Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 145 of 332
Found at i:47564840 original size:81 final size:81
Alignment explanation
Indices: 47564704--47564854 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
47564694 GATGGCAAAG
* * * *
47564704 CAGCTATATATGGCACTTAGTGTACGAGGTCGAGATAGCTTCGGCTAATATGGCACTTAGTGTGC
1 CAGCTATATATGGCACTTAGTGTACGAAGTCGAGATAGCTTCAGCTAATACGGCACTTAGTGTAC
47564769 GAGATCGATATAGCTT
66 GAGATCGATATAGCTT
* * * *
47564785 CAGCTATATATGGCACTTAGTGTGC-AATTTGAGATAGCTTCAGCTATGTACGGCACTTAGTGTA
1 CAGCTATATATGGCACTTAGTGTACGAAGTCGAGATAGCTTCAGCTA-ATACGGCACTTAGTGTA
47564849 CGAGAT
65 CGAGAT
47564855 ATCGAGTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 17 0.28
81 44 0.72
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (81 bp):
CAGCTATATATGGCACTTAGTGTACGAAGTCGAGATAGCTTCAGCTAATACGGCACTTAGTGTAC
GAGATCGATATAGCTT
Found at i:47571833 original size:41 final size:40
Alignment explanation
Indices: 47571776--47571966 Score: 211
Period size: 41 Copynumber: 4.7 Consensus size: 40
47571766 CGACAAATCA
* *
47571776 GCTATATGTGGCACTTAGTGTGCGAGATCATGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATCA-GATAGCTTCG
* *
47571817 GCTATATATGGCACTTAGTGTGCAAGATCAAGATAGCTACG
1 GCTATATATGGCACTTAGTGTGCGAGATC-AGATAGCTTCG
* *
47571858 ACTATATATGGCACTTAGTGTGCAAGATCGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATC-AGATAGCTTCG
* ** * *
47571899 GCTATATATGGAACTTAGTGTGCGATTTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATCAGATAGCTTCG
* * * * *
47571939 GCCATGTACGACACTTAGTGTACGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
47571967 ATCGAGTATT
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 30 0.24
41 96 0.76
42 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGAGATCAGATAGCTTCG
Found at i:47573372 original size:29 final size:29
Alignment explanation
Indices: 47573305--47573429 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
47573295 AAGTCTACAT
* *
47573305 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
47573333 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
47573362 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
47573391 ACATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
47573420 ACATGCATAT
1 ACATTCATAT
47573430 TCATGCTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 21 0.24
29 67 0.76
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:47575772 original size:42 final size:42
Alignment explanation
Indices: 47575720--47575805 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
47575710 ACACGAACAT
*
47575720 GTTACGCGGCTGTGTGTCCCCTAGTGTGGAAATTGAAATGAA
1 GTTACACGGCTGTGTGTCCCCTAGTGTGGAAATTGAAATGAA
47575762 GTTACACGGCTGTGTGTCCCCTAGTGTGGAAATTGAAATGAA
1 GTTACACGGCTGTGTGTCCCCTAGTGTGGAAATTGAAATGAA
47575804 GT
1 GT
47575806 CAGTATACTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (42 bp):
GTTACACGGCTGTGTGTCCCCTAGTGTGGAAATTGAAATGAA
Found at i:47583691 original size:49 final size:50
Alignment explanation
Indices: 47583619--47584113 Score: 597
Period size: 49 Copynumber: 9.9 Consensus size: 50
47583609 GCTATTGTGA
47583619 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * *
47583668 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CATGATAACTTC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATAA-TTC
* *
47583719 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * * ** *
47583768 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTC
* * ** *
47583819 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
*
47583869 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATT-
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTC
* * * * *
47583918 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTC
* * ** *
47583969 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* *
47584019 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
** * **
47584068 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47584114 GCTTCGGCTA
Statistics
Matches: 379, Mismatches: 57, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
48 2 0.01
49 161 0.42
50 100 0.26
51 115 0.30
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
Found at i:47583794 original size:100 final size:100
Alignment explanation
Indices: 47583621--47584101 Score: 612
Period size: 100 Copynumber: 4.8 Consensus size: 100
47583611 TATTGTGAGG
47583621 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
47583686 AAGTGCAGGCTACTATGCGTACATGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACATGATAACTTCGA
* *
47583721 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
47583786 AAGTGCAGGCTACTATGCATACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACATGATAACTTCGA
* ** *
47583821 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * * * *
47583886 TAAGTGTAGGCTACTACGTGTAC-CGAATAA-TT-GG
65 TAAGTGCAGGCTACTATGCGTACATG-ATAACTTCGA
* * * * * * *
47583920 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACATGTGTAGTA
* * ** * *
47583985 CTAAGTGCAGGCTACTACGTGTATCA-GAT-GGTTAGG
64 CTAAGTGCAGGCTACTATGCGTA-CATGATAACTTCGA
* * **
47584021 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
47584086 AAGTGCAGGCTACTAT
66 AAGTGCAGGCTACTAT
47584102 ATGTACCAGA
Statistics
Matches: 335, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
99 67 0.20
100 187 0.56
101 81 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACATGATAACTTCGA
Found at i:47583902 original size:150 final size:150
Alignment explanation
Indices: 47583626--47584119 Score: 769
Period size: 150 Copynumber: 3.3 Consensus size: 150
47583616 TGAGGTCACG
* * * * *
47583626 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
* * ** * *
47583689 TGCAGGCTACTATGCGTA-CATGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
66 TGCAGGCTACTACGTGTATCA-GAT-GGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
47583753 GTGTACCGGATAATTGGTCGCA
129 GTGTACCGGATAATTGGTCGCA
*
47583775 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
*
47583840 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
*
47583905 GTACCGAATAATTGGTCGCA
131 GTACCGGATAATTGGTCGCA
47583925 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
47583990 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
* *
47584055 GTATCGGATAATTGGTTGCA
131 GTACCGGATAATTGGTCGCA
** * *
47584075 TGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATAGCTTCG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCG
47584120 GCTACAAGTG
Statistics
Matches: 319, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
149 36 0.11
150 243 0.76
151 38 0.12
152 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGT
GTACCGGATAATTGGTCGCA
Found at i:47584005 original size:28 final size:28
Alignment explanation
Indices: 47583973--47584056 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
47583963 AACTTCGATC
47583973 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47584001 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
47584023 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47584051 ACGTGT
1 ACGTGT
47584057 ATCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47594405 original size:6 final size:6
Alignment explanation
Indices: 47594396--47594452 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
47594386 TATTTATTCC
* * * *
47594396 TATTTT TA-TTT TA-TTT TATTTT TGTTTT TGTTTT TCTTTT GATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
47594442 TATTTT CATTT
1 TATTTT TATTT
47594453 CAATTTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
5 10 0.23
6 34 0.77
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:47604174 original size:25 final size:25
Alignment explanation
Indices: 47604140--47604190 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
47604130 ACCATCCTTT
47604140 AAACTCTCATATTCCTTCATAAATC
1 AAACTCTCATATTCCTTCATAAATC
* *
47604165 AAACTCTCATGTTTCTTCATAAATC
1 AAACTCTCATATTCCTTCATAAATC
47604190 A
1 A
47604191 TTAAAACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.37
Consensus pattern (25 bp):
AAACTCTCATATTCCTTCATAAATC
Found at i:47604459 original size:14 final size:14
Alignment explanation
Indices: 47604440--47604467 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47604430 TTTATTTAGT
47604440 TTATTACCAAATGA
1 TTATTACCAAATGA
47604454 TTATTACCAAATGA
1 TTATTACCAAATGA
47604468 CCAAAAGCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTATTACCAAATGA
Found at i:47607140 original size:28 final size:28
Alignment explanation
Indices: 47607108--47607163 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
47607098 TTCTCCAATA
47607108 AAGTTCTTCTTACACAAAGAGAGAGAAT
1 AAGTTCTTCTTACACAAAGAGAGAGAAT
47607136 AAGTTCTTCTTACACAAAGAGAGAGAAT
1 AAGTTCTTCTTACACAAAGAGAGAGAAT
47607164 TGTTGTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (28 bp):
AAGTTCTTCTTACACAAAGAGAGAGAAT
Found at i:47611240 original size:42 final size:42
Alignment explanation
Indices: 47611173--47611338 Score: 219
Period size: 42 Copynumber: 3.9 Consensus size: 42
47611163 TTAGGGTTAC
47611173 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGCATTGATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATTGATA
* *
47611215 TAAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATTGATA
* *
47611257 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATTGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATTGATA
** * *
47611300 TGAGA-TTATATGTAATACCATATCTAGGATATGGCATTG
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATTG
47611339 GTACGGTACT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
42 75 0.69
43 34 0.31
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:47611322 original size:85 final size:84
