Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 272 of 318
Found at i:87054245 original size:16 final size:15
Alignment explanation
Indices: 87054219--87054252 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
87054209 TGTGGAATCC
*
87054219 TTTCTAAAAATAGTT
1 TTTCTAAAAATAATT
87054234 TTTCTGAAAAATAATT
1 TTTCT-AAAAATAATT
87054250 TTT
1 TTT
87054253 TAAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTCTAAAAATAATT
Found at i:87055673 original size:23 final size:23
Alignment explanation
Indices: 87055647--87055695 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
87055637 GATTTTAAAC
*
87055647 AAATACTCAT-TTTTATATTATGA
1 AAATACTCATATTTTATACTAT-A
*
87055670 AAATATTCATATTTTATACTATA
1 AAATACTCATATTTTATACTATA
87055693 AAA
1 AAA
87055696 CATTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATACTCATATTTTATACTATA
Found at i:87060196 original size:26 final size:23
Alignment explanation
Indices: 87060142--87060198 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
87060132 CTTTTAATCA
*
87060142 GGAAGCTCACAAAGAGCTTATCG
1 GGAAGCTCACAAAGAGCTTAACG
*
87060165 GGAAGCTCATAAAGAGCTATGTAACG
1 GGAAGCTCACAAAGAGC--T-TAACG
87060191 GGAAGCTC
1 GGAAGCTC
87060199 TGGATAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 16 0.55
25 1 0.03
26 12 0.41
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCTTAACG
Found at i:87061044 original size:28 final size:28
Alignment explanation
Indices: 87061004--87061060 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
87060994 GAAAATTCAC
87061004 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
87061032 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
87061060 T
1 T
87061061 CTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (28 bp):
TTCACAAAAGTTGTTTATCTATCAACAA
Found at i:87068057 original size:49 final size:50
Alignment explanation
Indices: 87067951--87068062 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 50
87067941 CCGGGCTATA
* * * **
87067951 TAACGGGAAGCTCATAAGAGCCATAATTAGGAAGTTCACAAAGAACTTTG
1 TAACAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
* *
87068001 -AATCAGGAAGCTCATGAAGAGCC-T-ATCGGGAAGCTCACAAAGAGCCATG
1 TAA-CAGGAAGCTCAT-AAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
87068050 TAACAGGAAGCTC
1 TAACAGGAAGCTC
87068063 CGGGTAGCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
49 31 0.60
50 14 0.27
51 7 0.13
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (50 bp):
TAACAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
Found at i:87076138 original size:21 final size:21
Alignment explanation
Indices: 87076112--87076155 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
87076102 AAGGCTTAAA
87076112 AAACCAAGTGCATAGAAGGTT
1 AAACCAAGTGCATAGAAGGTT
*
87076133 AAACCAAGTGCATAGGAGGTT
1 AAACCAAGTGCATAGAAGGTT
87076154 AA
1 AA
87076156 GTATTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (21 bp):
AAACCAAGTGCATAGAAGGTT
Found at i:87076331 original size:16 final size:16
Alignment explanation
Indices: 87076310--87076347 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
87076300 AAAAGTACAT
87076310 GAGCTTAGAAGGTCAA
1 GAGCTTAGAAGGTCAA
87076326 GAGCTTAGAAGGTCAA
1 GAGCTTAGAAGGTCAA
87076342 GAGCTT
1 GAGCTT
87076348 TGAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (16 bp):
GAGCTTAGAAGGTCAA
Found at i:87080563 original size:40 final size:40
Alignment explanation
Indices: 87080508--87080815 Score: 553
Period size: 40 Copynumber: 7.7 Consensus size: 40
87080498 GAGCATTGGA
87080508 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
87080548 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
87080588 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
87080628 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
87080668 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
87080708 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
87080748 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
87080788 ATATGTCCGGGTTAAGACCCAAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
87080816 ATGTGTTTGC
Statistics
Matches: 258, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:87086074 original size:21 final size:21
Alignment explanation
Indices: 87086048--87086091 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
87086038 AGGCTTAAAA
87086048 AAACCAAGTGCATAGAAGGTT
1 AAACCAAGTGCATAGAAGGTT
*
87086069 AAACCAAGTGCATAGGAGGTT
1 AAACCAAGTGCATAGAAGGTT
87086090 AA
1 AA
87086092 GTATTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (21 bp):
AAACCAAGTGCATAGAAGGTT
Found at i:87086387 original size:68 final size:66
Alignment explanation
Indices: 87086143--87086477 Score: 214
Period size: 68 Copynumber: 4.9 Consensus size: 66
87086133 AAGAAGCCAA
* * * ** * *
87086143 GTTCTTGAGAAAGTTAAATAATTTAAGAAGTACGCAACCTTGGAAGGTTGAGAGCTTTGAAATTT
1 GTTCTTGAG--AGGTAAATACTTTAAGAAGTACGCAACCTTAGAAGGTCAAGAGCTTTGAAAATA
*
87086208 TGG
64 AGG
* * * *** *
87086211 GTTCTTGAAAAGGTTAAGTACTTTAAAAAGTACATGAGCTTAGAAGGTCAAGAGCTTTGAAAATA
1 GTTCTTG-AGAGG-TAAATACTTTAAGAAGTACGCAACCTTAGAAGGTCAAGAGCTTTGAAAATA
**
87086276 AAA
64 AGG
* * *
87086279 GTTCTTGAGATGATTAAATACTTTAA-AGAGTATG-AGACCTTAGAAGGTCAAGATCTTTGAAAA
1 GTTCTTGAGA-G-GTAAATACTTTAAGA-AGTACGCA-ACCTTAGAAGGTCAAGAGCTTTGAAAA
*
87086342 TGAGG
62 TAAGG
* * * *
87086347 GTGCTTGAGGAGGCTGAATACTTTAAGAAGTACGCAACCTT-GAAAGGCCGAA-AGATTTGAAAA
1 GTTCTTGA-GAGG-TAAATACTTTAAGAAGTACGCAACCTTAG-AAGGTC-AAGAGCTTTGAAAA
87086410 GCTAA--
62 --TAAGG
* * * * *
87086415 GTTCTTAAGAGGGCTAAGTACTTTAATAAGTACGCAACCTTTGAAGGTCAAAAGCTTTGAAAA
1 GTTCTTGAGA-GG-TAAATACTTTAAGAAGTACGCAACCTTAGAAGGTCAAGAGCTTTGAAAA
87086478 GCTAAGTGCC
Statistics
Matches: 207, Mismatches: 43, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
67 10 0.05
68 187 0.90
69 8 0.04
70 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (66 bp):
GTTCTTGAGAGGTAAATACTTTAAGAAGTACGCAACCTTAGAAGGTCAAGAGCTTTGAAAATAAG
G
Found at i:87087895 original size:46 final size:46
Alignment explanation
Indices: 87087845--87088017 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
87087835 TGGTTGAGCA
87087845 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
87087891 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
87087936 CATCCGAACTCGTTGAGTTGAGGCCGAGTTCAGTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
87087984 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
87088018 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.07
46 55 0.51
47 28 0.26
48 5 0.05
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:87088001 original size:93 final size:93
Alignment explanation
Indices: 87087842--87088012 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
87087832 GGATGGTTGA
* *
87087842 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
87087907 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
87087935 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCAGTTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAA-CTCGTTGAG
87087999 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
87088013 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87092456 original size:40 final size:40
Alignment explanation
Indices: 87092412--87092496 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
87092402 TATCTTGTAA
*
87092412 ACTAAGTGCCGTACATAGCCGAAGCTATCTC-AAACAGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACA-CAC
* * *
87092452 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
87092492 ACTAA
1 ACTAA
87092497 AATCTGTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
Found at i:87095082 original size:58 final size:57
Alignment explanation
Indices: 87094905--87095149 Score: 215
Period size: 58 Copynumber: 4.2 Consensus size: 57
87094895 GTTGTAACCG
* ** * * **
87094905 TCCCTTTTCATA-TTCTATGGTCGAAACCGTCCCTTTTCATTAATCGATGGTCGTCA-TCA
1 TCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCA-TAATCGATAG-CGAAACT-A
* * * ** * *
87094964 TCCCTTTTCATAGCTGATGGTCGTCACCACCCCTTTTCATAATCGATGGTTATCATTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGA-AACTA
* * * *
87095022 TCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTGATAGCCGAAGCTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACTA
* * * *
