Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 195 of 228
Found at i:57491775 original size:4 final size:4
Alignment explanation
Indices: 57491766--57491797 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
57491756 ACAGACATAC
57491766 AAAT AAAT AAAT AAAT AAAT AAAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAA
57491798 AGATATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:57491892 original size:27 final size:26
Alignment explanation
Indices: 57491853--57491909 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
57491843 CATATATAGG
*
57491853 TATATAGATTATAAA-ATAATATGTATA
1 TATATAGAATATAAATAT-ATATGT-TA
* *
57491880 TATATATAATATAAGTATATATGTTA
1 TATATAGAATATAAATATATATGTTA
57491906 TATA
1 TATA
57491910 AAAAAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.23
27 18 0.69
28 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TATATAGAATATAAATATATATGTTA
Found at i:57492031 original size:14 final size:12
Alignment explanation
Indices: 57492019--57492064 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
57492009 CACGTATATG
57492019 TATATAAAAATA
1 TATATAAAAATA
57492031 TATATAAAAATTA
1 TATATAAAAA-TA
*
57492044 TAAAATATAAAATA
1 T-ATATA-AAAATA
57492058 TATATAA
1 TATATAA
57492065 GTATGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:57492078 original size:27 final size:26
Alignment explanation
Indices: 57492019--57492084 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
57492009 CACGTATATG
57492019 TATATA-AAAATATATATAAAAATTA
1 TATATATAAAATATATATAAAAATTA
* **
57492044 TAAAATATAAAATATATATAAGTATGTA
1 T-ATATATAAAATATATATAAAAAT-TA
57492072 TATATATATAAAT
1 TATATATA-AAAT
57492085 GAGGAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 21 0.64
28 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
TATATATAAAATATATATAAAAATTA
Found at i:57494525 original size:17 final size:17
Alignment explanation
Indices: 57494503--57494537 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
57494493 CTGTGTTTTG
57494503 TCATAGGCTGCTCTTGA
1 TCATAGGCTGCTCTTGA
57494520 TCATAGGCTGCTCTTGA
1 TCATAGGCTGCTCTTGA
57494537 T
1 T
57494538 TGATCTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (17 bp):
TCATAGGCTGCTCTTGA
Found at i:57495689 original size:19 final size:19
Alignment explanation
Indices: 57495667--57495715 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
57495657 AAAAAATAAA
57495667 ATTTTATAAA-AAATATTTT
1 ATTTT-TAAATAAATATTTT
*
57495686 ATTTTTAAATATATATTTT
1 ATTTTTAAATAAATATTTT
57495705 ATTTTTCAAAT
1 ATTTTT-AAAT
57495716 TATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTAAATAAATATTTT
Found at i:57495719 original size:19 final size:19
Alignment explanation
Indices: 57495679--57495719 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
57495669 TTTATAAAAA
57495679 ATATTTTATTTTTAAATAT
1 ATATTTTATTTTTAAATAT
57495698 ATATTTTATTTTTCAAAT-T
1 ATATTTTATTTTT-AAATAT
57495717 ATA
1 ATA
57495720 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTATTTTTAAATAT
Found at i:57506249 original size:17 final size:18
Alignment explanation
Indices: 57506229--57506262 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57506219 TTTTTATGTT
*
57506229 TATTTTCAA-TTTAATTA
1 TATTTTAAATTTTAATTA
57506246 TATTTTAAATTTTAATT
1 TATTTTAAATTTTAATT
57506263 TAATATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTAAATTTTAATTA
Found at i:57518005 original size:16 final size:16
Alignment explanation
Indices: 57517984--57518026 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
57517974 CCAATATCCT
*
57517984 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
57518000 ATTATCACATTTACAC
1 ATTATCATATTTACAC
57518016 ATATAT-ATATT
1 AT-TATCATATT
57518027 CCTTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:57519930 original size:37 final size:37
Alignment explanation
Indices: 57519889--57519999 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
57519879 TAAAAATGGG
* *
57519889 GCTATTACCGTAGTACTTGAAGTCAAATTATGTGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
*
57519926 GCTATTACAACAGTACTTGAAGTCAAATTATGTGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
* *
57519963 GCTATTACAGCAGTACTTAAAGTCAAATTATATGCTT
1 GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
57520000 ACATTTACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (37 bp):
GCTATTACAGCAGTACTTGAAGTCAAATTATGTGCTT
Found at i:57520974 original size:38 final size:38
Alignment explanation
Indices: 57520919--57520992 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
57520909 ATCACTAATA
*
57520919 TTATCGAAAAGTGACAAATCAGTCACCCATTAACATCG
1 TTATCAAAAAGTGACAAATCAGTCACCCATTAACATCG
* *
57520957 TTATCAAAAAGTTACAAATCAGTCACTCATTAACAT
1 TTATCAAAAAGTGACAAATCAGTCACCCATTAACAT
57520993 TTTTTGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (38 bp):
TTATCAAAAAGTGACAAATCAGTCACCCATTAACATCG
Found at i:57521996 original size:20 final size:20
Alignment explanation
Indices: 57521971--57522008 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57521961 TTGTTATTTT
57521971 TTGAAACTTGAGTGACTGAA
1 TTGAAACTTGAGTGACTGAA
*
57521991 TTGAAAGTTGAGTGACTG
1 TTGAAACTTGAGTGACTG
57522009 TTTTGTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (20 bp):
TTGAAACTTGAGTGACTGAA
Found at i:57522279 original size:20 final size:20
Alignment explanation
Indices: 57522254--57522293 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57522244 AAATTATGTA
*
57522254 TATATATATTCTT-TATTTTT
1 TATATA-ATTATTATATTTTT
57522274 TATATAATTATTATATTTTT
1 TATATAATTATTATATTTTT
57522294 ACAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATAATTATTATATTTTT
Found at i:57535941 original size:130 final size:130
Alignment explanation
Indices: 57535703--57535944 Score: 403
Period size: 130 Copynumber: 1.9 Consensus size: 130
57535693 GTTAACGTAA
* * * *
57535703 ACCCAAATCTAGCACAATAACCTATGGCTCAAATGATTCGGCAAATGGCTTAAGCTCTTACAGAA
1 ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
* *
57535768 CAACAGCCGTTGTGCATTGTGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
66 CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
* *
57535833 ACCCGAATCTAGCACAACAACCTATGGTTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
1 ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
*
57535898 CAACAGTCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGA
66 CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGA
57535945 GATTAAGTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 103 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (130 bp):
ACCCAAATCTAGCACAACAACCTATGGCTCAAATAATTCGGCAAATGGCTGAAGCTCTTACAAAA
CAACAGCCGTTATGCATTGCGTATCCTACTATGGATACTAATTTTGATACTACTATGCATTGCAT
Found at i:57544821 original size:80 final size:79
Alignment explanation
Indices: 57544733--57544885 Score: 243
Period size: 80 Copynumber: 1.9 Consensus size: 79
57544723 CATTTCATAG
* * * *
57544733 AAATTATATATATTCTGACTTTAGTTTAATTGATTCAAATAGTAAAGTACTAAGAGGTGGTATTA
1 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAAT-AAGTACTAAGAGGTAGTATTA
57544798 ATTAAATTTTGATAA
65 ATTAAATTTTGATAA
* *
57544813 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTATTAAGAGGTAGTATTGA
1 AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTACTAAGAGGTAGTATTAA
57544878 TTAAATTT
66 TTAAATTT
57544886 GGGATTCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 27 0.40
80 40 0.60
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.42
Consensus pattern (79 bp):
AAATTATATATATTCTGAATTTAGCTTAATTGATTCAAATAATAAGTACTAAGAGGTAGTATTAA
TTAAATTTTGATAA
Found at i:57547929 original size:43 final size:43
Alignment explanation
Indices: 57547849--57547972 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
57547839 GACTCCGATA
* *
57547849 TGTGTTTTCGTGTAAGACCACGTTTGGGACGTCGGCATCGACT
1 TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCATCGACT
* *
57547892 TGTGTTTTTGTGTAAGACC-CTGTCTAGGACAGT-GGCATCG-GT
1 TGTGTTTTCGTGTAAGACCAC-GTCTAGGAC-GTCGGCATCGACT
* * * * *
57547934 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCAT
57547973 TGTACTAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTAGGACGTCGGCATCGACT
Found at i:57548655 original size:15 final size:15
Alignment explanation
Indices: 57548623--57548671 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
57548613 TACTTTAATC
57548623 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
57548638 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
* *
57548653 ATGGTAATGTATATAT
1 ATGGTTA-GTATTTAT
57548669 ATG
1 ATG
57548672 TGCATGGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:57549230 original size:187 final size:187
Alignment explanation
Indices: 57548915--57549565 Score: 1203
Period size: 187 Copynumber: 3.5 Consensus size: 187
57548905 GAGTAAATGA
* *
57548915 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* *
57548980 TTTTATGTATAAGGCAGTCCAATTATATATGTATATGCTGTAAATTTTTGACGTATAAATGCAGT
66 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
57549045 CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
131 CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
57549102 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
*
57549167 TTTTATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
66 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
57549232 CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
131 CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
* *
57549289 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATAGGCTGTTAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
57549354 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
66 TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
* *
57549419 CCAATTATATATGTATATGCTGTCAAATTTTGATGTACAAAGGCAGTCCAAATATAT
131 CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
57549476 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
*
57549541 TTTGATGTATAAATGCAGTCCAATT
66 TTTGATGTAT-AAGGCAGTCCAATT
57549566 TTGTAAATAT
Statistics
Matches: 452, Mismatches: 11, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
187 439 0.97
188 13 0.03
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (187 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