Alignment explanation
Indices: 47611173--47611336 Score: 224
Period size: 85 Copynumber: 1.9 Consensus size: 84
47611163 TTAGGGTTAC
* *
47611173 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATATAAGACTTCGTGTAAGACCATAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATATAAGACTTCATGTAAGACCATAT
*
47611238 CTGGGATATGGCATCGATA
66 CTAGGATATGGCATCGATA
* * * *
47611257 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATTGATATGAGA-TTATATGTAATACCA
1 TGAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATTGATATAAGACTT-CATGTAAGACCA
47611320 TATCTAGGATATGGCAT
63 TATCTAGGATATGGCAT
47611337 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 28 0.40
85 42 0.60
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATATAAGACTTCATGTAAGACCATAT
CTAGGATATGGCATCGATA
Found at i:47636166 original size:27 final size:27
Alignment explanation
Indices: 47636131--47636183 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
47636121 TGGCGAACCC
* *
47636131 CTAGTTCACCAAACACACTAGTGAACA
1 CTAGCTCACCAAACACACTAGCGAACA
47636158 CTAGCTCACCAAACACACTAGCGAAC
1 CTAGCTCACCAAACACACTAGCGAAC
47636184 CTCCTTACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.34, G:0.11, T:0.15
Consensus pattern (27 bp):
CTAGCTCACCAAACACACTAGCGAACA
Found at i:47648674 original size:49 final size:49
Alignment explanation
Indices: 47648614--47649405 Score: 1275
Period size: 47 Copynumber: 16.6 Consensus size: 49
47648604 GATAATTGTG
47648614 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47648661 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
47648708 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47648755 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47648804 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
47648853 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47648900 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47648949 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47648998 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47649047 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47649094 ATGTGAAAGTG--TATATATGTGATAAGG-CTGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
47649141 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47649190 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47649239 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47649286 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
47649333 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47649380 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
47649406 TCCCGAAGGG
Statistics
Matches: 706, Mismatches: 27, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
46 2 0.00
47 367 0.52
48 3 0.00
49 332 0.47
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47648905 original size:192 final size:192
Alignment explanation
Indices: 47648614--47649405 Score: 1371
Period size: 192 Copynumber: 4.1 Consensus size: 192
47648604 GATAATTGTG
47648614 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
47648677 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
47648742 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47648804 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
47648869 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAA
47648934 TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
129 TGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
47648998 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
47649063 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
47649128 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47649190 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
47649255 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * * * * * * *
47649320 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
131 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
47649380 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
47649406 TCCCGAAGGG
Statistics
Matches: 575, Mismatches: 23, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
188 10 0.02
189 1 0.00
190 49 0.09
191 2 0.00
192 326 0.57
194 187 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (192 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:47651051 original size:39 final size:39
Alignment explanation
Indices: 47650992--47651116 Score: 214
Period size: 39 Copynumber: 3.2 Consensus size: 39
47650982 CCTGAAATTT
* * *
47650992 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATA
1 TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
*
47651031 CATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
47651070 TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
1 TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
47651109 TATTTCCA
1 TATTTCCA
47651117 TACACATTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TATTTCCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATA
Found at i:47655579 original size:46 final size:45
Alignment explanation
Indices: 47655486--47655699 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 45
47655476 TATCTGTGCA
* * * * *
47655486 GATGCTATATCCCAGACATGGTCTTAAACTGAC-ACATCTCATA-GCC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTCA-AGGCC
* *
47655532 GATGCATGTCCCAGACATCTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAAGGCC
* * * *
47655578 GATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCAAGGCC
* *
47655624 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TC-TCAT-AATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-TCAA---GGCC
* *
47655672 AATGCATGTCCCAGACATGTCCTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
47655700 AGTGACTAGT
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 67 0.49
47 26 0.19
48 17 0.12
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAAGGCC
Found at i:47662959 original size:56 final size:56
Alignment explanation
Indices: 47662868--47662990 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
47662858 GAGATTGGCG
* * *
47662868 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
47662925 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
47662980 CTGAGTGTGCG
1 CTAAGTGTGCG
47662991 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:47662977 original size:27 final size:28
Alignment explanation
Indices: 47662868--47662990 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
47662858 GAGATTGGCG
* * * *
47662868 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
47662897 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47662925 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47662953 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
47662980 CTGAGTGTGCG
1 CTAAGTGTGCG
47662991 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:47663001 original size:27 final size:27
Alignment explanation
Indices: 47662893--47663003 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
47662883 TAAATTGTAC
* * *
47662893 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47662921 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47662949 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
47662976 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
47663003 A
1 A
47663004 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:47671174 original size:56 final size:56
Alignment explanation
Indices: 47671077--47671199 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 56
47671067 GAGATTGGTG
* * *
47671077 CTAAGTGTGCGGGTTTGAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
*
47671134 CTAAGTGTGCGAGTTTG-ATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
47671189 CTGAGTGTGCG
1 CTAAGTGTGCG
47671200 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.36
57 16 0.26
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:47671186 original size:27 final size:28
Alignment explanation
Indices: 47671077--47671199 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
47671067 GAGATTGGTG
* * *
47671077 CTAAGTGTGCGGGTTTGAATTGTACAGCA
1 CTAAGTGTGCGAGTTTG-ATTATATAGCA
*
47671106 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47671134 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
47671162 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
47671189 CTGAGTGTGCG
1 CTAAGTGTGCG
47671200 GACTTAATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 24 0.27
28 48 0.55
29 16 0.18
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:47671210 original size:27 final size:27
Alignment explanation
Indices: 47671102--47671212 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
47671092 TGAATTGTAC
* * *
47671102 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47671130 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
47671158 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
47671185 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
47671212 A
1 A
47671213 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:47678101 original size:46 final size:45
Alignment explanation
Indices: 47678051--47678221 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
47678041 ACATCTCATA
* *
47678051 GCCGATGCATGTCCCAGACATTTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCAAG
* * *
47678097 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCAAG
47678143 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC-TCAA---G
* *
47678191 GCCGATGCATGCCCCAGGCATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
47678222 AGCTCACACA
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
45 4 0.04
46 59 0.54
47 27 0.25
48 19 0.17
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCAAG
Found at i:47678196 original size:94 final size:94
Alignment explanation
Indices: 47677958--47678224 Score: 271
Period size: 94 Copynumber: 2.8 Consensus size: 94
47677948 GTCAGGTGCT
** * * * *
47677958 GATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATTTCTGTGCCGATGCTATATCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATGTG-GCCGATGC-ATGTCCCAG
* *
47678023 ACGTGGTCTTAAACT-G-ATACATCTCATAGCC
63 ACAT-GTCTTACACTAGCATACATCTCATAGCC
* * * *
47678054 GATG-CATGTCCCAGACAT-TTCTTACACTGGCT-TACGTCTCGAGGCCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAT-GTGGCCGATGCATGTCCCAGAC
*
47678116 ATGTCTTACACTAGCACT-CGTCTCA-ATGCC
65 ATGTCTTACACTAGCA-TACATCTCATA-GCC
* *
47678146 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGCCCCAGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCCAGAC
47678210 ATGTCTTACACTAGC
65 ATGTCTTACACTAGC
47678225 TCACACAAGT
Statistics
Matches: 144, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
90 9 0.06
91 13 0.09
92 25 0.17
93 18 0.12
94 59 0.41
95 16 0.11
96 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCATACATCTCATAGCC
Found at i:47682193 original size:86 final size:87
Alignment explanation
Indices: 47682091--47682251 Score: 236
Period size: 86 Copynumber: 1.9 Consensus size: 87
47682081 TAAGCCCCTC
* * *
47682091 CTCTCTTTTTTACACTTAATT-GAGCACTTGAACTTTCAAAATGCATCAAAAAGGCCCTTAAACT
1 CTCTCTTTTTTACACTTAATTGGA-CACTTGAACTTTCAAAATACATCAAAAAGACCCTTAAAAT
47682155 TGTTCAAAAAAAAAGCAACTAAG
65 TGTTCAAAAAAAAAGCAACTAAG
* * *
47682178 CTCT-TTTTTTTCACTTAATTGGATATTTGAACTTTCAAAATACATCAAAAAGACCCTTAAAATT
1 CTCTCTTTTTTACACTTAATTGGACACTTGAACTTTCAAAATACATCAAAAAGACCCTTAAAATT
*
47682242 TTTCAAAAAA
66 GTTCAAAAAA
47682252 TTACAATTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 60 0.91
87 6 0.09
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (87 bp):
CTCTCTTTTTTACACTTAATTGGACACTTGAACTTTCAAAATACATCAAAAAGACCCTTAAAATT
GTTCAAAAAAAAAGCAACTAAG
Found at i:47682349 original size:19 final size:19
Alignment explanation
Indices: 47682291--47682350 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
47682281 ATTAGAAAAA
*
47682291 AATAATAAATA-ATAAATTT
1 AATAA-AAATATAAAAATTT
* * * *
47682310 TATAAAAATTATTACATTTT
1 AATAAAAA-TATAAAAATTT
47682330 AATAAAAATATAAAAATTT
1 AATAAAAATATAAAAATTT
47682349 AA
1 AA
47682351 AATTTATTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 3 0.10
19 16 0.53
20 11 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAAATATAAAAATTT
Found at i:47682614 original size:19 final size:19
Alignment explanation
Indices: 47682590--47682645 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
47682580 TACGATAATT
47682590 TTTATAATTTTTTACGAAA
1 TTTATAATTTTTTACGAAA
**
47682609 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTT-TTTACGAAA
47682627 TTGTATAATTTTCTTACGA
1 TT-TATAATTTT-TTACGA
47682646 CTTTATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 14 0.47
20 8 0.27
21 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTACGAAA
Found at i:47682681 original size:29 final size:30
Alignment explanation
Indices: 47682609--47682681 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 30
47682599 TTTTACGAAA
* **
47682609 TTTATATTTCTTTACATTTTGTATAATTTT
1 TTTATATTTCTATACAAATTGTATAATTTT
* * *
47682639 CTTACGACTT-TATA-AAATTGTATAATTTT
1 TTTA-TATTTCTATACAAATTGTATAATTTT
47682668 TTTATATTTCTATA
1 TTTATATTTCTATA
47682682 TTTTATAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
28 3 0.09
29 20 0.62
30 6 0.19
31 3 0.09
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (30 bp):
TTTATATTTCTATACAAATTGTATAATTTT
Found at i:47682711 original size:26 final size:26
Alignment explanation
Indices: 47682659--47682710 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
47682649 TATAAAATTG
*
47682659 TATAATTTTTTTATATTTCTATATTT
1 TATAATTTTTATATATTTCTATATTT
* *
47682685 TATAATTTTTATGT-TTTTTATATTT
1 TATAATTTTTATATATTTCTATATTT
47682710 T
1 T
47682711 TTTTCTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TATAATTTTTATATATTTCTATATTT
Found at i:47685786 original size:40 final size:40
Alignment explanation
Indices: 47685742--47685967 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
47685732 GCTCCTCGTT
* *
47685742 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
47685782 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
47685822 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
47685862 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
47685902 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47685943 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47685968 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47688819 original size:39 final size:38
Alignment explanation
Indices: 47688766--47688919 Score: 141
Period size: 39 Copynumber: 4.0 Consensus size: 38
47688756 GAATACATTA
* * * *
47688766 CTAGCGTA-AGCCTGCGGGTCTTTAACCCGGATATTTTT
1 CTAGCATATAGCCTGCGGATC-TCAATCCGGATATTTTT
* * * *
47688804 CTAGCATGTAGCCTGCGGAACTCAAGTCCAGATATATTT
1 CTAGCATATAGCCTGCGGATCTCAA-TCCGGATATTTTT
*
47688843 CTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTT
1 CTAGCATATAGCCTGCGGATCTCA-ATCCGGATATTTTT
* * *
47688882 CCAGCATATAGCCTGTGGA-CGTCATGTCCGGATATTTT
1 CTAGCATATAGCCTGCGGATC-TCA-ATCCGGATATTTT
47688920 CAATCTCAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
38 10 0.10
39 87 0.90
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (38 bp):
CTAGCATATAGCCTGCGGATCTCAATCCGGATATTTTT
Found at i:47694093 original size:39 final size:38
Alignment explanation
Indices: 47694040--47694155 Score: 162
Period size: 39 Copynumber: 3.0 Consensus size: 38
47694030 GAATACATTA
* *
47694040 CTAGCGTA-AGCCTGCGGACCTCAAGTCCGGATATATTT
1 CTAGCATATAGCCTGCGGACCTCATGTCCGGATAT-TTT
* *
47694078 CTAGCATATAGCCTGCGGATCTCATGTCTGGATATTTTT
1 CTAGCATATAGCCTGCGGACCTCATGTCCGGATA-TTTT
*
47694117 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATTTT
1 CTAGCATATAGCCTGCGGACCTCATGTCCGGATATTTT
47694155 C
1 C
47694156 AATCTCAAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.17
39 56 0.81
40 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (38 bp):
CTAGCATATAGCCTGCGGACCTCATGTCCGGATATTTT
Found at i:47698181 original size:47 final size:49
Alignment explanation
Indices: 47698119--47698246 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 49
47698109 TAAGAAAGCC
47698119 AGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TGAA-ACGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAT-AAGACGA-TAGCT
* * * *
47698167 ATTGTAAGA-CATGTCTGGGACAT-GCGTCGAC-TATAAGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATATAAGACGATAGCT
47698213 AGTGTAAGACCATGTCTGGGACATGGCATCGACA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACA
47698247 CCTTACCCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 4 0.06
46 21 0.31
47 28 0.41
48 15 0.22
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATATAAGACGATAGCT
Found at i:47702220 original size:41 final size:39
Alignment explanation
Indices: 47702144--47702232 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 39
47702134 AAAGTGTGTG
47702144 AAAGAAAAAAAGTAAAGAAAGAAGAAGAGAAAGATTATGAA
1 AAAGAAAAAAAGTAAAGAAAGAAGAAGAGAAAGA-T-TGAA
*
47702185 AAAGAAAAAAA-TAATGAAAAGAAGAA-A-AATGAGATTGAA
1 AAAGAAAAAAAGTAAAG-AAAGAAGAAGAGAA--AGATTGAA
47702224 AAAGAAAAA
1 AAAGAAAAA
47702233 GAACTTGATC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
39 15 0.34
40 6 0.14
41 23 0.52
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (39 bp):
AAAGAAAAAAAGTAAAGAAAGAAGAAGAGAAAGATTGAA
Found at i:47702232 original size:20 final size:18
Alignment explanation
Indices: 47702144--47702232 Score: 72
Period size: 22 Copynumber: 4.5 Consensus size: 18
47702134 AAAGTGTGTG
*
47702144 AAAGAAAAAAAGTAAAGAA
1 AAAGAAAAAAA-TAATGAA
*
47702163 AGAAGAAGAGAAAGATTATGAA
1 A-AAGAA-A-AAA-ATAATGAA
47702185 AAAGAAAAAAATAATG-A
1 AAAGAAAAAAATAATGAA
47702202 AAAGAAGAAAAATGAGATTGAA
1 AAAGAA-AAAAAT-A-A-TGAA
47702224 AAAGAAAAA
1 AAAGAAAAA
47702233 GAACTTGATC
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
17 7 0.12
18 11 0.19
19 5 0.09
20 7 0.12
21 11 0.19
22 16 0.28
23 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAAATAATGAA
Found at i:47705981 original size:15 final size:15
Alignment explanation
Indices: 47705926--47705981 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
47705916 CACTAGTATG
*
47705926 TAAAACCCTAATTAA
1 TAAAACCTTAATTAA
47705941 TAAAACCCTT-ATTAA
1 TAAAA-CCTTAATTAA
*
47705956 TAAAACTTTAATTAA
1 TAAAACCTTAATTAA
47705971 TAAAACCTTAA
1 TAAAACCTTAA
47705982 AAACCCTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 30 0.83
16 3 0.08
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAACCTTAATTAA
Found at i:47708367 original size:43 final size:43
Alignment explanation
Indices: 47708319--47708445 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 43
47708309 GCGGCATGGA
*
47708319 GTTTGTAAGAAAAGCGCTGCTAAAAGTCATGGCTTTTAGCGGC
1 GTTTGTTAGAAAAGCGCTGCTAAAAGTCATGGCTTTTAGCGGC
** * **
47708362 GTTTGTTAGGGAAGCTCCACTAAAAGTCATGGCTTTTAGCGGC
1 GTTTGTTAGAAAAGCGCTGCTAAAAGTCATGGCTTTTAGCGGC
* * ** * *
47708405 ATTTTTTTCACAAA-CGCTGCTAAAAGCCATGACTTTTAGCG
1 GTTTGTTAGA-AAAGCGCTGCTAAAAGTCATGGCTTTTAGCG
47708446 TCGCTTTTTA
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 64 0.97
44 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
GTTTGTTAGAAAAGCGCTGCTAAAAGTCATGGCTTTTAGCGGC
Found at i:47708853 original size:15 final size:15
Alignment explanation
Indices: 47708833--47708862 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47708823 CGCTGCTACC
47708833 GCTGTCTCCCTCTCT
1 GCTGTCTCCCTCTCT
