Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 64 of 144
Found at i:19416624 original size:69 final size:69
Alignment explanation
Indices: 19416272--19416767 Score: 319
Period size: 69 Copynumber: 7.2 Consensus size: 69
19416262 TGCAGCACTC
* * * * *
19416272 AAACACTTCAATTTACAATATTTAAGCACTTCATTTTGCAGCACTGTAACA-TCTCAATTAACAA
1 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAA
*
19416336 CGTTT
65 CATTT
* * * * * * * * ** *
19416341 ATACACTTTAATTTACAACAATAAAACA-TCTCAATTTCCAGCAATTAAACAGTTCAATTTGTAG
1 AAACACTTCAATTTACAACATTTAAACACT-TCAATTTGCAGCACTTTAACACTTCAATTTACAA
* *
19416405 TAGTT
65 CATTT
* * * *
19416410 AAACACTTTAATTTACAACATTTAAACACTTCAATTCGCAACACTTTAACA-TCTCAATTAACAA
1 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAA
*
19416474 CGTTT
65 CATTT
* * * * * * * * *
19416479 ATACACCTCAATTTATAGCAATAAAACA-TATCAATTTCCAACAAC--TAACACTTCAATTTGCA
1 AAACACTTCAATTTACAACATTTAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATTTACA
** *
19416541 GTACTT
64 ACATTT
**
19416547 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGTGCTTTAACACTTCAATTTACAAC
1 AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAAC
19416612 ATTT
66 ATTT
* * * * * ** * *
19416616 AAGCACTTCATTTTGCAACATTTTAACA-TCTCAA-TT-AATAATGTTTATACACCTCAATTTAC
1 AAACACTTCAATTTACAACATTTAAACACT-TCAATTTGCAGCA-CTTTA-ACACTTCAATTTAC
* * *
19416678 AGCAATA
63 AACATTT
* * ** * * *
19416685 AAACA-TCTCAATTTCCAGCAACTAAACACTTCAACTTGCAGTACTTAAACACTTCAATTTACAA
1 AAACACT-TCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAA
*
19416749 TATTT
65 CATTT
19416754 AAACACTTCAATTT
1 AAACACTTCAATTT
19416768 GCAGCACTTT
Statistics
Matches: 317, Mismatches: 92, Indels: 36
0.71 0.21 0.08
Matches are distributed among these distances:
67 2 0.01
68 57 0.18
69 245 0.77
70 11 0.03
71 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (69 bp):
AAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAAC
ATTT
Found at i:19416724 original size:138 final size:138
Alignment explanation
Indices: 19416569--19416871 Score: 444
Period size: 138 Copynumber: 2.2 Consensus size: 138
19416559 TTACAACATT
* * * *
19416569 TAAACACTTCAATTTGCAGTGCTTTAACACTTCAATTTACAACATTTAAGCACTTCATTTTGCAA
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAA
* * * * * *
19416634 CATTTTAACATCTCAATTAATAATGTTTATACACCTCAATTTACAGCAATAAAACATCTCAATTT
66 CACTTTAACATCTCAATTAACAACGTTTATACACCTAAATTTACAGCAATAAAAAATCACAATTT
19416699 CCAGCAAC
131 CCAGCAAC
* * *
19416707 TAAACACTTCAACTTGCAGTACTTAAACACTTCAATTTACAATATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAA
* *
19416772 CACTTTAACATCTCAGTTAACAACGTTTATACACCTAAATTTACAGCAATAAAAAATCACCATTT
66 CACTTTAACATCTCAATTAACAACGTTTATACACCTAAATTTACAGCAATAAAAAATCACAATTT
**
19416837 TTAGCAAC
131 CCAGCAAC
*
19416845 TAAACACTTCAATTTGCAGTATTTAAA
1 TAAACACTTCAATTTGCAGTACTTAAA
19416872 TAGGGCATTA
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 146 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.34
Consensus pattern (138 bp):
TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAA
CACTTTAACATCTCAATTAACAACGTTTATACACCTAAATTTACAGCAATAAAAAATCACAATTT
CCAGCAAC
Found at i:19416813 original size:69 final size:68
Alignment explanation
Indices: 19416591--19416816 Score: 185
Period size: 69 Copynumber: 3.3 Consensus size: 68
19416581 TTTGCAGTGC
* * * * * *
19416591 TTTA-ACACTTCAATTTACAACATTTAAGCACTTCATTTTGCAACATTTTAACATCTCAATTAAT
1 TTTATACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAAC
19416655 AATG
66 AA-G
* * * * *
