Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 176 of 356
Found at i:57250649 original size:96 final size:95
Alignment explanation
Indices: 57250484--57250786 Score: 383
Period size: 96 Copynumber: 3.2 Consensus size: 95
57250474 ACTCAGAAGT
* * * *
57250484 CTCACACCCTAGGTGCCAATATCATGGCCTGAAGCCAAATCAATG-AAGCTCGAACCCAAAGTGC
1 CTCACACCCGAAGTGCTAATATCATGGCC-GAAGCCAAATCAATGTAA-CTCGCACCCAAAGTGC
* *
57250548 CAATATCATGGCCTGAAGCCAAATCAATGTAA
64 TAATATCATGGCCTAAAGCCAAATCAATGTAA
*
57250580 CTCACACCCGAAGTGCTAATAGCATGGCTCGAAGCCAAATCAATGTAACTCGCACCCAAAGTGCT
1 CTCACACCCGAAGTGCTAATATCATGGC-CGAAGCCAAATCAATGTAACTCGCACCCAAAGTGCT
* * *
57250645 AATATCATGGCCTAAACCCAAATCGATGCAA
65 AATATCATGGCCTAAAGCCAAATCAATGTAA
*** * * * *
57250676 CTTGTACCCGAAGTGCTAATATCAAAGCCCGAAGCCAAATCAAAGTAACTCGCACCCGAAGTGCT
1 CTCACACCCGAAGTGCTAATATC-ATGGCCGAAGCCAAATCAATGTAACTCGCACCCAAAGTGCT
*
57250741 AATATCATGGCCCAAAGCCAAATCAATGTAA
65 AATATCATGGCCTAAAGCCAAATCAATGTAA
* *
57250772 CTCGCATCCGAAGTG
1 CTCACACCCGAAGTG
57250787 AAGCCAAATC
Statistics
Matches: 179, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
96 173 0.97
97 6 0.03
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.19
Consensus pattern (95 bp):
CTCACACCCGAAGTGCTAATATCATGGCCGAAGCCAAATCAATGTAACTCGCACCCAAAGTGCTA
ATATCATGGCCTAAAGCCAAATCAATGTAA
Found at i:57250750 original size:144 final size:144
Alignment explanation
Indices: 57250496--57250786 Score: 404
Period size: 144 Copynumber: 2.0 Consensus size: 144
57250486 CACACCCTAG
* * **
57250496 GTGCCAATATCATGGCCTGAAGCCAAATCAATGAAGCTCGAACCCAAAGTGCCAATATCATGGCC
1 GTGCCAATATCATGGCCTAAACCCAAATCAATGAAGCTCGAACCCAAAGTGCCAATATCAAAGCC
* * * *
57250561 TGAAGCCAAATCAATGTAACTCACACCCGAAGTGCTAATAGCATGGCTCGAAGCCAAATCAATGT
66 CGAAGCCAAATCAAAGTAACTCACACCCGAAGTGCTAATAGCATGGCCCAAAGCCAAATCAATGT
57250626 AACTCGCACCCAAA
131 AACTCGCACCCAAA
* * * * * *
57250640 GTGCTAATATCATGGCCTAAACCCAAATCGATGCAA-CTTGTACCCGAAGTGCTAATATCAAAGC
1 GTGCCAATATCATGGCCTAAACCCAAATCAATG-AAGCTCGAACCCAAAGTGCCAATATCAAAGC
* *
57250704 CCGAAGCCAAATCAAAGTAACTCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATG
65 CCGAAGCCAAATCAAAGTAACTCACACCCGAAGTGCTAATAGCATGGCCCAAAGCCAAATCAATG
* *
57250769 TAACTCGCATCCGAA
130 TAACTCGCACCCAAA
57250784 GTG
1 GTG
57250787 AAGCCAAATC
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
144 126 0.98
145 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (144 bp):
GTGCCAATATCATGGCCTAAACCCAAATCAATGAAGCTCGAACCCAAAGTGCCAATATCAAAGCC
CGAAGCCAAATCAAAGTAACTCACACCCGAAGTGCTAATAGCATGGCCCAAAGCCAAATCAATGT
AACTCGCACCCAAA
Found at i:57253655 original size:96 final size:96
Alignment explanation
Indices: 57253497--57253762 Score: 339
Period size: 96 Copynumber: 2.8 Consensus size: 96
57253487 GGTGTCGATT
* * * *
57253497 CCATGTTCCAAACATGGTCTTACA----C-CATATGTCAAGGCCGATGCCATGTCCCAGACATGG
1 CCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCGATGCCATGTCCCAGACATGG
*
57253557 TCTTACACTAGCTCTCACGTA-AACTG-TGATG
66 TCTTACACTAGCTCT--CGTATAAATGCTGATG
* ** * *
57253588 CCATGTTCCAAACATGGTCTTATATTGGCTCACATATCGAGGTCGATGCCATGTCCTATACATGG
1 CCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCGATGCCATGTCCCAGACATGG
**
57253653 TCTTATGCTAGCTCTCGTATAAATGCTGATG
66 TCTTACACTAGCTCTCGTATAAATGCTGATG
*
57253684 CCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCAATGCCATGTCCCAGACATGG
1 CCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCGATGCCATGTCCCAGACATGG
*
57253749 TCTTACACTGGCTC
66 TCTTACACTAGCTC
57253763 ACATATCCTT
Statistics
Matches: 149, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
91 23 0.15
94 4 0.03
95 5 0.03
96 117 0.79
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
CCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCGATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCGTATAAATGCTGATG
Found at i:57253733 original size:48 final size:47
Alignment explanation
Indices: 57253445--57253769 Score: 193
Period size: 48 Copynumber: 6.9 Consensus size: 47
57253435 AAAATGCAGT
* * *
57253445 TGCCATG-TCTCAAACA-GGATCTTACACTGGTTCTCATATATCGGTGTCGA
1 TGCCATGTTC-CAAACATGG-TCTTACACTGG--CTCACATATC-GAGCCGA
* * * *
57253495 TTCCATGTTCCAAACATGGTCTTACA----C-CATATGTCAAGGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGA-GCCGA
* * * * * * *
57253538 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACGTAAAC-TG-TGA
1 TGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACAT-ATCGAGCCGA
* * *
57253586 TGCCATGTTCCAAACATGGTCTTATATTGGCTCACATATCGAGGTCGA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGA-GCCGA
* ** * * * ** *
57253634 TGCCATG-TCCTATACATGGTCTTATGCTAGCTCTCGTATAAATGCTGA
1 TGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCGA-GCCGA
* *
57253682 TGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGACCAA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG-CCGA
* *
57253730 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC
57253770 CTTAGTATCA
Statistics
Matches: 210, Mismatches: 48, Indels: 36
0.71 0.16 0.12
Matches are distributed among these distances:
43 34 0.16
44 1 0.00
45 2 0.01
46 6 0.03
47 6 0.03
48 129 0.61
49 5 0.02
50 22 0.10
51 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (47 bp):
TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGCCGA
Found at i:57263427 original size:17 final size:17
Alignment explanation
Indices: 57263407--57263440 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
57263397 AAGAAAAACA
57263407 AATGAATCTTAAAAATG
1 AATGAATCTTAAAAATG
57263424 AATGAATCTTAAAAATG
1 AATGAATCTTAAAAATG
57263441 TAATAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AATGAATCTTAAAAATG
Found at i:57274337 original size:59 final size:59
Alignment explanation
Indices: 57274245--57274361 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
57274235 CTCAATAGTC
* *
57274245 GCTTTCCTCCTCTCTTTTACTAGCTCTTCTGCCTTGCATGCTCTCTCTACGAGCACTAT
1 GCTTTCCTCCTCTCTTTTACCAGCTCTTCTGCCTTGCATGCTCTCTCAACGAGCACTAT
57274304 GCTTTCCTCCTCTCTTTTACCAGCTCTTCTGCCTTGCATGCTCTCTCAACGAGCACTA
1 GCTTTCCTCCTCTCTTTTACCAGCTCTTCTGCCTTGCATGCTCTCTCAACGAGCACTA
57274362 CAAATTCTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.13, C:0.37, G:0.12, T:0.38
Consensus pattern (59 bp):
GCTTTCCTCCTCTCTTTTACCAGCTCTTCTGCCTTGCATGCTCTCTCAACGAGCACTAT
Found at i:57277919 original size:16 final size:17
Alignment explanation
Indices: 57277898--57277931 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57277888 GACACTTAAT
57277898 TTTTAT-TCTCTAGCTA
1 TTTTATATCTCTAGCTA
*
57277914 TTTTATATCTTTAGCTA
1 TTTTATATCTCTAGCTA
57277931 T
1 T
57277932 CAATTTAGGA
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:0.21, C:0.15, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATATCTCTAGCTA
Found at i:57279387 original size:40 final size:40
Alignment explanation
Indices: 57279341--57279419 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
57279331 ACACACCATG
* * *
57279341 TGGGGATAAAATCGACCCA-CCTAGCCCTGCACACCAAGTA
1 TGGGGATAAAATCAACCCATCC-AACCCTACACACCAAGTA
*
57279381 TGGGGATAGAATCAACCCATCCAACCCTACACACCAAGT
1 TGGGGATAAAATCAACCCATCCAACCCTACACACCAAGT
57279420 GGTACCATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.33, G:0.18, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:57284847 original size:72 final size:73
Alignment explanation
Indices: 57284673--57284849 Score: 189
Period size: 72 Copynumber: 2.5 Consensus size: 73
57284663 CTCACGTTTG
* * * * * *
57284673 AGCTACTCACGGGTCTGTACACAAAGTCAGCA-CCTAGACCCCAAAGCATTATCATGTAATGCCC
1 AGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAGAACCCAAAGCATTAACATGTAATGCCC
***
57284737 GCTCATTG
66 GCTCAGCA
* * *
57284745 AGCTACTCACGGGTTTATATATAAAGTCAGTACCCGA-AACCCAAAGCATTAACATG-ATATGCT
1 AGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAGAACCCAAAGCATTAACATGTA-ATGCC
57284808 CGCTCAGCA
65 CGCTCAGCA
* * *
57284817 AGTTACTTACTGGTTTATACACAAAGTCAGTAC
1 AGCTACTCACGGGTTTATACACAAAGTCAGTAC
57284850 TCGGACCCAC
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
71 1 0.01
72 82 0.95
73 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (73 bp):
AGCTACTCACGGGTTTATACACAAAGTCAGTACCCGAGAACCCAAAGCATTAACATGTAATGCCC
GCTCAGCA
Found at i:57291682 original size:72 final size:72
Alignment explanation
Indices: 57291566--57291767 Score: 225
Period size: 72 Copynumber: 2.8 Consensus size: 72
57291556 CCACATATTT
* * *
57291566 TGTAATGCCCG--CATTTGAGCTACTCATGGGTCTGTACACAAAGTTA-TCAC-CTGGACCCCAA
1 TGTAATGCCCGCTCA-TTGAGCTACTCACGGGTTTATACACAAAGTTAGT-ACTC-GGACCCCAA
*
57291627 AGCATTATCA
63 AGCATTAACA
* * *
57291637 TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATATACCAAGTTAGTACTCGGACCCCATAGC
1 TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTTAGTACTCGGACCCCAAAGC
57291702 ATTAACA
66 ATTAACA
* ** * *
57291709 TG-ATATGCTCGCTCAGCGAGTTACTCACGGGTTTATACACAAAGTTAGTACCCGGACCC
1 TGTA-ATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTTAGTACTCGGACCC
57291768 ATATTACATA
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
71 12 0.11
72 96 0.86
73 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (72 bp):
TGTAATGCCCGCTCATTGAGCTACTCACGGGTTTATACACAAAGTTAGTACTCGGACCCCAAAGC
ATTAACA
Found at i:57293884 original size:13 final size:13
Alignment explanation
Indices: 57293866--57293890 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57293856 CCTAGCACAC
57293866 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
57293879 GCCCGTGTCCCT
1 GCCCGTGTCCCT
57293891 CACACGGCCT
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:57300689 original size:96 final size:96
Alignment explanation
Indices: 57300488--57300806 Score: 424
Period size: 96 Copynumber: 3.3 Consensus size: 96
57300478 TAAAATGCCG
* **
57300488 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCAGCGTCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTCCAAA
* * *
57300553 CATGGTCTTACACTAGC-CTATATGTCGAGGCCG
64 CATGGTCTTACACTGGCTC-ATATATCGAGGCCA
* * * * *
57300586 ATACCATGTACCAGACATGGTCTTACACTATCTCTCACATAAATGTCGATGCCATGTTTCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACA
*
57300651 TGGTCTTACACTGGCTCATATATCGAGGCTA
66 TGGTCTTACACTGGCTCATATATCGAGGCCA
*** **
57300682 ATGCCATGTCCCAGACATGGTCTTACACTAGAAATCATATAAATACCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACA
**
57300747 TGGTCTTACACTGGCTCACGTATCGAGGCCA
66 TGGTCTTACACTGGCTCATATATCGAGGCCA
*
57300778 ATGCCATGTCCCAAACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
57300807 GGCTTACATA
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
96 157 0.81
97 1 0.01
98 36 0.19
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCATATATCGAGGCCA
Found at i:57300748 original size:144 final size:145