TTTGATGTATAAGGCAGTCCAATTATATATGTATATGCTGTCAATTTTTGACGTATAAATGCAGT
CCAATTATATATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
Found at i:57549588 original size:140 final size:141
Alignment explanation
Indices: 57548915--57549590 Score: 1076
Period size: 140 Copynumber: 4.8 Consensus size: 141
57548905 GAGTAAATGA
* *
57548915 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* * * *
57548980 TTTTATGTAT-AAGGCAGTCCAATTATATATGTATATGCTGT-AAATTTTTGACGTATAAATGCA
66 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAA-TTTTGATGTATAAAGGCA
57549043 GTCCAATTATAT
130 GTCCAATTATAT
* *
57549055 ATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* *
57549120 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATTTTTTATGTAT-AAGGCAG
66 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAAGGCAG
57549184 TCCAATTATAT
131 TCCAATTATAT
*
57549195 ATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* * * *
57549260 TTTGATGTACAAATGCAGTCCAAATATATATGTATATGCTGTCAATTTTTGATGTATAAATGCAG
66 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAAGGCAG
57549325 TCCAATTATAT
131 TCCAATTATAT
* * *
57549336 ATGTATAGGCTGTTAATTTTTGATGTAT-AAGGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* *
57549400 TTTGACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTACAAAGGCAG
66 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAAGGCAG
*
57549465 TCCAAATATAT
131 TCCAATTATAT
57549476 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* **
57549541 TTTGATGTATAAATGCAGTCCAATT-T-TGTAAATATGCTGTCCAAATTTTG
66 TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT-CAAATTTTG
57549591 GTGTGAAAAT
Statistics
Matches: 498, Mismatches: 33, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
139 11 0.02
140 345 0.69
141 140 0.28
142 2 0.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (141 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
TTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAAGGCAG
TCCAATTATAT
Found at i:57549589 original size:47 final size:47
Alignment explanation
Indices: 57548915--57549565 Score: 1092
Period size: 47 Copynumber: 13.9 Consensus size: 47
57548905 GAGTAAATGA
* *
57548915 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
57548962 ATGTATATGCTGTCAATTTTTTATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
57549008 ATGTATATGCTGTAAATTTTTGACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
57549055 ATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
57549102 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
57549149 ATGTATATGCTGTCAATTTTTTATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
57549195 ATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
57549242 ATGTATATGCTGTCAATTTTTGATGTACAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
57549289 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * *
57549336 ATGTATAGGCTGTTAATTTTTGATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
57549382 ATGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * * *
57549429 ATGTATATGCTGTCAAATTTTGATGTACAAAGGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
57549476 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
57549523 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT
57549566 TTGTAAATAT
Statistics
Matches: 561, Mismatches: 40, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
46 127 0.23
47 434 0.77
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (47 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
Found at i:57550768 original size:21 final size:21
Alignment explanation
Indices: 57550742--57550792 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
57550732 GTCCGAACAA
* *
57550742 AACCTCTATTGCCTAAAATTT
1 AACCTCTATTGCCCAAAATTC
57550763 AACCTCTATTGCCCAAAATTC
1 AACCTCTATTGCCCAAAATTC
57550784 AACCTCTAT
1 AACCTCTAT
57550793 ATTCTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (21 bp):
AACCTCTATTGCCCAAAATTC
Found at i:57551119 original size:24 final size:24
Alignment explanation
Indices: 57551087--57551136 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
57551077 AAATCTGTTT
57551087 GAACTTATAATTATTTCTTTATAA
1 GAACTTATAATTATTTCTTTATAA
57551111 GAACTTATAATTATTTCTTTATAA
1 GAACTTATAATTATTTCTTTATAA
57551135 GA
1 GA
57551137 TCATAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (24 bp):
GAACTTATAATTATTTCTTTATAA
Found at i:57554521 original size:18 final size:18
Alignment explanation
Indices: 57554498--57554532 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
57554488 TCCACGTCAT
57554498 GACGATGAAGGTACTCCC
1 GACGATGAAGGTACTCCC
57554516 GACGATGAAGGTACTCC
1 GACGATGAAGGTACTCC
57554533 ACATTGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (18 bp):
GACGATGAAGGTACTCCC
Found at i:57558315 original size:31 final size:30
Alignment explanation
Indices: 57558277--57558360 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
57558267 CTACTTCCAA
** **
57558277 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGT-TACAAATT
57558308 GGTCACTCAATT-TTAAAAAGTTACAAATT
1 GGTCACTCAATTATTAAAAAGTTACAAATT
* **
57558337 GGTCACTGAATTATTCGAAAGTTA
1 GGTCACTCAATTATTAAAAAGTTA
57558361 TCTTTTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.38
30 16 0.36
31 12 0.27
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (30 bp):
GGTCACTCAATTATTAAAAAGTTACAAATT
Found at i:57558342 original size:29 final size:31
Alignment explanation
Indices: 57558277--57558351 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
57558267 CTACTTCCAA
** **
57558277 GGTCACTCAATTATTAGTAAGTATACACTTT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
57558308 GGTCACTCAATT-TTAAAAAGT-TACAAATT
1 GGTCACTCAATTATTAAAAAGTATACAAATT
*
57558337 GGTCACTGAATTATT
1 GGTCACTCAATTATT
57558352 CGAAAGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 17 0.45
30 9 0.24
31 12 0.32
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (31 bp):
GGTCACTCAATTATTAAAAAGTATACAAATT
Found at i:57562182 original size:60 final size:60
Alignment explanation
Indices: 57562098--57562217 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
57562088 CATATAGAGA
*
57562098 AATGGGTATGGGGTTATGATCTTCC-AAGAACCTG-TAAATACATGGAAATCTTGAAAAGT
1 AATGGGTATGGGGTTATGATCTTCCAAAG-ACCCGCTAAATACATGGAAATCTTGAAAAGT
* *
57562157 AATGGGTATGGGTTTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGGAAAGT
1 AATGGGTATGGG-GTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
57562218 GAACATACCT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 12 0.22
60 16 0.29
61 27 0.49
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (60 bp):
AATGGGTATGGGGTTATGATCTTCCAAAGACCCGCTAAATACATGGAAATCTTGAAAAGT
Found at i:57565043 original size:18 final size:18
Alignment explanation
Indices: 57565007--57565059 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
57564997 TTTTTAATTA
*
57565007 AAAAATTATAATAAGTATT
1 AAAAATTATAA-AAATATT
57565026 AAAAATTATAAAAATATT
1 AAAAATTATAAAAATATT
* *
57565044 AAATATTAAAAAAATA
1 AAAAATTATAAAAATA
57565060 AAATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATATT
Found at i:57565053 original size:16 final size:16
Alignment explanation
Indices: 57565025--57565070 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
57565015 TAATAAGTAT
57565025 TAAAA-ATTATAAAAATA
1 TAAAATATTA-AAAAA-A
*
57565042 TTAAATATTAAAAAAA
1 TAAAATATTAAAAAAA
57565058 TAAAATATTAAAA
1 TAAAATATTAAAA
57565071 TTGATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATTAAAAAAA
Found at i:57565770 original size:16 final size:17
Alignment explanation
Indices: 57565739--57565771 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57565729 ATTGTTTACT
57565739 AAGTATTATATGATATA
1 AAGTATTATATGATATA
*
57565756 AAGTATT-TTTGATATA
1 AAGTATTATATGATATA
57565772 GTTAGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
AAGTATTATATGATATA
Found at i:57569395 original size:43 final size:43
Alignment explanation
Indices: 57569150--57569507 Score: 425
Period size: 43 Copynumber: 8.4 Consensus size: 43
57569140 AAAAAAAACA
* * *** *
57569150 CCGCTAAAAGTCATGATTTATAGCGGCGTTTCTCCCAAAATCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
* * *
57569193 CCGCTAAAAGTCATGATCTATAACAG-ATTTGTGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
*
57569235 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
* *
57569278 CCGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
* * *
57569321 CTGCTCAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
* *
57569364 CCGCTAAAGGTCATGATCTATAGCGGCGTTTGGGGGAAAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
* * * *
57569407 TCGCTAAAGGTCATGATCTATAGCGGTGTTTGTGGTG-GAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGG-GAAAAGCG
* * * * * * * *
57569450 CCGCTAAAGGTCCTGACCTTTAACGGCGTTT-TTGTAAAAGCA
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
57569492 CCGCTAAAAGTCATGA
1 CCGCTAAAAGTCATGA
57569508 CTTTTAGCGG
Statistics
Matches: 274, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
42 54 0.20
43 219 0.80
44 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCG
Found at i:57569538 original size:44 final size:42
Alignment explanation
Indices: 57569450--57569539 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
57569440 GGTGGAAGCG
* * * *
57569450 CCGCTAAAGGTCCTGACCTTTAACGGCGTTTTTGTAAAAGCA
1 CCGCTAAAAGTCATGACCTTTAACGGCGTTTTTCTAAAAACA
* * *
57569492 CCGCTAAAAGTCATGACTTTTAGCGGCTTTTATTTCTAAAAACA
1 CCGCTAAAAGTCATGACCTTTAACGGC-GTT-TTTCTAAAAACA
57569536 CCGC
1 CCGC
57569540 AAATGTTAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 23 0.59
43 2 0.05
44 14 0.36
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
CCGCTAAAAGTCATGACCTTTAACGGCGTTTTTCTAAAAACA
Found at i:57572898 original size:3 final size:3
Alignment explanation
Indices: 57572890--57572920 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
57572880 TTATTTTTTG
57572890 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
57572921 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:57578928 original size:18 final size:18
Alignment explanation
Indices: 57578900--57578948 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