19416659 TTTATACACCTCAATTTACAGCAATAAAACA-TCTCAATTTCCAGCAAC-TAAACA-CTTCAACT
1 TTTATACACCTCAATTTACAACATTTAAACACT-TCAATTTGCAGC-ACTTTAACATC-TCAA-T
*
19416721 T-GC-AG
62 TAACAAG
* * * *
19416726 TACTTAAACACTTCAATTTACAATATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAGTTA
1 T--TTATACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
19416791 ACAACG
64 ACAA-G
*
19416797 TTTATACACCTAAATTTACA
1 TTTATACACCTCAATTTACA
19416817 GCAATAAAAA
Statistics
Matches: 120, Mismatches: 25, Indels: 25
0.71 0.15 0.15
Matches are distributed among these distances:
67 2 0.02
68 11 0.09
69 99 0.82
70 6 0.05
71 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (68 bp):
TTTATACACCTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAAC
AAG
Found at i:19428151 original size:3 final size:3
Alignment explanation
Indices: 19428143--19428183 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
19428133 TATGTATAGA
19428143 AAT AAT AAT AAT AAT AAT AAAT AAT -AT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
19428184 GATGCAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19429251 original size:13 final size:14
Alignment explanation
Indices: 19429233--19429269 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
19429223 AAATGGACTG
19429233 TGTTTTT-TTTTTT
1 TGTTTTTGTTTTTT
19429246 TGTTTTTGTTTTTT
1 TGTTTTTGTTTTTT
*
19429260 T-TTTATGTTT
1 TGTTTTTGTTT
19429270 ATTTATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (14 bp):
TGTTTTTGTTTTTT
Found at i:19429257 original size:19 final size:19
Alignment explanation
Indices: 19429233--19429269 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19429223 AAATGGACTG
*
19429233 TGTTTTTTTTTTTTGTTTT
1 TGTTTTTTTTTTATGTTTT
19429252 TGTTTTTTTTTTATGTTT
1 TGTTTTTTTTTTATGTTT
19429270 ATTTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (19 bp):
TGTTTTTTTTTTATGTTTT
Found at i:19439544 original size:23 final size:23
Alignment explanation
Indices: 19439501--19439545 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
19439491 TGGAGGAAAA
19439501 GAAAATATTTTTTTTGCTTATTTT
1 GAAAATATTTTTTTT-CTTATTTT
*
19439525 GAAAATGTTTTATTTT-TTATT
1 GAAAATATTTT-TTTTCTTATT
19439546 CAGGGCACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 10 0.53
25 4 0.21
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (23 bp):
GAAAATATTTTTTTTCTTATTTT
Found at i:19439611 original size:16 final size:16
Alignment explanation
Indices: 19439565--19439628 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
19439555 TTTGGTTCGC
* * *
19439565 TGTATTGGATTAGAAG
1 TGTAATGGAATAGAGG
* *
19439581 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
19439597 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
19439613 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19439629 CATAATAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.36, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:19439629 original size:16 final size:16
Alignment explanation
Indices: 19439586--19439634 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
19439576 AGAAGTGTAT
* *
19439586 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
19439602 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
19439618 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
19439634 T
1 T
19439635 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:19440149 original size:22 final size:20
Alignment explanation
Indices: 19440115--19440158 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
19440105 TTTAAAATTT
19440115 TATAAAAATATAAATAAATA