Alignment explanation
Indices: 57300480--57300809 Score: 362
Period size: 144 Copynumber: 2.3 Consensus size: 145
57300470 CAAAAGAGTA
* *
57300480 AAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCAGCGTCGATGCCAT
1 AAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-CTCATATATCAGCGTCAATGCCAT
* ** * ** * *
57300545 GTTCCAAACATGGTCTTACACTAGCCTATATGTCGAGGCCGATACCATGTACCAGACATGGTCTT
65 GTCCCAAACATGGTCTTACACTAGCAAATATATAAAGACCGATACCATGTACCAAACATGGTCTT
57300610 ACACTATCTCTCACAT
130 ACACTATCTCTCACAT
* **
57300626 AAATGTCGATGCCATGTTTCAAACATGGTCTTACACTGG-CTCATATATCGAG-G-CTAATGCCA
1 AAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCCTCATATATC-AGCGTC-AATGCCA
* * * *
57300688 TGTCCCAGACATGGTCTTACACTAG-AAATCATATAAATACCGATGCCATGTTCCAAACATGGTC
64 TGTCCCAAACATGGTCTTACACTAGCAAAT-ATATAAAGACCGATACCATGTACCAAACATGGTC
** * **
57300752 TTACACTGGCTCACGTAT
128 TTACACTATCTCTCACAT
** * *
57300770 CGAGGCCAATGCCATGTCCCAAACATGGTCTTACACTGGC
1 AAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
57300810 TTACATATCC
Statistics
Matches: 151, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
143 3 0.02
144 111 0.74
145 2 0.01
146 35 0.23
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (145 bp):
AAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCCTCATATATCAGCGTCAATGCCATG
TCCCAAACATGGTCTTACACTAGCAAATATATAAAGACCGATACCATGTACCAAACATGGTCTTA
CACTATCTCTCACAT
Found at i:57300807 original size:48 final size:48
Alignment explanation
Indices: 57300484--57300810 Score: 295
Period size: 48 Copynumber: 6.8 Consensus size: 48
57300474 AGAGTAAAAT
*
57300484 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATC-AG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGG--CTCATATATCGAG
* * * *
57300533 CGTCGATGCCATGTTCCAAACATGGTCTTACACTAGC-CTATATGTCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ATATATCGAG
* * * ** * ** *
57300582 GCCGATACCATGTACCAGACATGGTCTTACACTATCTC-TCACATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATATCGAG
* **
57300630 GTCGATGCCATGTTTCAAACATGGTCTTACACTGGCTCATATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATATCGAG
** * ** * *
57300678 GCTAATGCCATGTCCCAGACATGGTCTTACACTAGAAATCATATA--AAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-G-GCTCATATATCGAG
* * **
57300726 ACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACGTATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATATCGAG
*
57300774 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
57300811 TACATATCCC
Statistics
Matches: 218, Mismatches: 50, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
46 5 0.02
47 3 0.01
48 167 0.77
49 5 0.02
50 38 0.17
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATATCGAG
Found at i:57308790 original size:27 final size:27
Alignment explanation
Indices: 57308694--57308791 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
57308684 TTAGTTTACC
* * *
57308694 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
57308721 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* *** *
57308748 GAATTACTATTTTACCCTTGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
57308775 AAATTACTAAAATACCC
1 AAATTACTAAAATACCC
57308792 CTGTAGGGTA
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:57308806 original size:27 final size:27
Alignment explanation
Indices: 57308784--57308917 Score: 187
Period size: 27 Copynumber: 5.0 Consensus size: 27
57308774 AAAATTACTA
* *
57308784 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
57308811 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
* **
57308838 AAATACCCTTGTAGGGTAGAAATAAGG
1 AAATACCCTTGTAGGGTAGAATTACCG
57308865 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
57308892 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
57308918 ATTTTGCCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:57308927 original size:27 final size:27
Alignment explanation
Indices: 57308897--57308960 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
57308887 TACCGAGATA
*
57308897 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
57308924 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
57308951 CCCTTGTGGG
1 CCCTTGTGGG
57308961 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:57309433 original size:96 final size:98
Alignment explanation
Indices: 57309224--57309441 Score: 287
Period size: 96 Copynumber: 2.2 Consensus size: 98
57309214 ATCCGAGATG
* * *
57309224 ATTATAGACCCGTTATCGATGGCTGAGTGCCGATCATGTTACTGAACGCTGTGTGCCTTTATTAT
1 ATTATAGACCCGTTATCGATGGCTGAGTGCCGATCATGTTACTCAAAGCTGTGTGCCATTATTAT
* * * * *
57309289 GGGCTTTGTATTAATATTGTGGGCTTTGTGCCG
66 AGGCTTCGTATCAATATTGTGGGCTTCGTGCCA
* * * * *
57309322 ATTATAGACCTGTTATAGATGGCTGAGTGTCGATCATGTTAC-CAAAGGT-TGTGCCATTATTGT
1 ATTATAGACCCGTTATCGATGGCTGAGTGCCGATCATGTTACTCAAAGCTGTGTGCCATTATTAT
* *
57309385 AGGCTTCGTATCGATATTGTGGGCTTCGTGCTA
66 AGGCTTCGTATCAATATTGTGGGCTTCGTGCCA
57309418 ATTATAGACCCGTTATCGATGGCT
1 ATTATAGACCCGTTATCGATGGCT
57309442 TTGTGCCACG
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 60 0.58
97 4 0.04
98 39 0.38
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (98 bp):
ATTATAGACCCGTTATCGATGGCTGAGTGCCGATCATGTTACTCAAAGCTGTGTGCCATTATTAT
AGGCTTCGTATCAATATTGTGGGCTTCGTGCCA
Found at i:57309647 original size:6 final size:6
Alignment explanation
Indices: 57309638--57309731 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
57309628 TTGCATTCAC
* *
57309638 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
57309687 -TTACCTG ATTCTG ATTCTG GTTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
57309732 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.80
7 7 0.10
8 3 0.04
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57309673 original size:31 final size:31
Alignment explanation
Indices: 57309638--57309710 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
57309628 TTGCATTCAC
*
57309638 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
57309669 ATTCTGATTCTAATTCTGTTACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
57309700 ATTCTGGTTCT
1 ATTCTGATTCT
57309711 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:57311815 original size:27 final size:27
Alignment explanation
Indices: 57311785--57311923 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
57311775 CGATTTACAA
*
57311785 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
57311812 AATTA-CTGAAATA-ACCTGTAAGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* *
57311838 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
57311865 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
57311892 AATTATCGAGATACCCTTGTAGGGTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
57311919 AATTA
1 AATTA
57311924 CCATTTTGCC
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
26 22 0.23
27 74 0.77
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:57311906 original size:54 final size:53
Alignment explanation
Indices: 57311785--57311921 Score: 179
Period size: 53 Copynumber: 2.6 Consensus size: 53
57311775 CGATTTACAA
* * *
57311785 AATTATTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCTGTAAGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATAACCTGTAAGGTAG
* * *
57311838 AATTACCGAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACT-GAAATA-ACCTGTAAGGTAG
*
57311892 AATTATCGAGATACCCTTGTAGGGTA-AAAT
1 AATTATCGAAATACCCTTGTAGGGTAGAAAT
57311922 TACCATTTTG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 38 0.51
54 35 0.47
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (53 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATAACCTGTAAGGTAG
Found at i:57312314 original size:20 final size:20
Alignment explanation
Indices: 57312291--57312331 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
57312281 TGTGTGCCGT
*
57312291 TATTGTGGGCTTCGTATTGA
1 TATTGTGGGCTTCGTACTGA
57312311 TATTGTGGGCTTCGTACTGA
1 TATTGTGGGCTTCGTACTGA
57312331 T
1 T
57312332 TATAGACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (20 bp):
TATTGTGGGCTTCGTACTGA
Found at i:57312637 original size:6 final size:6
Alignment explanation
Indices: 57312628--57312721 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
57312618 TTGCATTCAC
* *
57312628 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
57312677 -TCACCTG ATTCTA ATTCTG GTTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
57312722 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
5 3 0.05
6 54 0.82
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:57312663 original size:31 final size:31
Alignment explanation
Indices: 57312628--57312700 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
57312618 TTGCATTCAC
* *
57312628 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTA
57312659 ATTCTGATTCTAATTCTGTCACCTGATTCTA
1 ATTCTGATTCTAATTCTGTCACCTGATTCTA
*
57312690 ATTCTGGTTCT
1 ATTCTGATTCT
57312701 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTA
Found at i:57313765 original size:48 final size:47
Alignment explanation
Indices: 57313694--57314016 Score: 360
Period size: 48 Copynumber: 6.7 Consensus size: 47
57313684 CGCACCCTGG
* * *
57313694 GTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCGTACCCAAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATAAA-CTCGCACCCGAA
* * * *
57313742 GTGCCAATATCATGGCCCGAAGCCAAATTAATATAACTCGCACTCGAG
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATA-AACTCGCACCCGAA
* * * *
57313790 GTGCTAATATCATGGCCCGAAGCCAAATTAATGTAACTTGCACCAGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAAT-AAACTCGCACCCGAA
* * * ***
57313838 GTGCTAATATCGTGGCCTGAAGCCAAATCAATGTAACTCATTCCCGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAAT-AAACTCGCACCCGAA
*
57313886 GTGCTAATATCATGGCCCGAAGCCAAATCAACGT-AACTCGCACCTGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAA--TAAACTCGCACCCGAA
* * ** *
57313934 GTACTAATATCATGGCCCGAAGCCAAATCAATGTAACTTACACTCGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAAT-AAACTCGCACCCGAA
*
57313982 GTGCTAATATCATGGCCCGAAGCCAAATCAGTAAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATAAA
57314017 ACTTCTAATG
Statistics
Matches: 236, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
46 1 0.00
47 2 0.01
48 230 0.97
49 2 0.01
50 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (47 bp):
GTGCTAATATCATGGCCCGAAGCCAAATCAATAAACTCGCACCCGAA
Found at i:57313847 original size:96 final size:96
Alignment explanation
Indices: 57313694--57314011 Score: 433
Period size: 96 Copynumber: 3.3 Consensus size: 96
57313684 CGCACCCTGG
* * * *
57313694 GTGCCAATATCATGGCCCGAAGCCAAATCAAT-AAAGCTCGTACCCA-AAGTGCCAATATCATGG
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA-CTCGCA-CCAGAAGTGCTAATATCATGG