57578890 AAATAAAAAA
* *
57578900 AATATTTTGAAAATGAAT
1 AATAATTTGAAAATAAAT
*
57578918 AATGATTTGAAAATAAAT
1 AATAATTTGAAAATAAAT
57578936 AATAATTTGAAAA
1 AATAATTTGAAAA
57578949 CGAACGACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (18 bp):
AATAATTTGAAAATAAAT
Found at i:57579302 original size:25 final size:25
Alignment explanation
Indices: 57579274--57579340 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
57579264 AACTGTCCTT
* *
57579274 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
*
57579299 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
57579324 GATAG-ACTATACTGAAA
1 GATAGTA-TATACTGAAA
57579341 ACACTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:57592494 original size:17 final size:18
Alignment explanation
Indices: 57592472--57592505 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
57592462 AATTTGGGCC
57592472 GTGTGGGCC-ACACGGGT
1 GTGTGGGCCTACACGGGT
57592489 GTGTGGGCCTACACGGG
1 GTGTGGGCCTACACGGG
57592506 CGAACATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGTGGGCCTACACGGGT
Found at i:57596029 original size:31 final size:31
Alignment explanation
Indices: 57595994--57596060 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
57595984 TTTAACAGCT
*
57595994 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
57596025 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
57596056 GGTGA
1 GGTGA
57596061 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:57601144 original size:18 final size:19
Alignment explanation
Indices: 57601121--57601158 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
57601111 GGAAGCAAGC
*
57601121 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
57601139 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
57601158 A
1 A
57601159 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:57609521 original size:2 final size:2
Alignment explanation
Indices: 57609514--57609543 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57609504 GTGAAATTGC
57609514 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
57609544 AAGCTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57612510 original size:44 final size:44
Alignment explanation
Indices: 57612461--57612645 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
57612451 TATCTTGGAA
* *
57612461 AGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * * * *
57612505 AGATAAGATCTACCATTTTCAACCCACTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** ** * * * *
57612549 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTAC-T-CCACTACTGCTTAGG-G
* *
57612593 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
57612637 AGATAAGAT
1 AGATAAGAT
57612646 CTACAATCTT
Statistics
Matches: 97, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 79 0.81
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:57612751 original size:132 final size:132
Alignment explanation
Indices: 57612439--57612744 Score: 513
Period size: 132 Copynumber: 2.3 Consensus size: 132
57612429 TCGGCTTTAC
* * *
57612439 TCTGCTTCCCATTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* * *
57612504 GAGATAAGATCTACCATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTA
66 GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
57612569 AA
131 AA
57612571 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
** *
57612636 GAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGTCAAGGCTTGGTAGCTTA
66 GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
57612701 AA
131 AA
* *
57612703 TCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGCCTTC
1 TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTC
57612745 AGTCTGCCTT
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 163 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (132 bp):
TCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTACAATCTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCTTA
AA
Found at i:57612989 original size:217 final size:217
Alignment explanation
Indices: 57612725--57613257 Score: 895
Period size: 217 Copynumber: 2.5 Consensus size: 217
57612715 TATCTTAGAA
** * *
57612725 AGATAAGATTTGCCGCCTTCAGTCTGCCTTGCTGCCACTTCAGGAGGATAAGACTTGCTTAATTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* * * *
57612790 ATCTGCTCTACTGTAGCTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
*
57612855 GATAAGATCTATGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
57612920 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
57612942 AGATAATATTTGCCATCTTCAGTCTGCCTTGCTGTAACTTCAGGAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
* ** *
57613007 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAATTTCAGAGA
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
* *
57613072 GATAAGATCTAAGGTTTTAACCTGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
131 GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
57613137 CTGCTCCACTGCAACTTCAGGG
196 CTGCTCCACTGCAACTTCAGGG
* *
57613159 AGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGAAGGATAAGACTTGCTTATTTA
1 AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
57613224 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
66 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
57613258 CGATCTGTTA
Statistics
Matches: 294, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 294 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
AGATAAGATTTGCCATCTTCAGTCTGCCTTGCTGCAACTTCAGGAGGATAAGACTTGCTTATTTA
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCTAAGGTTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
CTGCTCCACTGCAACTTCAGGG
Found at i:57613025 original size:44 final size:43
Alignment explanation
Indices: 57612756--57613257 Score: 323
Period size: 44 Copynumber: 11.6 Consensus size: 43
57612746 GTCTGCCTTG
* * *
57612756 CTGCCACTTCA-GGAGGATAAGACTTGCTTAATTAATCTGCTCTA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
* * * ** *
57612800 CTGTAGCTTCAGGGAGATAAGACTAG--ATGCAATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
* * * *
57612840 CTGCAACTTCAGAGAGATAAGATCTATGGT-TTTAACCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAATCTGCTCCA
* * **
57612884 CTACAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAATCTGCTCCA
* * * * **
57612928 CTGCAACTTCAGGGAGATAATATTTGCCATCTTCAGTCTGC-CTTG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AATCTGCTC-CA
* *
57612973 CTGTAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
* * * * *
57613017 CTGCAACTTTAGGGAGATAAGACTAG--ATGTGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
* * * * *
57613057 CTGCAATTTCAGAGAGATAAGATCTAAGGT-TTTAACCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CT-TGCTATTTAATCTGCTCCA
* **
57613101 CTGCAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTG-C-TATTTAATCTGCTCCA
* * * *
57613145 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCG
1 CTGCAACTTCAGGGAGATAAGACTTGCTAT-TT-AATCTGCTC-CA
* *
57613190 CTGCAACTTCA-GAAGGATAAGACTTGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTTGC-TATTTAATCTGCTCCA
57613234 CTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
57613258 CGATCTGTTA
Statistics
Matches: 355, Mismatches: 70, Indels: 66
0.72 0.14 0.13
Matches are distributed among these distances:
40 39 0.11
41 25 0.07
42 5 0.01
43 17 0.05
44 190 0.54
45 75 0.21
46 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTTGCTATTTAATCTGCTCCA
Found at i:57627225 original size:31 final size:31
Alignment explanation
Indices: 57627190--57627256 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
57627180 TTTAACAGCT
*
57627190 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
57627221 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
57627252 GGTGA
1 GGTGA
57627257 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:57631215 original size:31 final size:31
Alignment explanation
Indices: 57631180--57631246 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
57631170 TTTAACAGCT
*
57631180 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
57631211 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
57631242 GGTGA
1 GGTGA
57631247 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:57635232 original size:31 final size:31
Alignment explanation
Indices: 57635197--57635263 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
57635187 TTTAACAGCT
*
57635197 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
57635228 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
57635259 GGTGA
1 GGTGA
57635264 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:57639248 original size:31 final size:31
Alignment explanation
Indices: 57639213--57639279 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
57639203 TTTAACAGCT
*
57639213 GGTGACCAGAAAAGAAAATTTCGAATAATTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
*
57639244 GGTGACCAGAAAAGAAAATCTCGAATAGTTG
1 GGTGACCAGAAAAGAAAATCTCGAATAATTG
57639275 GGTGA
1 GGTGA
57639280 TCATTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (31 bp):
GGTGACCAGAAAAGAAAATCTCGAATAATTG
Found at i:57653491 original size:6 final size:6
Alignment explanation
Indices: 57653482--57653511 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57653472 GATGCATGAG
57653482 CATGTA CATGTA CATGTA CATGTA CATGTA
1 CATGTA CATGTA CATGTA CATGTA CATGTA
57653512 GTTTGTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (6 bp):
CATGTA
Found at i:57667408 original size:42 final size:42
Alignment explanation
Indices: 57667294--57667423 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
57667284 CTCTAACTCA
* * * *
57667294 TATGAGTTTCCGTTCAACCCTAATGGGTTTCTGTTTAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
* * * * *
57667336 TTTAAGCTTCTGTTTAACCCTTAT-AGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTATGA-GTTTCTGTTTAGCTCT
*
57667378 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
57667420 TATG
1 TATG
57667424 CGTTTCTATT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTATGAGTTTCTGTTTAGCTCT
Found at i:57667428 original size:21 final size:21
Alignment explanation
Indices: 57667294--57667430 Score: 96
Period size: 21 Copynumber: 6.5 Consensus size: 21
