACAA-
1 ATACATACATA-ACTTACATAAC
* *
62143742 AAACTTACATAACTTACATAATATC
1 ATACATACATAACTTACAT-A-A-C
*
62143767 CTACATA-ATAACTTACAT-A-
1 ATACATACATAACTTACATAAC
62143786 ATA-ATACAT-ACTTACATAA-
1 ATACATACATAACTTACATAAC
* *
62143805 AT---TAAATAAGTTACATAATAC
1 ATACATACATAACTTACAT-A-AC
* * * *
62143826 ACAAAAACAAAAACTTACATAAC
1 ATACATAC-ATAACTTACATAAC
*
62143849 TTACATAATACATAACTTACATAAC
1 ATAC---ATACATAACTTACATAAC
*
62143874 CTACTTAATACATAACTTACATAAC
1 ATAC---ATACATAACTTACATAAC
* *
62143899 TTACATAATACACAACTTACATGTGTAA-
1 ATAC---ATACATAACTTACA----TAAC
*
62143927 ATA-ATACATAACTTACATAAT
1 ATACATACATAACTTACATAAC
* * * ***
62143948 ACACA-AC-TTACATGTGTAA-
1 ATACATACATAACTTACATAAC
*
62143967 ATA-ATACACAACTTACATAAC
1 ATACATACATAACTTACATAAC
* *
62143988 TTACATAATACACAACTTACATAAC
1 ATAC---ATACATAACTTACATAAC
* *
62144013 TTACATAATACACAACTTACATAAC
1 ATAC---ATACATAACTTACATAAC
* *
62144038 TTACATAATACATAATTTACATAAC
1 ATAC---ATACATAACTTACATAAC
*
62144063 TTACATAAGACATAACTTACATAA
1 ATACAT---ACATAACTTACATAA
62144087 GTTTCATAAT
Statistics
Matches: 564, Mismatches: 118, Indels: 170
0.66 0.14 0.20
Matches are distributed among these distances:
17 10 0.02
18 62 0.11
19 56 0.10
20 38 0.07
21 71 0.13
22 31 0.05
23 40 0.07
24 64 0.11
25 184 0.33
26 3 0.01
28 2 0.00
29 3 0.01
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:62143440 original size:21 final size:21
Alignment explanation
Indices: 62143413--62143468 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 21
62143403 ATCATATCAC
62143413 AACTTACATAACCAACATAAT
1 AACTTACATAACCAACATAAT
* *
62143434 GACTTACATAATAACCTACATAAT
1 AACTTAC---ATAACCAACATAAT
62143458 AACTTACATAA
1 AACTTACATAA
62143469 TAATACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (21 bp):
AACTTACATAACCAACATAAT
Found at i:62143444 original size:12 final size:12
Alignment explanation
Indices: 62143427--62143908 Score: 165
Period size: 12 Copynumber: 40.7 Consensus size: 12
62143417 TACATAACCA
*
62143427 ACATAATGACTT
1 ACATAATAACTT
*
62143439 ACATAATAACCT
1 ACATAATAACTT
62143451 ACATAATAACTT
1 ACATAATAACTT
62143463 ACATAATAA--T
1 ACATAATAACTT
* *
62143473 ACATAACATACAT
1 ACATAATA-ACTT
* *
62143486 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
62143500 ACATAATACACAA
1 ACATAATA-ACTT
* * *
62143513 AAACAAAAACTT
1 ACATAATAACTT
62143525 AC---ATAACTT
1 ACATAATAACTT
*
62143534 ACATAATATCTT
1 ACATAATAACTT
62143546 ACATAATAACTT
1 ACATAATAACTT
62143558 AC---ATAACTT
1 ACATAATAACTT
*
62143567 ACATAATATCTT
1 ACATAATAACTT
62143579 ACATAATAACTT
1 ACATAATAACTT
62143591 ACATAATAA--T
1 ACATAATAACTT
* *
62143601 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
62143614 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
62143628 ACATAATACACAA
1 ACATAATA-ACTT
* * *
62143641 AAACAAAAACTT
1 ACATAATAACTT
62143653 AC---ATAACTT
1 ACATAATAACTT
*
62143662 ACATAATATCTT
1 ACATAATAACTT
62143674 ACATAATAACTT
1 ACATAATAACTT
62143686 ACATAATAA--T
1 ACATAATAACTT
*
62143696 ACATACCAT-ACAT
1 ACATA--ATAACTT
* *
62143709 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
62143723 ACATAATACACAA
1 ACATAATA-ACTT
* * *
62143736 AAACAAAAACTT
1 ACATAATAACTT
62143748 AC---ATAACTT
1 ACATAATAACTT
* *
62143757 ACATAATATCCT
1 ACATAATAACTT
62143769 ACATAATAACTT
1 ACATAATAACTT
62143781 ACATAATAA--T
1 ACATAATAACTT
* * *
62143791 ACATACTTACAT
1 ACATAATAACTT
* *
62143803 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
62143817 ACATAATACACAA
1 ACATAATA-ACTT
* * *
62143830 AAACAAAAACTT
1 ACATAATAACTT
* *
62143842 ACATAACTTACAT
1 ACATAA-TAACTT
62143855 A-ATACATAACTT
1 ACATA-ATAACTT
62143867 ACATAACCT-ACTT
1 ACATAA--TAACTT
62143880 A-ATACATAACTT
1 ACATA-ATAACTT
62143892 AC---ATAACTT
1 ACATAATAACTT
62143901 ACATAATA
1 ACATAATA
62143909 CACAACTTAC
Statistics
Matches: 338, Mismatches: 82, Indels: 100
0.65 0.16 0.19
Matches are distributed among these distances:
9 42 0.12
10 28 0.08
11 4 0.01
12 182 0.54
13 55 0.16
14 22 0.07
15 5 0.01
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:62143468 original size:9 final size:9
Alignment explanation
Indices: 62143456--62144145 Score: 254
Period size: 9 Copynumber: 78.4 Consensus size: 9
62143446 AACCTACATA
62143456 ATAACTTAC
1 ATAACTTAC
62143465 ATAA-TAATAC
1 ATAACT--TAC
*
62143475 ATAACATAC
1 ATAACTTAC
* *
62143484 ATAAATTAA
1 ATAACTTAC
*
62143493 ATAAGTTAC
1 ATAACTTAC
62143502 ATAA--TAC
1 ATAACTTAC
* **
62143509 ACAA-AAAC
1 ATAACTTAC
*
62143517 AAAAACTTAC
1 -ATAACTTAC
62143527 ATAACTTAC
1 ATAACTTAC
62143536 ATAATATCTTAC
1 AT-A-A-CTTAC
62143548 ATAATAACTTAC
1 ---ATAACTTAC
62143560 ATAACTTAC
1 ATAACTTAC
62143569 ATAATATCTTAC
1 AT-A-A-CTTAC
62143581 ATAATAACTTAC
1 ---ATAACTTAC
62143593 ATAA-TAATAC
1 ATAACT--TAC
* *
62143603 ATACCCTAC
1 ATAACTTAC
* *
62143612 ATAAATTAA
1 ATAACTTAC
*
62143621 ATAAGTTAC
1 ATAACTTAC
62143630 ATAA--TAC
1 ATAACTTAC
* **
62143637 ACAA-AAAC
1 ATAACTTAC
*
62143645 AAAAACTTAC
1 -ATAACTTAC
62143655 ATAACTTAC
1 ATAACTTAC
62143664 ATAATATCTTAC
1 AT-A-A-CTTAC
62143676 ATAATAACTTAC
1 ---ATAACTTAC
62143688 ATAA-TAATAC
1 ATAACT--TAC
* *
62143698 ATACCATAC
1 ATAACTTAC
* *
62143707 ATAAATTAA
1 ATAACTTAC
*
62143716 ATAAGTTAC
1 ATAACTTAC
62143725 ATAA--TAC
1 ATAACTTAC
* **
62143732 ACAA-AAAC
1 ATAACTTAC
*
62143740 AAAAACTTAC
1 -ATAACTTAC
62143750 ATAACTTAC
1 ATAACTTAC
62143759 ATAA--TATC
1 ATAACTTA-C
* *
62143767 CT-ACATA-
1 ATAACTTAC
62143774 ATAACTTAC
1 ATAACTTAC
62143783 ATAA-TAATAC
1 ATAACT--TAC
62143793 AT-ACTTAC
1 ATAACTTAC
* *
62143801 ATAAATTAA
1 ATAACTTAC
*
62143810 ATAAGTTAC
1 ATAACTTAC
62143819 ATAA--TAC
1 ATAACTTAC
* **
62143826 ACAA-AAAC
1 ATAACTTAC
*
62143834 AAAAACTTAC
1 -ATAACTTAC
62143844 ATAACTTAC
1 ATAACTTAC
62143853 ATAA--TAC
1 ATAACTTAC
62143860 ATAACTTAC
1 ATAACTTAC
*
62143869 ATAACCTAC
1 ATAACTTAC
*
62143878 TTAA--TAC
1 ATAACTTAC
62143885 ATAACTTAC
1 ATAACTTAC
62143894 ATAACTTAC
1 ATAACTTAC
62143903 ATAA--TAC
1 ATAACTTAC
*
62143910 ACAACTTAC
1 ATAACTTAC
* *
62143919 AT--GTGTAA
1 ATAACT-TAC
62143927 ATAA--TAC
1 ATAACTTAC
62143934 ATAACTTAC
1 ATAACTTAC
62143943 ATAA--TAC
1 ATAACTTAC
*
62143950 ACAACTTAC
1 ATAACTTAC
* *
62143959 AT--GTGTAA
1 ATAACT-TAC
62143967 ATAA--TAC
1 ATAACTTAC
*
62143974 ACAACTTAC
1 ATAACTTAC
62143983 ATAACTTAC
1 ATAACTTAC
62143992 ATAA--TAC
1 ATAACTTAC
*
62143999 ACAACTTAC
1 ATAACTTAC
62144008 ATAACTTAC
1 ATAACTTAC
62144017 ATAA--TAC
1 ATAACTTAC
*
62144024 ACAACTTAC
1 ATAACTTAC
62144033 ATAACTTAC
1 ATAACTTAC
62144042 ATAA--TAC
1 ATAACTTAC
*
62144049 ATAATTTAC
1 ATAACTTAC
62144058 ATAACTTAC
1 ATAACTTAC
*
62144067 ATAA--GAC
1 ATAACTTAC
62144074 ATAACTTAC
1 ATAACTTAC
* *
62144083 ATAAGTTTC
1 ATAACTTAC
62144092 ATAA--TAC
1 ATAACTTAC
*
62144099 ACAACTTAC
1 ATAACTTAC
*
62144108 ACAACTTAC
1 ATAACTTAC
*
62144117 ATAACTTAT
1 ATAACTTAC
*
62144126 ATAA--TAA
1 ATAACTTAC
62144133 ATAACTTAC
1 ATAACTTAC
62144142 ATAA
1 ATAA
62144146 TAAATAACTT
Statistics
Matches: 520, Mismatches: 83, Indels: 156
0.69 0.11 0.21
Matches are distributed among these distances:
7 102 0.20
8 31 0.06
9 306 0.59
10 36 0.07
11 3 0.01
12 30 0.06
13 3 0.01
14 3 0.01
15 6 0.01