* * * *
57313757 CCCGAAGCCAAATTAATATAACTCGCACTCGAG
64 CCCGAAGCCAAATCAATGTAACTCACACTCGAA
* * *
57313790 GTGCTAATATCATGGCCCGAAGCCAAATTAATGTAACTTGCACCAGAAGTGCTAATATCGTGGCC
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCAGAAGTGCTAATATCATGGCC
* ** *
57313855 TGAAGCCAAATCAATGTAACTCATTCCCGAA
66 CGAAGCCAAATCAATGTAACTCACACTCGAA
* * *
57313886 GTGCTAATATCATGGCCCGAAGCCAAATCAACGTAACTCGCACCTGAAGTACTAATATCATGGCC
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCAGAAGTGCTAATATCATGGCC
*
57313951 CGAAGCCAAATCAATGTAACTTACACTCGAA
66 CGAAGCCAAATCAATGTAACTCACACTCGAA
57313982 GTGCTAATATCATGGCCCGAAGCCAAATCA
1 GTGCTAATATCATGGCCCGAAGCCAAATCA
57314012 GTAAAACTTC
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
95 3 0.02
96 189 0.97
97 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (96 bp):
GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCAGAAGTGCTAATATCATGGCC
CGAAGCCAAATCAATGTAACTCACACTCGAA
Found at i:57313945 original size:144 final size:144
Alignment explanation
Indices: 57313694--57314016 Score: 454
Period size: 144 Copynumber: 2.2 Consensus size: 144
57313684 CGCACCCTGG
* *
57313694 GTGCCAATATCATGGCCCGAAGCCAAATCAATAAAGCTCGTACCCAAAGTGCCAATATCATGGCC
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATAAAGCTCATACCCAAAGTGCCAATATCATGGCC
* * * * *
57313759 CGAAGCCAAATTAATATAACTCGCACTCGAGGTGCTAATATCATGGCCCGAAGCCAAATTAATGT
66 CGAAGCCAAATCAACATAACTCGCACTCGAAGTACTAATATCATGGCCCGAAGCCAAATCAATGT
*
57313824 AACTTGCAC-CAGAA
131 AACTTACACTC-GAA
* * * * * *
57313838 GTGCTAATATCGTGGCCTGAAGCCAAATCAATGTAA-CTCATTCCCGAAGTGCTAATATCATGGC
1 GTGCTAATATCATGGCCCGAAGCCAAATCAAT-AAAGCTCATACCCAAAGTGCCAATATCATGGC
*
57313902 CCGAAGCCAAATCAACGTAACTCGCAC-CTGAAGTACTAATATCATGGCCCGAAGCCAAATCAAT
65 CCGAAGCCAAATCAACATAACTCGCACTC-GAAGTACTAATATCATGGCCCGAAGCCAAATCAAT
57313966 GTAACTTACACTCGAA
129 GTAACTTACACTCGAA
*
57313982 GTGCTAATATCATGGCCCGAAGCCAAATCAGTAAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATAAA
57314017 ACTTCTAATG
Statistics
Matches: 157, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
143 3 0.02
144 151 0.96
145 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (144 bp):
GTGCTAATATCATGGCCCGAAGCCAAATCAATAAAGCTCATACCCAAAGTGCCAATATCATGGCC
CGAAGCCAAATCAACATAACTCGCACTCGAAGTACTAATATCATGGCCCGAAGCCAAATCAATGT
AACTTACACTCGAA
Found at i:57316161 original size:21 final size:21
Alignment explanation
Indices: 57316137--57316190 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
57316127 GTGATTGACA
*
57316137 CACACGCCTGTGTGGTTATTC
1 CACACGCCTGTGTGGATATTC
* * * *
57316158 CACATGCTTATTTGGATATTC
1 CACACGCCTGTGTGGATATTC
*
57316179 CACACGTCTGTG
1 CACACGCCTGTG
57316191 CTCTTAAGTC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (21 bp):
CACACGCCTGTGTGGATATTC
Found at i:57322964 original size:46 final size:46
Alignment explanation
Indices: 57322897--57323067 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
57322887 AACCCGCCCC
* *
57322897 TAAGTGAACTCGGAATCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
* *
57322943 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G-C--GTTCGCATCCA
* * * *
57322991 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
57323036 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
57323068 GATGCTCAAC
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.56
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
Found at i:57323015 original size:93 final size:93
Alignment explanation
Indices: 57322902--57323072 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57322892 GCCCCTAAGT
* *
57322902 GAACTCGGAATCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57322967 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
57322995 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57323060 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57323073 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57323524 original size:30 final size:30
Alignment explanation
Indices: 57323490--57323549 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57323480 ATTTAATACG
57323490 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
57323520 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
57323550 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:57331044 original size:30 final size:30
Alignment explanation
Indices: 57331010--57331069 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57331000 ATTTAATACG
57331010 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
57331040 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
57331070 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:57336077 original size:47 final size:49
Alignment explanation
Indices: 57336003--57336133 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 49
57335993 GGTATAAAGC
* *
57336003 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-C-ATC-AAGT
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATCTAAGT
* * ** **
57336050 CGATACCATGTTCCAGACATTGTCTTACACTAACTCTCACATATCTGTGT
1 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-ATCTAAGT
*
57336100 CGATACCATGTCCCAGACATGGTCTTACATTGGC
1 CGATACCATGTCCCAGACATGGTCTTACACTGGC
57336134 ACATTTTGCA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 2 0.03
47 31 0.46
49 3 0.04
50 31 0.46
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (49 bp):
CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATCTAAGT
Found at i:57336200 original size:46 final size:46
Alignment explanation
Indices: 57336106--57336314 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 46
57336096 GTGTCGATAC
* * * *
57336106 CATGTCCCAGACATGGTCTTACATTGGC--ACATTTTGCA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGAGG
*
57336151 CATGTCCCAGTCATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
* **** * * * *
57336197 CATGTCCCAGACATGTCTTACACTAGCTCGTGTCTCAATGCTGATGT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGA-GG
* * * *
57336244 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGAGG
57336291 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
57336315 AGCACACAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
44 12 0.09
45 14 0.11
46 57 0.43
47 29 0.22
48 19 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGAGG
Found at i:57336263 original size:94 final size:92
Alignment explanation
Indices: 57336147--57336317 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
57336137 TTTTGCAGCC
* *
57336147 GATGCATGTCCCAGTCATGTCTTACACTGGCT-TACAT-CTCGAGGCCGAGGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGAGGCATGTCCCAGACA
57336210 TGTCTTACACTAGCTCGTGTCTCAATGCT
64 TGTCTTACACTAGCTCGTGTCTCAATGCT
* * *
57336239 GATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGAGGCATGTCCCAGACA
57336304 TGTCTTACACTAGC
64 TGTCTTACACTAGC
57336318 ACACAAATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 51 0.73
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGAGGCATGTCCCAGACATG
TCTTACACTAGCTCGTGTCTCAATGCT
Found at i:57339943 original size:20 final size:20
Alignment explanation
Indices: 57339918--57339963 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
57339908 CAGAACATGA
57339918 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57339938 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57339957 TTTCTGG
1 TTTCTGG
57339964 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:57340414 original size:46 final size:46
Alignment explanation
Indices: 57340344--57340465 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
57340334 AATAATATTA
* * * *
57340344 TCCAAATGCATAATTAGTAGTACACCACATGATAACAACAACACTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
* *
57340390 TCCAAGTGCATAACTAATATTACACCACATGATTACAACAACATTG
1 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
57340436 TCCAAGTGCATAACTAATATTACACCACAT
1 TCCAAGTGCATAACTAATATTACACCACAT
57340466 TAAAAGTATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (46 bp):
TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACACTG
Found at i:57341463 original size:31 final size:32
Alignment explanation
Indices: 57341416--57341475 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
57341406 TGTCAATCAT
*
57341416 TTCAATATCCAACAAGCTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
57341448 TTCAATA-CTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
57341476 CGATATCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:57343032 original size:15 final size:15
Alignment explanation
Indices: 57343012--57343051 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
57343002 TTCTCAAGCA
*
57343012 ATGACTAAAGTTACT
1 ATGACTAAAGTTACC
57343027 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
57343042 ATGATTAAAG
1 ATGACTAAAG
57343052 GGAATGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:57346714 original size:3 final size:3
Alignment explanation
Indices: 57346661--57346696 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
57346651 TTTGAAGAAC
*
57346661 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
57346697 CTTACCTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:57346761 original size:31 final size:31
Alignment explanation
Indices: 57346724--57346786 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
57346714 GGAGGTGGAA
**
57346724 AAAGTTGAAGAATTGAAGAAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
57346755 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
1 AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
57346786 A
1 A
57346787 CATGGATGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.05, G:0.24, T:0.16
Consensus pattern (31 bp):
AAAGTTGAAGAACGGAAGAAAAAAAAGGCTT
Found at i:57359034 original size:18 final size:18
Alignment explanation
Indices: 57359008--57359059 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
57358998 CCAACTACTA
*
57359008 TATACGTGAACAGTACCG
1 TATACGTGAATAGTACCG
* *
57359026 TATATGTGAATAGTGCCG
1 TATACGTGAATAGTACCG
57359044 TATACGTGAATAGTAC
1 TATACGTGAATAGTAC
57359060 TATAAACGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
TATACGTGAATAGTACCG
Found at i:57364507 original size:72 final size:72
Alignment explanation
Indices: 57364421--57364604 Score: 228
Period size: 72 Copynumber: 2.6 Consensus size: 72
57364411 AATGTGGGTT
**
57364421 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTGAGCGAGCA-TATCAT-ATTAATGC
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTA-CATGA-TAATGC
*
57364484 TTTGAGTTC
64 TTTGAGGTC
* * *
57364493 CGGGTACTGACTTTGTGTATAAACCCTTGAGTAGCTCAATGAGCGGGCATTACATGATAATGCTT
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTACATGATAATGCTT
*
57364558 TGGGGTC