57667284 CTCTAACTCA
* * *
57667294 TATGAGTTTCCGTTCAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
57667315 AATGGGTTTCTGTTTAGCTCT
1 TATGAGTTTCTGTTTAGCCCT
* * * *
57667336 TTTAAGCTTCTGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
* * *
57667357 TAT-AGGTTTCCGTTCAGCTCT
1 TATGA-GTTTCTGTTTAGCCCT
* * *
57667378 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCTGTTTAGCCCT
*
57667399 TATGAGTTTCTGTTTAGCACT
1 TATGAGTTTCTGTTTAGCCCT
*
57667420 TATGCGTTTCT
1 TATGAGTTTCT
57667431 ATTCAGCCTT
Statistics
Matches: 86, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 84 0.98
22 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCTGTTTAGCCCT
Found at i:57667947 original size:21 final size:21
Alignment explanation
Indices: 57667921--57667960 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
57667911 CAAAACAGGT
57667921 TTTTAGCGGCGT-TTTTTAGTC
1 TTTTAGCGGC-TCTTTTTAGTC
57667942 TTTTAGCGGCTCTTTTTAG
1 TTTTAGCGGCTCTTTTTAG
57667961 CGCCACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.53
Consensus pattern (21 bp):
TTTTAGCGGCTCTTTTTAGTC
Found at i:57668054 original size:30 final size:30
Alignment explanation
Indices: 57668018--57668088 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
57668008 CGCTATTGAC
*
57668018 AACGTCGCTAAGGTTTGCGGCGTTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
57668048 AACGTCGCTAAGGTTTGCGGCATTTCTATA
1 AACGTCGCTAAGGTTTGCGGCATTTCTATA
* *
57668078 AATGCCGCTAA
1 AACGTCGCTAA
57668089 AGGTCATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
AACGTCGCTAAGGTTTGCGGCATTTCTATA
Found at i:57668165 original size:43 final size:43
Alignment explanation
Indices: 57668081--57668243 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
57668071 TTCTATAAAT
* * * **
57668081 GCCGCTAAAGGTCATG-TTCTTTAGCGGCGCTTATCCCACAAAC
1 GCCGCTAAAGATCATGACT-TTTAGCGGCGCTTTTATCACAAAC
* * *
57668124 GTCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTATTACAAAC
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
* *
57668167 GCCGCTATAGATCATGACTTTTAGCAGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
* *
57668210 GCCGCTATAGATCATGACTTTTAGTGGCGCTTTT
1 GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTT
57668244 TCTATAAACG
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 105 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTATCACAAAC
Found at i:57668253 original size:43 final size:43
Alignment explanation
Indices: 57668100--57668304 Score: 207
Period size: 43 Copynumber: 4.7 Consensus size: 43
57668090 GGTCATGTTC
* * * * * *
57668100 TTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGGTCATGACT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAGATCATGACT
57668143 TTTAGCGGCGCTTTTAT-TACAAACGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTT-TCTACAAACGCCGCTATAGATCATGACT
*
57668186 TTTAGCAGCGCTTTTATC-ACAAACGCCGCTATAGATCATGACT
1 TTTAGCGGCGCTTTT-TCTACAAACGCCGCTATAGATCATGACT
* * ** * * **
57668229 TTTAGTGGCGCTTTTTCTATAAACGCTTCTATTGTTTGGTGACT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAG-ATCATGACT
* * *
57668273 TTTAGCGGTGCTTTTTCTATAAACGCCACTAT
1 TTTAGCGGCGCTTTTTCTACAAACGCCGCTAT
57668305 TTTGGGATTT
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.01
43 102 0.74
44 34 0.25
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTCTACAAACGCCGCTATAGATCATGACT
Found at i:57668253 original size:86 final size:86
Alignment explanation
Indices: 57668070--57668254 Score: 221
Period size: 86 Copynumber: 2.2 Consensus size: 86
57668060 GTTTGCGGCA
* * * * * * *
57668070 TTTCTATAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATCCCACAAACGTCGCTAAAGG
1 TTTCTATAAACGCCGCTAAAGATCATGCTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAAGA
57668135 TCATGACTTTTAGCGGCGCTT
66 TCATGACTTTTAGCGGCGCTT
* * * * *
57668156 TTAT-TACAAACGCCGCTATAGATCATGACT-TTTAGCAGCGCTTTTATCACAAACGCCGCTATA
1 TT-TCTATAAACGCCGCTAAAGATCATG-CTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAA
*
57668219 GATCATGACTTTTAGTGGCGCTT
64 GATCATGACTTTTAGCGGCGCTT
57668242 TTTCTATAAACGC
1 TTTCTATAAACGC
57668255 TTCTATTGTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
85 1 0.01
86 79 0.96
87 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (86 bp):
TTTCTATAAACGCCGCTAAAGATCATGCTCTTTAGCAGCGCTTATACCACAAACGCCGCTAAAGA
TCATGACTTTTAGCGGCGCTT
Found at i:57670601 original size:9 final size:9
Alignment explanation
Indices: 57670587--57671015 Score: 268
Period size: 9 Copynumber: 48.2 Consensus size: 9
57670577 TATATTTATG
57670587 TATGTAAGT
1 TATGTAAGT
57670596 TATGT-A-T
1 TATGTAAGT
*
57670603 TATGTTAGT
1 TATGTAAGT
*
57670612 AATGTAAGT
1 TATGTAAGT
*
57670621 TGTGT-A-T
1 TATGTAAGT
57670628 TATGTAAGT
1 TATGTAAGT
57670637 TATGTAAGT
1 TATGTAAGT
57670646 TATGTAAGT
1 TATGTAAGT
*
57670655 TCTGT-A-T
1 TATGTAAGT
57670662 TATGTAAGT
1 TATGTAAGT
57670671 TATGTAAGT
1 TATGTAAGT
*
57670680 TGTG-AA-T
1 TATGTAAGT
*
57670687 TATGTAATT
1 TATGTAAGT
57670696 TATGTAA-T
1 TATGTAAGT
*
57670704 TCGTGT-A-T
1 T-ATGTAAGT
*
57670712 TATGGAAGT
1 TATGTAAGT
57670721 TATGTAAGT
1 TATGTAAGT
*
57670730 AATGT-A-T
1 TATGTAAGT
*
57670737 TATGTCAGT
1 TATGTAAGT
57670746 TATGT-A-T
1 TATGTAAGT
57670753 TATGTAAGT
1 TATGTAAGT
57670762 TATGT-A-T
1 TATGTAAGT
57670769 TATGTAAGTT
1 TATGTAAG-T
57670779 TATGTAAGT
1 TATGTAAGT
*
57670788 TATGTAAAT
1 TATGTAAGT
* *
57670797 TATATAATT
1 TATGTAAGT
* *
57670806 TATGAAATT
1 TATGTAAGT
* *
57670815 TGATCTTTAAAT
1 T-A--TGTAAGT
57670827 TATGTAAGT
1 TATGTAAGT
*
57670836 TATGTAAAT
1 TATGTAAGT
57670845 TATGTAAGT
1 TATGTAAGT
* * *
57670854 TAAGAAATT
1 TATGTAAGT
* *
57670863 TGATCTTTAAAT
1 T-A--TGTAAGT
57670875 TATGTAAGT
1 TATGTAAGT
*
57670884 CT-TGTAACT
1 -TATGTAAGT
57670893 TATGTAAGT
1 TATGTAAGT
* *
57670902 TATGAAATT
1 TATGTAAGT
* *
57670911 TGATTTTTAAAT
1 T-A--TGTAAGT
57670923 TATGTAAGT
1 TATGTAAGT
*
57670932 TATGTAAAT
1 TATGTAAGT
57670941 TATGTAAGT
1 TATGTAAGT
* *
57670950 TATGAAATT
1 TATGTAAGT
* *
57670959 TGATCTTTAAAT
1 T-A--TGTAAGT
57670971 TATGTAAGT
1 TATGTAAGT
57670980 TATGT-A-T
1 TATGTAAGT
*
57670987 TATGTAATT
1 TATGTAAGT
*
57670996 TATGTAAAT
1 TATGTAAGT
57671005 TATGTAAGT
1 TATGTAAGT
57671014 TA
1 TA
57671016 AAATATTTGA
Statistics
Matches: 330, Mismatches: 56, Indels: 68
0.73 0.12 0.15
Matches are distributed among these distances:
7 45 0.14
8 25 0.08
9 223 0.68
10 14 0.04
11 4 0.01
12 19 0.06
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TATGTAAGT
Found at i:57670616 original size:16 final size:16
Alignment explanation
Indices: 57670613--57670777 Score: 87
Period size: 16 Copynumber: 10.5 Consensus size: 16
57670603 TATGTTAGTA
**
57670613 ATGTAAGTTGTGTATT
1 ATGTAAGTAATGTATT
*
57670629 ATGTAAGTTATGTAAGTT
1 ATGTAAGTAATGT-A-TT
**
57670647 ATGTAAGTTCTGTATT
1 ATGTAAGTAATGTATT
* *
57670663 ATGTAAGTTATGTAAGT
1 ATGTAAGTAATGT-ATT
*
57670680 -TGTGAA-TTATGTAATTT
1 ATGT-AAGTAATGT-A-TT
* **
57670697 ATGTAATTCGTGTATT
1 ATGTAAGTAATGTATT
57670713 ATG---G-AA-GT-T-
1 ATGTAAGTAATGTATT
57670722 ATGTAAGTAATGTATT
1 ATGTAAGTAATGTATT
* *
57670738 ATGTCAGTTATGTATT
1 ATGTAAGTAATGTATT
*
57670754 ATGTAAGTTATGTATT
1 ATGTAAGTAATGTATT
57670770 ATGTAAGT
1 ATGTAAGT
57670778 TTATGTAAGT
Statistics
Matches: 122, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
9 3 0.02
10 1 0.01
11 2 0.02
12 1 0.01
13 2 0.02
14 2 0.02
15 1 0.01
16 79 0.65
17 10 0.08
18 21 0.17
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGTAAGTAATGTATT
Found at i:57670617 original size:25 final size:25
Alignment explanation
Indices: 57670587--57670799 Score: 138
Period size: 25 Copynumber: 8.5 Consensus size: 25
57670577 TATATTTATG
57670587 TATGTAAGTTATGTATTATGTTAGT
1 TATGTAAGTTATGTATTATGTTAGT
* * *
57670612 AATGTAAGTTGTGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGTTAGT
*
57670637 TATGTAAGTTATGTAAGTTCTG-TA-T
1 TATGTAAGTTATGT-A-TTATGTTAGT
* * *
57670662 TATGTAAGTTATGTAAGT-TGTGAAT
1 TATGTAAGTTATGT-ATTATGTTAGT
* *
57670687 TATGTAATTTATGTAATT-CGTGTA-T
1 TATGTAAGTTATGT-ATTATGT-TAGT
* *
57670712 TATGGAAGTTATGTAAGTAATG-TA-T
1 TATGTAAGTTATGT-A-TTATGTTAGT
* *
57670737 TATGTCAGTTATGTATTATGTAAGT
1 TATGTAAGTTATGTATTATGTTAGT
*
57670762 TATGT-A-TTATGTAAGTTTATGTAAGT
1 TATGTAAGTTATGT-A--TTATGTTAGT
*
57670788 TATGTAAATTAT
1 TATGTAAGTTAT
57670800 ATAATTTATG
Statistics
Matches: 153, Mismatches: 21, Indels: 25
0.77 0.11 0.13
Matches are distributed among these distances:
23 12 0.08
24 6 0.04
25 106 0.69
26 19 0.12
27 6 0.04
28 4 0.03
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTTAGT
Found at i:57670661 original size:59 final size:59
Alignment explanation
Indices: 57670587--57670788 Score: 201
Period size: 59 Copynumber: 3.6 Consensus size: 59
57670577 TATATTTATG
* *
57670587 TATGTAAGTTATGTATTATGTTAGTAATGTAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
* * *
57670646 TATGTAAGTTCTGTATTATGTAAGTTATGTAAGTTGTGAATTATGTAATTTATGT-A--
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
* * * ** * *
57670702 -AT-T-CG---TGTATTATGGAAGTTATGTAAGTAATGTATTATGTCAGTTATGT-A-T
1 TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
*
57670753 TATGTAAGTTATGTATTATGTAAGTTTATGTAAGTT
1 TATGTAAGTTATGTATTATGTAAG-TAATGTAAGTT
57670789 ATGTAAATTA
Statistics
Matches: 120, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
50 39 0.32
52 2 0.02
53 2 0.02
54 2 0.02
55 2 0.02
57 12 0.10
58 11 0.09
59 50 0.42
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (59 bp):
TATGTAAGTTATGTATTATGTAAGTAATGTAAGTTGTGAATTATGTAAGTTATGTAAGT
Found at i:57670761 original size:32 final size:35
Alignment explanation
Indices: 57670613--57670794 Score: 162
Period size: 34 Copynumber: 5.2 Consensus size: 35
57670603 TATGTTAGTA
**
57670613 ATGTAAGTTGTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
**
57670647 ATGTAAGTTCTGTATTATGTAAG-TTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
* * *
57670681 GTG-AA-TTATGTAATTTATGTAATTCGTGTATTATGGAAGTT
1 ATGTAAGTAATGT-A-TTATGTAA-----GT-TTATGTAAGTT
*
57670722 ATGTAAGTAATGTATTATGTCAG-TTATGT-A-TT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
*
57670754 ATGTAAGTTATGTATTATGTAAGTTTATGTAAGTT
1 ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