47708848 GCTGTCTCCCTCTCT
1 GCTGTCTCCCTCTCT
47708863 ACTGCCTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.47, G:0.13, T:0.40
Consensus pattern (15 bp):
GCTGTCTCCCTCTCT
Found at i:47709306 original size:13 final size:14
Alignment explanation
Indices: 47709280--47709308 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47709270 ACTAATAACG
47709280 AATTAAACCATTAT
1 AATTAAACCATTAT
47709294 AATTAAA-CATTAT
1 AATTAAACCATTAT
47709307 AA
1 AA
47709309 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:47714512 original size:43 final size:43
Alignment explanation
Indices: 47714450--47714538 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
47714440 AAGTAAATTT
* *
47714450 TGTAAGTTATGTAAGTTATGATATGACATATATTTGTGTACTA
1 TGTAAGTTATGTAACTTATGATATGACATATATTTATGTACTA
* *
47714493 TGTAAGTTATGTAACTTATGATATGATATATATTTATGTATTA
1 TGTAAGTTATGTAACTTATGATATGACATATATTTATGTACTA
47714536 TGT
1 TGT
47714539 GGGTTAAGTA
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:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (43 bp):
TGTAAGTTATGTAACTTATGATATGACATATATTTATGTACTA
Found at i:47718221 original size:84 final size:84
Alignment explanation
Indices: 47718133--47718313 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 84
47718123 TATCATTCAG
*
47718133 TTTCTCATATTTTTAGCAGCGTTTATAAGATAGTGCCACTAAATCCACTA-CCATGCCAAATAAA
1 TTTCTCATATTTTTAGCAGCGTTTATAACATAGTGCCACTAAATCCACTATCCAT-CCAAATAAA
47718197 ACGACGAC-GTTTCCATACAA
65 ACGACG-CTGTTTCCATACAA
* * * * * * *
47718217 TTTCTCATACTTTTAGCAGCGTTTATGACTTAGTGCCACTAACTCCACTATCCCTCCAAGTAGAA
1 TTTCTCATATTTTTAGCAGCGTTTATAACATAGTGCCACTAAATCCACTATCCATCCAAATAAAA
* *
47718282 CGACGCTGTTTTCATTCAA
66 CGACGCTGTTTCCATACAA
*
47718301 TTTATCATATTTT
1 TTTCTCATATTTT
47718314 GTGGCATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.01
84 79 0.95
85 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (84 bp):
TTTCTCATATTTTTAGCAGCGTTTATAACATAGTGCCACTAAATCCACTATCCATCCAAATAAAA
CGACGCTGTTTCCATACAA
Found at i:47718578 original size:14 final size:14
Alignment explanation
Indices: 47718501--47718579 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
47718491 TATAATTAAG
* *
47718501 CCTAAAACCAATAG
1 CCTAAACCCAATAC
*
47718515 ACTAAACCCCAATAC
1 CCTAAA-CCCAATAC
* *
47718530 CCTAAACCCTATAA
1 CCTAAACCCAATAC
* *
47718544 ACTAAACTCTAA-AC
1 CCTAAAC-CCAATAC
* *
47718558 TCAAAACCCAATAC
1 CCTAAACCCAATAC
47718572 CCTAAACC
1 CCTAAACC
47718580 TTATAAAATA
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
13 3 0.06
14 31 0.66
15 13 0.28
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.16
Consensus pattern (14 bp):
CCTAAACCCAATAC
Found at i:47719726 original size:13 final size:13
Alignment explanation
Indices: 47719708--47719734 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47719698 GCTCGGCAGG
47719708 GACACGCCCGTGT
1 GACACGCCCGTGT
47719721 GACACGCCCGTGT
1 GACACGCCCGTGT
47719734 G
1 G
47719735 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47728706 original size:22 final size:22
Alignment explanation
Indices: 47728659--47728700 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47728649 AAAATTTATT
*
47728659 TTTAAGATTTTAGGGTTTATGA
1 TTTAAGAGTTTAGGGTTTATGA
47728681 TTTAAGAGTTTAGGGTTTAT
1 TTTAAGAGTTTAGGGTTTAT
47728701 AGTTTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (22 bp):
TTTAAGAGTTTAGGGTTTATGA
Found at i:47728835 original size:16 final size:16
Alignment explanation
Indices: 47728816--47728861 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47728806 GAGTTTTAAG
47728816 GGTTTAAAGGTTTAGT
1 GGTTTAAAGGTTTAGT
**
47728832 GGTTTAGGGGTTTAGT
1 GGTTTAAAGGTTTAGT
47728848 GCG-TT-AAGGTTTAG
1 G-GTTTAAAGGTTTAG
47728862 AGAAAATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 7 0.28
16 17 0.68
17 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (16 bp):
GGTTTAAAGGTTTAGT
Found at i:47732679 original size:18 final size:19
Alignment explanation
Indices: 47732656--47732694 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47732646 CCTAAAACAC
47732656 AAATT-AAT-AAACACATAA
1 AAATTAAATAAAACAC-TAA
47732674 AAATTAAATAAAACACTAA
1 AAATTAAATAAAACACTAA
47732693 AA
1 AA
47732695 CACTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATTAAATAAAACACTAA
Found at i:47732728 original size:42 final size:43
Alignment explanation
Indices: 47732639--47732751 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
47732629 ATTATTTTTC
* * *
47732639 TTAAAACCCTAAAACAC-AAATTAATAAACACATAAAAATTAA
1 TTAAAACACTAAAACACTAATTTAATAAACACATAAAAACTAA
* **
47732681 ATAAAACACTAAAACACTAATTTAATAAACAC-TAAACCCTAA
1 TTAAAACACTAAAACACTAATTTAATAAACACATAAAAACTAA
** *
47732723 TTAAAATTCT-AAACCCTAATTTAATAAAC
1 TTAAAACACTAAAACACTAATTTAATAAAC
47732752 CTTAAATCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 18 0.30
42 29 0.48
43 13 0.22
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.25
Consensus pattern (43 bp):
TTAAAACACTAAAACACTAATTTAATAAACACATAAAAACTAA
Found at i:47738718 original size:27 final size:27
Alignment explanation
Indices: 47738681--47738734 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
47738671 TAGAAGTAGA
*
47738681 TCTCTACTTCATTTATACTTCTTATGC
1 TCTCTACTTCATTCATACTTCTTATGC
47738708 TCTCTACTTCATTCATACTTCTTATGC
1 TCTCTACTTCATTCATACTTCTTATGC
47738735 CTATAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.04, T:0.50
Consensus pattern (27 bp):
TCTCTACTTCATTCATACTTCTTATGC
Found at i:47746123 original size:30 final size:30
Alignment explanation
Indices: 47746082--47746139 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47746072 CAACGACTCA
47746082 AAGTCGAAGAAATCCCTGAACTCTTCCTCG
1 AAGTCGAAGAAATCCCTGAACTCTTCCTCG
* *
47746112 AAGTTGAAGAAATCCTTGAACTCTTCCT
1 AAGTCGAAGAAATCCCTGAACTCTTCCT
47746140 ATCCTATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (30 bp):
AAGTCGAAGAAATCCCTGAACTCTTCCTCG
Found at i:47747509 original size:46 final size:46
Alignment explanation
Indices: 47747404--47747521 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 46
47747394 TGTCTTCAAC
** * * * *
47747404 ATGGACTTACATGAATTATTCTTGTCTCCAATGTCATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
* *
47747450 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-ACTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATA-TAAT
*
47747496 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
47747522 CTGTCATGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
45 1 0.02
46 60 0.98
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
Found at i:47750749 original size:13 final size:13
Alignment explanation
Indices: 47750731--47750765 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
47750721 AGTTTGGCAA
47750731 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
47750744 TGCTTTTAAGAAG
1 TGCTTTTGAGAAG
*
47750757 TACTTTTGA
1 TGCTTTTGA
47750766 AAATTTTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:47752907 original size:72 final size:71
Alignment explanation
Indices: 47752783--47752953 Score: 236
Period size: 72 Copynumber: 2.4 Consensus size: 71
47752773 AAAATCATAT
** *
47752783 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATAACCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
47752848 CCAAAC
66 CCAAAC
* * * *
47752854 ATAAACAACTATTAATAAAAGTAGA-TTACACATAGATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-ACATAAATAAGTAGAACATAAATTCAATAACCAAA
47752918 AACCAAAC
64 AACCAAAC
* *
47752926 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAACAACTATTGATAAAACTAATTTA
47752954 GGATTTTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
CCAAAC
Found at i:47753399 original size:18 final size:18
Alignment explanation
Indices: 47753378--47753443 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
47753368 TCCATCAATT
47753378 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
47753396 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
47753414 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
*
47753432 CGAACATCATTT
1 TGAACATCATTT
47753444 CTCACATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:47757266 original size:46 final size:48
Alignment explanation
Indices: 47757162--47757281 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
47757152 TGTCTTCGAC
** * * *
47757162 ATGGACTTACATGAATTATTCCTGTCTCCAATGTCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
47757210 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
47757256 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
47757282 CTGTCATGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 27 0.44
47 1 0.02
48 34 0.55
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:47759289 original size:13 final size:13
Alignment explanation
Indices: 47759271--47759299 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47759261 TAGTCTTCTC
47759271 TTCTTTCTTTTAT
1 TTCTTTCTTTTAT
47759284 TTCTTTCTTTTAT
1 TTCTTTCTTTTAT
47759297 TTC
1 TTC
47759300 CTATTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTCTTTTAT
Found at i:47763791 original size:29 final size:29
Alignment explanation
Indices: 47763749--47763849 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
47763739 GAAAGCATGA
*
47763749 ATATGAATGTGATTTTGGCATAATGGGCC
1 ATATGAATGTGATTTAGGCATAATGGGCC
* *
47763778 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTAGGCATAATGGGCC
* *
47763807 ATACGAATGTGA-TTAGGGACTAATGGGCC
1 ATATGAATGTGATTTAGGCA-TAATGGGCC
*
47763836 ATATGAATGAGATT
1 ATATGAATGTGATT
47763850 GGGCCCAGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.06
29 57 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTAGGCATAATGGGCC
Found at i:47767787 original size:16 final size:17