66 TGAGGTC
* * * * *
57364565 CGAGTGCTGACTTTGTGTACAGACCCGTGAGTAGCTCAAT
1 CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAAT
57364605 TGTGGGCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
72 95 0.97
73 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (72 bp):
CGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCAATGAGCGAGCATTACATGATAATGCTT
TGAGGTC
Found at i:57373110 original size:30 final size:30
Alignment explanation
Indices: 57373076--57373136 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57373066 TTCTCGAGCC
57373076 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
57373106 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
57373136 T
1 T
57373137 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:57373919 original size:68 final size:66
Alignment explanation
Indices: 57373847--57374028 Score: 172
Period size: 67 Copynumber: 2.7 Consensus size: 66
57373837 CATCATGTGT
* * * *
57373847 ACAAGAGAGCTACAAGACATTATGATGTAGGTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
57373910 TGTAG
62 TGTAG
** * *
57373915 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCATGT
57373980 AG
65 AG
* * * * * *
57373982 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA
57374029 AGTGTTCACC
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
64 24 0.25
65 3 0.03
66 25 0.26
67 32 0.33
68 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATGTA
G
Found at i:57379371 original size:15 final size:15
Alignment explanation
Indices: 57379351--57379379 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57379341 ATTCCACGTT
57379351 TAAATGAAATGCATG
1 TAAATGAAATGCATG
57379366 TAAATGAAATGCAT
1 TAAATGAAATGCAT
57379380 CTATTGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (15 bp):
TAAATGAAATGCATG
Found at i:57382583 original size:30 final size:30
Alignment explanation
Indices: 57382549--57382609 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57382539 TCCTTAACTC
57382549 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57382579 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57382609 A
1 A
57382610 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57387897 original size:26 final size:26
Alignment explanation
Indices: 57387866--57387947 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
57387856 TGAAATGCCC
* *
57387866 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
57387892 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
57387918 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57387944 ATCA
1 ATCA
57387948 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57389399 original size:21 final size:20
Alignment explanation
Indices: 57389370--57389408 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57389360 CTTGAGAGTA
*
57389370 TTGTCACACCGCAAGTTTTTC
1 TTGTAACACC-CAAGTTTTTC
*
57389391 TTGTAACACCCCAGTTTT
1 TTGTAACACCCAAGTTTT
57389409 GGCGAGTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGTAACACCCAAGTTTTTC
Found at i:57390913 original size:43 final size:43
Alignment explanation
Indices: 57390879--57391118 Score: 417
Period size: 43 Copynumber: 5.6 Consensus size: 43
57390869 CGGCATTACA
*
57390879 CCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
57390922 CCTGCTAGGCACGAAGGCCCGAATACACATCACCAGTACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
57390965 CCTGGTAGGCACGAAGGCCCAAATACACATTACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
57391008 CCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
57391051 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
57391094 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
57391119 TAATACCAGC
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 184 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:57391159 original size:38 final size:38
Alignment explanation
Indices: 57391116--57391218 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
57391106 GAAGGCCCGA
* * *
57391116 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
57391154 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
**
57391192 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
57391219 TCTTTAAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:57394480 original size:48 final size:48
Alignment explanation
Indices: 57394420--57394522 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
57394410 GTCCAACTAT
* * * *
57394420 GGTCTTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGCACT-CACTAGCCCGTGCCGATGCCTA-TCCCAGATA
* *
57394468 GGTCTTACACTAGCACTCACTAGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTAGCCCGTGCCGATGCCTATCCCAGATA
57394516 GGTCTTA
1 GGTCTTA
57394523 TGCTTAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 7 0.15
48 40 0.85
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTAGCCCGTGCCGATGCCTATCCCAGATA
Found at i:57396091 original size:43 final size:43
Alignment explanation
Indices: 57396057--57396296 Score: 363
Period size: 43 Copynumber: 5.6 Consensus size: 43
57396047 CGGCATTACA
* * * *
57396057 CCTGTTAGGTACGAAGGCCCGAATACACATCACCGACATGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * * *
57396100 CCTGCTAGGCACGAAGGCCCGAATATATATCACTGGTACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
57396143 CCAGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
57396186 CCTACTAGGCACGAAGGCCCGAATACACATCACTGGCACGGAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
57396229 CCTGCTAGGTACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
57396272 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
57396297 TAATACCAGC
Statistics
Matches: 175, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.13
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:57396337 original size:38 final size:38
Alignment explanation
Indices: 57396289--57396412 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
57396279 GGCACGAAGG
* * * * *
57396289 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
57396327 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
** * * * *
57396365 CCCGGATATTTTACTAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAACACGAAGCCTGCGGG-ATTTAA
57396404 GCCCGGATA
1 -CCCGGATA
57396413 CACATCAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 60 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAACACGAAGCCTGCGGGATTTAA
Found at i:57397220 original size:20 final size:20
Alignment explanation
Indices: 57397182--57397220 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57397172 ATGATGGGGA
*
57397182 TCAAGAATATCAAGTTGGAT
1 TCAAGAATATCAAGCTGGAT
57397202 TCAAGAA-ATCGAAGCTGGA
1 TCAAGAATATC-AAGCTGGA
57397221 GGAGAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (20 bp):
TCAAGAATATCAAGCTGGAT
Found at i:57399220 original size:30 final size:27
Alignment explanation
Indices: 57399156--57399211 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
57399146 GGTTGAAAGA
57399156 TACCATGGCAGCCTAATATGAAATGTG
1 TACCATGGCAGCCTAATATGAAATGTG
57399183 TACCATGGCAGCCTAATATGAAATGTG
1 TACCATGGCAGCCTAATATGAAATGTG
57399210 TA
1 TA
57399212 AGACCATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
TACCATGGCAGCCTAATATGAAATGTG
Found at i:57399248 original size:46 final size:46
Alignment explanation
Indices: 57399183--57399422 Score: 347
Period size: 46 Copynumber: 5.2 Consensus size: 46
57399173 ATGAAATGTG
* *
57399183 TACCATGGCAGCCTAATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* *
57399229 TACCATGGCAGCCTTATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
57399275 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* ***
57399321 TACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAAAGA
1 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * *
57399367 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TACCATGGCAACCTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
*
57399413 TACTATGGCA
1 TACCATGGCA
57399423 TCATGTCAAA
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 179 0.99
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
Found at i:57403026 original size:54 final size:53
Alignment explanation
Indices: 57402950--57403135 Score: 207
Period size: 54 Copynumber: 3.5 Consensus size: 53
57402940 CTTTGTAGAT
* * * *
57402950 AAACATGAAAAAAAAGCCTTTGTGGAAAATCATGAAAGAAAAGCTTTTGTTGCG
1 AAACATGAAAGAAAAGCTTTTGTGG-AAATCATGAAAGAAAAGCCTTTGTTGTG
* * *
57403004 AAACATGAAAGAAAAGTTTTTGTGGCAAATCTTGAAAGAAAAGCCTTTGTGGTG
1 AAACATGAAAGAAAAGCTTTTGTGG-AAATCATGAAAGAAAAGCCTTTGTTGTG
* * *
57403058 AAATATGAAAGGAAAGCTTTATG-GTGAAAT-ATGAAAGAAAAACCTTTG-TGATG
1 AAACATGAAAGAAAAGCTTT-TGTG-GAAATCATGAAAGAAAAGCCTTTGTTG-TG
*
57403111 AAACATGAAAGAAAAACTTTTGTGG
1 AAACATGAAAGAAAAGCTTTTGTGG
57403136 CGAAATATGT
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
52 4 0.04
53 36 0.32
54 68 0.61
55 3 0.03
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.26
Consensus pattern (53 bp):
AAACATGAAAGAAAAGCTTTTGTGGAAATCATGAAAGAAAAGCCTTTGTTGTG
Found at i:57403133 original size:80 final size:79
Alignment explanation
Indices: 57402934--57403144 Score: 216
Period size: 80 Copynumber: 2.6 Consensus size: 79
57402924 CTAGGAAATA
*
57402934 AAAAACCTTTGTAGAT-AAACATGAAA-AAAAAGCCTTTGTGGAAAATCATGAAAGAAAAGCTTT
1 AAAAACCTTTGT-GATGAAACATGAAAGAAAAA-CCTTTGTGGGAAAT-ATGAAAGAAAAGCTTT
57402997 TGTTGCGAAACATGAAAG
63 TG-TGCGAAACATGAAAG
*** * * *
57403015 AAAAGTTTTTGTG--GCAAATCTTGAAAGAAAAGCCTTTGTGGTGAAATATGAAAGGAAAGCTTT
1 AAAAACCTTTGTGATG-AAA-CATGAAAGAAAAACCTTTGTGG-GAAATATGAAAGAAAAGCTTT
* *
57403078 ATG-GTGAAATATGAAAG
63 -TGTGCGAAACATGAAAG
*
57403095 AAAAACCTTTGTGATGAAACATGAAAGAAAAACTTTTGTGGCGAAATATG
1 AAAAACCTTTGTGATGAAACATGAAAGAAAAACCTTTGTGG-GAAATATG
57403145 TGTAACACCC
Statistics
Matches: 106, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
80 53 0.50
81 42 0.40
82 11 0.10
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (79 bp):
AAAAACCTTTGTGATGAAACATGAAAGAAAAACCTTTGTGGGAAATATGAAAGAAAAGCTTTTGT
GCGAAACATGAAAG
Found at i:57403140 original size:27 final size:27
Alignment explanation
Indices: 57402950--57403140 Score: 181
Period size: 27 Copynumber: 7.1 Consensus size: 27
57402940 CTTTGTAGAT
* *
57402950 AAACATGAAAAAAAAGCCTTTGTGG-A
1 AAACATGAAAGAAAAGCCTTTGTGGCG
* *
57402976 AAATCATGAAAGAAAAGCTTTTGTTGCG
1 AAA-CATGAAAGAAAAGCCTTTGTGGCG
**
57403004 AAACATGAAAGAAAAGTTTTTGTGGC-
1 AAACATGAAAGAAAAGCCTTTGTGGCG
* *
57403030 AAATCTTGAAAGAAAAGCCTTTGTGGTG
1 AAA-CATGAAAGAAAAGCCTTTGTGGCG
* * * *
57403058 AAATATGAAAGGAAAG-CTTTATGGTG
1 AAACATGAAAGAAAAGCCTTTGTGGCG
* * **
57403084 AAATATGAAAGAAAAACCTTTGTGATG
1 AAACATGAAAGAAAAGCCTTTGTGGCG
* *
57403111 AAACATGAAAGAAAAACTTTTGTGGCG
1 AAACATGAAAGAAAAGCCTTTGTGGCG