57670789 ATGTAA
1 ATGTAA
57670795 ATTATATAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
32 28 0.23
33 10 0.08
34 49 0.40
35 8 0.06
36 1 0.01
39 1 0.01
41 19 0.15
42 3 0.02
43 5 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (35 bp):
ATGTAAGTAATGTATTATGTAAGTTTATGTAAGTT
Found at i:57670835 original size:48 final size:48
Alignment explanation
Indices: 57670778--57671005 Score: 363
Period size: 48 Copynumber: 4.8 Consensus size: 48
57670768 TTATGTAAGT
* *
57670778 TTATGTAAGTTATGTAAATTATATAATTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
57670826 TTATGTAAGTTATGTAAATTATGTAAGTTAAGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
* *
57670874 TTATGTAAGTCT-TGTAACTTATGTAAGTTATGAAATTTGATTTTTAAA
1 TTATGTAAGT-TATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
57670922 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
1 TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
*
57670970 TTATGTAAGTTATGT--ATTATGTAATTTATGTAAATT
1 TTATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT
57671006 ATGTAAGTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
46 14 0.08
47 6 0.04
48 147 0.88
49 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (48 bp):
TTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAA
Found at i:57670970 original size:30 final size:30
Alignment explanation
Indices: 57670936--57671046 Score: 109
Period size: 30 Copynumber: 3.6 Consensus size: 30
57670926 GTAAGTTATG
57670936 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGATCTT
* *
57670966 TAAATTATGTAAGTTATG-TATTATGTAATTTAT
1 TAAATTATGTAAGTTATGAAATT-TG--ATCT-T
* *
57670999 GTAAATTATGTAAGTTA-AAATATTTGATGTT
1 -TAAATTATGTAAGTTATGAA-ATTTGATCTT
*
57671030 TGAATTATGTAAGTTAT
1 TAAATTATGTAAGTTAT
57671047 ATAAATTATG
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 1 0.01
32 6 0.09
33 1 0.01
34 18 0.27
35 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGATCTT
Found at i:57670999 original size:64 final size:65
Alignment explanation
Indices: 57670920--57671070 Score: 218
Period size: 64 Copynumber: 2.3 Consensus size: 65
57670910 TTGATTTTTA
* *
57670920 AATTATGTAAGTTATGTAAATTATGTAAGTTATGAA-ATTTGATCTTTAAATTATGTAAGTTATG
1 AATTATGTAAGTTATGTAAATTATGTAAGTTA-AAATATTTGATCTTTAAATTATGTAAGTTATA
57670984 T
65 T
* * *
57670985 -ATTATGTAATTTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGAATTATGTAAGTTATAT
1 AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
57671049 AAATTATGTAAGTTATG-AAATT
1 -AATTATGTAAGTTATGTAAATT
57671071 TTATCTTTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
63 2 0.03
64 56 0.73
65 5 0.06
66 14 0.18
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (65 bp):
AATTATGTAAGTTATGTAAATTATGTAAGTTAAAATATTTGATCTTTAAATTATGTAAGTTATAT
Found at i:57671017 original size:48 final size:50
Alignment explanation
Indices: 57670587--57671063 Score: 313
Period size: 48 Copynumber: 9.9 Consensus size: 50
57670577 TATATTTATG
* * * * *
57670587 TATGTAAGTTATGT-ATTATGTTAGTAATGTAAGTTGTGTATTA-TGTAAGT
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTA-TAGT-TAAAT
* * *
57670637 TATGTAAGTTATGTAAGTTCTGT-A-TTATGTAAGTTATGTA-AGTTGTGAAT
1 TATGTAAGTTATGTAA-TTATGTAAGTTATGTAAATTATGTATAG-T-TAAAT
* * * *
57670687 TATGTAATTTATGTAATTCGTGT-A-TTATGGAAGTTATGTA-AG-TAATGTAT
1 TATGTAAGTTATGTAATT-ATGTAAGTTATGTAAATTATGTATAGTTAA---AT
*
57670737 TATGTCAGTTATGT-ATTATGTAAGTTATGT--ATTATGTA-AG-T---T
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* * **
57670779 TATGTAAGTTATGTAAATTATATAATTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* **
57670827 TATGTAAGTTATGTAAATTATGTAAGTTAAG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
57670875 TATGTAAGTCT-TGTAACTTATGTAAGTTATG-AAATT-TG-ATTTTTAAAT
1 TATGTAAGT-TATGTAA-TTATGTAAGTTATGTAAATTATGTATAGTTAAAT
**
57670923 TATGTAAGTTATGTAAATTATGTAAGTTATG-AAATT-TG-ATCTTTAAAT
1 TATGTAAGTTATGT-AATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* *
57670971 TATGTAAGTTATGT-ATTATGTAATTTATGTAAATTATGTA-AGTTAAAA
1 TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
* * *
57671019 TATTTGATGTT-TG-AATTATGTAAGTTATATAAATTATGTA-AGTTA
1 TATGT-AAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTA
57671064 TGAAATTTTA
Statistics
Matches: 366, Mismatches: 33, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
42 14 0.04
43 1 0.00
44 15 0.04
45 4 0.01
46 14 0.04
47 10 0.03
48 199 0.54
49 14 0.04
50 88 0.24
51 2 0.01
52 5 0.01
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.47
Consensus pattern (50 bp):
TATGTAAGTTATGTAATTATGTAAGTTATGTAAATTATGTATAGTTAAAT
Found at i:57671024 original size:112 final size:112
Alignment explanation
Indices: 57670873--57671092 Score: 345
Period size: 112 Copynumber: 2.0 Consensus size: 112
57670863 TGATCTTTAA
* * * *
57670873 ATTATGTAAGTCTTGTAACTTATGTAAGTTATGAAATTTGATTTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
57670938 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
66 AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
57670985 ATTATGTAA-TTTATGTAAATTATGTAAGTTA-AAATATTTGATGTTTGAATTATGTAAGTTATA
1 ATTATGTAAGTCT-TGTAAATTATGTAAGTTATAAA-ATTTGATGTTTAAATTATGTAAGTTATA
*
57671048 TAAATTATGTAAGTTATGAAATTTTATCTTTAAATTATGTAAGTT
64 TAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTT
57671093 TATTAAGCGA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
111 4 0.04
112 95 0.96
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (112 bp):
ATTATGTAAGTCTTGTAAATTATGTAAGTTATAAAATTTGATGTTTAAATTATGTAAGTTATATA
AATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:57671084 original size:48 final size:48
Alignment explanation
Indices: 57670985--57671092 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 48
57670975 TAAGTTATGT
* * * *
57670985 ATTATGTAATTTATGTAAATTATGTAAGTTAAAATATTTGATGTTTGA
1 ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
57671033 ATTATGTAAGTTATATAAATTATGTAAGTTATGAAAT-TTT-ATCTTTAA
1 ATTATGTAAGTTATATAAATTATGTAAGTTA--AAATATTTGATCTTTAA
57671081 ATTATGTAAGTT
1 ATTATGTAAGTT
57671093 TATTAAGCGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 47 0.87
49 3 0.06
50 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (48 bp):
ATTATGTAAGTTATATAAATTATGTAAGTTAAAATATTTGATCTTTAA
Found at i:57673550 original size:40 final size:36
Alignment explanation
Indices: 57673490--57673575 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
57673480 AAACTAGTAT
* * *
57673490 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
57673526 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
57673566 TATTATTATT
1 TATTATTATT
57673576 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:57678834 original size:16 final size:15
Alignment explanation
Indices: 57678813--57678842 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57678803 AATGAAAATA
57678813 TATTATTTTCATATTT
1 TATTATTTT-ATATTT
57678829 TATTATTTTATATT
1 TATTATTTTATATT
57678843 ATTTCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTATATTT
Found at i:57678848 original size:160 final size:156
Alignment explanation
Indices: 57678309--57678866 Score: 497
Period size: 160 Copynumber: 3.5 Consensus size: 156
57678299 TCTCTCGGCA
** * * *
57678309 TTTTATTACTTTAAAAAAATATCA-TAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATT
1 TTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACATT
* *** * *
57678373 ATGTTAT-TTCTTTATTAATTTAGTGTATTTTTTAAATTAATTTAGTGTAAAAAAAACCCAACCC
64 TTGTT-TGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGT---AAAAA---AACCC
* ** *
57678437 TTATTCCTGCCCTTTGCTCGTATTATTTTTTTGAA
122 TTATTCCTGCCCTTTGCTCGTATTATTTTCTCCAG
*
57678472 TTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACATT
1 TTTTATTACTTCC-AAAAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACATT
** ** * * * * *
57678537 TTGTTTGAAATTTTTCTATTAATTTTTTCCGAATTTTTAAA-AAAGTTA--GT-AAAACACTCTT
64 TTGTTTGAAA---TT-TATTAATTTAATGTG-TTTTTTAAATTAATTTAGTGTAAAAAAAC-CCT
* * * *
57678598 TACTT-CAGCCATTTGTTCGTATTTTTTTCTCC-G
123 TA-TTCCTGCCCTTTGCTCGTATTATTTTCTCCAG
* * *
57678631 CATTTTATTACTT-TAAAAAATATCA-TAATTTCTAATTTTATAATTTTATATTATTTCAGTGCA
1 --TTTTATTACTTCCAAAAAATAT-ATTATTTTCT-ATTTTATAATTTTATATTATTTCAGTACA
*
57678694 TTGTGTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAAGAAAACCCTTAT
62 TTTTGTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAA-AAAACCCTTAT
57678759 TCCTGCCCTTTGCTCGTATTATTTTCTCCAG
126 TCCTGCCCTTTGCTCGTATTATTTTCTCCAG
*
57678790 TTTTATTACTTCCAATGAAAATATATTATTTTCATATTTTATTATTTTATATTATTTCAGTACAT
1 TTTTATTACTTCCAA--AAAATATATTATTTTC-TATTTTATAATTTTATATTATTTCAGTACAT
*
57678855 TTTGTTAGAAAT
63 TTTGTTTGAAAT
57678867 ATTTGTATTA
Statistics
Matches: 316, Mismatches: 52, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
154 8 0.03
155 16 0.05
156 2 0.01
157 15 0.05
158 32 0.10
159 61 0.19
160 76 0.24
161 14 0.04
162 4 0.01
163 13 0.04
164 47 0.15
165 1 0.00
166 2 0.01
167 2 0.01
168 15 0.05
169 8 0.03
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (156 bp):
TTTTATTACTTCCAAAAAATATATTATTTTCTATTTTATAATTTTATATTATTTCAGTACATTTT
GTTTGAAATTTATTAATTTAATGTGTTTTTTAAATTAATTTAGTGTAAAAAAACCCTTATTCCTG
CCCTTTGCTCGTATTATTTTCTCCAG
Found at i:57679419 original size:10 final size:10
Alignment explanation
Indices: 57679404--57679528 Score: 84
Period size: 10 Copynumber: 12.5 Consensus size: 10
57679394 TCTCTTCTCT
57679404 TTTCCTTTTC
1 TTTCCTTTTC
57679414 TTTCCTTCTT-
1 TTTCCTT-TTC
*
57679424 TTTCTTTCTTTC
1 TTTC-CT-TTTC
* *
57679436 TTCTTCTTCTCC
1 TT-TCCTT-TTC
57679448 TTTCCTTTTC
1 TTTCCTTTTC
57679458 TTTCCTTCTT-
1 TTTCCTT-TTC
57679468 TTT-C-TTTC
1 TTTCCTTTTC
* *
57679476 TTTCCTCTCC
1 TTTCCTTTTC
57679486 TTTCCTTTTC
1 TTTCCTTTTC
*
57679496 TTTCTTTTTC
1 TTTCCTTTTC
57679506 TTT-C-TTTC
1 TTTCCTTTTC
57679514 TTT-CTTCTTC
1 TTTCCTT-TTC
57679524 TTTCC
1 TTTCC
57679529 CTCTCATTCT
Statistics
Matches: 90, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.02
8 12 0.13
9 3 0.03
10 51 0.57
11 13 0.14
12 8 0.09
13 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTCCTTTTC
Found at i:57679428 original size:14 final size:14
Alignment explanation
Indices: 57679409--57679528 Score: 97