Alignment explanation
Indices: 47767762--47767794 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47767752 AAATTCGTGT
*
47767762 GAATGCTTT-ATAATAA
1 GAATGATTTAATAATAA
47767778 GAATGATTTAATAATAA
1 GAATGATTTAATAATAA
47767795 CATGAAAAAT
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:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (17 bp):
GAATGATTTAATAATAA
Found at i:47773582 original size:17 final size:16
Alignment explanation
Indices: 47773560--47773595 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
47773550 TTTTAAAAGT
47773560 TAAAATTAAAAATAAAA
1 TAAAATTAAAAA-AAAA
*
47773577 TAAAATTGAAAAAAAA
1 TAAAATTAAAAAAAAA
47773593 TAA
1 TAA
47773596 GATGGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAATTAAAAAAAAA
Found at i:47782673 original size:19 final size:19
Alignment explanation
Indices: 47782608--47782675 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 19
47782598 AATTGATCGG
* *
47782608 TTATCCAGTAACAGTT-AA
1 TTATTCAGTAACAATTAAA
*
47782626 TTATTCAGTGAA-AATCAAA
1 TTATTCAGT-AACAATTAAA
*
47782645 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATTAAA
47782663 TTATTCAGTAACA
1 TTATTCAGTAACA
47782676 GTCGATCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
17 2 0.05
18 23 0.57
19 15 0.38
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (19 bp):
TTATTCAGTAACAATTAAA
Found at i:47783100 original size:19 final size:20
Alignment explanation
Indices: 47783053--47783100 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
47783043 CACTTTCTAG
*
47783053 TTTTCAATTAATTCATATTT
1 TTTTCAATTAACTCATATTT
*
47783073 TAATT-AATTAACT-ATATTT
1 T-TTTCAATTAACTCATATTT
47783092 TTTTCAATT
1 TTTTCAATT
47783101 CAATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTCAATTAACTCATATTT
Found at i:47783986 original size:20 final size:19
Alignment explanation
Indices: 47783954--47783992 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
47783944 CCTTCAATTT
47783954 TCCTTTCTTCTTTCTTTTC
1 TCCTTTCTTCTTTCTTTTC
47783973 TCCTTTCTTTCTTTCTTTTC
1 TCCTTTC-TTCTTTCTTTTC
47783993 CTGCTTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TCCTTTCTTCTTTCTTTTC
Found at i:47784186 original size:16 final size:15
Alignment explanation
Indices: 47784177--47784211 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
47784167 TATTTATTAT
47784177 ATAATATATTATTTA
1 ATAATATATTATTTA
*
47784192 ATAATATACTTATATA
1 ATAATATA-TTATTTA
47784208 ATAA
1 ATAA
47784212 GTAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:47785584 original size:16 final size:16
Alignment explanation
Indices: 47785563--47785601 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
47785553 GTTTGGTTCA
*
47785563 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
47785579 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
47785595 CTGTAAT
1 CTGTAAT
47785602 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:47785636 original size:46 final size:44
Alignment explanation
Indices: 47785583--47785676 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
47785573 ATAGGGCTGT
* *
47785583 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATAG
***
47785629 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATAG
47785673 AATG
1 AATG
47785677 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATAG
Found at i:47785888 original size:12 final size:12
Alignment explanation
Indices: 47785842--47785888 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
47785832 TAACATAATT
47785842 ATTATTAAATATA
1 ATTATT-AATATA
*
47785855 A-T-TTAATAAA
1 ATTATTAATATA
47785865 ATTATTAATATA
1 ATTATTAATATA
*
47785877 ATTATTATTATA
1 ATTATTAATATA
47785889 TGAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 19 0.66
13 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTATTAATATA
Found at i:47786105 original size:23 final size:25
Alignment explanation
Indices: 47786060--47786114 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 25
47786050 TATGAAACTT
47786060 TTTAATTTACCTTTTAAAAATTCGATC
1 TTTAATTTACCTTTT--AAATTCGATC
47786087 TTTAATTTACC-TTT-AATTCGATC
1 TTTAATTTACCTTTTAAATTCGATC
47786110 TTTAA
1 TTTAA
47786115 AAGTTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.50
26 3 0.11
27 11 0.39
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTAATTTACCTTTTAAATTCGATC
Found at i:47794288 original size:12 final size:12
Alignment explanation
Indices: 47794271--47794297 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47794261 GTTTATTAAT
47794271 TGACCCGAACTA
1 TGACCCGAACTA
47794283 TGACCCGAACTA
1 TGACCCGAACTA
47794295 TGA
1 TGA
47794298 ACATAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (12 bp):
TGACCCGAACTA
Found at i:47798848 original size:14 final size:16
Alignment explanation
Indices: 47798818--47798854 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
47798808 TCTTTTTTTG
47798818 TTCTGTTGTTCTCTGC
1 TTCTGTTGTTCTCTGC
47798834 TTCTG-TGTT-TCTGC
1 TTCTGTTGTTCTCTGC
*
47798848 TTTTGTT
1 TTCTGTT
47798855 TTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 5 0.26
16 5 0.26
ACGTcount: A:0.00, C:0.19, G:0.19, T:0.62
Consensus pattern (16 bp):
TTCTGTTGTTCTCTGC
Found at i:47799119 original size:17 final size:17
Alignment explanation
Indices: 47799094--47799128 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47799084 TGGGCTTGTA
47799094 TTTTGTAAATGAACTTT
1 TTTTGTAAATGAACTTT
* *
47799111 TTTTTTAAATGGACTTT
1 TTTTGTAAATGAACTTT
47799128 T
1 T
47799129 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTTGTAAATGAACTTT
Found at i:47800693 original size:78 final size:78
Alignment explanation
Indices: 47800571--47800729 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
47800561 TTGTAATGGG
*
47800571 ATGTATTACGGCTAAATAGGGGTATGATATGATTAAGATAGATAATTAATTAAATGATTGTTTGT
1 ATGTATTACGGCTAAATAGGGGTATGATATGATTAAGATAGATAATTAATTAAATGATTGTTTAT
47800636 TTTATGAATGATA
66 TTTATGAATGATA
*
47800649 ATGTATTATGGCTAAATAGGGGTATGATATGATTAAGATAGATAATTAATTAAATGATTGTTTAT
1 ATGTATTACGGCTAAATAGGGGTATGATATGATTAAGATAGATAATTAATTAAATGATTGTTTAT
47800714 TTTATGAATGATA
66 TTTATGAATGATA
47800727 ATG
1 ATG
47800730 AAATGTTGAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (78 bp):
ATGTATTACGGCTAAATAGGGGTATGATATGATTAAGATAGATAATTAATTAAATGATTGTTTAT
TTTATGAATGATA
Found at i:47805932 original size:46 final size:46
Alignment explanation
Indices: 47805865--47806036 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
47805855 TAACCCCCCC
47805865 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
*
47805911 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47805959 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
47806004 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47806037 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 58 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47805982 original size:93 final size:93
Alignment explanation
Indices: 47805870--47806040 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47805860 CCCCCTAAGT
* *
47805870 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47805934 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
47805963 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47806028 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47806041 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47806493 original size:30 final size:30
Alignment explanation
Indices: 47806459--47806518 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47806449 ATTTAATACG
47806459 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47806489 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47806519 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47813505 original size:46 final size:46
Alignment explanation
Indices: 47813437--47813608 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
47813427 AACCCGTCCC
*
47813437 TAAGTGAACTCGGACTCGACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
*
47813483 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
47813531 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
47813576 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47813609 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 57 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:47813552 original size:93 final size:93
Alignment explanation
Indices: 47813442--47813612 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
47813432 GTCCCTAAGT
* * *
47813442 GAACTCGGACTCGACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47813506 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
47813535 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47813600 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47813613 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47814066 original size:30 final size:30
Alignment explanation
Indices: 47814032--47814091 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47814022 ATTTAATACG
47814032 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47814062 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47814092 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47821737 original size:15 final size:15
Alignment explanation
Indices: 47821717--47821773 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
47821707 CGATGAATTT
47821717 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
47821732 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
47821747 ATTGAATTTATATTG
1 ATTGAATTTATATTG
47821762 ATTGAA-TTATAT
1 ATTGAATTTATAT
47821774 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:47822192 original size:21 final size:21
Alignment explanation