87095080 TCCCTTTTCATAGTTTATGGTGGTCACCATCCATTTTCAAAATCGATAGTCGAAACTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACTA
87095138 TCCCTTTTCATA
1 TCCCTTTTCATA
87095150 ATCTAAGGCT
Statistics
Matches: 153, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
58 119 0.78
59 33 0.22
60 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (57 bp):
TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGAAACTA
Found at i:87095152 original size:29 final size:29
Alignment explanation
Indices: 87094905--87095152 Score: 160
Period size: 29 Copynumber: 8.5 Consensus size: 29
87094895 GTTGTAACCG
* * * *
87094905 TCCCTTTTCATATTCTATGGTCGAAACCG
1 TCCCTTTTCATAATCGATGGTCGACACCA
* *
87094934 TCCCTTTTCATTAATCGATGGTCGTCATCA
1 TCCCTTTTCA-TAATCGATGGTCGACACCA
* *
87094964 TCCCTTTTCAT-AGCTGATGGTCGTCACCA
1 TCCCTTTTCATAATC-GATGGTCGACACCA
* * **
87094993 CCCCTTTTCATAATCGATGGT-TATCATTA
1 TCCCTTTTCATAATCGATGGTCGA-CACCA
* * * *
87095022 TCCCATTTCATAGTTGATGGTCGTCACCA
1 TCCCTTTTCATAATCGATGGTCGACACCA
* * * * *
87095051 TCCCTTTTCATATTTGATAGCCGA-AGCTA
1 TCCCTTTTCATAATCGATGGTCGACA-CCA
* ** * *
87095080 TCCCTTTTCATAGTTTATGGTGGTCACCA
1 TCCCTTTTCATAATCGATGGTCGACACCA
* * * * *
87095109 TCCATTTTCAAAATCGATAGTCGAAACTA
1 TCCCTTTTCATAATCGATGGTCGACACCA
87095138 TCCCTTTTCATAATC
1 TCCCTTTTCATAATC
87095153 TAAGGCTTGT
Statistics
Matches: 165, Mismatches: 47, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
28 3 0.02
29 136 0.82
30 26 0.16
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATGGTCGACACCA
Found at i:87100359 original size:83 final size:84
Alignment explanation
Indices: 87100252--87100411 Score: 277
Period size: 83 Copynumber: 1.9 Consensus size: 84
87100242 GTTGTTCTTA
*
87100252 TAGTTAGTTAACACTATAGATTAGGTTTATTTTCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
*
87100317 CATTCTACTCTTAGTGAGC
66 CATTATACTCTTAGTGAGC
* *
87100336 TAGTTAGTT-ACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
87100400 CATTATACTCTT
66 CATTATACTCTT
87100412 TGTTTAATGC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 63 0.88
84 9 0.12
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (84 bp):
TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
CATTATACTCTTAGTGAGC
Found at i:87107929 original size:26 final size:26
Alignment explanation
Indices: 87107857--87107913 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
87107847 TCGCATCCCT
87107857 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
87107883 ATTTTACCCCTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
87107909 ATTTT
1 ATTTT
87107914 GTCCTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:87110021 original size:46 final size:46
Alignment explanation
Indices: 87109817--87109982 Score: 305
Period size: 46 Copynumber: 3.6 Consensus size: 46
87109807 TTATTTCGCT
* *
87109817 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
87109863 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
87109909 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
87109955 TATCTTTCATCCATGGTCTTATTCATTT
1 TATCTTTCAACCATGGTCTTATTCATTT
87109983 ATCGTCATAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:87110028 original size:92 final size:92
Alignment explanation
Indices: 87109817--87110021 Score: 304
Period size: 92 Copynumber: 2.2 Consensus size: 92
87109807 TTATTTCGCT
*
87109817 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
* **
87109882 TATTCATTTCCTGTCATGTTGCCATGG
66 TATTCATTTCCTGTCATATTGCCAAAG
* *
87109909 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCATCCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
* *
87109974 TATTCATTT-ATCGTCATATTGTCAAAG
66 TATTCATTTCCT-GTCATATTGCCAAAG
* *
87110001 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
87110022 CACATTTGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 1 0.01
92 101 0.99
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (92 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
TATTCATTTCCTGTCATATTGCCAAAG
Found at i:87110065 original size:45 final size:45
Alignment explanation
Indices: 87110003--87110118 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
87109993 TGTCAAAGTA
* * *
87110003 TCTTTCAACTATAGTCTTACACATTTGAATCGCGATGCAATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
* * * *
87110048 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
87110093 TCTTTCAGCTATGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
87110119 TTGTTATGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
Found at i:87113860 original size:17 final size:17
Alignment explanation
Indices: 87113838--87113870 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87113828 TACTCGATAG
87113838 CTCACCTCTATCACCCA
1 CTCACCTCTATCACCCA
87113855 CTCACCTCTATCACCC
1 CTCACCTCTATCACCC
87113871 GCTAGTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.55, G:0.00, T:0.24
Consensus pattern (17 bp):
CTCACCTCTATCACCCA
Found at i:87116297 original size:22 final size:24
Alignment explanation
Indices: 87116254--87116297 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
87116244 TGATAATATG
87116254 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
87116278 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
87116298 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:87118668 original size:20 final size:20
Alignment explanation
Indices: 87118627--87118668 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
87118617 ATGTTATGAA
* *
87118627 TCGCTCATACCAGTAGTTAC
1 TCGCTCATACCAGCAGTGAC
*
87118647 TCGCTCATACTAGCAGTGAC
1 TCGCTCATACCAGCAGTGAC
87118667 TC
1 TC
87118669 CGACCACTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCTCATACCAGCAGTGAC
Found at i:87120917 original size:22 final size:22
Alignment explanation
Indices: 87120874--87120922 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
87120864 CGAACATAGT
*
87120874 TATGAAAGCCCTTTACGAGTAG
1 TATGAAAGCCCTTTAAGAGTAG
*
87120896 TATGAAAGCCTTTTAA-AGGTAG
1 TATGAAAGCCCTTTAAGA-GTAG
87120918 TATGA
1 TATGA
87120923 GACTCTGCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
TATGAAAGCCCTTTAAGAGTAG
Found at i:87121056 original size:37 final size:36
Alignment explanation
Indices: 87120975--87121068 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
87120965 AATCCATAGC
*
87120975 CATGGCATAATTCAGGGAGGTCTGCCAGATTGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
* * * *
87121011 TAAGGCATAATCCAGGGCGGTTTGCCAGATTCGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATT-GCCTA
87121048 CATGGCATAATCCAGTGGAGG
1 CATGGCATAATCCAG-GGAGG
87121069 CTAGCGACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 26 0.54
37 18 0.38
38 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (36 bp):
CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
Found at i:87121444 original size:16 final size:18
Alignment explanation
Indices: 87121417--87121450 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
87121407 AATAATTATT
87121417 TTAAATTAATTTT-TCAA
1 TTAAATTAATTTTCTCAA
87121434 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
87121451 CTATATTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:87122533 original size:12 final size:12
Alignment explanation
Indices: 87122516--87122541 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87122506 TAGTCTTTCA
87122516 ATCAATTTGCTC
1 ATCAATTTGCTC
87122528 ATCAATTTGCTC
1 ATCAATTTGCTC
87122540 AT
1 AT
87122542 TTCTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
ATCAATTTGCTC
Found at i:87132732 original size:34 final size:34
Alignment explanation
Indices: 87132689--87132757 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
87132679 TAGGTCTACA
87132689 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
87132723 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
87132757 T
1 T
87132758 TGGTGCCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
TATGTTAAATTCTTGCATGAAAAATCTAACACAT
Found at i:87137022 original size:24 final size:24
Alignment explanation
Indices: 87136990--87137040 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
87136980 ACCATTATTT
*
87136990 TTAATAAATTAGATGTTGATAAAA
1 TTAATAAATTAGATGATGATAAAA
87137014 TTAATAAATTAGATGATGATAAAA
1 TTAATAAATTAGATGATGATAAAA
87137038 TTA
1 TTA
87137041 TCAAAGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (24 bp):