1 TATAAAAATATAAATAAATA
*
19440135 TATAAAAATCCATAAATGAATA
1 TATAAAAAT--ATAAATAAATA
19440157 TA
1 TA
19440159 ATTATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (20 bp):
TATAAAAATATAAATAAATA
Found at i:19448820 original size:14 final size:14
Alignment explanation
Indices: 19448801--19448829 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19448791 CTAATCCTCT
19448801 TAATAGGGGATTAG
1 TAATAGGGGATTAG
19448815 TAATAGGGGATTAG
1 TAATAGGGGATTAG
19448829 T
1 T
19448830 GAGTCAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (14 bp):
TAATAGGGGATTAG
Found at i:19450810 original size:23 final size:23
Alignment explanation
Indices: 19450784--19450831 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
19450774 TAGCGACATC
*
19450784 AGTATCAAAACATGACGAATTTA
1 AGTATCAAAACATGACGAAATTA
19450807 AGTATCAAAACATGACGAAATTA
1 AGTATCAAAACATGACGAAATTA
19450830 AG
1 AG
19450832 GATAAATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (23 bp):
AGTATCAAAACATGACGAAATTA
Found at i:19453403 original size:15 final size:15
Alignment explanation
Indices: 19453371--19453411 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
19453361 AGAAACAAAA
19453371 ATAAAATAAATTTAC
1 ATAAAATAAATTTAC
19453386 ATAATAATAAATTT-C
1 ATAA-AATAAATTTAC
19453401 ATAAAAATAAA
1 AT-AAAATAAA
19453412 AAATTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATAAATTTAC
Found at i:19455577 original size:20 final size:20
Alignment explanation
Indices: 19455552--19455590 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19455542 TACTTTCTTC
19455552 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
19455572 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
19455591 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:19455874 original size:56 final size:56
Alignment explanation
Indices: 19455792--19456668 Score: 1745
Period size: 56 Copynumber: 15.7 Consensus size: 56
19455782 TGATAATAAC
*
19455792 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19455848 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19455904 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19455960 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456016 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456072 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456128 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456184 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456240 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456296 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456352 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456408 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456464 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456520 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456576 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
19456632 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
19456669 GTCTCATCCC
Statistics
Matches: 820, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 820 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (56 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTAATAACCTCAATA
Found at i:19458698 original size:43 final size:43
Alignment explanation
Indices: 19458638--19458742 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
19458628 TGTCCTAGAC
** *
19458638 ATGGTCTTACATAGAAATCTCCTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACA-AGAAATCTCAAATCGATGCCAATAGCCCAACT
* * * *
19458682 ATGGTCTTACACGAAATGTCAAATTGATGCCAATAGCTCAACT