57403138 AAA
1 AAA
57403141 TATGTGTAAC
Statistics
Matches: 138, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 29 0.21
27 103 0.75
28 6 0.04
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (27 bp):
AAACATGAAAGAAAAGCCTTTGTGGCG
Found at i:57404659 original size:42 final size:42
Alignment explanation
Indices: 57404544--57404698 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 42
57404534 TATCATACCA
* * *
57404544 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGT-TTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATT-G
* * * * *
57404586 ATGCCAATAGCCTAGCTATGGCCTTATACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
* * *
57404629 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
57404671 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
57404699 ATAGTCTTAG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 63 0.66
43 29 0.31
44 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Found at i:57415276 original size:42 final size:41
Alignment explanation
Indices: 57415180--57415292 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
57415170 ATCTCATTTC
* * * * *
57415180 GATGCCAATAACCCAGCTATGGTCTTACACGAAGTCTCATATC
1 GATGCC-ATATCCCAGATAT-GTCTTACACGAAATCTAATATA
* *
57415223 GATGCCATATCCCATATATAGTCTTACATGAAATCTAATATA
1 GATGCCATATCCCAGATAT-GTCTTACACGAAATCTAATATA
* *
57415265 GATGTCGTATCCCAGATATGTCTTACAC
1 GATGCCATATCCCAGATATGTCTTACAC
57415293 ATGGTCTTAG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
41 8 0.14
42 44 0.76
43 6 0.10
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (41 bp):
GATGCCATATCCCAGATATGTCTTACACGAAATCTAATATA
Found at i:57419347 original size:27 final size:27
Alignment explanation
Indices: 57419317--57419403 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
57419307 ATTACCAAAG
*
57419317 TACCCTTGATTTATAGAATCATTGTTT
1 TACCCTTGATTTACAGAATCATTGTTT
*
57419344 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTTGATTTACAGAATCATTGTTT
* * * **
57419371 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTTGATTTACAGAATCATTGTTT
57419398 TACCCT
1 TACCCT
57419404 CAATTGTGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATCATTGTTT
Found at i:57419540 original size:26 final size:27
Alignment explanation
Indices: 57419440--57419543 Score: 99
Period size: 26 Copynumber: 3.9 Consensus size: 27
57419430 TATAGGGTAG
* * *
57419440 AATTACCA-AAATACCCCTGATTTACA
1 AATTACTAGAAATACCCTTGGTTTACA
* *
57419466 AATTAC-AGAAATACCCTTGACTTTCTAAA
1 AATTACTAGAAATACCCTTG--GTT-TACA
*
57419495 AATTA-TAGAAATACCATTGGTTTACA
1 AATTACTAGAAATACCCTTGGTTTACA
57419521 AATTACTA-AAATACCCTTGGTTT
1 AATTACTAGAAATACCCTTGGTTT
57419544 GTAGATTTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
25 1 0.02
26 38 0.58
27 4 0.06
28 2 0.03
29 20 0.31
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACTAGAAATACCCTTGGTTTACA
Found at i:57440181 original size:21 final size:21
Alignment explanation
Indices: 57440155--57440234 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
57440145 TGTGAAAAAG
57440155 GGCACACGGCCGTGTGACTGA
1 GGCACACGGCCGTGTGACTGA
** * * *
57440176 GGCACACACCCATTTGAAGTGA
1 GGCACACGGCCGTGTG-ACTGA
* ** *
57440198 GGCACATGGTTGTGTGACTAA
1 GGCACACGGCCGTGTGACTGA
*
57440219 GGCACACGTCCGTGTG
1 GGCACACGGCCGTGTG
57440235 GACCAAGGAC
Statistics
Matches: 40, Mismatches: 18, Indels: 2
0.67 0.30 0.03
Matches are distributed among these distances:
21 27 0.68
22 13 0.32
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.20
Consensus pattern (21 bp):
GGCACACGGCCGTGTGACTGA
Found at i:57447934 original size:9 final size:9
Alignment explanation
Indices: 57447920--57447950 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
57447910 AAATAAATTT
57447920 AAAATATTA
1 AAAATATTA
57447929 AAAATATTA
1 AAAATATTA
57447938 AAAATATATA
1 AAAATAT-TA
57447948 AAA
1 AAA
57447951 TGCTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATATTA
Found at i:57449443 original size:6 final size:6
Alignment explanation
Indices: 57449434--57449462 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57449424 ATATTTATAT
57449434 AAATTA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATT
57449463 TATATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:57451216 original size:23 final size:24
Alignment explanation
Indices: 57451164--57451218 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
57451154 TATAGAGATT
*
57451164 AATTTTTAATAATAAAAATAGTTA
1 AATTTTTAATAATAAAAATAATTA
* *
57451188 AATTTTTAATAA-AAAATTAATTT
1 AATTTTTAATAATAAAAATAATTA
*
57451211 ATTTTTTA
1 AATTTTTA
57451219 TTTATTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTTTAATAATAAAAATAATTA
Found at i:57451718 original size:7 final size:7
Alignment explanation
Indices: 57451695--57451739 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
57451685 ATAAATATGT
57451695 ATAAA-A
1 ATAAATA
57451701 ATAATATA
1 ATAA-ATA
57451709 ATAAATA
1 ATAAATA
57451716 ATAAATA
1 ATAAATA
57451723 ATAAATA
1 ATAAATA
*
57451730 ATAAAAA
1 ATAAATA
57451737 ATA
1 ATA
57451740 TTTCAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
6 4 0.11
7 27 0.75
8 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:57455489 original size:16 final size:17
Alignment explanation
Indices: 57455468--57455499 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57455458 CGGCAAGGTT
57455468 AGGAAT-GATGAAATGG
1 AGGAATGGATGAAATGG
57455484 AGGAATGGATGAAATG
1 AGGAATGGATGAAATG
57455500 TGATTGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.19
Consensus pattern (17 bp):
AGGAATGGATGAAATGG
Found at i:57457395 original size:20 final size:21
Alignment explanation
Indices: 57457372--57457426 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
57457362 TTTTGCAATT
*
57457372 AGAGGA-ATCGAAGTGCAAAC
1 AGAGGATACCGAAGTGCAAAC
57457392 AGA-GATACCGAAGTGCAAAC
1 AGAGGATACCGAAGTGCAAAC
*
57457412 AGA-GACACCGAAGTG
1 AGAGGATACCGAAGTG
57457427 AAATCTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.44, C:0.18, G:0.29, T:0.09
Consensus pattern (21 bp):
AGAGGATACCGAAGTGCAAAC
Found at i:57467166 original size:17 final size:18
Alignment explanation
Indices: 57467144--57467189 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
57467134 TCAGGAACAC
*
57467144 CTTGATGACTAAA-GGAG
1 CTTGATGACTAAATGAAG
57467161 CTTGATGACTAAATGAAG
1 CTTGATGACTAAATGAAG
57467179 CTTGATGACTA
1 CTTGATGACTA
57467190 GCTTCTGGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (18 bp):
CTTGATGACTAAATGAAG
Found at i:57472023 original size:28 final size:28
Alignment explanation
Indices: 57471989--57472087 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
57471979 TAGCCCTTTT
** *
57471989 AGGCCCAATTTCATTCATATGACCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
57472017 GGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
57472045 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
57472073 AGGCCCAATCACATT
1 AGGCCCAATCACATT
57472088 TATAGTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:57472347 original size:16 final size:16
Alignment explanation
Indices: 57472310--57472340 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
57472300 CAAACTTCTG
57472310 GCTTTTCGGCATTTCA
1 GCTTTTCGGCATTTCA
57472326 GCTTTTCGGCATTTC
1 GCTTTTCGGCATTTC
57472341 GGGTTTTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:57472628 original size:21 final size:21
Alignment explanation
Indices: 57472599--57472638 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57472589 ACTAAAAAAC
*
57472599 AAGTGACTCACAAATCATCTT
1 AAGTCACTCACAAATCATCTT
**
57472620 AAGTCACTCTTAAATCATC
1 AAGTCACTCACAAATCATC
57472639 CATGAAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTCACTCACAAATCATCTT
Found at i:57488011 original size:40 final size:40
Alignment explanation
Indices: 57487967--57488097 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
57487957 GGACTAAGAT
57487967 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
57488007 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
57488047 CGGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
57488087 CCGAAGGCATT
1 CCGAAGGCATT
57488098 GTATGAGTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:57488118 original size:39 final size:38
Alignment explanation
Indices: 57487967--57488134 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 38
57487957 GGACTAAGAT
* *
57487967 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
57488007 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* *
57488047 CGGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
57488087 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
57488126 CCGAAGGCA
1 CCGAAGGCA
57488135 CTTGAACGAG
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
39 31 0.29
40 76 0.70
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:57508273 original size:40 final size:40
Alignment explanation
Indices: 57508242--57508372 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
57508232 GGACTAAGAT
57508242 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * * *
57508282 CCGAAGGCCTTTGTGCGAGATACTAATTCCAGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
** *
57508322 CCGAAGGCATTCATGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
57508362 CCGAAGGCATT
1 CCGAAGGCATT
57508373 GTATGAGTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:57508393 original size:39 final size:38
Alignment explanation
Indices: 57508242--57508409 Score: 115
Period size: 40 Copynumber: 4.2 Consensus size: 38
57508232 GGACTAAGAT
** * *
57508242 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTATGAGTTACTAA-ACCGGGTTAAGTC
* ** * * *
57508282 CCGAAGGCCTTTGTGCGAGATACTAATTCCAGGTTAAGTC
1 CCGAAGG-CATTGTATGAGTTACTAA-ACCGGGTTAAGTC
* *
57508322 CCGAAGGCATT-CATGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTGTAT--GAGTTACT-AAA-CCGGGTTAAGTC
* *
57508362 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTATGAGTTACTA-AACCGGGTTAAGTC
57508401 CCGAAGGCA
1 CCGAAGGCA
57508410 CTTGAACGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
39 29 0.28
40 72 0.69
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTATGAGTTACTAAACCGGGTTAAGTC
Found at i:57512782 original size:17 final size:17
Alignment explanation
Indices: 57512760--57512796 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
57512750 TTCATCAATG
57512760 TAAAAACCCTAAACCTT
1 TAAAAACCCTAAACCTT
57512777 TAAAAACCCTAAACCTT
1 TAAAAACCCTAAACCTT
57512794 TAA
1 TAA
57512797 CAATTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAACCCTAAACCTT
Found at i:57514276 original size:14 final size:15
Alignment explanation
Indices: 57514257--57514286 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