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:62143546 original size:21 final size:21
Alignment explanation
Indices: 62143413--62143691 Score: 99
Period size: 21 Copynumber: 13.5 Consensus size: 21
62143403 ATCATATCAC
**
62143413 AACTTACATAACCAACATAAT
1 AACTTACATAACTTACATAAT
* *
62143434 GACTTACATAATAACCTACATAAT
1 AACTTAC---ATAACTTACATAAT
62143458 AACTTACATAA--TA-ATACAT
1 AACTTACATAACTTACATA-AT
* *
62143477 AACATACATAAATT--A-AAT
1 AACTTACATAACTTACATAAT
* * *
62143495 AAGTTACATAA--TACACAAA
1 AACTTACATAACTTACATAAT
*
62143514 AAC--A-AAAACTTACATAACT
1 AACTTACATAACTTACATAA-T
* * *
62143533 TACATA-ATATCTTACATAAT
1 AACTTACATAACTTACATAAT
62143553 AACTTACATAACTTACATAAT
1 AACTTACATAACTTACATAAT
*
62143574 ATCTTACATAATAACTTACATAAT
1 AACTTAC---ATAACTTACATAAT
* *
62143598 AA--TACATACCCTACAT-A-
1 AACTTACATAACTTACATAAT
* *
62143615 AA-TTAAATAAGTTACATAAT
1 AACTTACATAACTTACATAAT
** *
62143635 ACACAAAAACAAAAACTTACATAACT
1 A-AC--TTAC-ATAACTTACATAA-T
* * *
62143661 TACATA-ATATCTTACATAAT
1 AACTTACATAACTTACATAAT
62143681 AACTTACATAA
1 AACTTACATAA
62143692 TAATACATAC
Statistics
Matches: 193, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
16 4 0.02
17 3 0.02
18 32 0.17
19 31 0.16
20 12 0.06
21 57 0.30
22 3 0.02
23 2 0.01
24 35 0.18
25 13 0.07
26 1 0.01
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (21 bp):
AACTTACATAACTTACATAAT
Found at i:62143550 original size:128 final size:128
Alignment explanation
Indices: 62143415--62143691 Score: 457
Period size: 128 Copynumber: 2.2 Consensus size: 128
62143405 CATATCACAA
*
62143415 CTTACATAACCAACATA-ATGACTTACATAATAACCTACATAATAACTTACATAATAATACATAA
1 CTTACATAA-CAACATACATAACTTACATAATAACCTACATAATAACTTACATAATAATACATAA
62143479 CATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAT
65 CATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAT
* * * * *
62143543 CTTACATAATAACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACC
1 CTTACATAACAACATACATAACTTACATAATAACCTACATAATAACTTACATAATAATACATAAC
*
62143608 CTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAT
66 ATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAT
* *
62143671 CTTACATAATAACTTACATAA
1 CTTACATAACAACATACATAA
62143692 TAATACATAC
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 5 0.04
128 136 0.96
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (128 bp):
CTTACATAACAACATACATAACTTACATAATAACCTACATAATAACTTACATAATAATACATAAC
ATACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTACATAACTTACATAATAT
Found at i:62143855 original size:223 final size:222
Alignment explanation
Indices: 62143435--62143860 Score: 635
Period size: 223 Copynumber: 1.9 Consensus size: 222
62143425 CAACATAATG
62143435 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACATACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACATACATAAATTAAATAAGTT
*
62143500 ACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCTTACATAATAACTTACATAAC
66 ACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCCTACATAATAACTTACATAAC
* * * *** * *
62143565 TTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTTAC
131 -TACATAATATCTTACATAATAAATAACATAATAATACACACAAAACAAAAATTAAATAACTTAC
62143630 ATAATACACAAAAACAAAAACTTACATA
195 ATAATACACAAAAACAAAAACTTACATA
* * *
62143658 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACATACATAAATTAAATAAGTT
62143723 ACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCCTACATAATAACTTACATAA-
66 ACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCCTACATAATAACTTACATAAC
** *
62143787 TA-ATACATA-CTTACATAAATTAAATAAGTTACATAATACACA-AAAACAAAAACTTACATAAC
131 TACATA-ATATCTTACAT-AA-TAAATAACATA-ATAATACACACAAAACAAAAA-TTAAATAAC
62143849 TTACATAATACA
191 TTACATAATACA
62143861 TAACTTACAT
Statistics
Matches: 183, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
220 10 0.05
221 7 0.04
222 13 0.07
223 153 0.84
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (222 bp):
ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACATACATAAATTAAATAAGTT
ACATAATACACAAAAACAAAAACTTACATAACTTACATAATATCCTACATAATAACTTACATAAC
TACATAATATCTTACATAATAAATAACATAATAATACACACAAAACAAAAATTAAATAACTTACA
TAATACACAAAAACAAAAACTTACATA
Found at i:62143862 original size:16 final size:16
Alignment explanation
Indices: 62143841--62144156 Score: 189
Period size: 16 Copynumber: 18.7 Consensus size: 16
62143831 AACAAAAACT
62143841 TACATAACTTACATAA
1 TACATAACTTACATAA
62143857 TACATAACTTACATAA
1 TACATAACTTACATAA
*
62143873 CCTACTTAA--TACATAA
1 --TACATAACTTACATAA
62143889 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
62143907 TACACAACTTACATGTGTAAATAA
1 TACATAACTTAC--------ATAA
62143931 TACATAACTTACATAA
1 TACATAACTTACATAA
* **
62143947 TACACAACTTACATGTG
1 TACATAACTTACAT-AA
* *
62143964 TAAATAA--TACACAA
1 TACATAACTTACATAA
62143978 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
62143996 TACACAACTTACATAA
1 TACATAACTTACATAA
*
62144012 CTTACATAA--TACACAA
1 --TACATAACTTACATAA
62144028 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
62144046 TACATAATTTACATAA
1 TACATAACTTACATAA
*
62144062 CTTACATAA--GACATAA
1 --TACATAACTTACATAA
* *
62144078 CTTACATAAGTTTCATAA
1 --TACATAACTTACATAA
* *
62144096 TACACAACTTACACAA
1 TACATAACTTACATAA
*
62144112 CTTACATAACTTATATAA
1 --TACATAACTTACATAA
*
62144130 TAAATAACTTACATAA
1 TACATAACTTACATAA
*
62144146 TAAATAACTTA
1 TACATAACTTA
62144157 TTCCTAAATC
Statistics
Matches: 241, Mismatches: 32, Indels: 54
0.74 0.10 0.17
Matches are distributed among these distances:
15 4 0.02
16 161 0.67
17 5 0.02
18 56 0.23
24 15 0.06
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:62143865 original size:25 final size:24
Alignment explanation
Indices: 62143798--62144152 Score: 265
Period size: 25 Copynumber: 14.3 Consensus size: 24
62143788 AATACATACT
* *
62143798 TACATAAATTAAATAAGTTACATAA
1 TACAT-AATTACATAACTTACATAA
* ** *
62143823 TACACAAAAACAAAAACTTACATAA
1 TACATAATTAC-ATAACTTACATAA
62143848 CTTACATAA-TACATAACTTACATAA
1 --TACATAATTACATAACTTACATAA
*
62143873 CCTACTTAA-TACATAACTTACATAA
1 --TACATAATTACATAACTTACATAA
* **
62143898 CTTACATAA-TACACAACTTACATGTG
1 --TACATAATTACATAACTTACAT-AA
*
62143924 TAAATAA-TACATAACTTACATAA
1 TACATAATTACATAACTTACATAA
* * *
62143947 TACACAACTTACAT--GTGTAAATAA
1 TACATAA-TTACATAACT-TACATAA
*
62143971 TACACAACTTACATAACTTACATAA
1 TACATAA-TTACATAACTTACATAA
*
62143996 TACACAACTTACATAACTTACATAA
1 TACATAA-TTACATAACTTACATAA
*
62144021 TACACAACTTACATAACTTACATAA
1 TACATAA-TTACATAACTTACATAA
62144046 TACATAATTTACATAACTTACATAA
1 TACATAA-TTACATAACTTACATAA
* * *
62144071 GACATAACTTACATAAGTTTCATAA
1 TACATAA-TTACATAACTTACATAA
* *
62144096 TACACAACTTACACAACTTACATAA
1 TACATAA-TTACATAACTTACATAA
* *
62144121 CTTATATAA-TAAATAACTTACATAA
1 --TACATAATTACATAACTTACATAA
*
62144146 TAAATAA
1 TACATAA
62144153 CTTATTCCTA
Statistics
Matches: 277, Mismatches: 42, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
23 12 0.04
24 42 0.15
25 209 0.75
26 3 0.01
27 11 0.04
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.30
Consensus pattern (24 bp):
TACATAATTACATAACTTACATAA
Found at i:62143883 original size:95 final size:95
Alignment explanation
Indices: 62143553--62143858 Score: 578
Period size: 95 Copynumber: 3.2 Consensus size: 95