Indices: 47822157--47822252 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
47822147 AGGCACTTTA
47822157 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
47822180 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
47822201 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
47822222 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
47822243 TGTGTCGTAT
1 TGTGTCGTAT
47822253 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:47822227 original size:42 final size:42
Alignment explanation
Indices: 47822144--47822252 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
47822134 GGCTTTATCG
* *
47822144 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
47822188 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
47822230 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
47822253 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:47830109 original size:19 final size:20
Alignment explanation
Indices: 47830081--47830122 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
47830071 TGTTAAAAAT
*
47830081 TAATTTTAAAATAAT-TTAA
1 TAATTATAAAATAATATTAA
*
47830100 TAATTATAAAATTATATTAA
1 TAATTATAAAATAATATTAA
47830120 TAA
1 TAA
47830123 AATAAAACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTATAAAATAATATTAA
Found at i:47830366 original size:25 final size:26
Alignment explanation
Indices: 47830323--47830382 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
47830313 ATAAATAATT
*
47830323 AAATAT-ATTTTTTAATAA-TATTAA
1 AAATATAATATTTTAATAATTATTAA
*
47830347 AAATATAATATTTTAATAATTTTTAA
1 AAATATAATATTTTAATAATTATTAA
*
47830373 AAATAAAATA
1 AAATATAATA
47830383 AAAATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 6 0.19
25 11 0.35
26 14 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATATAATATTTTAATAATTATTAA
Found at i:47836768 original size:30 final size:30
Alignment explanation
Indices: 47836728--47836784 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
47836718 TTTATTTATC
47836728 TTTTTAGTTTTATGATATATATTATATTCT
1 TTTTTAGTTTTATGATATATATTATATTCT
*
47836758 TTTTTCGTTTTATGATATATATTATAT
1 TTTTTAGTTTTATGATATATATTATAT
47836785 ACTTAGTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (30 bp):
TTTTTAGTTTTATGATATATATTATATTCT
Found at i:47843431 original size:137 final size:138
Alignment explanation
Indices: 47843223--47843495 Score: 361
Period size: 137 Copynumber: 2.0 Consensus size: 138
47843213 ATGTCATTAG
*** * * ** *
47843223 GGTTACCATGTTTTGGGTGATGGTCCTGAATGTCCTATCGATGGTTGAGGTCTGGCATTTGTTGC
1 GGTTACCATGTTTCAAGTGATGGTCCTGAATGTCCTACCGATGGCTGAGGTCCAGCATTAGTTGC
* * ***
47843288 AAATACTCATTAGCTTGTGTGAGC-GACATTGTGTAGC-TACATTTTGACCGTCAGCTTGTGTGA
66 AAATACTCATCAGCTTGTGTGAGCAG-CATCGTGTAGCTTACATTCCAACCGTCAGCTTGTGTGA
47843351 GCAGACCTA
130 GCAGACCTA
* *
47843360 GGTTACCATGTTTCAAGTGCTGGTCCTGAATGTCCTACCGATGGCTGAGGTCCAGCATTAGTTGT
1 GGTTACCATGTTTCAAGTGATGGTCCTGAATGTCCTACCGATGGCTGAGGTCCAGCATTAGTTGC
** *
47843425 GGATACTCATCAGCTTGTGTGAGCAGCATCGTGTAGCTTACATTCCAACCGTTAGCTTGTGTGAG
66 AAATACTCATCAGCTTGTGTGAGCAGCATCGTGTAGCTTACATTCCAACCGTCAGCTTGTGTGAG
47843490 CAGACC
131 CAGACC
47843496 CATTTTATAG
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 86 0.74
138 30 0.26
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (138 bp):
GGTTACCATGTTTCAAGTGATGGTCCTGAATGTCCTACCGATGGCTGAGGTCCAGCATTAGTTGC
AAATACTCATCAGCTTGTGTGAGCAGCATCGTGTAGCTTACATTCCAACCGTCAGCTTGTGTGAG
CAGACCTA
Found at i:47847641 original size:31 final size:31
Alignment explanation
Indices: 47847603--47847661 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
47847593 ATGGGTTACA
47847603 ATGCATTACCAAATAAATACCAATTAAAACG
1 ATGCATTACCAAATAAATACCAATTAAAACG
47847634 ATGCATTACCAAATAAATACCAATTAAA
1 ATGCATTACCAAATAAATACCAATTAAA
47847662 CTGACTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.24
Consensus pattern (31 bp):
ATGCATTACCAAATAAATACCAATTAAAACG
Found at i:47848939 original size:13 final size:13
Alignment explanation
Indices: 47848921--47848945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47848911 TTCATTTCAA
47848921 ATCATATATATAT
1 ATCATATATATAT
47848934 ATCATATATATA
1 ATCATATATATA
47848946 CAAGTTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATCATATATATAT
Found at i:47852007 original size:13 final size:13
Alignment explanation
Indices: 47851989--47852015 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47851979 GCTTTTATTT
47851989 ATAGTTGAACTCC
1 ATAGTTGAACTCC
47852002 ATAGTTGAACTCC
1 ATAGTTGAACTCC
47852015 A
1 A
47852016 AAAGATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (13 bp):
ATAGTTGAACTCC
Found at i:47867223 original size:173 final size:173
Alignment explanation
Indices: 47866934--47867283 Score: 691
Period size: 173 Copynumber: 2.0 Consensus size: 173
47866924 CCTTCGCTAT
47866934 TCAGCCTAAAATCAGATGTTTCCCTATTCTCAATCTGCCAGAAACATGGGATTAGTGACTCATCC
1 TCAGCCTAAAATCAGATGTTTCCCTATTCTCAATCTGCCAGAAACATGGGATTAGTGACTCATCC
47866999 AACAACTATTTACCCTTAATCTGCTCAGCCCACGTCAGTTTAACTTGAAGCTCAGCCAACAAGCG
66 AACAACTATTTACCCTTAATCTGCTCAGCCCACGTCAGTTTAACTTGAAGCTCAGCCAACAAGCG
47867064 ACCATCATCAAACAAACTTAGGTGTGCAAACATCGCCCTTATA
131 ACCATCATCAAACAAACTTAGGTGTGCAAACATCGCCCTTATA
*
47867107 TCAGCCTAAAATCAGATGTTTCCCTATTCTCAATCTGCCAGAAACGTGGGATTAGTGACTCATCC
1 TCAGCCTAAAATCAGATGTTTCCCTATTCTCAATCTGCCAGAAACATGGGATTAGTGACTCATCC
47867172 AACAACTATTTACCCTTAATCTGCTCAGCCCACGTCAGTTTAACTTGAAGCTCAGCCAACAAGCG
66 AACAACTATTTACCCTTAATCTGCTCAGCCCACGTCAGTTTAACTTGAAGCTCAGCCAACAAGCG
47867237 ACCATCATCAAACAAACTTAGGTGTGCAAACATCGCCCTTATA
131 ACCATCATCAAACAAACTTAGGTGTGCAAACATCGCCCTTATA
47867280 TCAG
1 TCAG
47867284 ACATAGCCTT
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (173 bp):
TCAGCCTAAAATCAGATGTTTCCCTATTCTCAATCTGCCAGAAACATGGGATTAGTGACTCATCC
AACAACTATTTACCCTTAATCTGCTCAGCCCACGTCAGTTTAACTTGAAGCTCAGCCAACAAGCG
ACCATCATCAAACAAACTTAGGTGTGCAAACATCGCCCTTATA
Found at i:47871975 original size:47 final size:47
Alignment explanation
Indices: 47871921--47872838 Score: 1611
Period size: 47 Copynumber: 19.3 Consensus size: 47
47871911 TACGTGAAAG
47871921 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47871968 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872015 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872064 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872111 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872160 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872207 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872254 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872303 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872350 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872397 TATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872444 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872493 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
*
47872542 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872591 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872638 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872685 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
47872732 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
47872779 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872826 TAAATGTGATAAG
1 TATATGTGATAAG
47872839 TCCCGAAGGG
Statistics
Matches: 844, Mismatches: 19, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
47 561 0.66
49 283 0.34
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:47872092 original size:96 final size:94
Alignment explanation
Indices: 47871921--47872838 Score: 1611
Period size: 96 Copynumber: 9.6 Consensus size: 94
47871911 TACGTGAAAG
47871921 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47871986 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872015 TATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
47872080 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
47872111 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
47872176 TAATGGCCGATGTGATGAATGTGAAAGTGTA
64 TAATGGCCGATGTGATGAATGTGAAAGTGTA
47872207 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872272 ATGGCCGATGTGATGAATGTGAAAGTGTATA
66 ATGGCCGATGTGATGAATGTGAAAGTG--TA
*
47872303 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872368 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
*
47872397 TATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872462 ATGGCCGATGTGATGAATGTGAAAGTGTATA
66 ATGGCCGATGTGATGAATGTGAAAGTG--TA
47872493 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
47872558 TAATGGCCGATGTGATGAATGTGGAAGTGTATA
64 TAATGGCCGATGTGATGAATGTGAAAGTG--TA
47872591 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
47872656 ATAGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
47872685 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872750 ATGGCCGATGTGATGAATGTGAAAGTGTA
66 ATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * *
47872779 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47872839 TCCCGAAGGG
Statistics
Matches: 798, Mismatches: 18, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
94 330 0.41
96 373 0.47
98 95 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (94 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:47872135 original size:143 final size:142
Alignment explanation
Indices: 47871921--47872838 Score: 1626
Period size: 143 Copynumber: 6.4 Consensus size: 142
47871911 TACGTGAAAG
47871921 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47871986 ATGGCCGATGTGATGAATGTGAAAGTGTATATATA-TGATAAGGCCTAATGGCCGATGTGATGAA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAA
47872050 TGTGAAAGTGTATA
131 TGTGAAAGTG--TA
47872064 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872129 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATA-GTGATAAGGCCTAATGGCCGATGTGATGA
47872194 ATGTGAAAGTGTA
130 ATGTGAAAGTGTA
47872207 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872272 ATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATA-GTGATAAGGCCTAATGGCCGATGTGATGA
47872337 ATGTGAAAGTGTA
130 ATGTGAAAGTGTA
* *
47872350 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAGAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872415 ATGGCCGATGTGATGAATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCGATGTGATGAA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAA
47872479 TGTGAAAGTGTATA
131 TGTGAAAGTG--TA
47872493 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
47872558 TAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
64 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATA-GTGATAAGGCCTAATGGCCGATGTGAT
47872623 GAATGTGAAAGTGTA
128 GAATGTGAAAGTGTA
*
47872638 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
47872703 ATGGCCGATGTGATGAATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCGATGTGATGAA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAA
47872767 TGTGAAAGTGTA
131 TGTGAAAGTGTA
* * * * * * * *
47872779 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47872839 TCCCGAAGGG
Statistics
Matches: 751, Mismatches: 16, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
141 133 0.18
143 441 0.59
145 137 0.18
147 40 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (142 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTA
Found at i:47873013 original size:37 final size:37
Alignment explanation
Indices: 47872957--47873035 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47872947 CCGAGCTCTA
* * *
47872957 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47872994 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47873031 AAGAC
1 AAGAC
47873036 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47875793 original size:27 final size:27
Alignment explanation
Indices: 47875758--47875823 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
47875748 CCAGCACAAC
* * * *
47875758 ATATATGGCAAAGCCACTAGTAATAGT
1 ATATGTGGCAAAGCCACCAATAATAGA
47875785 ATATGTGGCAAAGCCACCAATAATAGA
1 ATATGTGGCAAAGCCACCAATAATAGA
47875812 ATATGTGGCAAA
1 ATATGTGGCAAA
47875824 ACCATCAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (27 bp):
ATATGTGGCAAAGCCACCAATAATAGA
Found at i:47885858 original size:45 final size:45
Alignment explanation
Indices: 47885794--47885923 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
47885784 GTTGTACAGT
* *
47885794 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAGAC
* *
47885839 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAGAC
* * *
47885884 ATTTTTCGGGCC-TCGAGCCTAGCAGG-TAAAATGCCAGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGA
47885924 ATAAATTCGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.15
44 13 0.17
45 53 0.68
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAGAC
Found at i:47886772 original size:27 final size:26
Alignment explanation
Indices: 47886735--47886796 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
47886725 GGGTGTTACA
* *
47886735 AGTACAATATATATGGCAAAGCCAAT
1 AGTACAGTATATATGCCAAAGCCAAT
* *
47886761 AGTAACAGTATATGTGCCAAAGCCACT
1 AGT-ACAGTATATATGCCAAAGCCAAT
47886788 AGTACAGTA
1 AGTACAGTA
47886797 CACTTCCTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (26 bp):
AGTACAGTATATATGCCAAAGCCAAT
Found at i:47889566 original size:21 final size:23
Alignment explanation
Indices: 47889540--47889591 Score: 90
Period size: 21 Copynumber: 2.3 Consensus size: 23
47889530 GGTAAACAGT
47889540 GTTAGAGAACTTATAGATTT-G-
1 GTTAGAGAACTTATAGATTTGGC
47889561 GTTAGAGAACTTATAGATTTGGC
1 GTTAGAGAACTTATAGATTTGGC
47889584 GTTAGAGA
1 GTTAGAGA
47889592 CTTGGTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.69
22 1 0.03
23 8 0.28
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (23 bp):
GTTAGAGAACTTATAGATTTGGC
Found at i:47893764 original size:25 final size:25
Alignment explanation
Indices: 47893736--47893787 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47893726 ATATTGATAC
47893736 TTGATTTTAGAAATGGTAAAATTTA
1 TTGATTTTAGAAATGGTAAAATTTA
47893761 TTGATTTTAGAAATGGTAAAATTTA
1 TTGATTTTAGAAATGGTAAAATTTA
47893786 TT
1 TT
47893788 TTTAAAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (25 bp):
TTGATTTTAGAAATGGTAAAATTTA
Found at i:47897900 original size:50 final size:48
Alignment explanation
Indices: 47897780--47898001 Score: 189
Period size: 50 Copynumber: 4.5 Consensus size: 48
47897770 AGGTCTCGTT
* * *
47897780 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGAAAATTGATCACATG
*
47897829 TGTAGTACTAAGTGCAGGCTACTA-TGCTACCCA-AAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACTG-TA-CCAGAAAA-T-TGATCACATG
** *** *
47897879 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAG-ATGGTGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGAAAATTGA--TCACATG
* *** * *
47897929 TGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGTTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTAC-TGTACCAGAAAATTGATCACATG
*
47897978 TGTAGTACTAAGTGTAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
47898002 TGCGTACCAG
Statistics
Matches: 144, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
47 2 0.01
48 8 0.06
49 55 0.38
50 71 0.49
51 6 0.04
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTAGTACTAAGTGCAGGCTACTACTGTACCAGAAAATTGATCACATG
Found at i:47897980 original size:99 final size:98
Alignment explanation
Indices: 47897780--47898014 Score: 269
Period size: 99 Copynumber: 2.4 Consensus size: 98
47897770 AGGTCTCGTT
* *
47897780 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACTAAGTGCA
* *
47897845 GGCTACTATGCTACCCAAAAACTGTGATCACGTG
66 GACTACTATGCTACCC-AAAACTGTGATCACATG
** ** *
47897879 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT-AGGTCACATGTGTAGTACTAAGTGC
* * *
47897944 AGACTACTACGTG-TA-CC-AGACTGTTGGTCGCATG
65 AGACTACTA--TGCTACCCAAAACTG-TGATCACATG
* * *
47897978 TGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47898015 GCTTCAGCTA
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
98 5 0.04
99 73 0.64
100 32 0.28
101 2 0.02
102 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATAGGTCACATGTGTAGTACTAAGTGCA
GACTACTATGCTACCCAAAACTGTGATCACATG
Found at i:47906756 original size:24 final size:20
Alignment explanation
Indices: 47906724--47906768 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 20
47906714 ATCTATTTAA
47906724 TAAACTGTGTATGATTAATATGT
1 TAAACTGTG--TGATT-ATATGT
47906747 TAAACCTGTGTGATTATATGT
1 TAAA-CTGTGTGATTATATGT
47906768 T
1 T
47906769 CACCCTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 4 0.19
24 5 0.24
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (20 bp):
TAAACTGTGTGATTATATGT
Found at i:47906999 original size:16 final size:17
Alignment explanation
Indices: 47906966--47906999 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47906956 TCAAAAGTAA
*
47906966 AAAATATTTTGATTTTG
1 AAAATATTCTGATTTTG
47906983 AAAATATTCTG-TTTTG
1 AAAATATTCTGATTTTG
47906999 A
1 A
47907000 TAAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
AAAATATTCTGATTTTG
Found at i:47907330 original size:15 final size:15
Alignment explanation
Indices: 47907310--47907339 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47907300 CCAGCACTTC
47907310 AAGGAACTCTTGTGG
1 AAGGAACTCTTGTGG
47907325 AAGGAACTCTTGTGG
1 AAGGAACTCTTGTGG
47907340 GAAATCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
AAGGAACTCTTGTGG
Found at i:47909213 original size:51 final size:51
Alignment explanation
Indices: 47909136--47909283 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
47909126 CGGATACACG
*
47909136 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
47909187 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
47909238 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAACTTTTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
47909284 CTAAGGTTCA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 1 0.01
51 90 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:47915762 original size:42 final size:42
Alignment explanation
Indices: 47915644--47915805 Score: 218
Period size: 42 Copynumber: 3.8 Consensus size: 42
47915634 TACTTTTCCA
*
47915644 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATTG
* * * *
47915686 ATTCCAATAGCCCAGCTATGGTCTTACACAAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
* * *
47915729 ATGCCATATCCCAAATATGGTCTTATACGAAGTCTCATACTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
*
47915771 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
47915806 TAGTAACCCT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 69 0.67
43 34 0.33
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Found at i:47920213 original size:25 final size:23
Alignment explanation
Indices: 47920185--47920262 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 23
47920175 GGCCTAGCCG
47920185 TTTTTAATTACTGGGGCAAAGCCCT
1 TTTTTAA--ACTGGGGCAAAGCCCT
47920210 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTT--TAAACTGGGGCAAAGCCCT
* *
47920235 TTTCGGTAAACTTGGGCAAAGCCCT
1 TTT--TTAAACTGGGGCAAAGCCCT
47920260 TTT
1 TTT
47920263 AGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 44 0.94
27 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
TTTTTAAACTGGGGCAAAGCCCT
Found at i:47920498 original size:27 final size:27
Alignment explanation
Indices: 47920468--47920649 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