Period size: 14 Copynumber: 8.7 Consensus size: 14
57679399 TCTCTTTTCC
57679409 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
57679423 TTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
* *
57679437 TCTTCTTCTCCTTTCC
1 TTTTCTT-TCC-TTCT
57679453 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
57679467 TTTTCTTTCTTTCC
1 TTTTCTTTCCTTCT
* *
57679481 TCTCCTTTCCTT-T
1 TTTTCTTTCCTTCT
57679494 TCTTTCTTT--TTC-
1 T-TTTCTTTCCTTCT
*
57679506 -TTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
*
57679519 TCTTCTTTCC
1 TTTTCTTTCC
57679529 CTCTCATTCT
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
10 7 0.09
12 5 0.06
13 1 0.01
14 55 0.67
15 5 0.06
16 9 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:57679452 original size:44 final size:44
Alignment explanation
Indices: 57679364--57679521 Score: 190
Period size: 44 Copynumber: 3.7 Consensus size: 44
57679354 AATTACCTTT
* * *
57679364 TTTTCTTTCCCTCTTCTCCTTCTTT-TTTTTTCTCTTCTCTTTTCC
1 TTTTCTTTCCTTCTTCT--TTCTTTCTTTCTTCTCTTCTCCTTTCC
57679409 TTTTCTTTCCTTCTT-TTTCTTTCTTTCTTCTTCTTCTCCTTTCC
1 TTTTCTTTCCTTCTTCTTTCTTTCTTTCTTC-TCTTCTCCTTTCC
57679453 TTTTCTTTCCTTCTT-TTTCTTTC--T-TTC-C-TCTCCTTTCC
1 TTTTCTTTCCTTCTTCTTTCTTTCTTTCTTCTCTTCTCCTTTCC
*
57679491 TTTTCTTT-CTTTTTCTTTCTTTCTTTCTTCT
1 TTTTCTTTCCTTCTTCTTTCTTTCTTTCTTCT
57679522 TCTTTCCCTC
Statistics
Matches: 102, Mismatches: 4, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
37 5 0.05
38 26 0.25
39 1 0.01
40 1 0.01
41 6 0.06
42 7 0.07
43 6 0.06
44 36 0.35
45 14 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (44 bp):
TTTTCTTTCCTTCTTCTTTCTTTCTTTCTTCTCTTCTCCTTTCC
Found at i:57679467 original size:38 final size:39
Alignment explanation
Indices: 57679383--57679528 Score: 165
Period size: 38 Copynumber: 3.7 Consensus size: 39
57679373 CCTCTTCTCC
* *
57679383 TTCTTT-TTTTTTCTCTTCTCTTTTCCTTTTCTTTCCTTCTTT
1 TTCTTTCTTTCTT-TCTTCTCCTTTCCTTTTCTTT-CTTC--T
57679425 TTCTTTCTTTCTTCTTCTTCTCCTTTCCTTTTCTTTCCTTC-
1 TTCTTTCTTTC-T-TTCTTCTCCTTTCCTTTTCTTT-CTTCT
*
57679466 TT-TTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCTT-T
1 TTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
*
57679503 TTCTTTCTTTCTTTCTTCTTCTTTCC
1 TTCTTTCTTTCTTTCTTCTCCTTTCC
57679529 CTCTCATTCT
Statistics
Matches: 94, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
37 5 0.05
38 42 0.45
39 1 0.01
40 8 0.09
41 2 0.02
42 6 0.06
43 3 0.03
44 26 0.28
45 1 0.01
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (39 bp):
TTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTCT
Found at i:57680503 original size:8 final size:7
Alignment explanation
Indices: 57680478--57680574 Score: 54
Period size: 7 Copynumber: 13.4 Consensus size: 7
57680468 CCTATACTTT
57680478 AACCCTA
1 AACCCTA
57680485 AACCCTA
1 AACCCTA
57680492 AACCCTTA
1 AACCC-TA
57680500 AACCC-A
1 AACCCTA
*
57680506 TAACCTTA
1 -AACCCTA
*
57680514 AGCCACTA
1 AACC-CTA
*
57680522 ACCCCTA
1 AACCCTA
*
57680529 GACCCT-
1 AACCCTA
*
57680535 AAGCCTA
1 AACCCTA
57680542 TAACCCCTA
1 -AA-CCCTA
*
57680551 AACTCTA
1 AACCCTA
* *
57680558 AGCCCTC
1 AACCCTA
*
57680565 ACCCCTA
1 AACCCTA
57680572 AAC
1 AAC
57680575 ACTTAACATG
Statistics
Matches: 67, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
6 5 0.07
7 41 0.61
8 17 0.25
9 4 0.06
ACGTcount: A:0.36, C:0.42, G:0.04, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:57680538 original size:22 final size:22
Alignment explanation
Indices: 57680480--57680574 Score: 81
Period size: 22 Copynumber: 4.4 Consensus size: 22
57680470 TATACTTTAA
* *
57680480 CCCTAAACCCTAAACC-CTTAAA
1 CCCTAAACCCTAAGCCAC-TAAC
*
57680502 CCC-ATAACCTTAAGCCACTAAC
1 CCCTA-AACCCTAAGCCACTAAC
*
57680524 CCCTAGACCCTAAGCCTA-TAAC
1 CCCTAAACCCTAAGCC-ACTAAC
* *
57680546 CCCTAAACTCTAAGCC-CTCAC
1 CCCTAAACCCTAAGCCACTAAC
57680567 CCCTAAAC
1 CCCTAAAC
57680575 ACTTAACATG
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
21 12 0.20
22 45 0.75
23 3 0.05
ACGTcount: A:0.35, C:0.43, G:0.04, T:0.18
Consensus pattern (22 bp):
CCCTAAACCCTAAGCCACTAAC
Found at i:57680633 original size:13 final size:13
Alignment explanation
Indices: 57680593--57680637 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
57680583 TGTAAATTGA
*
57680593 AAACGTACACCAT
1 AAACCTACACCAT
57680606 AAACACTGA-ACCAT
1 AAAC-CT-ACACCAT
57680620 AAACCTACACCAT
1 AAACCTACACCAT
57680633 AAACC
1 AAACC
57680638 GTAAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.57
14 10 0.36
15 1 0.04
ACGTcount: A:0.49, C:0.33, G:0.04, T:0.13
Consensus pattern (13 bp):
AAACCTACACCAT
Found at i:57680748 original size:22 final size:24
Alignment explanation
Indices: 57680723--57680768 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
57680713 TATCTATAAC
57680723 CCTAACC-CTTAAACCAT-AATAG
1 CCTAACCTCTTAAACCATGAATAG
*
57680745 CCTAACCTGTTAAACCATGAATAG
1 CCTAACCTCTTAAACCATGAATAG
57680769 TAATTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (24 bp):
CCTAACCTCTTAAACCATGAATAG
Found at i:57681530 original size:125 final size:125
Alignment explanation
Indices: 57681086--57681532 Score: 752
Period size: 125 Copynumber: 3.6 Consensus size: 125
57681076 ATTAGTGGCA
* * *
57681086 TTTCTAGATAAACGCCACTAGTGCCACTACAGGTCAAAGTTAAACGACGGTGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* * *
57681151 TTTGCTGAGCATTAGTGGCGTTTTTT-AGTAAGCGCCGCAAATGTTAGATCTTTACCGACG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGA-TAAGCGCCGCAAATGCTAGATCTTTACCGGCG
*
57681211 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGACGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* *
57681276 TTTGTGGAGCATTAGTGGCGTTTTTTGATAAGAGCCGCAAATGCTAGATCTTTACCGGCG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
* *
57681336 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGAGTTCTGTTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
* *
57681401 TTTGCGGAGCATTAGTGGCATTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACTGGCG
66 TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
*
57681461 TTTCCAGATAAACGTCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
1 TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
57681526 TTTGCGG
66 TTTGCGG
57681533 CGCTTTCAAT
Statistics
Matches: 302, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 301 1.00
126 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (125 bp):
TTTCCAGATAAACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTA
TTTGCGGAGCATTAGTGGCGTTTTTTGATAAGCGCCGCAAATGCTAGATCTTTACCGGCG
Found at i:57683662 original size:29 final size:29
Alignment explanation
Indices: 57683603--57683663 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
57683593 ATATTCCCCT
* *
57683603 TAATTTTTAAGGCTAAACTAGGATCTTTC
1 TAATTTTTAAGGCTAAACTAGAATCTCTC
* *
57683632 TAATTTTTATGGCTCAACTAGTAATC-CTC
1 TAATTTTTAAGGCTAAACTAG-AATCTCTC
57683661 TAA
1 TAA
57683664 CCCCTTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (29 bp):
TAATTTTTAAGGCTAAACTAGAATCTCTC
Found at i:57690332 original size:12 final size:13
Alignment explanation
Indices: 57690315--57690343 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57690305 ATGGTAAAGC
57690315 AAAATAAAAA-TA
1 AAAATAAAAATTA
57690327 AAAATAAAAATTA
1 AAAATAAAAATTA
57690340 AAAA
1 AAAA
57690344 AATCTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:57698725 original size:16 final size:16
Alignment explanation
Indices: 57698702--57698738 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
57698692 TAAGAAAATG
57698702 AAAA-AAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
57698717 AAAAGAAAAGAAAAAA
1 AAAAGAAAAGAAAAAA
57698733 AAAAGA
1 AAAAGA
57698739 GTATTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAA
Found at i:57698738 original size:11 final size:11
Alignment explanation
Indices: 57698702--57698736 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
57698692 TAAGAAAATG
57698702 AAAAAAAAGAA
1 AAAAAAAAGAA
57698713 AAAAAAAAGAA
1 AAAAAAAAGAA
57698724 AAGAAAAAA-AA
1 AA-AAAAAAGAA
57698735 AA
1 AA
57698737 GAGTATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:57702862 original size:19 final size:19
Alignment explanation
Indices: 57702838--57702876 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57702828 GCAAATACTT
57702838 TAAAA-TTAGAAAAGAAATA
1 TAAAATTTAGAAAA-AAATA
*
57702857 TAAAATTTATAAAAAAATA
1 TAAAATTTAGAAAAAAATA
57702876 T
1 T
57702877 TATTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAATTTAGAAAAAAATA
Found at i:57703245 original size:15 final size:15
Alignment explanation
Indices: 57703227--57703272 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
57703217 TTACAAAATT
57703227 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
* *
57703242 ATAAAAATTTAGATAA
1 ATAAAAA-TTAAAAAA
*
57703258 TTAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
57703273 GAAAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAAAATTAAAAAA
Found at i:57706350 original size:44 final size:44
Alignment explanation
Indices: 57706295--57706413 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
57706285 ACCGATATGG
*
57706295 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * *
57706339 GAAGACAAGATCTGGTATCTTTGATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
57706383 GAAGATAAGATCTGCTTT-TTCGATCTACTTC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC
57706414 GCCACCAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 12 0.18
44 53 0.82
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:57706422 original size:44 final size:43
Alignment explanation
Indices: 57706295--57706440 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 43
57706285 ACCGATATGG
* * *
57706295 GAAGACAAGATCTGCTTTCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTT-TTCGATCTACTTCACACCAGTACAT
* **
57706339 GAAGACAAGATCTGGTATCTTT-GATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCT-T-TTTCGATCTACTTCACACCAGTACAT
* * ***
57706383 GAAGATAAGATCTGCTTTTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTTTCGATCTACTTC-ACACCAGTACAT
57706427 GAAGACAAGATCTG
1 GAAGACAAGATCTG
57706441 GTATCTTTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.04
43 11 0.13
44 68 0.80
45 2 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