62143543 CTTACATAAT
*
62143553 AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAAT
1 AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAAT
62143618 TAAATAAGTTACATAATACACAAAAACAAA
66 TAAATAAGTTACATAATACACAAAAACAAA
62143648 AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAAT
1 AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAAT
62143713 TAAATAAGTTACATAATACACAAAAACAAA
66 TAAATAAGTTACATAATACACAAAAACAAA
* *
62143743 AACTTACATAACTTACATAATATCCTACATAATAACTTACATAATAATACATA-CTTACATAAAT
1 AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAAT
62143807 TAAATAAGTTACATAATACACAAAAACAAA
66 TAAATAAGTTACATAATACACAAAAACAAA
62143837 AACTTACATAACTTACATAATA
1 AACTTACATAACTTACATAATA
62143859 CATAACTTAC
Statistics
Matches: 208, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
94 62 0.30
95 146 0.70
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (95 bp):
AACTTACATAACTTACATAATATCTTACATAATAACTTACATAATAATACATACCATACATAAAT
TAAATAAGTTACATAATACACAAAAACAAA
Found at i:62143938 original size:40 final size:40
Alignment explanation
Indices: 62143891--62143986 Score: 183
Period size: 40 Copynumber: 2.4 Consensus size: 40
62143881 ATACATAACT
62143891 TACATAACTTACATAATACACAACTTACATGTGTAAATAA
1 TACATAACTTACATAATACACAACTTACATGTGTAAATAA
62143931 TACATAACTTACATAATACACAACTTACATGTGTAAATAA
1 TACATAACTTACATAATACACAACTTACATGTGTAAATAA
*
62143971 TACACAACTTACATAA
1 TACATAACTTACATAA
62143987 CTTACATAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (40 bp):
TACATAACTTACATAATACACAACTTACATGTGTAAATAA
Found at i:62150037 original size:42 final size:42
Alignment explanation
Indices: 62149895--62150182 Score: 265
Period size: 42 Copynumber: 6.8 Consensus size: 42
62149885 GTTTTTGTAC
* * * *
62149895 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* ** * * * * *
62149937 AAAAAGCGCCGCGAAAGATTATGATCTCTAGCGGCGTTTTTTA
1 AAAAA-CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * * * * *
62149980 CAAAGCGCTGTTAAAGAACATGTTCTTTAGCGGCGCATATAC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* * *
62150022 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTA-ATA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATA-A
* * * *
62150064 AAAAACGCCACTAAAGATCATATTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
** * *
62150106 AAAAACGTTGCTAAAGATA-ATGTTCTTTAGCGGCGCTCAGAA
1 AAAAACGCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTATAA
*
62150148 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
62150183 TTTTTGTTTG
Statistics
Matches: 195, Mismatches: 46, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 161 0.83
43 33 0.17
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
Found at i:62150666 original size:27 final size:27
Alignment explanation
Indices: 62150613--62150668 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
62150603 ATATATATTC
* *
62150613 AATTATAAAAATGCAACACGCACTTTT
1 AATTATAAAAATACAACACACACTTTT
* * *
62150640 AATTATAAAAATATAACACATATTTTT
1 AATTATAAAAATACAACACACACTTTT
62150667 AA
1 AA
62150669 GCACTAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.34
Consensus pattern (27 bp):
AATTATAAAAATACAACACACACTTTT
Found at i:62153163 original size:27 final size:27
Alignment explanation
Indices: 62153119--62153201 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 27
62153109 ATATTTTTTA
* * *
62153119 AATACATATATTTAATTATAAAAATGC
1 AATACAAATTTTTTATTATAAAAATGC
* * *
62153146 AATACACATTTTTTATTATAAAAACGT
1 AATACAAATTTTTTATTATAAAAATGC
62153173 AATACGTAAATTTTTTTAATTATAAAAAT
1 AATAC--AAA-TTTTTT-ATTATAAAAAT
62153202 ATAACACATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
27 27 0.60
29 2 0.04
30 6 0.13
31 10 0.22
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (27 bp):
AATACAAATTTTTTATTATAAAAATGC
Found at i:62153195 original size:31 final size:28
Alignment explanation
Indices: 62153129--62153200 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
62153119 AATACATATA
* *
62153129 TTTAATTATAAAAATGCAATACACATTT
1 TTTAATTATAAAAACGCAATACAAATTT
*
62153157 TTT-ATTATAAAAACGTAATACGTAAATTTT
1 TTTAATTATAAAAACGCAATAC--AAA-TTT
62153187 TTTAATTATAAAAA
1 TTTAATTATAAAAA
62153201 TATAACACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 16 0.43
28 3 0.08
29 2 0.05
30 6 0.16
31 10 0.27
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (28 bp):
TTTAATTATAAAAACGCAATACAAATTT
Found at i:62154739 original size:17 final size:17
Alignment explanation
Indices: 62154719--62154762 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
62154709 AAATTATGGG
62154719 AAATGATAAAATAGCTT
1 AAATGATAAAATAGCTT
62154736 AAATGATAAAATAGCTT
1 AAATGATAAAATAGCTT
*
62154753 AAATAATAAA
1 AAATGATAAA
62154763 GTTAGGACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (17 bp):
AAATGATAAAATAGCTT
Found at i:62155210 original size:16 final size:17
Alignment explanation
Indices: 62155189--62155221 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62155179 ATGTCTAGGT
62155189 AAATT-ATTAATTGAGA
1 AAATTAATTAATTGAGA
62155205 AAATTAGATTAATTGAG
1 AAATTA-ATTAATTGAG
62155222 GGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AAATTAATTAATTGAGA
Found at i:62156694 original size:54 final size:54
Alignment explanation
Indices: 62156614--62156743 Score: 201
Period size: 54 Copynumber: 2.4 Consensus size: 54
62156604 TTTGAGTACT
*
62156614 TCTGATC-AGTGAC-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTAA
1 TCTGATCAAGTGACAAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTAA
* * * *
62156666 TCTGATCAAGTGACAAAGTGATAAAGTGATAATTGGTGGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTAA
62156720 TCTGATCAAGTGACAAAGTGATAA
1 TCTGATCAAGTGACAAAGTGATAA
62156744 GTGGTAGCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 7 0.10
53 6 0.08
54 58 0.82
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (54 bp):
TCTGATCAAGTGACAAAGTGATAAAGTGATAAGTGATAGCTTTAGCTACACTAA
Found at i:62156768 original size:45 final size:46
Alignment explanation
Indices: 62156681--62156789 Score: 161
Period size: 45 Copynumber: 2.4 Consensus size: 46
62156671 TCAAGTGACA
* * * *
62156681 AAGTGATAAAGTGATAATTGGTGGCTTTAGCTACACTTATCTGATC
1 AAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATC
62156727 AAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC
1 AAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATC
62156772 AAG-GAC-AAGTGATAAGTG
1 AAGTGACAAAGTGATAAGTG
62156790 ACCATACGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 12 0.20
44 3 0.05
45 22 0.37
46 22 0.37
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (46 bp):
AAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATC
Found at i:62158408 original size:20 final size:19
Alignment explanation
Indices: 62158385--62158439 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
62158375 ATAACAAAAA
62158385 CAAAATAATTTTCAAAAATT
1 CAAAATAATTTT-AAAAATT
*
62158405 CAAAATAATTTTTAAAATT
1 CAAAATAATTTTAAAAATT
62158424 CAAAAT-ATTTATAAAA
1 CAAAATAATTT-TAAAA
62158440 TTTATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 4 0.12
19 16 0.50
20 12 0.38
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
CAAAATAATTTTAAAAATT