1 ATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAACT
*
19458725 ATGGTCTTACATGAAATC
1 ATGGTCTTACAAGAAATC
19458743 ACACCTCGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
43 41 0.79
44 11 0.21
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAACT
Found at i:19458907 original size:31 final size:31
Alignment explanation
Indices: 19458860--19459035 Score: 205
Period size: 31 Copynumber: 5.7 Consensus size: 31
19458850 ATCCAATGCC
* *
19458860 CAAATC-AATTCAGAAATATATATCTATATA
1 CAAATCAAATTCGGAAATGTATATCTATATA
* *
19458890 CGAATCAAATTCGGAAATGTATATCTACATA
1 CAAATCAAATTCGGAAATGTATATCTATATA
* *
19458921 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGAAATGTATATCTATATA
* * *
19458951 CAAATCAAATT-TGACAATGTATAACCATATA
1 CAAATCAAATTCGGA-AATGTATATCTATATA
* * *
19458982 TAAATCAAATTCAGCAATGTATATCTATATA
1 CAAATCAAATTCGGAAATGTATATCTATATA
*
19459013 CAAATCAAATTCGGCAATGTATA
1 CAAATCAAATTCGGAAATGTATA
19459036 AAATATATAC
Statistics
Matches: 124, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.27
31 90 0.73
32 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGAAATGTATATCTATATA
Found at i:19458957 original size:61 final size:61
Alignment explanation
Indices: 19458860--19459036 Score: 230
Period size: 61 Copynumber: 2.9 Consensus size: 61
19458850 ATCCAATGCC
* * * * *
19458860 CAAATCAATTCAGAAATATATATCTATATACGAATCAAATTCGGAAATGTATATCTACATA
1 CAAATCAATTCAGCAATGTATATCTATATACAAATCAAATTCGGAAATGTATAACCACATA
* * * *
19458921 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATT-TGACAATGTATAACCATATA
1 CAAATCAATTCAGCAATGTATATCTATATACAAATCAAATTCGGA-AATGTATAACCACATA
* *
19458982 TAAATCAAATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAA
1 CAAATC-AATTCAGCAATGTATATCTATATACAAATCAAATTCGGAAATGTATAA
19459037 AATATATACT
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
60 2 0.02
61 54 0.55
62 42 0.42
63 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (61 bp):
CAAATCAATTCAGCAATGTATATCTATATACAAATCAAATTCGGAAATGTATAACCACATA
Found at i:19459054 original size:62 final size:62
Alignment explanation
Indices: 19458866--19459056 Score: 206
Period size: 62 Copynumber: 3.1 Consensus size: 62
19458856 TGCCCAAATC
* * * * ** * * *
19458866 AATTCAGAAATATATATCTATATACGAATCAAATTCGGAAATGTAT-ATCTACATACAAATC
1 AATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAAAATATATACAATTA
* * * * * *
19458927 AATTCGGCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATATA-AATCA
1 AATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAA-AATATATACAATTA
**
19458989 AATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAAAATATATACTTTTA
1 AATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAAAATATATACAATTA
19459051 AATTCA
1 AATTCA
19459057 AAAATATTTA
Statistics
Matches: 105, Mismatches: 22, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
61 45 0.43
62 55 0.52
63 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (62 bp):
AATTCAGCAATGTATATCTATATACAAATCAAATTCGGCAATGTATAAAATATATACAATTA
Found at i:19460330 original size:19 final size:19
Alignment explanation
Indices: 19460306--19460351 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
19460296 TTCTAGAATA
19460306 TAAATAAAACTTATCTACC
1 TAAATAAAACTTATCTACC
* *
19460325 TAAATAAGATTTATCTACC
1 TAAATAAAACTTATCTACC
19460344 TAAATAAA
1 TAAATAAA
19460352 TTTAAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAATAAAACTTATCTACC
Found at i:19461333 original size:63 final size:63
Alignment explanation
Indices: 19461234--19461372 Score: 194