GAAGACAAGATCTGCTTTTTCGATCTACTTCACACCAGTACAT
Found at i:57706629 original size:132 final size:132
Alignment explanation
Indices: 57706429--57706796 Score: 556
Period size: 132 Copynumber: 2.8 Consensus size: 132
57706419 CAGTATGGGA
** ** * *
57706429 AGACAAGATCTGGTATCTTTGATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACAGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
** * * *
57706494 TGTACTCCACTGTAACCAGAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAG
57706559 GG
131 GG
* *
57706561 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAATAGAGTTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
* *
57706626 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTTCCATCTTCGATTTACTCCACTACTGCCTAG
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAG
57706691 GG
131 GG
* * * * *
57706693 AGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
57706758 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
66 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCAT
57706797 AAACCTGCTC
Statistics
Matches: 213, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 213 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAATAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAG
GG
Found at i:57706769 original size:43 final size:44
Alignment explanation
Indices: 57706577--57706770 Score: 126
Period size: 44 Copynumber: 4.4 Consensus size: 44
57706567 GATCTGAAAT
* * * * * *
57706577 CTTCAATCTATTCCGCTGCTGCCCAGGGAAATAGAGT-TACTGG
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTAG
* ** * * * * *
57706620 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTTCCAT
1 CTTCAATCTACTCCACTGTTGCC-CAGGGAGATAGAATCTACTAG
* * ** * * *
57706665 CTTCGATTTACTCCACTACTGCCTAGGGAGATA-AGATCT-GTAAT
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGA-ATCTACT-AG
*
57706709 CTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT-TACTAG
1 CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTAG
*
57706752 CTTCAATGTACTCCACTGT
1 CTTCAATCTACTCCACTGT
57706771 AACCTCAGGG
Statistics
Matches: 111, Mismatches: 34, Indels: 12
0.71 0.22 0.08
Matches are distributed among these distances:
43 37 0.33
44 54 0.49
45 20 0.18
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTTGCCCAGGGAGATAGAATCTACTAG
Found at i:57706780 original size:44 final size:45
Alignment explanation
Indices: 57706600--57706791 Score: 128
Period size: 44 Copynumber: 4.4 Consensus size: 45
57706590 CGCTGCTGCC
* * *
57706600 CAGGGAAATAGAGT-TACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
* * * * * * * * *
57706644 CAGGGAGGTAAAATCTTCCATCTTCGATTTACTCCACTACT-GCCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACT-GTAACCT
* * * * **
57706689 -AGGGAGATA-AGATCT-GTAATCTTCAATCTATTCCACTGTTGCC-
1 CAGGGAGATAGA-ATCTACT-AGCTTCAATGTACTCCACTGTAACCT
57706732 CAGGGAGATAGAAT-TACTAGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
* *
57706776 CAGGGAGGTAAAATCT
1 CAGGGAGATAGAATCT
57706792 GCCATAAACC
Statistics
Matches: 111, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
43 23 0.21
44 65 0.59
45 22 0.20
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
CAGGGAGATAGAATCTACTAGCTTCAATGTACTCCACTGTAACCT
Found at i:57706910 original size:88 final size:85
Alignment explanation
Indices: 57706802--57706966 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
57706792 GCCATAAACC
* *
57706802 TGCTCCACTGCAACCGAGGGAGGTAAGGCTAGTATCTTCAATCTGCTTCACTGTCAATGTAAGAA
1 TGCTCCACTGCAACCGAGGGAGGCAAGG---GTATCTTCAATCTGCTTCACTGTCAATGCAAGAA
*
57706867 GGCAAGATTTGCTATCTTTAACT
63 GGCAAGATCTGCTATCTTTAACT
* * * * * * * *
57706890 TGCTTCACTGCAACTGAGGGAGGCAAGGGTTTTTTCGATCTGCTTCGCTGTCGATGCAGGAAGGC
1 TGCTCCACTGCAACCGAGGGAGGCAAGGGTATCTTCAATCTGCTTCACTGTCAATGCAAGAAGGC
57706955 AAGATCTGCTAT
66 AAGATCTGCTAT
57706967 TTTCACTGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 41 0.62
88 25 0.38
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (85 bp):
TGCTCCACTGCAACCGAGGGAGGCAAGGGTATCTTCAATCTGCTTCACTGTCAATGCAAGAAGGC
AAGATCTGCTATCTTTAACT
Found at i:57708220 original size:21 final size:21
Alignment explanation
Indices: 57708196--57708236 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
57708186 ATTTTTTTAT
57708196 TTTTCACTTTTTCATTTTTCG
1 TTTTCACTTTTTCATTTTTCG
57708217 TTTTCACTTTTTCATTTTTC
1 TTTTCACTTTTTCATTTTTC
57708237 ATCTCGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTCACTTTTTCATTTTTCG
Found at i:57708238 original size:7 final size:7
Alignment explanation
Indices: 57708188--57708238 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
57708178 GCCTCTCCAT
*
57708188 TTTTTTA
1 TTTTTCA
57708195 TTTTTCA
1 TTTTTCA
57708202 CTTTTTCA
1 -TTTTTCA
57708210 TTTTTC-
1 TTTTTCA
*
57708216 GTTTTCA
1 TTTTTCA
57708223 CTTTTTCA
1 -TTTTTCA
57708231 TTTTTCA
1 TTTTTCA
57708238 T
1 T
57708239 CTCGTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
6 5 0.13
7 20 0.53
8 13 0.34
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:57709160 original size:19 final size:19
Alignment explanation
Indices: 57709136--57709176 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
57709126 ATAATTTGGC
57709136 AAAAAAATC-TGAAAGAATG
1 AAAAAAATCGT-AAAGAATG
57709155 AAAAAAATCGTAAAGAATG
1 AAAAAAATCGTAAAGAATG
57709174 AAA
1 AAA
57709177 GAACATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAAAATCGTAAAGAATG
Found at i:57714611 original size:22 final size:23
Alignment explanation
Indices: 57714577--57714635 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
57714567 TATATTTGGT
*
57714577 TAAAAATTAAAAATGATTTGAAAA
1 TAAAAATT-AAAATGATGTGAAAA
* *
57714601 TGAAAA-TAAAAT-ATGTGAAAT
1 TAAAAATTAAAATGATGTGAAAA
57714622 TAAAAATTAAAATG
1 TAAAAATTAAAATG
57714636 TTTTCTAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 12 0.41
22 11 0.38
23 1 0.03
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (23 bp):
TAAAAATTAAAATGATGTGAAAA
Found at i:57715215 original size:22 final size:21
Alignment explanation
Indices: 57715171--57715211 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57715161 TAAAAAATTC
*
57715171 AAAAATAAAATTGATTTTCTA
1 AAAAATAAAAATGATTTTCTA
57715192 AAAAATTAAAAAT-ATTTTCT
1 AAAAA-TAAAAATGATTTTCT
57715212 TAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATAAAAATGATTTTCTA
Found at i:57720084 original size:18 final size:17
Alignment explanation
Indices: 57720038--57720085 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
57720028 AAAACTATAC
*
57720038 TTTTTTAAGTTAATTTA
1 TTTTTTAATTTAATTTA
**
57720055 TTTTCAAGATTTAATTTAA
1 TTTTTTA-ATTTAATTT-A
57720074 TTTTTTAATTTA
1 TTTTTTAATTTA
57720086 TGCTCGTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTTAATTTAATTTA
Found at i:57728414 original size:47 final size:48
Alignment explanation
Indices: 57728308--57728423 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
57728298 TTGGGGGGAG
* *
57728308 GGGGGAGAGCATTGAAAAAAAGATAGTGGAGGATTAAATGAGGGTAGGA
1 GGGGGAGAGCATTG-AAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
* * * *
57728357 GGGGGCGAGCATTGAAAAAGGATACTGAAGGATTAAATGAGGG-GGGC
1 GGGGGAGAGCATTGAAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
*
57728404 GGGGGAGAGCATTGGAAAAA
1 GGGGGAGAGCATTGAAAAAA
57728424 TTATCTATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 19 0.33
48 26 0.45
49 13 0.22
ACGTcount: A:0.38, C:0.05, G:0.42, T:0.15
Consensus pattern (48 bp):
GGGGGAGAGCATTGAAAAAAGATACTGAAGGATTAAATGAGGGTAGGA
Found at i:57728465 original size:8 final size:8
Alignment explanation
Indices: 57728454--57728507 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
57728444 TATTGAATTA
57728454 TTAATATT
1 TTAATATT
57728462 TTAATATAT
1 TTAATAT-T
*
57728471 TAAATATT
1 TTAATATT
57728479 TTAATA--
1 TTAATATT
57728485 -TAATATAT
1 TTAATAT-T
*
57728493 TAAATATT
1 TTAATATT
57728501 TTAATAT
1 TTAATAT
57728508 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
5 5 0.14
8 20 0.54
9 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATATT
Found at i:57728491 original size:22 final size:22
Alignment explanation
Indices: 57728463--57728517 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
57728453 ATTAATATTT
57728463 TAATATATTAAATATTTTAATA
1 TAATATATTAAATATTTTAATA
57728485 TAATATATTAAATATTTTAATA
1 TAATATATTAAATATTTTAATA
*
57728507 TAA-AAATTAAA
1 TAATATATTAAA
57728518 AAATATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATATTAAATATTTTAATA
Found at i:57728508 original size:17 final size:16
Alignment explanation
Indices: 57728452--57728507 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
57728442 AGTATTGAAT
57728452 TATTAATATTTTAATA
1 TATTAATATTTTAATA
57728468 TATTAAATATTTTAATA
1 TATT-AATATTTTAATA
* *
57728485 TAAT-ATA-TTAAATA
1 TATTAATATTTTAATA
*
57728499 TTTTAATAT
1 TATTAATAT
57728508 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.24
15 6 0.18
16 4 0.12
17 15 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAATATTTTAATA
Found at i:57728593 original size:26 final size:25
Alignment explanation
Indices: 57728563--57728649 Score: 93
Period size: 26 Copynumber: 3.3 Consensus size: 25
57728553 ATTAAGAATG
57728563 TTATTAAATTATATTTAATAATAAT
1 TTATTAAATTATATTTAATAATAAT
* * * **
57728588 TATATTAAAATATGATTAAACTATTTTT
1 T-TATTAAATTAT-ATTTAA-TAATAAT
57728616 TTATTAAATTATATTTAATAATAAT
1 TTATTAAATTATATTTAATAATAAT
57728641 CTTATTAAA
1 -TTATTAAA
57728650 ATTTAATAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
25 5 0.10
26 23 0.48
27 15 0.31
28 5 0.10
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (25 bp):
TTATTAAATTATATTTAATAATAAT
Found at i:57728597 original size:53 final size:53
Alignment explanation
Indices: 57728540--57728656 Score: 130
Period size: 53 Copynumber: 2.2 Consensus size: 53
57728530 TATTTTAATA
* *
57728540 TAAAA-ATAATTATATTAAGAATGTTATTAAATTATATTTAATAATAAT-TATAT
1 TAAAATATAATTAAACT-AGAATGTTATTAAATTATATTTAATAATAATCT-TAT
* *** *
57728593 TAAAATATGATTAAACTATTTTTTTATTAAATTATATTTAATAATAATCTTAT
1 TAAAATATAATTAAACTAGAATGTTATTAAATTATATTTAATAATAATCTTAT
*
57728646 TAAAATTTAAT
1 TAAAATATAAT
57728657 AATCGCATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 44 0.83
54 9 0.17