Found at i:62158452 original size:18 final size:18
Alignment explanation
Indices: 62158431--62158473 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62158421 ATTCAAAATA
*
62158431 TTTATAAAATTTATATTT
1 TTTATAAAAATTATATTT
*
62158449 TTTAAAAAAATTATATTT
1 TTTATAAAAATTATATTT
62158467 TTT-TAAA
1 TTTATAAA
62158474 TAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATAAAAATTATATTT
Found at i:62158460 original size:19 final size:21
Alignment explanation
Indices: 62158434--62158479 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
62158424 CAAAATATTT
62158434 ATAAAATTTATA-TTTTTTAA
1 ATAAAATTTATATTTTTTTAA
62158454 A-AAAA-TTATATTTTTTTAA
1 ATAAAATTTATATTTTTTTAA
62158473 ATAAAAT
1 ATAAAAT
62158480 ATAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATTTATATTTTTTTAA
Found at i:62159284 original size:12 final size:14
Alignment explanation
Indices: 62159248--62159284 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
62159238 AAAACGAAAC
62159248 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
62159261 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
62159275 AG-GAAA-AAAA
1 AGAGAAAGAAAA
62159285 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 8 0.35
14 11 0.48
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:62159586 original size:18 final size:19
Alignment explanation
Indices: 62159551--62159588 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
62159541 GTAAAATTTT
* *
62159551 TGAAATTTAGGGATTTGAA
1 TGAAATTTAGAGAGTTGAA
62159570 TGAAA-TTAGAGAGTTGAA
1 TGAAATTTAGAGAGTTGAA
62159588 T
1 T
62159589 TTAGTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (19 bp):
TGAAATTTAGAGAGTTGAA
Found at i:62163580 original size:42 final size:41
Alignment explanation
Indices: 62163438--62163591 Score: 138
Period size: 41 Copynumber: 3.8 Consensus size: 41
62163428 TAAACAAACA
* * * *
62163438 CCGCTAATGTTATGGTTTTTAGTGGCGTTTTTTCCT-GAGCG
1 CCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTT-GTAAAGCG
* *
62163479 CCGCTAATTTTAGGGCTTTTAGCGGCG-TTTTTG-ACAATGCG
1 CCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTTGTA-AA-GCG
* * * *
62163520 CCGCCAAAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGCG
1 CCGCTAATGTTAGGGTTTTTAGCGGCGTTT-TTTGTAAAGCG
62163562 CCGCTAATGTT-GGAG-TTTTAGCGGCGTTTT
1 CCGCTAATGTTAGG-GTTTTTAGCGGCGTTTT
62163592 GATGGAAACG
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
40 7 0.08
41 61 0.68
42 15 0.17
43 6 0.07
44 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.39
Consensus pattern (41 bp):
CCGCTAATGTTAGGGTTTTTAGCGGCGTTTTTTGTAAAGCG
Found at i:62164185 original size:13 final size:14
Alignment explanation
Indices: 62164169--62164288 Score: 55
Period size: 15 Copynumber: 8.1 Consensus size: 14
62164159 TAAGGGGTAT
62164169 GGATTAGGGTTT-G
1 GGATTAGGGTTTAG
*
62164182 GGATTAAGGTTTAG
1 GGATTAGGGTTTAG
*
62164196 GGGTTATGGG-TTAG
1 GGATTA-GGGTTTAG
* *
62164210 GAATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
* * *
62164225 GGGTTAGTGATTTGGG
1 GGATTAG-GGTTT-AG
* *
62164241 GGGTTAGGGGTTAGG
1 GGATTAGGGTTTA-G
*
62164256 GAGATTTAGGGGTTAG
1 G-GA-TTAGGGTTTAG
*
62164272 GGATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
62164287 GG
1 GG
62164289 TGTCAAGGGT
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
13 11 0.13
14 18 0.21
15 34 0.40
16 11 0.13
17 10 0.12
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (14 bp):
GGATTAGGGTTTAG
Found at i:62164224 original size:7 final size:7
Alignment explanation
Indices: 62164192--62164288 Score: 68
Period size: 7 Copynumber: 12.9 Consensus size: 7
62164182 GGATTAAGGT
62164192 TTAGGGG
1 TTAGGGG
*
62164199 TTATGGG
1 TTAGGGG
**
62164206 TTAGGAAT
1 TTAGG-GG
62164214 TTAGGGG
1 TTAGGGG
62164221 TTAGGGG
1 TTAGGGG
**
62164228 TTAGTGAT
1 TTAG-GGG
*
62164236 TTGGGGGG
1 TT-AGGGG
62164244 TTAGGGG
1 TTAGGGG
62164251 TTAGGGAG
1 TTAGGG-G
62164259 ATTTAGGGG
1 --TTAGGGG
*
62164268 TTAGGGAT
1 TTAGGG-G
62164276 TTAGGGG
1 TTAGGGG
62164283 TTAGGG
1 TTAGGG
62164289 TGTCAAGGGT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
7 43 0.62
8 18 0.26
9 2 0.03
10 6 0.09
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:62164247 original size:23 final size:22
Alignment explanation
Indices: 62164191--62164273 Score: 105
Period size: 22 Copynumber: 3.6 Consensus size: 22
62164181 GGGATTAAGG
*
62164191 TTTAGGGGTTATGGGTTAGGAA
1 TTTAGGGGTTAGGGGTTAGGAA
62164213 TTTAGGGGTTAGGGGTTAGTG-A
1 TTTAGGGGTTAGGGGTTAG-GAA
*
62164235 TTTGGGGGGTTAGGGGTTAGGGAGA
1 TTT-AGGGGTTAGGGGTTA-GGA-A
62164260 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
62164274 ATTTAGGGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
22 22 0.42
23 16 0.30
24 11 0.21
25 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGGAA
Found at i:62164278 original size:15 final size:15
Alignment explanation
Indices: 62164203--62164288 Score: 75
Period size: 15 Copynumber: 5.6 Consensus size: 15
62164193 TAGGGGTTAT
*
62164203 GGGTTAGGAATTTAG
1 GGGTTAGGGATTTAG
*
62164218 GGGTTAGGG-GTTAG
1 GGGTTAGGGATTTAG
** * **
62164232 TGATTTGGGGGGTTAG
1 -GGGTTAGGGATTTAG
62164248 GGGTTAGGGAGATTTAG
1 GGGTTA-GG-GATTTAG
62164265 GGGTTAGGGATTTAG
1 GGGTTAGGGATTTAG
62164280 GGGTTAGGG
1 GGGTTAGGG
62164289 TGTCAAGGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.07
15 33 0.58
16 9 0.16
17 11 0.19
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGATTTAG
Found at i:62165838 original size:24 final size:22
Alignment explanation
Indices: 62165809--62165854 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
62165799 ATCACTTTTC
62165809 TCCCCAAAAATTCCCCCCAAATTT
1 TCCCCAAAAA-T-CCCCCAAATTT
62165833 TCCCCAAAAATCCCCCAAATTT
1 TCCCCAAAAATCCCCCAAATTT
62165855 AGAACCCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 1 0.05
24 10 0.45
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (22 bp):
TCCCCAAAAATCCCCCAAATTT
Found at i:62166965 original size:26 final size:26
Alignment explanation
Indices: 62166936--62166993 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
62166926 CTCGTTGCAT
*
62166936 AATAATTCTCACTCTATAGCTTATCA
1 AATAATTCTCACTCTATAGCTTATAA
*
62166962 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTCACTCTATAGCTTATAA
62166988 AATAAT
1 AATAAT
62166994 ATAAATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (26 bp):
AATAATTCTCACTCTATAGCTTATAA
Found at i:62167480 original size:16 final size:16
Alignment explanation
Indices: 62167459--62167489 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
62167449 CCAATGCAAA
62167459 TAGTATTATTTAATAC
1 TAGTATTATTTAATAC
62167475 TAGTATTATTTAATA
1 TAGTATTATTTAATA
62167490 TGGTTCCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (16 bp):
TAGTATTATTTAATAC
Found at i:62168322 original size:69 final size:69
Alignment explanation
Indices: 62168174--62168367 Score: 304
Period size: 69 Copynumber: 2.8 Consensus size: 69
62168164 AATTTTATTG
* * * *
62168174 ATAATAAATTTT-TAATTTTAAAAATAA-TGATAAATGTTATTTT-TAAATAATAAAACCTATAT
1 ATAATAAATTTTATAATTTTAGAAATAATTG-TAAATGTTATTTTCTAAATATTAACATCTATAT
62168236 TTTCA
65 TTTCA
*
62168241 ATAATAATTTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATT
1 ATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATT
62168306 TTCA
66 TTCA
*
62168310 ATAATAAATTTTATAATTTTAGAAATAATTGTAAATGCTATTTTCTAAATATTAACAT
1 ATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACAT
62168368 AATACATAAC
Statistics
Matches: 117, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
67 11 0.09
68 27 0.23
69 79 0.68
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (69 bp):
ATAATAAATTTTATAATTTTAGAAATAATTGTAAATGTTATTTTCTAAATATTAACATCTATATT
TTCA
Found at i:62168324 original size:21 final size:21
Alignment explanation
Indices: 62168203--62168330 Score: 64
Period size: 21 Copynumber: 5.8 Consensus size: 21
62168193 AAAAATAATG
*
62168203 ATAAATGTTAT-TTTTAAATA
1 ATAAATTTTATATTTTAAATA
*** *
62168223 ATAAAACCTATATTTTCAATA
1 ATAAATTTTATATTTTAAATA
*
62168244 ATAATTTTTATAATTTTAGAAATA
1 ATAAATTTTAT-ATTTT--AAATA
*
62168268 ATTGTAAATGTTAT-TTTCTAAATA
1 A---TAAATTTTATATTT-TAAATA
* * *
62168292 TTAACA-TCTATATTTTCAATA
1 ATAA-ATTTTATATTTTAAATA
62168313 ATAAATTTTATAATTTTA
1 ATAAATTTTAT-ATTTTA
62168331 GAAATAATTG
Statistics
Matches: 78, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
20 9 0.12
21 33 0.42
22 14 0.18
24 10 0.13
25 3 0.04
26 1 0.01
27 8 0.10
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (21 bp):
ATAAATTTTATATTTTAAATA
Found at i:62168394 original size:22 final size:22
Alignment explanation
Indices: 62168360--62168559 Score: 98
Period size: 22 Copynumber: 9.1 Consensus size: 22
62168350 TTTTCTAAAT
* *
62168360 ATTAACATAATACATAACTTAC
1 ATTAATATTATACATAACTTAC
62168382 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
62168404 ----ATA--ATACATAACTTAC
1 ATTAATATTATACATAACTTAC
** *
62168420 CGTAATATTATACATAACTTGC
1 ATTAATATTATACATAACTTAC
* *
62168442 A--CA-ACT-TACATAACTTA-
1 ATTAATATTATACATAACTTAC
*
62168459 AATAACTTATATAATACATAACTTAC
1 ATTAA--TAT-T-ATACATAACTTAC
* * *
62168485 ATTAATATGATACGTAACGTAC
1 ATTAATATTATACATAACTTAC
62168507 ATAAATAACTTATATAATACATAACTTAC
1 AT---TAA--TAT-T-ATACATAACTTAC
* * *
62168536 ATTAATATGATACGTAACGTAC
1 ATTAATATTATACATAACTTAC
62168558 AT
1 AT
62168560 AACTAAATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
16 13 0.09
17 1 0.01
18 13 0.09
19 3 0.02
20 4 0.03
22 59 0.43
23 1 0.01
24 6 0.04
25 14 0.10
26 7 0.05
27 3 0.02
29 13 0.09
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:62168406 original size:9 final size:9
Alignment explanation
Indices: 62168392--62168486 Score: 72
Period size: 9 Copynumber: 10.6 Consensus size: 9
62168382 ATTAATATTA
62168392 TACATAACT
1 TACATAACT
62168401 TACATAA--
1 TACATAACT
62168408 TACATAACT
1 TACATAACT
* *
62168417 TACCGTAATATT
1 TA-CAT-A-ACT
62168429 ATACATAACT
1 -TACATAACT
* *
62168439 TGCACAACT
1 TACATAACT
62168448 TACATAACT
1 TACATAACT
*
62168457 TAAATAACT
1 TACATAACT
*
62168466 TATATAA--
1 TACATAACT
62168473 TACATAACT
1 TACATAACT
62168482 TACAT
1 TACAT
62168487 TAATATGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
7 13 0.19
9 42 0.63
10 4 0.06
11 2 0.03
12 4 0.06
13 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:62168415 original size:38 final size:38
Alignment explanation
Indices: 62168364--62168584 Score: 149
Period size: 38 Copynumber: 5.9 Consensus size: 38
62168354 CTAAATATTA
62168364 ACATAATACATAACTTACATTAATATTATACATAACTT
1 ACATAATACATAACTTACATTAATATTATACATAACTT
**
62168402 ACATAATACATAACTTACCGTAATATTATACATAACTT
1 ACATAATACATAACTTACATTAATATTATACATAACTT
* * *
62168440 GCACAACTTACATAACTTA-AATAACTTATATAATACATAACTT
1 ACATAA--TACATAACTTACATTAA--TAT-T-ATACATAACTT
* * * *
62168483 ACATTAAT--ATGA--TAC-GTAACGTA-CATAAATAACTT
1 ACA-TAATACATAACTTACATTAA--TATTATACATAACTT
* * * *
62168518 ATATAATACATAACTTACATTAATATGATACGTAACGT
1 ACATAATACATAACTTACATTAATATTATACATAACTT
* *
62168556 ACAT-A-AC-TAAATTA-ATTAATAGTATACAT
1 ACATAATACATAACTTACATTAATATTATACAT
62168585 TAAGTTGTCG
Statistics
Matches: 144, Mismatches: 25, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
34 16 0.11
35 18 0.12
36 5 0.03
37 3 0.02
38 62 0.43
39 6 0.04
40 14 0.10
41 3 0.02
42 2 0.01
43 13 0.09
44 2 0.01
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (38 bp):
ACATAATACATAACTTACATTAATATTATACATAACTT
Found at i:62168465 original size:18 final size:18
Alignment explanation
Indices: 62168392--62168486 Score: 72
Period size: 16 Copynumber: 5.3 Consensus size: 18
62168382 ATTAATATTA
62168392 TACATAACTTACATAA--
1 TACATAACTTACATAACT
* *
62168408 TACATAACTTACCGTAATATT
1 TACATAACTTA-CAT-A-ACT
* *
62168429 ATACATAACTTGCACAACT
1 -TACATAACTTACATAACT
*
62168448 TACATAACTTAAATAACT
1 TACATAACTTACATAACT
*
62168466 TATATAA--TACATAACT
1 TACATAACTTACATAACT
62168482 TACAT
1 TACAT
62168487 TAATATGATA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
16 23 0.37
17 2 0.03
18 22 0.35
19 3 0.05
20 1 0.02
21 1 0.02
22 10 0.16
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (18 bp):
TACATAACTTACATAACT
Found at i:62168515 original size:51 final size:51
Alignment explanation
Indices: 62168457--62168561 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
62168447 TTACATAACT
62168457 TAAATAACTTATATAATACATAACTTACATTAATATGATACGTAACGTACA
1 TAAATAACTTATATAATACATAACTTACATTAATATGATACGTAACGTACA
62168508 TAAATAACTTATATAATACATAACTTACATTAATATGATACGTAACGTACA
1 TAAATAACTTATATAATACATAACTTACATTAATATGATACGTAACGTACA
62168559 TAA
1 TAA
62168562 CTAAATTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (51 bp):
TAAATAACTTATATAATACATAACTTACATTAATATGATACGTAACGTACA
Found at i:62172876 original size:9 final size:9
Alignment explanation
Indices: 62172862--62172900 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
62172852 TTTCAGCAAT
*
62172862 CGCAACATC
1 CGCAACAGC
*
62172871 CGCAACAGA
1 CGCAACAGC
62172880 CGCAACAGC
1 CGCAACAGC
*
62172889 CGCGACAGC
1 CGCAACAGC
62172898 CGC
1 CGC
62172901 CGTTTTAGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.44, G:0.23, T:0.03
Consensus pattern (9 bp):
CGCAACAGC
Found at i:62173633 original size:43 final size:43
Alignment explanation
Indices: 62173144--62173632 Score: 531
Period size: 43 Copynumber: 11.3 Consensus size: 43
62173134 TCTGCCAAAA
* * * *
62173144 TTAGCGGCATTTGTG-GGAAAAGCGCCGCTAAAAGG-CCTAGTCT
1 TTAGCGGCGTTTGTGTGG-GAAGCGCCGCT-AAAGGTCTTGGTCT
* ** ** * *
62173187 TTTGCGGCGTTTGTCAGAAAAGCGCCGCTAAAATGGTCGAT-ATCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCT-AAA-GGTC-TTGGTCT
* * * *
62173232 TTAGCAGCGTTTGTGCGGAAAGCGCTGCTAAA-GTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
** * *
62173274 TTAGCGATGTTTGTGT-GAAACGTGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAA-GCGCCGCTAAAGGTCTTGGTCT
* * * *
62173317 TTAGCGACGTTTGTGTAGGAAGCGCCGCTAAAAGGTCCTAGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCT-AAAGGTCTTGGTCT
* *
62173361 TTAGCAGCGTTTGTGTGGGTAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
* * *
62173404 TTAGCGGCATTTGTGTGGGTAGCGCCGCTAAAAGTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
*
62173447 TTAGCGGCGTTTGTGTGGGAAGTGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
* * *
62173490 TTAGCGGCGTTTGTGTTGGAAGCGTCGCTAAAGGTCTTGGTCA
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
*