TTAATAAATTAGATGATGATAAAA
Found at i:87144845 original size:18 final size:18
Alignment explanation
Indices: 87144822--87144857 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
87144812 CATGAGATAG
87144822 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
87144840 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
87144858 TGCTAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.28, T:0.56
Consensus pattern (18 bp):
ACTTGTATTGGTTTTGGT
Found at i:87147336 original size:17 final size:17
Alignment explanation
Indices: 87147316--87147383 Score: 136
Period size: 17 Copynumber: 4.0 Consensus size: 17
87147306 CAATGATATG
87147316 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
87147333 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
87147350 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
87147367 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
87147384 TGAAATCTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:87147338 original size:34 final size:34
Alignment explanation
Indices: 87147300--87147395 Score: 124
Period size: 34 Copynumber: 2.8 Consensus size: 34
87147290 ATGGAAATAT
87147300 AATCTTCA-ATGATATGCAATCTTAGATATGATAC
1 AATCTT-AGATGATATGCAATCTTAGATATGATAC
*
87147334 AATCTTAGAT-ATGATACAATCTTAGATATGATAC
1 AATCTTAGATGAT-ATGCAATCTTAGATATGATAC
*
87147368 AATCTTAGATATGATATGAAATCTTAGA
1 AATCTTAG--ATGATATGCAATCTTAGA
87147396 AGATATGATT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.06
34 36 0.67
36 13 0.24
37 2 0.04
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (34 bp):
AATCTTAGATGATATGCAATCTTAGATATGATAC
Found at i:87147366 original size:22 final size:21
Alignment explanation
Indices: 87147324--87147404 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 21
87147314 TGCAATCTTA
87147324 GATATGATACAATCTT---A-
1 GATATGATACAATCTTAGAAT
87147341 GATATGATACAATCTTAG---
1 GATATGATACAATCTTAGAAT
87147359 -ATATGATACAATCTTAGATAT
1 GATATGATACAATCTTAGA-AT
87147380 GATATG--A-AATCTTAGAA-
1 GATATGATACAATCTTAGAAT
87147397 GATATGAT
1 GATATGAT
87147405 TTTGTAATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
17 39 0.71
18 1 0.02
19 9 0.16
20 1 0.02
22 5 0.09
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (21 bp):
GATATGATACAATCTTAGAAT
Found at i:87147421 original size:22 final size:22
Alignment explanation
Indices: 87147374--87147418 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
87147364 ATACAATCTT
*
87147374 AGATATGATATGAAATCTTAGA
1 AGATATGATATGAAATATTAGA
* *
87147396 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGAAATATTAGA
87147419 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGAAATATTAGA
Found at i:87147709 original size:17 final size:17
Alignment explanation
Indices: 87147685--87147719 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87147675 TGTTTCCCTG
*
87147685 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
87147703 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
87147720 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:87147772 original size:14 final size:14
Alignment explanation
Indices: 87147734--87147778 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
87147724 CATATCAAAC
87147734 TATTTCATTTTTAA
1 TATTTCATTTTTAA
* *
87147748 TAATT--TTTTTAC
1 TATTTCATTTTTAA
87147760 TATTTCATTTTTAA
1 TATTTCATTTTTAA
87147774 TATTT
1 TATTT
87147779 TTTTAGTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.40
14 15 0.60
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTCATTTTTAA
Found at i:87147778 original size:25 final size:26
Alignment explanation
Indices: 87147732--87147783 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
87147722 ATCATATCAA
87147732 ACTATTTCATTTTTAATAATTTTTTT
1 ACTATTTCATTTTTAATAATTTTTTT
87147758 ACTATTTCATTTTTAAT-ATTTTTTT
1 ACTATTTCATTTTTAATAATTTTTTT
87147783 A
1 A
87147784 GTACTACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (26 bp):
ACTATTTCATTTTTAATAATTTTTTT
Found at i:87156400 original size:78 final size:78
Alignment explanation
Indices: 87156193--87156491 Score: 420
Period size: 78 Copynumber: 3.8 Consensus size: 78
87156183 CGAAGAAACA
** * * * * *
87156193 GATTTGGCATCTCCATATTTGACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
87156258 GCAGATCGAAGAT
66 GCAGATCCAAGAT
* * *
87156271 GACAGATTTGGAATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
87156336 TGAAGCAGATCCAAGAT
62 TGAAGCAGATCCAAGAT
87156353 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
*
87156417 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
87156431 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
87156492 GTGTTTACAT
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 129 0.65
79 1 0.01
82 67 0.34
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:87156636 original size:89 final size:89
Alignment explanation
Indices: 87156521--87156690 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
87156511 TCCAAGATGA
* * * *
87156521 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAATAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
87156586 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * *
87156610 CAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
*
87156675 TAGATGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
87156691 CAAATATAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:87156675 original size:134 final size:136
Alignment explanation
Indices: 87156431--87156687 Score: 335
Period size: 134 Copynumber: 1.9 Consensus size: 136
87156421 GATCCAAGAT
*
87156431 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGA-ATAGCAGATCTGACCTTCATGTGA
* *
87156496 TTACATCGAAGTAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGA
65 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGA
87156561 GATAATA
130 GATAATA
* * * * *
87156568 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGAATAGCAGATCTGACCT-TCATGTGA
* * * *
87156629 TTAGA-CGGGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGGGGAGCA
65 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
87156688 GATCAAATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
132 1 0.01
133 4 0.04
134 60 0.57
135 3 0.03
137 37 0.35
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGAATAGCAGATCTGACCTTCATGTGAT
TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAG
ATAATA
Found at i:87156691 original size:45 final size:45
Alignment explanation
Indices: 87156431--87156691 Score: 260
Period size: 45 Copynumber: 5.8 Consensus size: 45
87156421 GATCCAAGAT
* *
87156431 GATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
87156478 GATCTGACCT-TCATGTGTTTACATC--GAAGTAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * *
87156523 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
87156568 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
87156612 GATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
87156657 GATTTGGCGTCTCTGTATTAGATGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
87156692 AAATATAGTA
Statistics
Matches: 175, Mismatches: 32, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 43 0.25
45 100 0.57
46 4 0.02
47 22 0.13
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:87157126 original size:35 final size:37
Alignment explanation
Indices: 87157055--87157152 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
87157045 ATAATCTTCA
87157055 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
87157093 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
87157128 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
87157153 ATTTGTAATC
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:87157152 original size:17 final size:19
Alignment explanation
Indices: 87157055--87157145 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
87157045 ATAATCTTCA
87157055 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87157074 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87157093 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87157110 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87157128 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
87157146 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:87157458 original size:18 final size:18