47920458 GGCAAAATGA
* * * * *
47920468 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
47920495 TAATTCTACCATACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
47920522 TATTTCTAGCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
47920549 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
47920576 TAATTCTACCCTACATGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
47920603 TAATTCTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
47920630 TAATTCTACCCTACAAGGGT
1 TAATTCTACCCTACAGGGGT
47920650 TTTTGGTATT
Statistics
Matches: 132, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:47920552 original size:54 final size:54
Alignment explanation
Indices: 47920468--47920657 Score: 256
Period size: 54 Copynumber: 3.5 Consensus size: 54
47920458 GGCAAAATGA
* * * *
47920468 TAATTTTACCCCACATGGGTATCTCGGTAATTCTACCATACAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAG
* * * * *
47920522 TATTTCTAGCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAG
* * *
47920576 TAATTCTACCCTACATGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAG
*
47920630 TAATTCTACCCTACAAGGGT-TTTTGGTA
1 TAATTCTACCCTACAAGGGTATTTCGGTA
47920658 TTTTACAAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 7 0.06
54 111 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAG
Found at i:47920687 original size:27 final size:27
Alignment explanation
Indices: 47920650--47920796 Score: 129
Period size: 27 Copynumber: 5.5 Consensus size: 27
47920640 CTACAAGGGT
*
47920650 TTTTGGT-ATTTTACAAATCAGGAGTA
1 TTTTGGTAATTTTACAAACCAGGAGTA
* * *
47920676 TTTTGGTAATTTTACCAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAGGAGTA
* *
47920703 TTTTAGTAATTTTACAAACCAGGTGTA
1 TTTTGGTAATTTTACAAACCAGGAGTA
* ** * *
47920730 TTTTGGGAATTTTACTGATC-GAAGGTA
1 TTTTGGTAATTTTACAAACCAGGA-GTA
**
47920757 TTTTGGTAATTTTGTAAACCAAGG-GTA
1 TTTTGGTAATTTTACAAACC-AGGAGTA
*
47920784 TTTTAGTAATTTT
1 TTTTGGTAATTTT
47920797 GTAAATAAAG
Statistics
Matches: 94, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
26 8 0.09
27 85 0.90
29 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAGGAGTA
Found at i:47920731 original size:54 final size:53
Alignment explanation
Indices: 47920619--47920796 Score: 148
Period size: 54 Copynumber: 3.3 Consensus size: 53
47920609 TACCTTACAG
* * * * * *
47920619 GGGTATTTTAGTAATTCTACC-CTACAAGGGT-TTTTGGT-ATTTTACAAATCA
1 GGGTATTTTGGTAATTTTACCAATAGAA-GGTATTTTAGTAATTTTACAAACCA
*
47920670 GGAGTATTTTGGTAATTTTACCAACTAG-GGGTATTTTAGTAATTTTACAAACCA
1 GG-GTATTTTGGTAATTTTACCAA-TAGAAGGTATTTTAGTAATTTTACAAACCA
* ** * * **
47920724 GGTGTATTTTGGGAATTTTACTGATCGAAGGTATTTTGGTAATTTTGTAAACCAA
1 GG-GTATTTTGGTAATTTTACCAATAGAAGGTATTTTAGTAATTTTACAAACC-A
*
47920779 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
47920797 GTAAATAAAG
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
51 2 0.02
52 20 0.20
53 8 0.08
54 69 0.68
55 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACCAATAGAAGGTATTTTAGTAATTTTACAAACCA
Found at i:47920797 original size:27 final size:27
Alignment explanation
Indices: 47920698--47920810 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
47920688 TACCAACTAG
**
47920698 GGGTATTTTAGTAATTTTACAAACC-A
1 GGGTATTTTAGTAATTTTGTAAACCAA
* * * * * *
47920724 GGTGTATTTTGGGAATTTTACTGATCGAA
1 GG-GTATTTTAGTAATTTT-GTAAACCAA
*
47920753 -GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTGTAAACCAA
**
47920779 GGGTATTTTAGTAATTTTGTAAATAAA
1 GGGTATTTTAGTAATTTTGTAAACCAA
47920806 GGGTA
1 GGGTA
47920811 AAATGGTAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
26 7 0.10
27 57 0.84
28 3 0.04
29 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAACCAA
Found at i:47920819 original size:27 final size:27
Alignment explanation
Indices: 47920760--47920883 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 27
47920750 GAAGGTATTT
* * ***
47920760 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* * *
47920787 TAGTAATTTTGTAAATAAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* **
47920814 TGGTAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
47920841 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
47920868 -CGTAATTCTATAAATC
1 TGGTAATTCTGTAAATC
47920884 GAGGATATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 14 0.17
27 67 0.83
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCAAGGGTAAAA
Found at i:47920836 original size:54 final size:53
Alignment explanation
Indices: 47920778--47920893 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 53
47920768 TTGTAAACCA
* * * *
47920778 AGGGTATTTTAGTAATTTTGTAAATAAAGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTATTTCAGTAATTCTGTAAATAAAGGGTAAAA-CGTAATTCTATAAATCG
*** * **
47920832 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGTAATTCTATAAATCG
1 AGGGTATTTCAGTAATTCTGTAAATAAAGGGTAAAACGTAATTCTATAAATCG
*
47920885 AGGATATTT
1 AGGGTATTT
47920894 GGGTAGTTTT
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
53 20 0.42
54 28 0.58
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.34
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTCTGTAAATAAAGGGTAAAACGTAATTCTATAAATCG
Found at i:47920881 original size:26 final size:26
Alignment explanation
Indices: 47920805--47920887 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
47920795 TTGTAAATAA
* *
47920805 AGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTAAAA-CGTAATTCTATAAATCG
*
47920832 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAAC-GTAATTCTATAAATCG
47920859 AGGGTAAAACGTAATTCTATAAATCG
1 AGGGTAAAACGTAATTCTATAAATCG
47920885 AGG
1 AGG
47920888 ATATTTGGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 18 0.35
27 33 0.65
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (26 bp):
AGGGTAAAACGTAATTCTATAAATCG
Found at i:47923343 original size:25 final size:25
Alignment explanation
Indices: 47923315--47923384 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
47923305 CTCTTTTAAT
47923315 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
47923340 AACTGGGGCAAAGCCGTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
47923365 AACTGGGGCAAAACCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47923385 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:47923620 original size:27 final size:27
Alignment explanation
Indices: 47923590--47923834 Score: 319
Period size: 27 Copynumber: 9.1 Consensus size: 27
47923580 GGCAAAATGA
* * * *
47923590 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
47923617 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
47923644 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
47923671 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
47923698 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
** * *
47923725 TAATTCTACTTTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
47923752 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
47923779 TATTTCTACCCTACAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
47923806 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
47923833 TA
1 TA
47923835 TTTTACAAAT
Statistics
Matches: 187, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 187 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:47923909 original size:54 final size:53
Alignment explanation
Indices: 47923741--47923979 Score: 189
Period size: 54 Copynumber: 4.5 Consensus size: 53
47923731 TACTTTATAG
* * ** * **
47923741 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGT-ATTTCTACCCTAC-AA
1 GGGTATTTTAGTAATTTTA-CAAATAGGGGTATTTTGGTAATTT-TA-CAAACTAA
* ** * *
47923795 GGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT-ATTTTACAAA-TCAG
1 GGGTATTTTAGTAATTTTA-CAAATAGGGGTATTTTGGTAATTTTACAAACT-AA
* *
47923848 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTAGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTAA
* ** * ** *
47923902 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACTAA
*
47923956 GGGTATTTTAGTAATTTTATAAAT
1 GGGTATTTTAGTAATTTTACAAAT
47923980 CGAGGGTAAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 35 0.22
54 117 0.75
55 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACTAA
Found at i:47923982 original size:54 final size:54
Alignment explanation
Indices: 47923822--47923987 Score: 194
Period size: 54 Copynumber: 3.1 Consensus size: 54
47923812 TACCCTATAG
* * * * *
47923822 GGGTATTTCGGT-ATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
* * *
47923874 GGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACT-GATCGA
1 -GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA-TAAATCGA
** *
47923929 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
47923983 GGGTA
1 GGGTA
47923988 AAACGGTAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 11 0.12
54 82 0.86
55 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
Found at i:47923985 original size:27 final size:27
Alignment explanation
Indices: 47923822--47923987 Score: 176
Period size: 27 Copynumber: 6.2 Consensus size: 27
47923812 TACCCTATAG
* *
47923822 GGGTATTTCGGT-ATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
*
47923848 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AA
*
47923875 GGGTATTTTAGTAATTTTACAAA-CTAA
1 GGGTATTTTGGTAATTTTACAAATC-AA
** *
47923902 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
47923929 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
47923956 GGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
47923983 GGGTA
1 GGGTA
47923988 AAACGGTAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.10
27 107 0.89
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Done.