62173533 TTAGCGGCGTTTGTGTTGGAAGCGCCGCTAAAGGTCTTGGTCT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
* * * *
62173576 TTAGCAGCGTTTGTTTTGGAAGCGCCTCTAAAGGTCTTGG-CTT
1 TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTC-T
62173619 TTAGCGGCGTTTGT
1 TTAGCGGCGTTTGT
62173633 TCCTAGAAAC
Statistics
Matches: 388, Mismatches: 48, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
41 5 0.01
42 28 0.07
43 281 0.72
44 46 0.12
45 27 0.07
46 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGTGGGAAGCGCCGCTAAAGGTCTTGGTCT
Found at i:62175095 original size:41 final size:41
Alignment explanation
Indices: 62175038--62175120 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
62175028 TTGGGCAACC
*
62175038 ACTTTCCCTTCAACCAACACAAATAAAATAAAAGGATTTGA
1 ACTTTCCCTTCAACCAACACAAATAAAACAAAAGGATTTGA
* *
62175079 ACTTTCCCTTCAACCAACACAACTAAAACAAAGGGATTTGA
1 ACTTTCCCTTCAACCAACACAAATAAAACAAAAGGATTTGA
62175120 A
1 A
62175121 TTTTTATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (41 bp):
ACTTTCCCTTCAACCAACACAAATAAAACAAAAGGATTTGA
Found at i:62177772 original size:28 final size:27
Alignment explanation
Indices: 62177717--62177776 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
62177707 TAAGTTTGTG
*
62177717 TAATT-AAATTATGTATTTATATGCTT
1 TAATTAAAATTATGTATTGATATGCTT
*
62177743 TAATTAAAATATATGTATGTGA-ATGGTT
1 TAATTAAAAT-TATGTAT-TGATATGCTT
62177771 TAATTA
1 TAATTA
62177777 TTATGTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 4 0.14
28 18 0.62
29 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (27 bp):
TAATTAAAATTATGTATTGATATGCTT
Found at i:62184034 original size:70 final size:70
Alignment explanation
Indices: 62183946--62184099 Score: 290
Period size: 70 Copynumber: 2.2 Consensus size: 70
62183936 GTAGCTCAAG
62183946 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
1 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
62184011 AAAAC
66 AAAAC
62184016 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
1 ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
62184081 AAAAC
66 AAAAC
62184086 ATATATGAATAATT
1 ATATA--AATAATT
62184100 AACTAGCATG
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 75 0.91
72 7 0.09
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.29
Consensus pattern (70 bp):
ATATAAATAATTTAGTAACAGTGACTCAAATAGATAGCTTTGAAGGAACATATAAGTAAATAGTG
AAAAC
Found at i:62184535 original size:7 final size:7
Alignment explanation
Indices: 62184523--62184565 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
62184513 TTTAATCCTC
62184523 AACCCTA
1 AACCCTA
62184530 AACCCTA
1 AACCCTA
*
62184537 AACCTTA
1 AACCCTA
62184544 AACCCTA
1 AACCCTA
62184551 AACCCTA
1 AACCCTA
*
62184558 AAGCCTA
1 AACCCTA
62184565 A
1 A
62184566 TGTATTTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:62186348 original size:5 final size:5
Alignment explanation
Indices: 62186338--62186375 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
62186328 TGATAAGTGG
62186338 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
62186376 AATAAAAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:62188589 original size:12 final size:12
Alignment explanation
Indices: 62188572--62188599 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62188562 CTGACTCTTA
62188572 ATATAAGAGCCT
1 ATATAAGAGCCT
62188584 ATATAAGAGCCT
1 ATATAAGAGCCT
62188596 ATAT
1 ATAT
62188600 GATACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (12 bp):
ATATAAGAGCCT
Found at i:62200297 original size:12 final size:12
Alignment explanation
Indices: 62200282--62200312 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
62200272 ATTTTCTTCT
62200282 TTTTTTTTTACG
1 TTTTTTTTTACG
*
62200294 TTTTTTTTTATG
1 TTTTTTTTTACG
62200306 TTTTTTT
1 TTTTTTT
62200313 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTACG
Found at i:62206436 original size:19 final size:19
Alignment explanation
Indices: 62206355--62206447 Score: 68
Period size: 19 Copynumber: 4.9 Consensus size: 19
62206345 CCTTCTTTTA
*
62206355 CTTTTTTTTTATTTT-TA-
1 CTTTTTTTTAATTTTATAT
* *
62206372 CTTTTTTATTAACTTTTGTCT
1 CTTTTTT-TTAA-TTTTATAT
* *
62206393 CTCTTTTTTTAATTTTTTTT
1 CT-TTTTTTTAATTTTATAT
62206413 CTTTTTTTTAAGTTTTATAT
1 CTTTTTTTTAA-TTTTATAT
*
62206433 -TTTTTCTT-ATTTTAT
1 CTTTTTTTTAATTTTAT
62206448 TTTGTTTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
17 13 0.21
18 4 0.06
19 20 0.32
20 15 0.24
21 6 0.10
22 5 0.08
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (19 bp):
CTTTTTTTTAATTTTATAT
Found at i:62206455 original size:9 final size:9
Alignment explanation
Indices: 62206443--62206485 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
62206433 TTTTTCTTAT
*
62206443 TTTATTTTG
1 TTTATTTTA
62206452 TTTA-TTTA
1 TTTATTTTA
62206460 TTTATTTTA
1 TTTATTTTA
62206469 TTTATTGTTA
1 TTTATT-TTA
*
62206479 TTAATTT
1 TTTATTT
62206486 AAAAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.23
9 15 0.50
10 8 0.27
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:62206539 original size:46 final size:42
Alignment explanation
Indices: 62206489--62206596 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
62206479 TTAATTTAAA
* * * *
62206489 AAAATTTGAAATGTATATTTGAAATGTTTTATAATATATATTTTTT
1 AAAATTTTAAATATATATTTGAAA--TTTT-GAATAT-TATTTGTT
*
62206535 AAAATTTTAAATAT-TATTTTTAAATTTTGAATATTATTTGTT
1 AAAATTTTAAATATATA-TTTGAAATTTTGAATATTATTTGTT
62206577 AAAATTTTAAATATATATTT
1 AAAATTTTAAATATATATTT
62206597 TTAATAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 24 0.44
43 7 0.13
44 4 0.07
45 2 0.04
46 18 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (42 bp):
AAAATTTTAAATATATATTTGAAATTTTGAATATTATTTGTT
Found at i:62206555 original size:22 final size:23
Alignment explanation
Indices: 62206515--62206598 Score: 113
Period size: 20 Copynumber: 3.8 Consensus size: 23
62206505 ATTTGAAATG
62206515 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATATATATTTTTTAAAA
62206539 TTTTAAATAT-TA-TTTTT-AAA
1 TTTTAAATATATATTTTTTAAAA
* *
62206559 TTTTGAATAT-TATTTGTTAAAA
1 TTTTAAATATATATTTTTTAAAA
62206581 TTTTAAATATATATTTTT
1 TTTTAAATATATATTTTT
62206599 AATAATATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.26
21 9 0.17
22 14 0.26
23 11 0.21
24 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAAATATATATTTTTTAAAA
Found at i:62206615 original size:42 final size:42
Alignment explanation
Indices: 62206521--62206615 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 42
62206511 AATGTTTTAT
* * *
62206521 AATATATATTTTTTAAAATTTTAAATATTATTTTTAAATTTTG
1 AATA-ATATTTGTTAAAATTTTAAATATTATTTTTAAAATATG
*
62206564 AATATTATTTGTTAAAATTTTAAATATATATTTTTAATAATAT-
1 AATAATATTTGTTAAAATTTTAAATAT-TATTTTTAA-AATATG
62206607 AA-AATATTT
1 AATAATATTT
62206616 AAATATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 27 0.60
43 15 0.33
44 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (42 bp):
AATAATATTTGTTAAAATTTTAAATATTATTTTTAAAATATG
Found at i:62207103 original size:20 final size:19
Alignment explanation
Indices: 62207049--62207103 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
62207039 AATTTATTTA
62207049 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATT-AAAAGT
* *