Alignment explanation
Indices: 87157433--87157469 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
87157423 TATTTCCCTG
*
87157433 ATTTTTTTTATATATTTTA
1 ATTTTTTTAATA-ATTTTA
87157452 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
87157470 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:87162724 original size:47 final size:47
Alignment explanation
Indices: 87162615--87162725 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
87162605 CTGGGATAAG
*
87162615 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
87162662 TACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
87162709 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
87162726 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:87163575 original size:24 final size:24
Alignment explanation
Indices: 87163548--87163596 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
87163538 TCTATCTTTC
87163548 TTTCTTTCTCTTTTTTTTTTAACT
1 TTTCTTTCTCTTTTTTTTTTAACT
87163572 TTTCTTTCTCTTTTTTTTTTAACT
1 TTTCTTTCTCTTTTTTTTTTAACT
87163596 T
1 T
87163597 ACTCATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCTTTCTCTTTTTTTTTTAACT
Found at i:87170009 original size:47 final size:47
Alignment explanation
Indices: 87169903--87170010 Score: 139
Period size: 47 Copynumber: 2.3 Consensus size: 47
87169893 GGATAAGCAT
*
87169903 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTATAC
1 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTACAC
* * * *
87169950 AAAGTACTTCATCGGAACAAATCTGGAACTTTAACAGTAGTCG-ACAC
1 ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTACAC
87169997 ATAGTG-TCTCATCG
1 ATAGTGCT-TCATCG
87170011 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (47 bp):
ATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTACAC
Found at i:87170780 original size:4 final size:4
Alignment explanation
Indices: 87170771--87170799 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
87170761 TCCTTTTCTA
87170771 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
87170800 ACGTTTGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:87182047 original size:22 final size:21
Alignment explanation
Indices: 87182002--87182048 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
87181992 AACATGCAGG
*
87182002 GCAGCAAAAGCAACGACAGTA
1 GCAGCAAAAGCAACGACAGCA
* *
87182023 GCAGCCAAAAGCAGCGGCAGCA
1 GCAG-CAAAAGCAACGACAGCA
87182045 GCAG
1 GCAG
87182049 GAGCAGGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.40, C:0.28, G:0.30, T:0.02
Consensus pattern (21 bp):
GCAGCAAAAGCAACGACAGCA
Found at i:87187525 original size:16 final size:18
Alignment explanation
Indices: 87187486--87187519 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87187476 TAAATTTATA
87187486 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
87187503 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
87187520 AATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:87188216 original size:10 final size:11
Alignment explanation
Indices: 87188184--87188216 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
87188174 ATTTTGTTTC
87188184 TTTAATTTATT
1 TTTAATTTATT
87188195 TTT-ATTTATT
1 TTTAATTTATT
87188205 TTTAATTT-TT
1 TTTAATTTATT
87188215 TT
1 TT
87188217 GATCCAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:87190858 original size:18 final size:19
Alignment explanation
Indices: 87190835--87190870 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
87190825 TTTATGGAAA
87190835 AGTCAAACCAAA-TTCAAG
1 AGTCAAACCAAAGTTCAAG
*
87190853 AGTCAAATCAAAGTTCAA
1 AGTCAAACCAAAGTTCAA
87190871 ACCAAACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (19 bp):
AGTCAAACCAAAGTTCAAG
Found at i:87192861 original size:24 final size:26
Alignment explanation
Indices: 87192817--87192877 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
87192807 TCCTTTATCC
*
87192817 TTTTTTATTTTATTTTTCTTTTTAAG-
1 TTTTTTA-TTTATTTTACTTTTTAAGT
87192843 TTTTTTATTTA-TTTACTTTTTAAGT
1 TTTTTTATTTATTTTACTTTTTAAGT
87192868 TTTTTTATTT
1 TTTTTTATTT
87192878 GTCCTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.36
25 14 0.42
26 7 0.21
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTATTTTACTTTTTAAGT
Found at i:87192891 original size:4 final size:4
Alignment explanation
Indices: 87192882--87192925 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
87192872 TTATTTGTCC
* *
87192882 TTTA TTTA TTTA TTTTA TTTC TTTGT TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TT
87192926 ACTGGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:87192897 original size:26 final size:26
Alignment explanation
Indices: 87192867--87192922 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 26
87192857 ACTTTTTAAG
87192867 TTTT-TTTATTTGTCCTTTATTTATTTA
1 TTTTATTTATTTGT--TTTATTTATTTA
*
87192894 TTTTATTTCTTTGTTTTATTTATTTA
1 TTTTATTTATTTGTTTTATTTATTTA
87192920 TTT
1 TTT
87192923 ATTACTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 15 0.56
27 4 0.15
28 8 0.30
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTATTTATTTGTTTTATTTATTTA
Found at i:87192900 original size:13 final size:13
Alignment explanation
Indices: 87192882--87192922 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
87192872 TTATTTGTCC
87192882 TTTATTTATTTAT
1 TTTATTTATTTAT
* *
87192895 TTTATTTCTTTGT
1 TTTATTTATTTAT
87192908 TTTATTTATTTAT
1 TTTATTTATTTAT
87192921 TT
1 TT
87192923 ATTACTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:87193000 original size:21 final size:22
Alignment explanation
Indices: 87192963--87193068 Score: 121
Period size: 21 Copynumber: 4.9 Consensus size: 22
87192953 ATTTGAAATG
87192963 TTTTATAATATTATTTTTAAAAA
1 TTTTA-AATATTATTTTTAAAAA
*
87192986 TTTTAAATATATTTTTTTAAAAA
1 TTTTAAATAT-TATTTTTAAAAA
*
87193009 -ATTAAATATTATTTTTTAAAAA
1 TTTTAAATATTA-TTTTTAAAAA
87193031 --TTAAATATTATTTTT-AAAA
1 TTTTAAATATTATTTTTAAAAA
**
87193050 TTTTAAATACAATTTTTAA
1 TTTTAAATATTATTTTTAA
87193069 TATTATAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.05
20 5 0.07
21 24 0.33
22 24 0.33
23 16 0.22
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAAATATTATTTTTAAAAA
Found at i:87193166 original size:23 final size:22
Alignment explanation
Indices: 87193128--87193219 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 22
87193118 ATTTATTATT
87193128 TATTTTATAATA-TTTTAAATGTA
1 TATTTT-TAATATTTTTAAAT-TA
87193151 TATTTTTAATATTTTTAAAATTA
1 TATTTTTAATATTTTT-AAATTA
* * *
87193174 TAATTATAATTTTTTTAAATTA
1 TATTTTTAATATTTTTAAATTA
87193196 TTAATTTTTTAAATTATTTTTAAA
1 -T-A-TTTTT-AA-TATTTTTAAA
87193220 GATATTCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.20
23 26 0.46
24 5 0.09
25 3 0.05
26 2 0.04
27 9 0.16
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TATTTTTAATATTTTTAAATTA
Found at i:87193193 original size:22 final size:22
Alignment explanation
Indices: 87193132--87193201 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
87193122 ATTATTTATT
* *
87193132 TTATAA-TATTTTAAATGTATAT
1 TTATAATTTTTTTAAAT-TATAA
* *
87193154 TTTTAATATTTTTAAAATTATAA
1 TTATAAT-TTTTTTAAATTATAA
87193177 TTATAATTTTTTTAAATTATTAA
1 TTATAATTTTTTTAAATTA-TAA
87193200 TT
1 TT
87193202 TTTTAAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 16 0.41
23 15 0.38
24 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTTAAATTATAA
Found at i:87193213 original size:16 final size:17
Alignment explanation
Indices: 87193175--87193213 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
87193165 TTAAAATTAT
87193175 AATTA-TAATTTTTTTA
1 AATTATTAATTTTTTTA
87193191 AATTATTAA-TTTTTTA
1 AATTATTAATTTTTTTA
87193207 AATTATT
1 AATTATT
87193214 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTATTAATTTTTTTA
Found at i:87193256 original size:22 final size:21
Alignment explanation
Indices: 87193203--87193256 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
87193193 TTATTAATTT
*
87193203 TTTAAATTATTTTTAAA-GATA
1 TTTAAATT-TTTTTAAATTATA
*
87193224 TTCAAACTTTTTTTAAATTATA
1 TTTAAA-TTTTTTTAAATTATA
87193246 TTTAAGATTTT
1 TTTAA-ATTTT
87193257 AAAAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 13 0.48
22 13 0.48
23 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAAATTTTTTTAAATTATA
Found at i:87196635 original size:30 final size:30