57514247 AAAATGAAAG
57514257 AAGGAGGA-GAAGAA
1 AAGGAGGAGGAAGAA
57514271 AAGGAGGAGGAAGAA
1 AAGGAGGAGGAAGAA
57514286 A
1 A
57514287 CTTTTTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
AAGGAGGAGGAAGAA
Found at i:57514420 original size:17 final size:17
Alignment explanation
Indices: 57514398--57514430 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57514388 ATAAATATAC
*
57514398 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
57514415 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
57514431 CGTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:57522687 original size:42 final size:42
Alignment explanation
Indices: 57522623--57522869 Score: 230
Period size: 42 Copynumber: 5.7 Consensus size: 42
57522613 TCGGTATGTA
* * *
57522623 ATTTCATGTAAGACCATATCTGGGATATGGCATTGATATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
57522665 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
57522707 ATTT--TGTATTAGACCATGTCTGGGACATGGCATCGATATGAG
1 ATTTCATGTA--AGACCATGTCTGGGACATGGCATCGATATGAG
* ** * *
57522749 GTTTTGTATAAGACCATGTCTGGGACATGGCATCGGCACCAACATGAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATC-G-----ATATGAG
* * * * * * *
57522797 ACTCCGTATAAGACCATATTTGGGATATGGCATCGATATGTAG
1 ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATG-AG
** *
57522840 A-CCCATGTAAGACCATGTCGGGGACATGGC
1 ATTTCATGTAAGACCATGTCTGGGACATGGC
57522870 TTTGACATTT
Statistics
Matches: 173, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.02
42 128 0.74
43 4 0.02
44 3 0.02
47 1 0.01
48 33 0.19
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
ATTTCATGTAAGACCATGTCTGGGACATGGCATCGATATGAG
Found at i:57527753 original size:40 final size:39
Alignment explanation
Indices: 57527629--57527780 Score: 191
Period size: 40 Copynumber: 3.9 Consensus size: 39
57527619 TTCGGATGAT
57527629 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
* * * *
57527668 ATTCC-GGCTAAG-CCCGAAGGCATTTGTGTGAATTACCA
1 A-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
57527706 AATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
1 AA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
* * *
57527746 TAACCGGGCTATGTCCCGAATGCATTTGAGCGAGT
1 -AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57527781 AGCTATATCT
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
38 26 0.27
39 15 0.16
40 52 0.55
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
Found at i:57529482 original size:37 final size:37
Alignment explanation
Indices: 57529421--57529499 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57529411 TTATTACGAA
* * *
57529421 GTCTTACCCAGACATAATCTCCACACGGAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
* *
57529458 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
57529495 GTCTT
1 GTCTT
57529500 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGGAGTCATCGG
Found at i:57529768 original size:47 final size:47
Alignment explanation
Indices: 57529618--57529879 Score: 427
Period size: 47 Copynumber: 5.6 Consensus size: 47
57529608 CCCTTCGGGA
* * * * * * *
57529618 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57529665 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57529711 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57529758 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57529805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57529852 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
57529880 CCAACCCTTT
Statistics
Matches: 201, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.20
47 161 0.80
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57530174 original size:39 final size:40
Alignment explanation
Indices: 57530103--57530244 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 40
57530093 GCTACTCGTT
* * *
57530103 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
57530143 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * * *
57530182 CAAATGCCTTC-GGATCTTAGTCCGAAAATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
57530223 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
57530245 AGACATCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.36
40 41 0.48
41 11 0.13
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:57536788 original size:39 final size:40
Alignment explanation
Indices: 57536688--57536911 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
57536678 TTGAATGATG
*
57536688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
57536727 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
57536768 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
57536807 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57536846 TCCGGGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
57536885 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57536912 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
39 74 0.46
40 72 0.45
41 13 0.08
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:57536891 original size:79 final size:80
Alignment explanation
Indices: 57536688--57536911 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 80
57536678 TTGAATGATG
* * * * * *
57536688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
57536752 TGTGCGAGATACTAAT
65 TGTGCAAGATACTAAA
57536768 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
57536829 TTGTGCAAGTTACTAAA
64 TTGTGCAAGATACTAAA
* * * * *
57536846 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
57536911 G
66 G
57536912 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 36 0.29
79 53 0.43
80 34 0.27
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCAAGATACTAAA
Found at i:57536925 original size:40 final size:40
Alignment explanation
Indices: 57536769--57536930 Score: 115
Period size: 40 Copynumber: 4.1 Consensus size: 40
57536759 GATACTAATT
**
57536769 CCGGGCTAAG-CCCGAAGGCATTTGTGCG-A-GA-TACTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGGACTA-TAA
** *
57536806 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTA-AA
1 --CCGGGCTAAGTCCCGAAGGCATTTGAACGAAG-GACTATAA
* * **
57536846 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGGACTATAA
* *
57536887 CCGGGCTATGTCCCGAAGGCATTTGAACG-AGGAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGGA-CTATAA
57536927 CCGG
1 CCGG
57536931 TTAAATTCCG
Statistics
Matches: 105, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
39 40 0.38
40 58 0.55
41 5 0.05
42 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAAGGACTATAA
Found at i:57536933 original size:79 final size:79
Alignment explanation
Indices: 57536762--57536944 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 79
57536752 TGTGCGAGAT
* * * *
57536762 ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGG
** *
57536826 CATTTGTGCAAGTT
66 CATTTGAACAAGTG
*
57536840 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGA-ATTACT-ATAACCGGGCTATGTCCCGA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGA
*
57536903 AGGCATTTGAACGAG-G
63 AGGCATTTGAACAAGTG
* * *
57536919 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
57536945 TACGTGATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 18 0.20
79 46 0.52
80 24 0.27
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACAAGTG
Found at i:57544702 original size:39 final size:39
Alignment explanation
Indices: 57544602--57544825 Score: 242
Period size: 40 Copynumber: 5.6 Consensus size: 39
57544592 TTGAATGATG
*
57544602 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
57544641 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
57544682 TCTGGGCTAAGCTCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
57544721 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
57544760 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
57544799 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
57544826 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
39 72 0.45
40 75 0.47
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:57544788 original size:79 final size:81
Alignment explanation
Indices: 57544602--57544825 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
57544592 TTGAATGATG
* * *
57544602 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
57544665 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
* *
57544682 TCTGGGCTAAG-CTCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
57544743 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
57544760 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
57544824 TG
66 TG
57544826 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 36 0.29
79 52 0.42
80 36 0.29
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:57544847 original size:79 final size:79
Alignment explanation
Indices: 57544695--57544858 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
57544685 GGGCTAAGCT
* ** *
57544695 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
*
57544760 TCCGGGTTAAGTCC
66 TCCGGGTTAAATCC
*
57544774 CGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
57544836 TATATCC-GGTTAAATTC
62 TAAATCCGGGTTAAATCC
57544853 CGAAGG
1 CGAAGG
57544859 TACGTGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
TCCGGGTTAAATCC
Found at i:57551583 original size:48 final size:48
Alignment explanation
Indices: 57551528--57551626 Score: 162
Period size: 48 Copynumber: 2.1 Consensus size: 48
57551518 TTTTCCTAGG
* *
57551528 TAATTTAACCTAAAGGTATTTTCGTCATTTTACCACCTATGGTAAAAC
1 TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
* *
57551576 TAATTTAACCTAAGGGTATTTTCATTATTTTACCACCTATGGCAAAAC
1 TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
57551624 TAA
1 TAA
57551627 CCCGATTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (48 bp):
TAATTTAACCTAAAGGTATTTTCATCATTTTACCACCTATGGCAAAAC
Found at i:57568751 original size:20 final size:18
Alignment explanation
Indices: 57568701--57568810 Score: 66
Period size: 19 Copynumber: 5.9 Consensus size: 18
57568691 CTACAAGATA
57568701 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
57568718 AATATTAAGA-TAATCTCTT
1 AATATTAA-ATTAATAT-TT
**
57568737 CAATATTAAATTAATAAAAT
1 -AATATTAAATTAAT-ATTT
*
57568757 ACTATTAAGA-TAAGTATTT
1 AATATTAA-ATTAA-TATTT
* *
57568776 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
*
57568793 AATTATTAAAATAATATT
1 AA-TATTAAATTAATATT
57568811 ATTTTTGGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 20
0.69 0.12 0.20
Matches are distributed among these distances:
17 17 0.24
18 10 0.14
19 28 0.40
20 15 0.21
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:57573601 original size:9 final size:9
Alignment explanation