62207070 AAAAATTTAAATTAAAAGTT
1 AAAAATATATATTAAAAG-T
62207090 AAAAATATATATTA
1 AAAAATATATATTA
62207104 TAAGATCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 20 0.69
21 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATATATTAAAAGT
Found at i:62207572 original size:20 final size:20
Alignment explanation
Indices: 62207549--62207614 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
62207539 ATAATTTTTT
62207549 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
62207569 AATTTATA-TATTA-ATTTTTTT
1 AATTT-TAGTA-CACA-TTTATA
*
62207590 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
62207610 AATTT
1 AATTT
62207615 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.52
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:62207596 original size:41 final size:42
Alignment explanation
Indices: 62207543--62207625 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
62207533 TTGGTTATAA
*
62207543 TTTTTTAATTTTAGTACACATTTATAAATTTATATA-TTAAT
1 TTTTTTAATTTTAGTACACATTCATAAATTTATATACTTAAT
*
62207584 TTTTTTAATTTTAGTACACATTCATAAATTTATGTACTTAAT
1 TTTTTTAATTTTAGTACACATTCATAAATTTATATACTTAAT
62207626 ATATATTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 34 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (42 bp):
TTTTTTAATTTTAGTACACATTCATAAATTTATATACTTAAT
Found at i:62207779 original size:13 final size:15
Alignment explanation
Indices: 62207751--62207779 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62207741 TAATATATTT
62207751 AATATATTTTTAAAA
1 AATATATTTTTAAAA
62207766 AATATA-TTTTAAAA
1 AATATATTTTTAAAA
62207780 TGTTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:62210084 original size:30 final size:30
Alignment explanation
Indices: 62209952--62210084 Score: 176
Period size: 30 Copynumber: 4.4 Consensus size: 30
62209942 GTCGCAGAGC
* * *** *
62209952 AGTTCATATCACTCGGACATTTTCGGTTAA
1 AGTTCATATCACCCAGACATAGGCGGTTCA
62209982 AGTTCATATCACCCAGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
62210012 AGTTCATATCACCCAGACATAGGCAGTTCA
1 AGTTCATATCACCCAGACATAGGCGGTTCA
*
62210042 AGTTCATATCACCCAGACATAGGCGGTTCG
1 AGTTCATATCACCCAGACATAGGCGGTTCA
* *
62210072 AGTTTATTTCACC
1 AGTTCATATCACC
62210085 AAGAGCAACC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGGCGGTTCA
Found at i:62213461 original size:12 final size:13
Alignment explanation
Indices: 62213407--62213461 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
62213397 AAACGTTTGA
62213407 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
62213421 A-ATTTTAAAATT
1 ATATTTTAAAATT
62213433 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
62213450 ATA-TTTAAAATT
1 ATATTTTAAAATT
62213462 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:62213468 original size:9 final size:10
Alignment explanation
Indices: 62213450--62213499 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
62213440 TATAAAAATT
62213450 ATATTT-AAA
1 ATATTTAAAA
62213459 AT-TTTAAAA
1 ATATTTAAAA
62213468 ATATTTAAAAAA
1 ATATTT--AAAA
62213480 ATATTTAAAA
1 ATATTTAAAA
62213490 A-ATTATAAAA
1 ATATT-TAAAA
62213500 CAAATAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.08
9 10 0.28
10 13 0.36
12 10 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:62213478 original size:11 final size:11
Alignment explanation
Indices: 62213456--62213492 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
62213446 AATTATATTT
62213456 AAAAT-TTT-A
1 AAAATATTTAA
62213465 AAAATATTTAAA
1 AAAATATTT-AA
62213477 AAAATATTTAA
1 AAAATATTTAA
62213488 AAAAT
1 AAAAT
62213493 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 5 0.20
10 3 0.12
11 7 0.28
12 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:62213479 original size:12 final size:12
Alignment explanation
Indices: 62213464--62213491 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62213454 TTAAAATTTT
62213464 AAAAATATTTAA
1 AAAAATATTTAA
62213476 AAAAATATTTAA
1 AAAAATATTTAA
62213488 AAAA
1 AAAA
62213492 TTATAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAAATATTTAA
Found at i:62213485 original size:23 final size:23
Alignment explanation
Indices: 62213457--62213505 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
62213447 ATTATATTTA
62213457 AAAT-TTTAAAAATATT-TAAAA-
1 AAATATTTAAAAA-ATTATAAAAC
62213478 AAATATTTAAAAAATTATAAAAC
1 AAATATTTAAAAAATTATAAAAC
62213501 AAATA
1 AAATA
62213506 ATAAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATTTAAAAAATTATAAAAC
Found at i:62213510 original size:22 final size:22
Alignment explanation
Indices: 62213463--62213510 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
62213453 TTTAAAATTT
*
62213463 TAAAAATATTTAAAAAAATATT
1 TAAAAATATTTAAAAAAATATA
62213485 TAAAAA-ATTATAAAACAAATA-A
1 TAAAAATATT-TAAAA-AAATATA
62213507 TAAA
1 TAAA
62213511 TTTGAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAATATTTAAAAAAATATA
Found at i:62213558 original size:24 final size:24
Alignment explanation
Indices: 62213527--62213606 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
62213517 AGGTCATATC
*
62213527 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATA-ATTTAAAATAA
*
62213552 TTTAAAAATCATAATTTAAAATAA
1 TTTAAAAATAATAATTTAAAATAA
* * *
62213576 TTTAAAATTCAT-ATTTAAAAAAA
1 TTTAAAAATAATAATTTAAAATAA
62213599 TTATAAAA
1 TT-TAAAA
62213607 CAAATTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 12 0.24
24 26 0.52
25 12 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAAAATAATAATTTAAAATAA
Found at i:62213565 original size:14 final size:14
Alignment explanation
Indices: 62213548--62213596 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
62213538 TATATTTTAA
62213548 ATAATTTAAAAATC
1 ATAATTTAAAAATC
62213562 ATAATTT--AAA--
1 ATAATTTAAAAATC
*
62213572 ATAATTTAAAATTC
1 ATAATTTAAAAATC
62213586 AT-ATTTAAAAA
1 ATAATTTAAAAA
62213597 AATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 7 0.24
12 5 0.17
13 8 0.28
14 9 0.31
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:62213577 original size:10 final size:10
Alignment explanation
Indices: 62213562--62213640 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 10
62213552 TTTAAAAATC
62213562 ATAATTTAAA
1 ATAATTTAAA
62213572 ATAATTTAAA
1 ATAATTTAAA
62213582 ATTCATATTTAAA
1 A-T-A-ATTTAAA
*
62213595 AAAATTATAAA
1 ATAATT-TAAA
* *
62213606 ACAAATTAAAA
1 A-TAATTTAAA
62213617 TATACATTTAAA
1 -ATA-ATTTAAA
62213629 AT-ATTATAAA
1 ATAATT-TAAA
62213639 AT
1 AT
62213641 TACTAATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
9 3 0.05
10 20 0.35
11 13 0.23
12 13 0.23
13 8 0.14
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAATTTAAA
Found at i:62213582 original size:23 final size:23
Alignment explanation
Indices: 62213531--62213630 Score: 89
Period size: 24 Copynumber: 4.2 Consensus size: 23
62213521 CATATCTTTA
* *
62213531 AAAATAATATATTTTAAATAATTT
1 AAAATCATA-ATTTAAAATAATTT
62213555 AAAAATCATAATTTAAAATAATTT
1 -AAAATCATAATTTAAAATAATTT
*
62213579 AAAATTCAT-ATTTAAAAAAATTAT
1 AAAA-TCATAATTTAAAATAATT-T
*
62213603 AAAA-CA-AATTAAAATATACATTT
1 AAAATCATAATTTAAA-ATA-ATTT
62213626 AAAAT
1 AAAAT
62213631 ATTATAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.12
23 23 0.36
24 25 0.39