Alignment explanation
Indices: 87196594--87196667 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
87196584 TGGTTGGTCT
* * * *
87196594 GGGTGAAATGAACTTGAACCACCTATGTTC
1 GGGTGATATGAACTCGAACCACCCATGTCC
**
87196624 GGGTGATATGAACTCGAACTGCCCATGTCC
1 GGGTGATATGAACTCGAACCACCCATGTCC
*
87196654 GAGTGATATGAACT
1 GGGTGATATGAACT
87196668 GCTTTACGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (30 bp):
GGGTGATATGAACTCGAACCACCCATGTCC
Found at i:87207814 original size:20 final size:23
Alignment explanation
Indices: 87207776--87207830 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 23
87207766 ACTAGTTATA
*
87207776 ATATTTTTTTAATTATTTAATAT
1 ATATATTTTTAATTATTTAATAT
*
87207799 A-A-ATTTTTACTT-TTTAATAT
1 ATATATTTTTAATTATTTAATAT
87207819 ATATATTTTTAA
1 ATATATTTTTAA
87207831 AAAAGTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.33
21 9 0.33
22 8 0.30
23 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATTTTTAATTATTTAATAT
Found at i:87208156 original size:34 final size:34
Alignment explanation
Indices: 87208086--87208158 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
87208076 TTTTATATTA
**
87208086 TTAAAAATATATTTAAAATTTTAAAAAATTGTAT
1 TTAAAAATATATTTAAAATTTTAAAAAATTAAAT
*
87208120 TTAAAAA-ATATTATAAAATATTT-AAAATTTAAAT
1 TTAAAAATATATT-TAAAAT-TTTAAAAAATTAAAT
87208154 TTAAA
1 TTAAA
87208159 TTTTTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 5 0.15
34 26 0.76
35 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
TTAAAAATATATTTAAAATTTTAAAAAATTAAAT
Found at i:87208262 original size:25 final size:26
Alignment explanation
Indices: 87208203--87208294 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 26
87208193 TAAATAAATG
* *
87208203 ACAAATAAAAAAACTTAAAAAGTAAAT
1 ACAAA-AAAAAAACTTAAAAAGGAAAA
*
87208230 A-AATAAAAAAACTT-AAAAGGAAAA
1 ACAAAAAAAAAACTTAAAAAGGAAAA
* *
87208254 AC-AAAAAAAAA-TGAAAAAGGACAA
1 ACAAAAAAAAAACTTAAAAAGGAAAA
*
87208278 AGAATAAAAAAAA-TTAA
1 ACAA-AAAAAAAACTTAA
87208295 CGTGAATGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.02
24 27 0.51
25 11 0.21
26 13 0.25
27 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (26 bp):
ACAAAAAAAAAACTTAAAAAGGAAAA
Found at i:87208343 original size:28 final size:29
Alignment explanation
Indices: 87208284--87208350 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
87208274 ACAAAGAATA
* * **
87208284 AAAAAAATTAACGTGAATG-AAAAAATTT
1 AAAAAATTTAACCTGAATGAAAAAAAAAT
*
87208312 TAAAAATTTAACCTGAATGAAAAAAAAAT
1 AAAAAATTTAACCTGAATGAAAAAAAAAT
87208341 AAAAAATTTA
1 AAAAAATTTA
87208351 CCTATTTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (29 bp):
AAAAAATTTAACCTGAATGAAAAAAAAAT
Found at i:87208353 original size:28 final size:27
Alignment explanation
Indices: 87208285--87208353 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 27
87208275 CAAAGAATAA
* * **
87208285 AAAAAATTAACGTGAATGAAAAAATTT
1 AAAAAATTTACCTGAATGAAAAAAAAT
*
87208312 TAAAAATTTAACCTGAATGAAAAAAAAAT
1 AAAAAATTT-ACCTGAATG-AAAAAAAAT
87208341 AAAAAATTTACCT
1 AAAAAATTTACCT
87208354 ATTTCAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 7 0.21
28 12 0.35
29 15 0.44
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAAAATTTACCTGAATGAAAAAAAAT
Found at i:87211882 original size:32 final size:32
Alignment explanation
Indices: 87211832--87211895 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
87211822 TATTTCAATG
87211832 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
87211864 TAACTTAGA-AAAACTGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAA-TGAAAGAATAAAAACTTA
87211896 CTTTTGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (32 bp):
TAACTTAGAGAAAATGAAAGAATAAAAACTTA
Found at i:87232680 original size:19 final size:20
Alignment explanation
Indices: 87232647--87232693 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
87232637 CAATAAAATG
87232647 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
87232667 TTTTCTGG-AAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
87232686 TTTTCTGG
1 TTTTCTGG
87232694 TGTTTGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:87236303 original size:12 final size:12
Alignment explanation
Indices: 87236282--87236311 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87236272 TACTATTAGA
*
87236282 AATGTCTAAATC
1 AATGTGTAAATC
87236294 AATGTGTAAATC
1 AATGTGTAAATC
87236306 AATGTG
1 AATGTG
87236312 AAGTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (12 bp):
AATGTGTAAATC
Found at i:87237830 original size:22 final size:22
Alignment explanation
Indices: 87237746--87237824 Score: 56
Period size: 27 Copynumber: 3.4 Consensus size: 22
87237736 CAAAATTCTT
87237746 TTAAAATATGAAAA-CTCAAAAA
1 TTAAAATATGAAAATCT-AAAAA
*
87237768 -TAAAA-ATAAAAATCCTTAAAAA
1 TTAAAATATGAAAAT-C-TAAAAA
87237790 TTTAAATATATATGAAAAATCTAAAAA
1 -TT-AA-A-ATATG-AAAATCTAAAAA
87237817 TTAAAATA
1 TTAAAATA
87237825 ATAAAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 6 0.13
23 4 0.09
24 2 0.04
25 4 0.09
26 3 0.07
27 7 0.16
28 3 0.07
29 5 0.11
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (22 bp):
TTAAAATATGAAAATCTAAAAA
Found at i:87252592 original size:21 final size:21
Alignment explanation
Indices: 87252567--87252615 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
87252557 TGAAGAGAAA
87252567 GTGAAAATATTTCATCACAAT
1 GTGAAAATATTTCATCACAAT
87252588 GTGAAAATATTTCATCACAAT
1 GTGAAAATATTTCATCACAAT
87252609 GTGAAAA
1 GTGAAAA
87252616 ATCATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (21 bp):
GTGAAAATATTTCATCACAAT
Found at i:87276557 original size:18 final size:18
Alignment explanation
Indices: 87276534--87276569 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
87276524 GCTCTTTACA
87276534 AAAAATTTTGAAAAAATT
1 AAAAATTTTGAAAAAATT
*
87276552 AAAAATTTTGAAGAAATT
1 AAAAATTTTGAAAAAATT
87276570 TTGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAAATTTTGAAAAAATT
Found at i:87287133 original size:46 final size:46
Alignment explanation
Indices: 87287074--87287268 Score: 134
Period size: 46 Copynumber: 4.3 Consensus size: 46
87287064 ATCCGCTTTG
*
87287074 CTGCCAAAAACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* * ** * * ** * *
87287120 CTGCCAGATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * * * *
87287165 CT---ATAGT-CAGGGAGGTAAAAATCTGCCATCTTCGATCTGCTT-CT
1 CTGCCA-AATACAGGAAGG-CAAGATCTGCAATCTTCAATCT-ATTCCA
87287209 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
87287255 CTGCCAAATACAGG
1 CTGCCAAATACAGG
87287269 GAGATAGAGT
Statistics
Matches: 105, Mismatches: 33, Indels: 22
0.66 0.21 0.14
Matches are distributed among these distances:
42 11 0.10
43 3 0.03
44 10 0.10
45 18 0.17
46 51 0.49
47 12 0.11
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:87287289 original size:135 final size:134
Alignment explanation
Indices: 87287041--87287383 Score: 589
Period size: 135 Copynumber: 2.6 Consensus size: 134
87287031 TTGAATGCAT
* * *
87287041 GGAGGTAAAATCTGCCATTTTCGATCCGCTT-TGCTGCCAAAAACAGGAAGGCAAGATCTGCAAT
1 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCT-CTGCCAAATACAGGAAGGCAAGATCTGCAAT
*
87287105 CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
65 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
87287170 GTCAG
130 GTCAG
87287175 GGAGGTAAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAAT
1 GGAGGT-AAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAAT
*
87287240 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTA
65 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
87287305 GTCAG
130 GTCAG
* * *
87287310 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCGAATACAGGAAGGCAAGATCTGCAATA
1 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATC
87287375 TTCAATCTA
66 TTCAATCTA
87287384 CTTTTTACCA
Statistics
Matches: 199, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
134 71 0.36
135 127 0.64
136 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
GGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATC
TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATAG
TCAG
Found at i:87287514 original size:88 final size:89
Alignment explanation
Indices: 87287389--87287888 Score: 444
Period size: 88 Copynumber: 5.7 Consensus size: 89
87287379 ATCTACTTTT