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (53 bp):
TAAAATATAATTAAACTAGAATGTTATTAAATTATATTTAATAATAATCTTAT
Found at i:57728825 original size:16 final size:16
Alignment explanation
Indices: 57728804--57728849 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
57728794 TGAATTACTG
57728804 ATTACAGCTCTATTAT
1 ATTACAGCTCTATTAT
*
57728820 ATTACAGCTTTATTAT
1 ATTACAGCTCTATTAT
* *
57728836 ATTATAGTTCTATT
1 ATTACAGCTCTATT
57728850 TCATTACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (16 bp):
ATTACAGCTCTATTAT
Found at i:57731559 original size:17 final size:15
Alignment explanation
Indices: 57731537--57731583 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
57731527 TTTTTGAGAA
57731537 ACACGGGCGTGTGCC
1 ACACGGGCGTGTGCC
*
57731552 GTACACGGGTG-GT-CC
1 --ACACGGGCGTGTGCC
57731567 ACACGGGCGTGTGCC
1 ACACGGGCGTGTGCC
57731582 AC
1 AC
57731584 TTAAGAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 8 0.31
14 2 0.08
15 6 0.23
16 2 0.08
17 8 0.31
ACGTcount: A:0.15, C:0.32, G:0.38, T:0.15
Consensus pattern (15 bp):
ACACGGGCGTGTGCC
Found at i:57731844 original size:21 final size:21
Alignment explanation
Indices: 57731820--57731871 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
57731810 CGTGTCTCTC
* *
57731820 AGCCACACGGCCCTGTATCTT
1 AGCCACACGGACCTGTACCTT
* * *
57731841 AGCCACACAGACTTGTCCCTT
1 AGCCACACGGACCTGTACCTT
57731862 AGCCACACGG
1 AGCCACACGG
57731872 TAATGTATCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.19
Consensus pattern (21 bp):
AGCCACACGGACCTGTACCTT
Found at i:57736232 original size:35 final size:33
Alignment explanation
Indices: 57736185--57736280 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 33
57736175 TTTGAATTTA
* *
57736185 TTATATATATTTTATATTTTATAATATTTATAAGT
1 TTATATA-ATTTTATATTTT-TAATATTAATAACT
*
57736220 TTATATCAATTTTAATAATTTTAATAATTAATAACT
1 TTATAT-AATTTT-ATATTTTTAAT-ATTAATAACT
* *
57736256 TTTTATAATTTTTTATTTTTAATAT
1 TTATATAATTTTATATTTTTAATAT
57736281 ATTTTTGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
33 2 0.04
34 9 0.17
35 21 0.40
36 20 0.38
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (33 bp):
TTATATAATTTTATATTTTTAATATTAATAACT
Found at i:57736252 original size:16 final size:17
Alignment explanation
Indices: 57736231--57736265 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57736221 TATATCAATT
57736231 TTAATAA-TTTTAATAA
1 TTAATAACTTTTAATAA
*
57736247 TTAATAACTTTTTATAA
1 TTAATAACTTTTAATAA
57736264 TT
1 TT
57736266 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATAACTTTTAATAA
Found at i:57738782 original size:16 final size:16
Alignment explanation
Indices: 57738761--57738794 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57738751 AAATTCAAAA
57738761 AGGATAACTCATTACT
1 AGGATAACTCATTACT
57738777 AGGATAACTCATTACT
1 AGGATAACTCATTACT
57738793 AG
1 AG
57738795 TTAACTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (16 bp):
AGGATAACTCATTACT
Found at i:57739344 original size:43 final size:43
Alignment explanation
Indices: 57739296--57739384 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
57739286 ATATGAAGTT
* * *
57739296 TTTCGCTAAGCCTTAACGTTAATTGTGAAAAGATATAATATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
*
57739339 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATACTATTC
1 TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
57739382 TTT
1 TTT
57739385 TGTGGTGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (43 bp):
TTTCGCTAAGCCCTAACATTAATTATGAAAAGATATAATATTC
Found at i:57742636 original size:16 final size:16
Alignment explanation
Indices: 57742597--57742643 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
57742587 CTTTTGATCA
*
57742597 ATTTTTGCTTTGCTTTG
1 ATTTTT-CTTTGCTTCG
* *
57742614 CTCTTTCTTTGCTTCG
1 ATTTTTCTTTGCTTCG
57742630 ATTTTTC-TTGCTTC
1 ATTTTTCTTTGCTTC
57742644 AGTCTTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.04, C:0.21, G:0.13, T:0.62
Consensus pattern (16 bp):
ATTTTTCTTTGCTTCG
Found at i:57747197 original size:16 final size:16
Alignment explanation
Indices: 57747158--57747204 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
57747148 CTTTTGATCA
*
57747158 ATTTTTGCTTTGCTTTG
1 ATTTTT-CTTTGCTTCG
* *
57747175 CTCTTTCTTTGCTTCG
1 ATTTTTCTTTGCTTCG
57747191 ATTTTTC-TTGCTTC
1 ATTTTTCTTTGCTTC
57747205 AGTCTTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.04, C:0.21, G:0.13, T:0.62
Consensus pattern (16 bp):
ATTTTTCTTTGCTTCG
Found at i:57750175 original size:213 final size:213
Alignment explanation
Indices: 57749808--57750241 Score: 787
Period size: 213 Copynumber: 2.0 Consensus size: 213
57749798 TAGAAGTGTG
* **
57749808 TTGCCCACCACACTGAAAGAACTTGAGATACTGGAGTGTCCAAAGTTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
* ** *
57749873 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTTTAGTTGTGATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
57749938 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
57750003 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
*
57750021 TTGCCCACCACACTGAAAGTACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
1 TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
57750086 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
66 AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
*
57750151 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAGAGGATTGTTCAAATTTGATT
131 CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
57750216 TCCTTAGGAGAGAGTGGT
196 TCCTTAGGAGAGAGTGGT
57750234 TTGCCCAC
1 TTGCCCAC
57750242 TACAAACCTT
Statistics
Matches: 212, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
213 212 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (213 bp):
TTGCCCACCACACTGAAAGAACTTGAGATACAGGAGTGTCCAAAACTAGAGTCCATATCCCAAGA
AATTCAAGATAACTCTTCTCTTGAATCTATTGAAATCTGTAAATGTCATATGCTTAAGGGTTTAC
CTCAAGGATTGAACAAGCTCAAGCATTGCAAGAGATTAGTCATAAAGGATTGTTCAAATTTGATT
TCCTTAGGAGAGAGTGGT
Found at i:57754185 original size:15 final size:17
Alignment explanation
Indices: 57754165--57754202 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
57754155 TTTCATATAT
*
57754165 TTTTTAAT-T-TAGTAA
1 TTTTTAATATCTAATAA
57754180 TTTTTAATATCTAATAA
1 TTTTTAATATCTAATAA
57754197 TTTTTA
1 TTTTTA
57754203 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTAATATCTAATAA
Found at i:57757045 original size:31 final size:28
Alignment explanation
Indices: 57756973--57757053 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 28
57756963 TACTTTTGAA
57756973 TTTTTTATT--TTTATAAAATTTTAATAT
1 TTTTTTATTACTTT-TAAAATTTTAATAT
* *
57757000 GTTTTTATACACTTTTAAAATATTTAAAATAT
1 TTTTTTAT-TACTTTTAAAAT-TTT--AATAT
*
57757032 TTTTTTATTACTTTTATAATTT
1 TTTTTTATTACTTTTAAAATTT
57757054 ATTAGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
27 7 0.16
29 6 0.14
30 8 0.19
31 10 0.23
32 12 0.28
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTTTATTACTTTTAAAATTTTAATAT
Found at i:57757135 original size:26 final size:24
Alignment explanation
Indices: 57757099--57757168 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
57757089 ACTTTATATC
*
57757099 AATTTTCATATATTTTTTAATTTAAT
1 AATTTTAATATATTTTTT-ATTT-AT
* *
57757125 ATTTTTAATATCTAATTTTT-TTTAT
1 AATTTTAATA--TATTTTTTATTTAT
57757150 AATTTTAATA-ATTTTTTAT
1 AATTTTAATATATTTTTTAT
57757169 GAAAAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
22 6 0.17
23 1 0.03
25 11 0.31
26 11 0.31
28 7 0.19
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTTTAATATATTTTTTATTTAT
Found at i:57757611 original size:19 final size:19
Alignment explanation
Indices: 57757584--57757620 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57757574 GATTGGTTTC
57757584 TGTAGTATATAATATATAT
1 TGTAGTATATAATATATAT
* *
57757603 TGTATTATATATTATATA
1 TGTAGTATATAATATATA
57757621 AAGTATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TGTAGTATATAATATATAT
Found at i:57757626 original size:19 final size:19
Alignment explanation
Indices: 57757589--57757627 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57757579 GTTTCTGTAG
**
57757589 TATATAATATATATTGTAT
1 TATATAATATATAAAGTAT
*
57757608 TATATATTATATAAAGTAT
1 TATATAATATATAAAGTAT
57757627 T
1 T
57757628 TCCAAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATATAATATATAAAGTAT
Found at i:57758826 original size:6 final size:6
Alignment explanation
Indices: 57758808--57758849 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
57758798 CTAAGTCCTT
* * *
57758808 TACAGA TATAGA TAAAGA TACAGA TACAGA TACAGT TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
57758850 GACAAATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (6 bp):
TACAGA
Found at i:57760290 original size:43 final size:43
Alignment explanation
Indices: 57760212--57760294 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
57760202 TTTTTTATAA
* * *
57760212 GTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGAACACGTCTAGGACGTTGGCATCGACTT
**
57760255 GTGTTTTCGTGTAAGAACTTGTCTAGGACAG-TGGCATCGA
1 GTGTTTTCGTGTAAGAACACGTCTAGGAC-GTTGGCATCGA
57760295 TCAGTGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGAACACGTCTAGGACGTTGGCATCGACTT
Found at i:57761777 original size:13 final size:14
Alignment explanation
Indices: 57761762--57761830 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 14
57761752 GGGGTAGGAT
57761762 TCTGTATATCTGT-
1 TCTGTATATCTGTA
* * *
57761775 TCTGCATATTTGTC
1 TCTGTATATCTGTA
57761789 TCTGTA-A-CTGTA
1 TCTGTATATCTGTA
57761801 TCTG--TATCTGTA
1 TCTGTATATCTGTA
*
57761813 TCT-T-TATCTATA
1 TCTGTATATCTGTA
57761825 TCTGTA
1 TCTGTA
57761831 AAGGACTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
11 1 0.02
12 25 0.57
13 13 0.30
14 5 0.11
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (14 bp):
TCTGTATATCTGTA
Found at i:57761805 original size:6 final size:6
Alignment explanation
Indices: 57761789--57761830 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
57761779 CATATTTGTC
* * *
57761789 TCTGTA ACTGTA TCTGTA TCTGTA TCTTTA TCTATA TCTGTA
1 TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA TCTGTA
57761831 AAGGACTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (6 bp):
TCTGTA
Done.