25 8 0.12
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATCATAATTTAAAATAATTT
Found at i:62213591 original size:13 final size:12
Alignment explanation
Indices: 62213539--62213595 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
62213529 TAAAAATAAT
*
62213539 ATATTTTAAAT-
1 ATATTTAAAATC
62213550 A-ATTTAAAAATC
1 ATATTT-AAAATC
62213562 ATAATTTAAAAT-
1 AT-ATTTAAAATC
62213574 A-ATTTAAAATTC
1 ATATTTAAAA-TC
62213586 ATATTTAAAA
1 ATATTTAAAA
62213596 AAATTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
10 12 0.32
11 6 0.16
12 3 0.08
13 13 0.34
14 4 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTTAAAATC
Found at i:62213712 original size:21 final size:20
Alignment explanation
Indices: 62213688--62213750 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
62213678 TAAATGTTTT
62213688 ATATTATTAAAAATATATTTA
1 ATATT-TTAAAAATATATTTA
62213709 ATA-TTTATAAAATAATATTTA
1 ATATTTTA-AAAAT-ATATTTA
62213730 A-ATTTTTAAACAATA-ATTTA
1 ATA-TTTTAAA-AATATATTTA
62213750 A
1 A
62213751 AAATAATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 14 0.38
22 7 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTTAAAAATATATTTA
Found at i:62213737 original size:22 final size:20
Alignment explanation
Indices: 62213694--62213746 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
62213684 TTTTATATTA
62213694 TTAAAAAT-ATATTTAATAT
1 TTAAAAATAATATTTAATAT
*
62213713 TTATAAAATAATATTTAAATTT
1 TTA-AAAATAATATTT-AATAT
62213735 TTAAACAATAAT
1 TTAAA-AATAAT
62213747 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 8 0.28
22 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAATAATATTTAATAT
Found at i:62213748 original size:20 final size:20
Alignment explanation
Indices: 62213691--62213751 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
62213681 ATGTTTTATA
62213691 TTATTAAAAATATATTTAATAT
1 TTATTAAAAATA-ATTTAA-AT
*
62213713 TTATAAAATAAT-ATTTAAAT
1 TTATTAAA-AATAATTTAAAT
62213733 TT-TTAAACAATAATTTAAA
1 TTATTAAA-AATAATTTAAA
62213752 AATAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.21
20 11 0.32
21 6 0.18
22 7 0.21
23 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTAAAAATAATTTAAAT
Found at i:62213767 original size:34 final size:33
Alignment explanation
Indices: 62213711--62213811 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 33
62213701 TATATTTAAT
* *
62213711 ATTTATAAAATAATATTTAAATTTTTA-AACAATA
1 ATTTA-AAAATAATATTTAAA-ATTTAGAAAAATA
62213745 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
1 ATTTAAAAATAATATTTAAAATTTAGAAAAATA
* *
62213778 ATTTCAAATATATATATTTAAAAATTA-AAAAATA
1 ATTT-AAAAATA-ATATTTAAAATTTAGAAAAATA
62213812 TATATTATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 4 0.07
33 25 0.42
34 18 0.30
35 13 0.22
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTAGAAAAATA
Found at i:62214138 original size:14 final size:14
Alignment explanation
Indices: 62214104--62214144 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
62214094 TTTAAACGTT
62214104 TTTAAAATAATTTT-
1 TTTAAAA-AATTTTA
*
62214118 TAT-AAAAATTTTA
1 TTTAAAAAATTTTA
62214131 TTTAAAAAATTTTA
1 TTTAAAAAATTTTA
62214145 AATGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAAAAAATTTTA
Found at i:62214155 original size:29 final size:29
Alignment explanation
Indices: 62214123--62214199 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
62214113 ATTTTTATAA
*
62214123 AAATTTTATTTAAAAA-AT-TTTAAATGTTT
1 AAATTTTA-TTAAAAATATATTT-AATATTT
*
62214152 AAATATTATTAAAAATATATTTAATATTT
1 AAATTTTATTAAAAATATATTTAATATTT
*
62214181 AAA--AT-TTAAAAATATATTT
1 AAATTTTATTAAAAATATATTT
62214200 TTGAAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 14 0.33
27 1 0.02
28 7 0.16
29 18 0.42
30 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (29 bp):
AAATTTTATTAAAAATATATTTAATATTT
Found at i:62214195 original size:26 final size:28
Alignment explanation
Indices: 62214129--62214199 Score: 87
Period size: 26 Copynumber: 2.6 Consensus size: 28
62214119 ATAAAAATTT
*
62214129 TATTTAAAAA-AT-TTTAAATGTTTAAA
1 TATTTAAAAATATATTTAAATATTTAAA
62214155 TATTATTAAAAATATATTT-AATATTTAAA
1 TA-T-TTAAAAATATATTTAAATATTTAAA
62214184 -ATTTAAAAATATATTT
1 TATTTAAAAATATATTT
62214200 TTGAAATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 16 0.40
27 2 0.05
28 8 0.20
29 11 0.28
30 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTAAAAATATATTTAAATATTTAAA
Found at i:62214238 original size:14 final size:14
Alignment explanation
Indices: 62214219--62214294 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
62214209 TTTTATTTTG
62214219 TTTAAAAATATATT
1 TTTAAAAATATATT
62214233 TTTAAAAATATA--
1 TTTAAAAATATATT
* *
62214245 TTTAAAATTTAAAATT
1 TTTAAAA-AT-ATATT
** *
62214261 TAGAAAAAT-TAAT
1 TTTAAAAATATATT
*
62214274 TTCAAAAATATATT
1 TTTAAAAATATATT
62214288 TTTAAAA
1 TTTAAAA
62214295 TGTATAAGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 23 0.50
15 1 0.02
16 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:62214336 original size:21 final size:20
Alignment explanation
Indices: 62214310--62214351 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
62214300 AAGACATAAT
*
62214310 TTTAAAAAATAATATTTAAAA
1 TTTAAAAAATAAT-TTAAAAA
62214331 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
62214351 T
1 T
62214352 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:62214337 original size:20 final size:20
Alignment explanation
Indices: 62214314--62214377 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
62214304 CATAATTTTA
62214314 AAAAATAATATTTAAAATTT
1 AAAAATAATATTTAAAATTT
62214334 --AAA-AA-A--T-AA-TTT
1 AAAAATAATATTTAAAATTT
62214346 AAAAATAATATTTAAAATTT
1 AAAAATAATATTTAAAATTT
*
62214366 TAAAATATATAT
1 AAAAATA-ATAT
62214378 ATTACAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 17
0.65 0.02 0.33
Matches are distributed among these distances:
12 3 0.09
13 2 0.06
14 4 0.12
15 2 0.06
16 2 0.06
17 2 0.06
18 4 0.12
19 2 0.06
20 9 0.26
21 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATAATATTTAAAATTT
Found at i:62214443 original size:9 final size:9
Alignment explanation
Indices: 62214429--62214462 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
62214419 TTAATAACAA
62214429 AAAATAAAT
1 AAAATAAAT
62214438 AAAATAAAT
1 AAAATAAAT
62214447 AAACA-AAAT
1 AAA-ATAAAT
62214456 AAAATAA
1 AAAATAA
62214463 GAAAAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:62214446 original size:13 final size:13
Alignment explanation
Indices: 62214416--62214458 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
62214406 AAATTTTTTA
* *
62214416 AAATTAATAACAAA
1 AAATAAATAA-AAT
62214430 AAATAAATAAAAT
1 AAATAAATAAAAT
*
62214443 AAATAAACAAAAT
1 AAATAAATAAAAT
62214456 AAA
1 AAA
62214459 ATAAGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:62214462 original size:23 final size:23
Alignment explanation
Indices: 62214414--62214458 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62214404 TCAAATTTTT
*
62214414 TAAAATTAATAACAAAAAATAAA
1 TAAAATAAATAACAAAAAATAAA
*
62214437 TAAAATAAATAA-ACAAAATAAA
1 TAAAATAAATAACAAAAAATAAA
62214459 ATAAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAAATAAATAACAAAAAATAAA
Done.