* * * * *
87287389 TACCAATATAGGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
87287454 ATCTGC-ATCGTCGATCCACTTC-C
65 ATCTGCTATCGTCGATCCACTTCAC
** * * * * * *
87287477 TACCAATATAGGAAGACCGGACCTGATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGA
1 TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGA
* * *
87287542 TCTGCTTTC-TGCGATCTACTTCGC
66 TCTGCTATCGT-CGATCCACTTCAC
* * * * * *
87287566 CACCAATATGGGAAGACAAGATCTG-CATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGA
1 TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGA
* * * * *
87287630 CCTACTATCTTTGATCTACTTCAC
66 TCTGCTATCGTCGATCCACTTCAC
* * * * * * *
87287654 -GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAG
87287718 ATCTGC-ATCGTCGATCCACTTC-C
65 ATCTGCTATCGTCGATCCACTTCAC
* * * * * *
87287741 TACCAATATAGGAAGACAAGACCT-ACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAG
1 TACCAATATAGGAAGACAAGATCTGA-TATCTTCGATCTACTTCCCACCAATATAGGAAGACAAG
* * *
87287805 ATCTGCTTTCTGT-GATCTACTTCGC
65 ATCTGCTATC-GTCGATCCACTTCAC
* * * * * *
87287830 CACCAATATGGGAAGACAAGATCTG-CATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCCCACCAATATAGGAAGA
87287889 TAGGATATGT
Statistics
Matches: 325, Mismatches: 75, Indels: 24
0.77 0.18 0.06
Matches are distributed among these distances:
87 65 0.20
88 191 0.59
89 69 0.21
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (89 bp):
TACCAATATAGGAAGACAAGATCTGATATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGA
TCTGCTATCGTCGATCCACTTCAC
Found at i:87287591 original size:132 final size:132
Alignment explanation
Indices: 87287391--87287888 Score: 890
Period size: 132 Copynumber: 3.8 Consensus size: 132
87287381 CTACTTTTTA
* * * * *
87287391 CCAATATAGGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
**
87287456 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGA-TATCTTTGATCTACTTC
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCT-ACTATCTTTGATCTACTTC
87287520 ACG
130 ACG
87287523 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
87287588 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCA
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCA
87287653 CG
131 CG
87287655 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
87287720 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCA
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCA
87287785 CG
131 CG
*
87287787 CCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
* *
87287852 CTGCATCTTTGATCCACTTCCTACCAATATAGGAAGA
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGA
87287889 TAGGATATGT
Statistics
Matches: 355, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
131 1 0.00
132 354 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (132 bp):
CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCA
CG
Found at i:87302949 original size:157 final size:157
Alignment explanation
Indices: 87302663--87302972 Score: 437
Period size: 157 Copynumber: 2.0 Consensus size: 157
87302653 CATCCCCATG
87302663 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
1 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
* ** **
87302728 CTCCTGATGCAGCGCTTGCATGAGTTTTCTAAATATTTAGATATAGTGTCAACCCACCTATTGAA
66 CTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTGAA
*
87302793 TGAAGAATC-AGAAGTTGAAGAGTCATT
131 TGAAGAATCGA-AAGATGAAGAGTCATT
* * * * *
87302820 CAGCCTAAACACAGGATCTGGTATAGTTATCCATAATAATCC-AGAGGCCTTCA-TAAGTGATAT
1 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAG-GGCCTTCACGAA-TGATAT
* * * *
87302883 ACCTCCTGATGCAGCACTTGCACAAGTTTTTTGAATATCCAGATATAGTGTCAGCTCACCTATTG
64 ACCTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTG
87302948 AATGAAGAATCGAAAGATGAAGAGT
129 AATGAAGAATCGAAAGATGAAGAGT
87302973 TGTTCGTAGG
Statistics
Matches: 135, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
156 4 0.03
157 130 0.96
158 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (157 bp):
CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
CTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTGAA
TGAAGAATCGAAAGATGAAGAGTCATT
Found at i:87305235 original size:89 final size:89
Alignment explanation
Indices: 87305142--87305309 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
87305132 AATTAAAAAA
87305142 TAAAAATTAAATACA-TAAAGTTTAACTTAATAATTAAAGTA-TAAACTAAAAATGAATTGAATT
1 TAAAAATTAAATA-ATTAAAGTTTAACTTAATAATTAAA-TATTAAACTAAAAATGAATTGAATT
87305205 TCTTAATTTTAATTAAAAAATCAATT
64 TCTTAATTTTAATTAAAAAATCAATT
* * * * *
87305231 TAAAAATTAAATAATTAAATTTTAACTTAATAATTATATATTAAATTAAAAGTTAATTGAATTTC
1 TAAAAATTAAATAATTAAAGTTTAACTTAATAATTAAATATTAAACTAAAAATGAATTGAATTTC
* *
87305296 TTATTTTTACTTAA
66 TTAATTTTAATTAA
87305310 TTGAAATAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 3 0.04
89 67 0.96
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (89 bp):
TAAAAATTAAATAATTAAAGTTTAACTTAATAATTAAATATTAAACTAAAAATGAATTGAATTTC
TTAATTTTAATTAAAAAATCAATT
Found at i:87305274 original size:19 final size:19
Alignment explanation
Indices: 87305234--87305279 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
87305224 ATCAATTTAA
*
87305234 AAATTAAATAATTAAATTTT
1 AAATT-AATAATTAAATATT
* *
87305254 AACTTAATAATTATATATT
1 AAATTAATAATTAAATATT
87305273 AAATTAA
1 AAATTAA
87305280 AAGTTAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTAATAATTAAATATT
Found at i:87305286 original size:26 final size:27
Alignment explanation
Indices: 87305230--87305287 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
87305220 AAAAATCAAT
* **
87305230 TTAAAAATTAAATAATTAAATTTTAAC
1 TTAATAATTAAATAATTAAATTAAAAC
* *
87305257 TTAATAATTATAT-ATTAAATTAAAAG
1 TTAATAATTAAATAATTAAATTAAAAC
87305283 TTAAT
1 TTAAT
87305288 TGAATTTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAATAATTAAATAATTAAATTAAAAC
Found at i:87308378 original size:5 final size:5
Alignment explanation
Indices: 87308368--87308395 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
87308358 AAGCAAATTA
87308368 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
87308396 GTCACGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:87313678 original size:57 final size:57
Alignment explanation
Indices: 87313560--87313697 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 57
87313550 GGGGTGCCAA
* * * *
87313560 CCATCAATGTCCCAACACCCCTCAATTTTTGTTTTTCAAATATGGTCCAAGGGTGTTGG
1 CCATCAATGTCCCAACA--CCTCAATTTTTGTTTTTCAAATACGGTACAAGGATGTCGG
87313619 CCATCAATGTCCCAACACCT-AATTTTT-TTTTCCTCAAAT-CGAGTACAAGGATGTCGG
1 CCATCAATGTCCCAACACCTCAATTTTTGTTTT--TCAAATACG-GTACAAGGATGTCGG
*
87313676 CCATCAGTGTCCCAACA-CTCAA
1 CCATCAATGTCCCAACACCTCAA
87313698 AAAAATTTTC
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
55 4 0.06
56 10 0.14
57 39 0.56
59 17 0.24
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (57 bp):
CCATCAATGTCCCAACACCTCAATTTTTGTTTTTCAAATACGGTACAAGGATGTCGG
Found at i:87318104 original size:31 final size:31
Alignment explanation
Indices: 87318069--87318130 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
87318059 CTTTTTACCT
* *
87318069 CTGAACTTGGCAAATAGGTCCATATTGGCCC
1 CTGAACTTGGCAAATAGGTCCACATTAGCCC
*
87318100 CTGAACTTGGCAAGTAGGTCCACATTAGCCC
1 CTGAACTTGGCAAATAGGTCCACATTAGCCC
87318131 TTAAATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (31 bp):
CTGAACTTGGCAAATAGGTCCACATTAGCCC
Found at i:87319743 original size:7 final size:7
Alignment explanation
Indices: 87319733--87319758 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87319723 TATTTGAAAT
87319733 TTTAAAA
1 TTTAAAA
87319740 TTTAAAA
1 TTTAAAA
87319747 TTTAAAA
1 TTTAAAA
87319754 TTTAA
1 TTTAA
87319759 CCTTTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:87327035 original size:120 final size:120
Alignment explanation
Indices: 87326896--87327496 Score: 990
Period size: 120 Copynumber: 5.0 Consensus size: 120
87326886 ATTATTAATC
87326896 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
87326961 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
87327016 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
87327081 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
87327136 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
87327201 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
* * * * * * *