Period size: 63 Copynumber: 2.2 Consensus size: 63
19461224 TTTGAGCTTT
* * * *
19461234 AAAACATAAA-CAACAATGGCTGAATGGTGCTAACCTTCCTTT-TTAATTTTCGGTATAG-AAAG
1 AAAACATAAAGC-CCAATGGCCGAATGGTGCTAACCTT-CTTTCTCAATTTTCGGCAT-GCAAAG
19461296 A
63 A
19461297 AAAACATAAAGCCCAATGGCCGAATGGTGCTAACCTTCTTTCTCAATTTTCGGCATGCAAAGA
1 AAAACATAAAGCCCAATGGCCGAATGGTGCTAACCTTCTTTCTCAATTTTCGGCATGCAAAGA
19461360 AAAACATAAAGCC
1 AAAACATAAAGCC
19461373 TCCCTTTATT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
62 5 0.07
63 63 0.91
64 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (63 bp):
AAAACATAAAGCCCAATGGCCGAATGGTGCTAACCTTCTTTCTCAATTTTCGGCATGCAAAGA
Found at i:19467892 original size:76 final size:76
Alignment explanation
Indices: 19467796--19468168 Score: 509
Period size: 76 Copynumber: 4.9 Consensus size: 76
19467786 TGCACTCAGT
* * * * * * *
19467796 GCTAGTTGGATAAACCGACGATAG-TAAAAGTGTGTCCAGCACTAGTCGAATTAATCGACAAAGA
1 GCTAGTCGGATGAACCGACGAT-GTTAAATGTGTGCCCAACACTAGTCAAATTAATCGACAAATA
*
19467860 TTTGCGTCCAGC
65 TTTGCGCCCAGC
* * * *
19467872 GCTAGTCAGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATTAACCGTCAACTAT
1 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATTAATCGACAAATAT
*
19467937 TTGTGCCCAGC
66 TTGCGCCCAGC
* * *
19467948 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTACTTAGATTAAAT-GACAAATA
1 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATT-AATCGACAAATA
*
19468012 TTTGCGCCCTGC
65 TTTGCGCCCAGC
* * *
19468024 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTACTTAGATTAAAT-GACAAATA
1 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATT-AATCGACAAATA
*
19468088 TTTGCGCCCTGC
65 TTTGCGCCCAGC
19468100 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATTAATCGACAAATAT
1 GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATTAATCGACAAATAT
19468165 TTGC
66 TTGC
19468169 TCGCCAAGAA
Statistics
Matches: 269, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
75 4 0.01
76 263 0.98
77 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (76 bp):
GCTAGTCGGATGAACCGACGATGTTAAATGTGTGCCCAACACTAGTCAAATTAATCGACAAATAT
TTGCGCCCAGC
Found at i:19468357 original size:17 final size:18
Alignment explanation
Indices: 19468325--19468362 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19468315 ATAATTTGAT
*
19468325 ATTAAAATAAACCAAATA
1 ATTAAAATAAACCAAACA
*
19468343 ATTAAATTAAA-CAAACA
1 ATTAAAATAAACCAAACA
19468360 ATT
1 ATT
19468363 TGAGTCAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (18 bp):
ATTAAAATAAACCAAACA
Found at i:19472919 original size:27 final size:27
Alignment explanation
Indices: 19472888--19472941 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19472878 TTTATTCAAA
*
19472888 TGATTAGTATTTTAAATGTAATGCTAT
1 TGATTAGTATTTTAAATATAATGCTAT
19472915 TGATTAGTATTTTAAATATAATGCTAT
1 TGATTAGTATTTTAAATATAATGCTAT
19472942 GGAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (27 bp):
TGATTAGTATTTTAAATATAATGCTAT
Found at i:19473150 original size:40 final size:40
Alignment explanation
Indices: 19473105--19473239 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 40
19473095 TCATTGTCGG
*
19473105 TTTATCTGACTAGTGCTAGACACACATTTGATATCGTCAA
1 TTTATCTGACTAGTGCTGGACACACATTTGATATCGTCAA
* * * * * **
19473145 TTTATCCT-ACTA-TCGCCGGGCGCA-A---AACATTATCAA
1 TTTAT-CTGACTAGT-GCTGGACACACATTTGATATCGTCAA
* *
19473181 TTTATCCGACTAGTGCTGGACACACATTTGATATCGTCAG
1 TTTATCTGACTAGTGCTGGACACACATTTGATATCGTCAA
*
19473221 TTTATCTGACTAGCGCTGG
1 TTTATCTGACTAGTGCTGG
19473240 GCATGAAACA