Indices: 57573587--57573612 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
57573577 AATAAACTTG
57573587 AATGTGGAT
1 AATGTGGAT
57573596 AATGTGGAT
1 AATGTGGAT
57573605 AATGTGGA
1 AATGTGGA
57573613 AAACAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (9 bp):
AATGTGGAT
Found at i:57578361 original size:29 final size:31
Alignment explanation
Indices: 57578312--57578370 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
57578302 AATGTGTATT
57578312 TATTTATTTAATAGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
* *
57578341 TATTTATTTTATTAG-TTAAATGTGGAGATA
1 TATTTA-TTTAATAGATGAAATGTGGAGATA
57578371 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 11 0.44
30 8 0.32
31 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:57580097 original size:26 final size:27
Alignment explanation
Indices: 57580040--57580108 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
57580030 CTATATCTGG
* * *
57580040 CACTTAGTGTGTGAGATATCGAGTGTGG
1 CACTTAGTGTGCGAGATATC-AGTATGA
*
57580068 CACTTAGTGTGCGAGATAT-TGTATGA
1 CACTTAGTGTGCGAGATATCAGTATGA
*
57580094 CACTTAGTGTACGAG
1 CACTTAGTGTGCGAG
57580109 GCATTGAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 18 0.50
28 18 0.50
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (27 bp):
CACTTAGTGTGCGAGATATCAGTATGA
Found at i:57582589 original size:17 final size:17
Alignment explanation
Indices: 57582544--57582592 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
57582534 TATAAAGGAT
57582544 AAATAGATTGAAT-T-TG
1 AAAT-GATTGAATGTATG
*
57582560 -AATGA-TGATTGTATG
1 AAATGATTGAATGTATG
57582575 AAATGATTGAATGTATG
1 AAATGATTGAATGTATG
57582592 A
1 A
57582593 GAAAAGCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 5 0.19
16 5 0.19
17 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (17 bp):
AAATGATTGAATGTATG
Found at i:57585848 original size:48 final size:48
Alignment explanation
Indices: 57585792--57585883 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
57585782 GCGTTAATAA
* *
57585792 CATAGCTGGATTTTCATTTCCTTTGTTT-TTTCTCACTCATTTGGCTGC
1 CATAGCTGGATTATCATTTCCTTTGTTTCTTGC-CACTCATTTGGCTGC
**
57585840 CATAGCTGGATTATCATTTTTTTTGTTTCTTGCCACTCATTTGG
1 CATAGCTGGATTATCATTTCCTTTGTTTCTTGCCACTCATTTGG
57585884 TTAGGACTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 36 0.92
49 3 0.08
ACGTcount: A:0.14, C:0.21, G:0.15, T:0.50
Consensus pattern (48 bp):
CATAGCTGGATTATCATTTCCTTTGTTTCTTGCCACTCATTTGGCTGC
Found at i:57596732 original size:25 final size:25
Alignment explanation
Indices: 57596681--57596753 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
57596671 AAAATATTAC
**
57596681 ATTAATATTTTTA-TTTT-TTTAAT
1 ATTAATATAATTATTTTTATTTAAT
*
57596704 ATTAATATGATTATTTTTATTTAAT
1 ATTAATATAATTATTTTTATTTAAT
* *
57596729 ATTAATATAAAT-TTTTTAATTAAT
1 ATTAATATAATTATTTTTATTTAAT
57596753 A
1 A
57596754 AGATTTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.26
24 16 0.37
25 16 0.37
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (25 bp):
ATTAATATAATTATTTTTATTTAAT
Found at i:57601209 original size:138 final size:138
Alignment explanation
Indices: 57600961--57601237 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
57600951 TGAGCTTACT
57600961 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
1 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
*
57601026 CTCGTTAGAGACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
66 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
57601091 ATAATGGC
131 ATAATGGC
57601099 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
1 AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
57601164 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
66 CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
57601229 ATAATGGC
131 ATAATGGC
57601237 A
1 A
57601238 TGTATAGGGT
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (138 bp):
AAGCATTCATTGCTTATGTAGTTATTTTCTTTTTATAGATTATCGGAAGCTCGATCGGTTGGAAG
CTCGTTAGAAACCTATCACACTATCCAATAGACAATTCAGTAGTTGAGTAATTTGGCTAAGGTTT
ATAATGGC
Found at i:57622147 original size:27 final size:27
Alignment explanation
Indices: 57622115--57622293 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
57622105 TTAAATTGTA
**
57622115 TAGCACTAAGTGTGCGATTCAACTATG
1 TAGCACTAAGTGTGCGATTTGACTATG
* ** *
57622142 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATTTGACTATG
* *
57622169 -ATGCACTAAGTGTGCGAATTGACCATG
1 TA-GCACTAAGTGTGCGATTTGACTATG
**
57622196 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TTTGACTATG
* *
57622224 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATTTGACTATG
* * *
57622251 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGATTTGACTATG
*
57622278 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
57622294 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATTTGACTATG
Found at i:57622233 original size:82 final size:81
Alignment explanation
Indices: 57622117--57622272 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
57622107 AAATTGTATA
* *
57622117 GCACTAAGTGTGCGATTCAACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57622181 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** ** *
57622198 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57622263 TGCGAGTTGA
65 TGCGAATTGA
57622273 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57622284 original size:82 final size:81
Alignment explanation
Indices: 57622113--57622293 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
57622103 GATTAAATTG
* *
57622113 TATAGCACTAAGTGTGCGATTCAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57622178 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** ** ** *
57622194 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57622258 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
57622276 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
57622294 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57630919 original size:19 final size:19
Alignment explanation
Indices: 57630892--57630933 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
57630882 AATTCATTCT
*
57630892 AAAACTATAAAAATTATTA
1 AAAACTATAAAAAATATTA
*
57630911 AAAATTATAAAAAATATTA
1 AAAACTATAAAAAATATTA
57630930 AAAA
1 AAAA
57630934 ACATTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAACTATAAAAAATATTA
Found at i:57630933 original size:9 final size:10
Alignment explanation
Indices: 57630899--57630947 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
57630889 TCTAAAACTA
57630899 TAAAAATTAT
1 TAAAAATTAT
57630909 TAAAAATTA-
1 TAAAAATTAT
*
57630918 TAAAAAATAT
1 TAAAAATTAT
**
57630928 TAAAAAACAT
1 TAAAAATTAT
*
57630938 TAGAAATTAT
1 TAAAAATTAT
57630948 ATTCATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:57635945 original size:17 final size:17
Alignment explanation
Indices: 57635923--57635955 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57635913 TATTATCTAC
*
57635923 ATTTTTTATTTTATTTT
1 ATTTTTTATTTCATTTT
57635940 ATTTTTTATTTCATTT
1 ATTTTTTATTTCATTT
57635956 GCATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTATTTCATTTT
Found at i:57636560 original size:128 final size:126
Alignment explanation
Indices: 57636396--57637089 Score: 680
Period size: 128 Copynumber: 5.5 Consensus size: 126
57636386 CAAATAAGGA
* * * * *
57636396 AATATTTTGTGTTTGGGAGTTCGAGG-GGTCGTGCCCAATCGTGTTGGGTTTCAATTTTTCGTTC
1 AATATTTCGTGTTTGGAAGTTTG-GGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* **
57636460 -AGCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTTTAAAATTAAAACGAGGC
65 GA-CTAAAATACAAAATATCCTTTTGAAATTTCATCCATG-TTTTTTTTAAAA-TAAAACGAGGC
* *
57636524 AATACTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
* * * * * * *
57636589 GCTAAAATACGAAATATCCTTTGGAAATTTCGTCCATGTCTTTTTAAAAATTAAAATGAGGC
66 ACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGTTTTTTTTAAAA-TAAAACGAGGC
* * * * *
57636651 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCATTTTTTTCATT
1 AATATTTCGTGTTT-GGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCA-ATTTTTCATT
* * * *
57636715 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACGTTTTTCTTAAAATAAAACGAGG
64 CGACTAAAATACAAAATATCC---TTTTGAAATTTCATCCATGTTTTTTTTAAAATAAAACGAGG
57636780 C
126 C
* * * *
57636781 AATATTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAA-TTTTCTATTC
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTC-ATTC
*** ** * *
57636845 GACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCA-CATGTTTTTAAAATAAAACGAGAC
65 GACTAAAATACAAAATATCC--TTTTGAAATTTCATCCATGTTTTTTTTAAAATAAAACGAGGC
* * * * * * *
57636908 AATATTTCGTGTTTGAAAGTTTGGGAAGTCATGCCTAATCGTGCTGGGCTTCAATCTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
* * * * * * *
57636973 ACTAAAATACAAAATATCCTTTTGAAATTTCATTCGTG-TTTTCTCAAATTAAAATGAGAC
66 ACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGTTTTTTTTAAAATAAAACGAGGC
* * * * ** ** * *
57637033 AATGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTAGGTTTCGATTT
1 AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTT
57637090 ACCGTTTGGG
Statistics
Matches: 477, Mismatches: 78, Indels: 25
0.82 0.13 0.04
Matches are distributed among these distances:
125 75 0.16
127 146 0.31
128 154 0.32
129 35 0.07
130 42 0.09
131 25 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (126 bp):
AATATTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCG
ACTAAAATACAAAATATCCTTTTGAAATTTCATCCATGTTTTTTTTAAAATAAAACGAGGC
Found at i:57636853 original size:257 final size:257
Alignment explanation
Indices: 57636387--57636995 Score: 723
Period size: 257 Copynumber: 2.4 Consensus size: 257
57636377 GAACCTTCTC
* * * * * * * *
57636387 AAATAAGGAAATATTTTGTGTTTGGGAGTTCGAGGGGTCGTGCCCAATCGTGTTGGGTTTCAATT
1 AAATGAGGCAATATTTCGTGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATT
* ** * *
57636452 TTTCGTTC-AGCTAAAATACAAAATATCC---TTTGGAAATTTTGTCCATGTTTTTTTTTAAAAT
66 TTTCATTCGA-CTAAAATACAAAATATCCTTTTTTGGAAATTTCATCCACGTTTTTTCTTAAAAT
* * * *
57636513 TAAAACGAGGCAATACTTCGTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGGGTTTCAA
130 TAAAACGAGGCAATACTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAA
* * **
57636578 TTTTCCATTCGGCTAAAATACGAAATATCC-TTTGGAAATTTCGTCCATGTCTTTTTAAAAATTA
195 TTTTCCATTCGACTAAAATACGAAATATCCTTTTGGAAATTTCATCCACATCTTTTT-AAAA-TA
* *
57636642 AAATGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCATT
1 AAATGAGGCAATATTTCGTGTTT-GGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCA-A
* * *
57636706 TTTTTCATTCGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACG-TTTTTCTTAAAA
64 TTTTTCATTCGACTAAAATACAAAATATCCTTTTTTGGAAATTTCATCCACGTTTTTTCTTAAAA
*
57636770 -TAAAACGAGGCAATATTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCA
129 TTAAAACGAGGCAATACTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCA
* * * * *
57636834 ATTTTCTATTCGACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCACATGTTTTTAAAATA
194 ATTTTCCATTCGACTAAAATACGAAATATCC-TTTTGGAAATTTCATCCACATCTTTTTAAAATA
* * ** * * *
57636899 AAACGAGACAATATTTCGTGTTTGAAAGTTTGGGA-AGTCATGCCTAATCGTGCTGGGCTTCAAT
1 AAATGAGGCAATATTTCGTGTTTGGGAGTTTGAGAGA-TCATGCCCAATCGTGCTGGGTTTCAAT
* *
57636963 CTTCCATTCGACTAAAATACAAAATATCCTTTT
65 TTTTCATTCGACTAAAATACAAAATATCCTTTT
57636996 GAAATTTCAT
Statistics
Matches: 300, Mismatches: 44, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
255 41 0.14
256 79 0.26
257 129 0.43
258 15 0.05
259 36 0.12
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (257 bp):
AAATGAGGCAATATTTCGTGTTTGGGAGTTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATT
TTTCATTCGACTAAAATACAAAATATCCTTTTTTGGAAATTTCATCCACGTTTTTTCTTAAAATT
AAAACGAGGCAATACTTCATGCTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAAT
TTTCCATTCGACTAAAATACGAAATATCCTTTTGGAAATTTCATCCACATCTTTTTAAAATA
Found at i:57638905 original size:10 final size:10
Alignment explanation
Indices: 57638890--57638937 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
57638880 GTGCATGTCG
57638890 GAAGGCAGGC
1 GAAGGCAGGC
*
57638900 GAAGGCATGC
1 GAAGGCAGGC
*
57638910 GAAAGCAGGC
1 GAAGGCAGGC
*
57638920 GAAGGCATGC
1 GAAGGCAGGC
*
57638930 GAAAGCAG
1 GAAGGCAG
57638938 ATTTATAGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (10 bp):
GAAGGCAGGC
Found at i:57638919 original size:20 final size:20
Alignment explanation
Indices: 57638894--57638937 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
57638884 ATGTCGGAAG
57638894 GCAGGCGAAGGCATGCGAAA
1 GCAGGCGAAGGCATGCGAAA
57638914 GCAGGCGAAGGCATGCGAAA
1 GCAGGCGAAGGCATGCGAAA
57638934 GCAG
1 GCAG
57638938 ATTTATAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.20, G:0.41, T:0.05
Consensus pattern (20 bp):
GCAGGCGAAGGCATGCGAAA
Found at i:57648305 original size:64 final size:64
Alignment explanation
Indices: 57648231--57648357 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
57648221 CATTCATAAT
57648231 ACATCTAGTTAGGAGCACTT-GATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCACTTGGATT-ATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
*
57648295 ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
57648358 AGATACATGA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 57 0.93
65 4 0.07
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCACTTGGATTATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:57648711 original size:134 final size:134
Alignment explanation
Indices: 57648464--57649110 Score: 502
Period size: 134 Copynumber: 4.9 Consensus size: 134
57648454 GATTACAAAC
* * ** *
57648464 CTTATCTCCCTGAAGCTGCAGTGGAGCAGGTTGAAG-T-GACAAGTCTTATCTTCTTGAAGTTGC
1 CTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-CAAGTCTTATCTTCCTGAAGTTGC
*
57648527 AGGAAGCAGACT-AAAATTACAGATCTTATTTCCATGTATCGGCTATGGAGCAGATAAAAAAT-G
65 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AAAAATCG
57648590 ACAAGT
129 ACAAGT
* * *
57648596 CTTACCTCCCTGAAGTTGCAGTGGCGCAAACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTACA
1 CTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCA
* * * *
57648661 GGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGT
66 GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-AAAAATCGA
*
57648726 GAA-T
130 CAAGT
* * * * * ** ** *
57648730 CTTATCTCCATGTA-TCGGCTA-TGGAGCAGATTTTAGCCA-CTAGTCTTATCTTCCTGAAGTTG
1 CTTACCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTG
* ***
57648792 CAGGAAACAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTTATC
64 CAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAATC
**
57648856 CCCAAGT
128 GACAAGT
* * * *
57648863 CTTATCTTCCC-GAAGTTGCAGTGGAGCAGACTAAAGATAGTAAGTCTTATCTCCCTGAAGTTGC
1 CTTA-CCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGC
* * * *
57648927 AGTGGAGCAGACTGAAGA-TAGCA-AGTCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGAT---
65 AG-GAAGCAGACTGAAAATTA-CAGA-TCTTATC-TCCATGTA-TCGGCTATGG-AGCAGATAAA
57648983 --T-GA-AAGAT
124 AATCGACAAG-T
* * * * *** **
57648991 CTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-T-TTTATCCCCAAGTCTTATCTTCCTGAAGTT
1 CTTACCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTTCCTGAAGTT
* *
57649052 GCAGGGAGCAGACTGAAAACTTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGAT
63 GCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
57649111 CAGAAATGGC
Statistics
Matches: 414, Mismatches: 71, Indels: 64
0.75 0.13 0.12
Matches are distributed among these distances:
126 20 0.05
127 46 0.11
128 29 0.07
129 4 0.01
132 37 0.09
133 106 0.26
134 152 0.37
135 20 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (134 bp):
CTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGTTGCA
GGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAATCGAC
AAGT
Found at i:57648822 original size:89 final size:88
Alignment explanation
Indices: 57648728--57649110 Score: 435
Period size: 89 Copynumber: 4.4 Consensus size: 88
57648718 GAAATGGTGA
*
57648728 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
*
57648793 AGGAAACAGACTGAAAATTTACAG
66 AGGAAGCAGACTGAAAATTTA-AG
* * *
57648817 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAGTCTTATCTTCCCGAAGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
* *
57648882 AGTGGAGCAGACT-AAAGATAGTAAG
66 AG-GAAGCAGACTGAAA-AT-TTAAG
* * * * ** **
57648907 -TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
1 ATCTTATCTCCATGTA-TCGGCTA-TGGAGCAGATTTTAGCCA-CAAGTCTTATCTTCCTGAAGT
*
57648969 TGCAGGAAGCAGATTG---A---AAG
63 TGCAGGAAGCAGACTGAAAATTTAAG
* *
57648989 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAGTCTTATCTTCCTGAAGTTGC
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
* *
57649054 AGGGAGCAGACTGAAAACTTACAG
66 AGGAAGCAGACTGAAAATTTA-AG
*
57649078 ATCTTATCTCCATGTATCAGCTATGGAGCAGAT
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGAT
57649111 CAGAAATGGC
Statistics
Matches: 244, Mismatches: 33, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
82 39 0.16
83 26 0.11
84 1 0.00
85 1 0.00
86 1 0.00
88 2 0.01
89 134 0.55
90 38 0.16
91 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (88 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGC
AGGAAGCAGACTGAAAATTTAAG
Found at i:57648913 original size:45 final size:45
Alignment explanation
Indices: 57648858--57648990 Score: 189
Period size: 45 Copynumber: 3.0 Consensus size: 45
57648848 ATTTTATCCC
57648858 CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATAG
1 CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATAG
* *
57648903 TAAGTCTTATC-TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
1 CAAGTCTTATCTTCCC-GAAGTTGCAGTGGAGCAGACTAAAGATAG
* * *
57648948 CAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGATTGAAAGAT
1 CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACT-AAAGAT
57648991 CTTATCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
44 12 0.15
45 63 0.81
46 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATAG
Found at i:57649107 original size:172 final size:174
Alignment explanation
Indices: 57648728--57649109 Score: 485
Period size: 172 Copynumber: 2.2 Consensus size: 174
57648718 GAAATGGTGA
* * ** * *
57648728 ATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGC
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGACTGAAGACACAAGTCTTATCTTCCTGAAGTTGC
57648793 AGGAAACAGACTGAAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCC
66 AGGAAACAGACTG--AA--TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCC
57648858 CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAG
127 CAAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATA-TAAG
* * * *
57648907 -TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
1 ATCTTATCTCCATGTA-TCAGCTA-TGGAGCAGACTGAAGACA-CAAGTCTTATCTTCCTGAAGT
* *
57648969 TGCAGGAAGCAGATTG-A-A-AGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCC
63 TGCAGGAAACAGACTGAATACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCC
*
57649031 AAGTCTTATCTTCCTGAAGTTGCAG-GGAGCAGACTGAAA-ACT-TACAG
128 AAGTCTTATCTTCCCGAAGTTGCAGTGGAGCAGACT-AAAGA-TATA-AG
57649078 ATCTTATCTCCATGTATCAGCTATGGAGCAGA
1 ATCTTATCTCCATGTATCAGCTATGGAGCAGA
57649110 TCAGAAATGG
Statistics
Matches: 179, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
170 2 0.01
171 14 0.08
172 96 0.54
173 2 0.01
176 1 0.01
177 1 0.01
178 28 0.16
179 35 0.20
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (174 bp):
ATCTTATCTCCATGTATCAGCTATGGAGCAGACTGAAGACACAAGTCTTATCTTCCTGAAGTTGC
AGGAAACAGACTGAATACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTATCCCCAAG
TCTTATCTTCCCGAAGTTGCAGTGGAGCAGACTAAAGATATAAG
Found at i:57649914 original size:131 final size:131
Alignment explanation
Indices: 57649620--57650062 Score: 491
Period size: 132 Copynumber: 3.4 Consensus size: 131
57649610 TATTTAGTCC
* * * ** *
57649620 AACGAGGAAATCGAAACCCAGCACAG-TAGGGCACGGTTCTTCGAATTTCTAAACATCGAGCATT
1 AACGAGGAAATTGCAACCCAGCAC-GTTAGGGCACGATTCCGCGAATTTC-AAACATCGAGTATT
* ** * * * *
57649684 ACCTTATTTTTTTTAGAATTTTAAGAAACATGAGGGAAATTCTAAAGGGGATGTTCGATTATTTT
64 ACCTT-TGTTTTAAAGAGTTTTTAGAAACATGAGTGAAATTCTAAA-GGGATATTCGATTATTTT
* *
57649749 GAACC
127 GAGCA
* * * *
57649754 AAC-AGGAAATTGCAACCCAGCACGATAGGGCACAATTCCCCGAATTATCAAACCTCGAGTATTA
1 AACGAGGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATT-TCAAACATCGAGTATTA
* * * * *
57649818 CCTTTGTTTTAAAGAGTTTTTAGAAAAATGAATGAAATTCCAAAGGGACATTCGATTGTTTTGAG
65 CCTTTGTTTTAAAGAGTTTTTAGAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAG
57649883 CA
130 CA
* * * *
57649885 AACGA-GAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGTCAAATATCGAATGTTG
1 AACGAGGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATT-TCAAACATCGAGTATTA
* *
57649949 CCTTTGTTTTAAAG-GATTTTTAGAAGACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTG
65 CCTTTGTTTTAAAGAG-TTTTTAGAA-ACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTG
57650013 AGCA
128 AGCA
* *
57650017 AACTA-GAAATTGCAACCCAGCATGTTAGGGCACGATTCCGCGAATT
1 AACGAGGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATT
57650063 GCCAAATATC
Statistics
Matches: 264, Mismatches: 40, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
130 1 0.00
131 94 0.36
132 112 0.42
133 52 0.20
134 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (131 bp):
AACGAGGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTTCAAACATCGAGTATTAC
CTTTGTTTTAAAGAGTTTTTAGAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGC
A
Done.