87327256 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
* * * *
87327321 TATTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
* * * * * *
87327376 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
87327441 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTAT-TTTAAAT
87327497 ATGATTAAAT
Statistics
Matches: 464, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 457 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
Found at i:87327338 original size:15 final size:13
Alignment explanation
Indices: 87327329--87327384 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
87327319 AATATTATTA
87327329 AATTATATATTTT
1 AATTATATATTTT
87327342 AATTATAATATATTT
1 AATTAT-ATAT-TTT
* *
87327357 AATAATAATTATGTT
1 AATTAT-A-TATTTT
87327372 AATT-TATATTTT
1 AATTATATATTTT
87327384 A
1 A
87327385 TAGTATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 7 0.19
14 5 0.14
15 15 0.42
16 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:87327354 original size:16 final size:16
Alignment explanation
Indices: 87327333--87327375 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
87327323 TTATTAAATT
87327333 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
87327349 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
87327364 AT-TATGTTAATT
1 ATATATTTTAATT
87327376 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:87327474 original size:16 final size:16
Alignment explanation
Indices: 87327453--87327494 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
87327443 TTATTAAATT
*
87327453 ATATATTTTAATTATA
1 ATATATTTTAATAATA
87327469 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
87327484 AT-TATGTTTAA
1 ATATAT-TTTAA
87327495 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:87327479 original size:15 final size:15
Alignment explanation
Indices: 87327444--87327485 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
87327434 TTAAGAATTT
*
87327444 TATTAAATTAT-ATA
1 TATTTAATTATAATA
87327458 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
87327472 TATTTAATAATAAT
1 TATTTAATTATAAT
87327486 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:87327732 original size:16 final size:16
Alignment explanation
Indices: 87327711--87327762 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
87327701 GATTTGCTAT
87327711 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
87327727 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
87327743 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
87327759 TACA
1 TACA
87327763 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:87341166 original size:21 final size:21
Alignment explanation
Indices: 87341142--87341198 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
87341132 TTTCCATCTT
*
87341142 CAACAACTTCTTCTTCTTCAG
1 CAACAACTTCTTCTTCTGCAG
87341163 CAACAACTT-TCTCTTCTGCAG
1 CAACAACTTCT-TCTTCTGCAG
*
87341184 CAGCAACTTTCTTCT
1 CAACAAC-TTCTTCT
87341199 CAACAACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 5 0.16
23 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (21 bp):
CAACAACTTCTTCTTCTGCAG
Found at i:87342786 original size:25 final size:25
Alignment explanation
Indices: 87342756--87342846 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
87342746 TGTAAACAGT
* * * *
87342756 AAGCTCTTCCGAGCTGAATAACGAG
1 AAGCTCATGCGAGCTGAGTATCGAG
*
87342781 AAGCTCATGCGAGTTGAGTATCGAG
1 AAGCTCATGCGAGCTGAGTATCGAG
* *
87342806 AAGCTCAAGCGAGTTGAGTATCGAG
1 AAGCTCATGCGAGCTGAGTATCGAG
*
87342831 AAGCTCATTCGAGCTG
1 AAGCTCATGCGAGCTG
87342847 TTGTGTGTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAGTATCGAG
Found at i:87345809 original size:42 final size:42
Alignment explanation
Indices: 87345763--87345873 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
87345753 CATAGTTCAA
*
87345763 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAACCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAACCCAG
* *
87345805 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
* * *
87345847 CTATGGTATTACACGTAATCACATATC
1 CTATGGTCTTACACATATTCACATATC
87345874 ACACATCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
Found at i:87346097 original size:31 final size:31
Alignment explanation
Indices: 87346021--87346107 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
87346011 CTTGTCACTT
* *
87346021 GTAGCCGAAGCTACCACTATTAACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
87346052 GTAGCCAGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
87346083 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
87346108 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.04
31 46 0.92
32 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:87351974 original size:17 final size:17
Alignment explanation
Indices: 87351952--87351993 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
87351942 CTTGCATACG
87351952 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
87351969 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
87351986 AGCTTACT
1 AGCTTACT
87351994 CCGTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (17 bp):
AGCTTACTAAGCTATAT
Found at i:87353556 original size:19 final size:19
Alignment explanation
Indices: 87353532--87353571 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87353522 AGCTCCCATG
87353532 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
87353551 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
87353570 TA
1 TA
87353572 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:87360345 original size:32 final size:35
Alignment explanation
Indices: 87360309--87360372 Score: 98
Period size: 32 Copynumber: 1.9 Consensus size: 35
87360299 TGTTATCATA
87360309 GATCTTGCAAACA-A-AT-AACATAAAATATAGTT
1 GATCTTGCAAACATATATAAACATAAAATATAGTT
*
87360341 GATCTTGCAAACATATATAAACATATAATATA
1 GATCTTGCAAACATATATAAACATAAAATATA
87360373 TTTAACTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 1 0.04
34 2 0.07
35 12 0.43
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (35 bp):
GATCTTGCAAACATATATAAACATAAAATATAGTT
Found at i:87360534 original size:60 final size:60
Alignment explanation
Indices: 87360438--87360561 Score: 203
Period size: 60 Copynumber: 2.1 Consensus size: 60
87360428 TAAATTAATA
* *
87360438 GTCACCTAACTATTAGTAAATTTCTTTTTCGATCACCCAGCTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
* * *
87360498 GTCACCCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATGAAAAGTTTCAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
87360558 GTCA
1 GTCA
87360562 TCTAACCTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (60 bp):
GTCACCCAACTATTAGTAAATTTCTTTTTCGATCACCCAACTATGAAAAGTTACAAAATG
Found at i:87366090 original size:24 final size:24
Alignment explanation
Indices: 87366063--87366108 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
87366053 AGTTATGGCT
87366063 TTTTTTAATATT-TTAATATTTTTC
1 TTTTTTAATATTATTAA-ATTTTTC
*
87366087 TTTTTTAATGTTATTAAATTTT
1 TTTTTTAATATTATTAAATTTT
87366109 GGAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTTAATATTATTAAATTTTTC
Found at i:87368397 original size:3 final size:3
Alignment explanation
Indices: 87368389--87368416 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
87368379 AGCAAACCAG
87368389 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
87368417 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:87373398 original size:50 final size:51
Alignment explanation
Indices: 87373316--87373444 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
87373306 GACCATGGCA
* *
87373316 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTAATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
87373367 A-AAGTAATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTAATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
87373417 ACAAGTGAA-AAGTGGTAGCTTCGGCTAC
1 ACAAGT-AATAAGTGATAGCTTCGGCTAC
87373445 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 47 0.65
51 23 0.32
52 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTAATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:87373458 original size:31 final size:31
Alignment explanation
Indices: 87373420--87373568 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
87373410 ACAAATGACA