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
35 1 0.01
36 23 0.34
37 2 0.03
39 2 0.03
40 38 0.56
41 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (40 bp):
TTTATCTGACTAGTGCTGGACACACATTTGATATCGTCAA
Found at i:19473281 original size:76 final size:75
Alignment explanation
Indices: 19473067--19473281 Score: 245
Period size: 76 Copynumber: 2.8 Consensus size: 75
19473057 GTATATTTTG
* * * *
19473067 GTTTAT-TCGACTAGCGCTGGGTGTAAAATCATTGTCGGTTTATCTGACTAGTGCTAGACACACA
1 GTTTATCT-GACTAGCGCTGGGCGTAAAA-CATTGTCAGTTTATCCGACTAGTGC-AGGCACACA
19473131 TTTGATATCGTCA
63 TTTGATATCGTCA
* * * * * * *
19473144 ATTTATCCT-ACTATCGCCGGGCGCAAAACATTATCAATTTATCCGACTAGTGCTGGACACACAT
1 GTTTAT-CTGACTAGCGCTGGGCGTAAAACATTGTCAGTTTATCCGACTAGTGCAGG-CACACAT
19473208 TTGATATCGTCA
64 TTGATATCGTCA
* *
19473220 GTTTATCTGACTAGCGCTGGGCATGAAACATTGTCAGTTTATCCGACTAGTGCACGGCACAC
1 GTTTATCTGACTAGCGCTGGGCGTAAAACATTGTCAGTTTATCCGACTAGTGCA-GGCACAC
19473282 CTATCGTCGG
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
75 3 0.03
76 87 0.77
77 22 0.19
79 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (75 bp):
GTTTATCTGACTAGCGCTGGGCGTAAAACATTGTCAGTTTATCCGACTAGTGCAGGCACACATTT
GATATCGTCA
Found at i:19473435 original size:24 final size:24
Alignment explanation
Indices: 19473408--19473455 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19473398 AAGAAGATTA
* *
19473408 AAAATGATATAAATGAAAAGGTCG
1 AAAAGGATATAAACGAAAAGGTCG
*
19473432 AAAAGGATATCAACGAAAAGGTCG
1 AAAAGGATATAAACGAAAAGGTCG
19473456 GTATCTCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (24 bp):
AAAAGGATATAAACGAAAAGGTCG
Found at i:19478546 original size:76 final size:76
Alignment explanation
Indices: 19478410--19478551 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 76
19478400 ATTATGTATG
* **
19478410 TATTTTCAGTTTACCCGACTAGTTCTGGGCACACATTTGATATCGTCGGTTTATCCGACTAGTGC
1 TATTGTCAGTTTACCCGACTAGTGATGGGCACACATTTGATATCGTCGGTTTATCCGACTAGTGC
19478475 TAGGCGTAATT
66 TAGGCGTAATT
* * *
19478486 TATTGTCAGTTTATCCGACTAGTGATGGGCATACATTTGATATCGTCGGTTTATCTGACTAGTGC
1 TATTGTCAGTTTACCCGACTAGTGATGGGCACACATTTGATATCGTCGGTTTATCCGACTAGTGC
19478551 T
66 T
19478552 GGACACACAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (76 bp):
TATTGTCAGTTTACCCGACTAGTGATGGGCACACATTTGATATCGTCGGTTTATCCGACTAGTGC
TAGGCGTAATT
Found at i:19478587 original size:40 final size:40
Alignment explanation
Indices: 19478415--19478577 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 40
19478405 GTATGTATTT
* *
19478415 TCAGTTTACCCGACTAGTTCTGGGCACACATTTGATATCG
1 TCAGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
* * **
19478455 TCGGTTTATCCGACTAGTGCTAGGCGTA-ATTT-AT-T-G
1 TCAGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
* *
19478491 TCAGTTTATCCGACTAGTGATGGGCATACATTTGATATCG
1 TCAGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
* * *
19478531 TCGGTTTATCTGACTAGTGCTGGACACACATTTGATATCG
1 TCAGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
19478571 TCAGTTT
1 TCAGTTT
19478578 GTCTAACTAG
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
36 25 0.24
37 5 0.05
38 4 0.04
39 5 0.05
40 64 0.62
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
TCAGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
Found at i:19495202 original size:42 final size:42
Alignment explanation
Indices: 19495076--19495234 Score: 155
Period size: 42 Copynumber: 3.7 Consensus size: 42
19495066 ATATGTGTTA
19495076 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATT
* * * * * * *