87373420 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
87373451 AGTGAAAAGTGGTAGCTTCTACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87373482 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
87373513 AGTGAAAAATGGTAGCTCCGGCTACCTGTTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87373544 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
87373569 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:87373656 original size:47 final size:47
Alignment explanation
Indices: 87373587--87373749 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 47
87373577 AGTGATTTCC
* *
87373587 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
* * *
87373634 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
* *
87373681 G--TAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA-T
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACT
* * *
87373721 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
87373750 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
40 9 0.09
41 2 0.02
42 26 0.25
45 24 0.23
47 43 0.41
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACT
Found at i:87373728 original size:42 final size:43
Alignment explanation
Indices: 87373680--87373793 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
87373670 TATGTGATTC
*
87373680 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
*
87373722 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
87373764 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
87373794 GAAAATGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:87374959 original size:21 final size:21
Alignment explanation
Indices: 87374926--87374989 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 21
87374916 AAAATCCCTT
*
87374926 TATTTTAATATTAAATTAAATA
1 TATTTTGA-ATTAAATTAAATA
87374948 TATTTTGAATTAATTTATATAAATA
1 TATTTTGAATTAA---AT-TAAATA
87374973 TATTTTGAATTAAATTA
1 TATTTTGAATTAAATTA
87374990 TACACACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
24 2 0.05
25 19 0.51
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TATTTTGAATTAAATTAAATA
Found at i:87374972 original size:25 final size:25
Alignment explanation
Indices: 87374942--87374991 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
87374932 AATATTAAAT
*
87374942 TAAATATATTTTGAATTAATTTATA
1 TAAATATATTTTGAATTAAATTATA
87374967 TAAATATATTTTGAATTAAATTATA
1 TAAATATATTTTGAATTAAATTATA
87374992 CACACTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
TAAATATATTTTGAATTAAATTATA
Found at i:87381859 original size:25 final size:26
Alignment explanation
Indices: 87381821--87381870 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
87381811 TACATTTTTG
*
87381821 TCAATTTAA-TTTTTATTTTTTAAGT
1 TCAATTTAACTTTTAATTTTTTAAGT
*
87381846 TCAATTTGACTTTTAAATTTTTTAA
1 TCAATTTAACTTTT-AATTTTTTAA
87381871 AAAAGAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 4 0.19
27 9 0.43
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
TCAATTTAACTTTTAATTTTTTAAGT
Found at i:87396874 original size:25 final size:25
Alignment explanation
Indices: 87396846--87396923 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
87396836 ACCTTAGCGC
* **
87396846 GCTCTCTGATTATTAGCATGTTAGT
1 GCTCTCCGATTATTAGCACATTAGT
87396871 GCTCTCCGATTATTAGCACATTAGT
1 GCTCTCCGATTATTAGCACATTAGT
*
87396896 GCTCTCCG--T-TTAGCACATTTGT
1 GCTCTCCGATTATTAGCACATTAGT
87396918 GCTCTC
1 GCTCTC
87396924 TGTATAGCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 18 0.37
23 1 0.02
25 30 0.61
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (25 bp):
GCTCTCCGATTATTAGCACATTAGT
Found at i:87396911 original size:22 final size:22
Alignment explanation
Indices: 87396866--87396942 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
87396856 TATTAGCATG
87396866 TTAGTGCTCTCCGATTATTAGCACA
1 TTAGTGCTCTCCG--T-TTAGCACA
87396891 TTAGTGCTCTCCGTTTAGCACA
1 TTAGTGCTCTCCGTTTAGCACA
* * * *
87396913 TTTGTGCTCTCTGTATAGCACT
1 TTAGTGCTCTCCGTTTAGCACA
87396935 TTAGTGCT
1 TTAGTGCT
87396943 TTCTGTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 33 0.70
23 1 0.02
25 13 0.28
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGTGCTCTCCGTTTAGCACA
Found at i:87405055 original size:25 final size:25
Alignment explanation
Indices: 87405017--87405066 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
87405007 TTTAAGAAAC
*
87405017 CGTTCAAGATTTTAGAAAAATCTTA
1 CGTTCAAGACTTTAGAAAAATCTTA
87405042 CGTTCAAGACTTTAGAAAAATCTTA
1 CGTTCAAGACTTTAGAAAAATCTTA
87405067 GTTTTAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (25 bp):
CGTTCAAGACTTTAGAAAAATCTTA
Found at i:87407068 original size:23 final size:21
Alignment explanation
Indices: 87407030--87407076 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 21
87407020 TATCCCTAAA
87407030 AAAAAATATTATTAATTA-AT
1 AAAAAATATTATTAATTAGAT
87407050 AAAAAATAATTAATGTAATTAGAT
1 AAAAAAT-ATT-AT-TAATTAGAT
87407074 AAA
1 AAA
87407077 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 2 0.09
23 6 0.26
24 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAAAATATTATTAATTAGAT
Found at i:87407147 original size:19 final size:18
Alignment explanation
Indices: 87407123--87407160 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
87407113 ATGTTTTAAT
87407123 TAAATAAATATAAAATTTA
1 TAAATAAATA-AAAATTTA
*
87407142 TAAATAAATAAAATTTTA
1 TAAATAAATAAAAATTTA
87407160 T
1 T
87407161 TTTAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATAAATAAAAATTTA
Found at i:87407502 original size:22 final size:20
Alignment explanation
Indices: 87407466--87407522 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
87407456 ATCAGCAATT
* *
87407466 TTTTTCATTAATATTTTTATGG
1 TTTTT-ATTATTATTTTTAT-A
87407488 TTATTTATTATTA-TTTTATA
1 TT-TTTATTATTATTTTTATA
87407508 TTTTTATTATTATTT
1 TTTTTATTATTATTT
87407523 AATTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 6 0.19
22 8 0.26
23 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTATTATTATTTTTATA
Found at i:87407529 original size:16 final size:18
Alignment explanation
Indices: 87407491--87407528 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
87407481 TTTATGGTTA
87407491 TTTATTATTATTTTATATT
1 TTTATTATTA-TTTATATT
87407510 TTTATTATTATTTA-ATT
1 TTTATTATTATTTATATT
87407527 TT
1 TT
87407529 AATAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTATTATTTATATT
Found at i:87408845 original size:14 final size:14
Alignment explanation
Indices: 87408826--87408852 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87408816 TAATATTTCT
87408826 AAATAAATCATCTC
1 AAATAAATCATCTC
87408840 AAATAAATCATCT
1 AAATAAATCATCT
87408853 TTACTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATCATCTC
Found at i:87410345 original size:26 final size:26
Alignment explanation
Indices: 87410297--87410347 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
87410287 TTGCAGTGGC
* * *
87410297 TGATTTGATCAATTCATTCTATTAAT
1 TGATTTGACCAACTAATTCTATTAAT
*
87410323 TGATTTGACCAACTAATTTTATTAA
1 TGATTTGACCAACTAATTCTATTAA
87410348 CTGTTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (26 bp):
TGATTTGACCAACTAATTCTATTAAT
Found at i:87417932 original size:22 final size:22
Alignment explanation
Indices: 87417890--87417933 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87417880 GCAACTACTT
*
87417890 TAATTGCATTATTTAAGTATTA
1 TAATTGCATTATTCAAGTATTA
*
87417912 TAATT-CATTAATTCAATTATTA
1 TAATTGCATT-ATTCAAGTATTA
87417934 ACTTAGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTGCATTATTCAAGTATTA
Found at i:87418402 original size:12 final size:12
Alignment explanation
Indices: 87418385--87418409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87418375 GGTGTTCATT
87418385 CGGTTAACCGAC
1 CGGTTAACCGAC
87418397 CGGTTAACCGAC
1 CGGTTAACCGAC
87418409 C
1 C
87418410 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:87418607 original size:9 final size:9
Alignment explanation
Indices: 87418540--87418591 Score: 95
Period size: 9 Copynumber: 5.8 Consensus size: 9
87418530 TTTGGTTAAA
87418540 AATTACCCG
1 AATTACCCG
87418549 AATTACCCG
1 AATTACCCG
87418558 AATTACCCG
1 AATTACCCG
87418567 AATTACCCG
1 AATTACCCG
*
87418576 AATTAACCG
1 AATTACCCG
87418585 AATTACC
1 AATTACC
87418592 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Done.