19495119 TATGTATAAGACCATGTCTGGGACATCGACAT-TATATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATA-TTGATT
19495162 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATT
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT
* *
19495204 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
19495235 TGTACGAGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 17
0.74 0.13 0.14
Matches are distributed among these distances:
41 1 0.01
42 53 0.58
43 12 0.13
44 24 0.26
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATT
Found at i:19495576 original size:17 final size:18
Alignment explanation
Indices: 19495532--19495576 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
19495522 TATGAAATTT
19495532 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
19495550 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
19495567 T-ATATGAAAT
1 TGATATGAAAT
19495577 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:19499025 original size:15 final size:15
Alignment explanation
Indices: 19499013--19499044 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19499003 TCACTCTGCT
19499013 TTTACAAACTCTGTC
1 TTTACAAACTCTGTC
19499028 TTTACAAACTCTGTC
1 TTTACAAACTCTGTC
19499043 TT
1 TT
19499045 GATGTATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (15 bp):
TTTACAAACTCTGTC
Found at i:19502101 original size:53 final size:54
Alignment explanation
Indices: 19502001--19502129 Score: 138
Period size: 53 Copynumber: 2.4 Consensus size: 54
19501991 AAAATTATCG
* * *
19502001 AAATACCCTCGAAGGGTAAAATTACTGAAATACCACCGAATGATAAAATGACCA
1 AAATACCCTCGAAAGGTAAAATTACTGAAATACCACCAAAGGATAAAATGACCA
* * **
19502055 AAATACCC-CTAAAGGTAAAATTA-TCGAAATACC-CCTAAAGGGTAAAATGACTG
1 AAATACCCTCGAAAGGTAAAATTACT-GAAATACCACC-AAAGGATAAAATGACCA
**
19502108 AAATACCCTCGATGGGTAAAAT
1 AAATACCCTCGAAAGGTAAAAT
19502130 GACCGTAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
52 3 0.05
53 41 0.66
54 18 0.29
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (54 bp):
AAATACCCTCGAAAGGTAAAATTACTGAAATACCACCAAAGGATAAAATGACCA
Found at i:19502130 original size:27 final size:26
Alignment explanation
Indices: 19502000--19502290 Score: 127
Period size: 27 Copynumber: 10.8 Consensus size: 26
19501990 TAAAATTATC
*
19502000 GAAATACCCTCGAAGGGTAAAATTACT
1 GAAATACCC-CGAAGGGTAAAATGACT
* * *
19502027 GAAATACCACCGAATGATAAAATGACC
1 GAAATACC-CCGAAGGGTAAAATGACT
* * * *
19502054 AAAATACCCCTAAAGGTAAAATTA-T
1 GAAATACCCCGAAGGGTAAAATGACT
*
19502079 CGAAATACCCCTAAAGGGTAAAATGACT
1 -GAAATACCCC-GAAGGGTAAAATGACT
* *
19502107 GAAATACCCTCGATGGGTAAAATGACC
1 GAAATACCC-CGAAGGGTAAAATGACT
* ** * * *
19502134 GTAATTTCCCTATAGGATAAAATGACC
1 GAAATACCCCGA-AGGGTAAAATGACT
* * * *
19502161 GTAATGCCCCTGTAGGGTAAAATAACT
1 GAAATACCCC-GAAGGGTAAAATGACT
* * * * *
19502188 GTAATGCCCCTATAAGGTAAAATGACC
1 GAAATACCCCGA-AGGGTAAAATGACT
* * * * *
19502215 GTAATGCCCCTGTAGGGTAAAATAACC
1 GAAATACCCC-GAAGGGTAAAATGACT
* * * *
19502242 GTAATGCCCTTGTAGGGTAAAATGA-T
1 GAAATACCC-CGAAGGGTAAAATGACT
* *
19502268 CGTAATACCCCTGTAGGGTAAAA
1 -GAAATACCCC-GAAGGGTAAAA
19502291 AGACCGTAAT
Statistics
Matches: 208, Mismatches: 44, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
26 23 0.11
27 182 0.88
28 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (26 bp):
GAAATACCCCGAAGGGTAAAATGACT
Found at i:19502145 original size:80 final size:78
Alignment explanation
Indices: 19501989--19502225 Score: 233
Period size: 80 Copynumber: 2.9 Consensus size: 78
19501979 CGAAAAGGTT
* *
19501989 GTAAAATTATCGAAATA-CCCTCGAAGGGTAAAATTACTGAAATACCACCGAATGATAAAATGAC
1 GTAAAATTATCGAAATACCCCT-GAAGGGTAAAATAACTGAAATACC-CCG-ATGGTAAAATGAC
**
19502053 CAAAATACCCCTAAAG
63 CGTAATACCCCTAAAG
* *
19502069 GTAAAATTATCGAAATACCCCTAAAGGGTAAAATGACTGAAATACCCTCGATGGGTAAAATGACC
1 GTAAAATTATCGAAATACCCCTGAAGGGTAAAATAACTGAAATACCC-CGAT-GGTAAAATGACC
** *
19502134 GTAATTTCCCTATAG
64 GTAATACCCCTAAAG
* * * * * * * *
19502149 GATAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACTGTAATGCCCCTATAAGGTAAAATGAC
1 G-TAAAATTATCGAAATACCCCTGAAGGGTAAAATAACTGAAATACCCCGAT--GGTAAAATGAC
*
19502214 CGTAATGCCCCT
63 CGTAATACCCCT
19502226 GTAGGGTAAA
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.02
80 66 0.50
81 62 0.47
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (78 bp):
GTAAAATTATCGAAATACCCCTGAAGGGTAAAATAACTGAAATACCCCGATGGTAAAATGACCGT
AATACCCCTAAAG
Found at i:19502298 original size:27 final size:27
Alignment explanation
Indices: 19502121--19502321 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
19502111 TACCCTCGAT
** *
19502121 GGGTAAAATGACCGTAATTTCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
19502148 GGATAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
19502175 GGGTAAAATAACTGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
19502202 AGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
19502229 GGGTAAAATAACCGTAATGCCCTTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
19502256 GGGTAAAATGATCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* ** *
19502283 GGGTAAAAAGACCGTAATGCCGTTGTT
1 GGGTAAAATGACCGTAATGCCCCTGTA
19502310 GGGTAAAATGAC
1 GGGTAAAATGAC
19502322 TATTTTACCC
Statistics
Matches: 148, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:19502314 original size:81 final size:81
Alignment explanation
Indices: 19502093--19502318 Score: 249
Period size: 81 Copynumber: 2.8 Consensus size: 81
19502083 ATACCCCTAA
* * * * * ** * *
19502093 AGGGTAAAATGACTGAAATACCCTCGAT-GGGTAAAATGACCGTAATTTCCCTATAGGATAAAAT
1 AGGGTAAAATAACTGTAATACCC-CTATAAGGTAAAAAGACCGTAATGCCCCTGTAGGGTAAAAT
*
19502157 GACCGTAATGCCCCTGT
65 AACCGTAATGCCCCTGT
* *
19502174 AGGGTAAAATAACTGTAATGCCCCTATAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATA
1 AGGGTAAAATAACTGTAATACCCCTATAAGGTAAAAAGACCGTAATGCCCCTGTAGGGTAAAATA
*
19502239 ACCGTAATGCCCTTGT
66 ACCGTAATGCCCCTGT
* * * ** *
19502255 AGGGTAAAATGA-TCGTAATACCCCTGTAGGGTAAAAAGACCGTAATGCCGTTGTTGGGTAAAAT
1 AGGGTAAAATAACT-GTAATACCCCTATAAGGTAAAAAGACCGTAATGCCCCTGTAGGGTAAAAT
19502319 GACTATTTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.03
81 120 0.97
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (81 bp):
AGGGTAAAATAACTGTAATACCCCTATAAGGTAAAAAGACCGTAATGCCCCTGTAGGGTAAAATA
ACCGTAATGCCCCTGT
Found at i:19502370 original size:24 final size:23
Alignment explanation
Indices: 19502340--19502410 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
19502330 CCCTCGGGGT
*
19502340 TAAATGATTGATTTGCTTGTGATG
1 TAAATGAATGATTTG-TTGTGATG
* *
19502364 TAAATGAATGATTTGTCCGAGATG
1 TAAATGAATGATTTGT-TGTGATG
*
19502388 TAAATGACTGATTTGTTTGTGAT
1 TAAATGAATGATTTG-TTGTGAT
19502411 TTGTATGACT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (23 bp):
TAAATGAATGATTTGTTGTGATG
Found at i:19502651 original size:32 final size:32
Alignment explanation
Indices: 19502606--19502719 Score: 140
Period size: 32 Copynumber: 3.5 Consensus size: 32
19502596 TATTGACGGC
*
19502606 TGTGTCCGAATCATATTACCATTACTGATGGCTT
1 TGTGT-CG-ATCATATTACTATTACTGATGGCTT
* *
19502640 TGTGTTGATCATACTACTATTACTGATGG-TT
1 TGTGTCGATCATATTACTATTACTGATGGCTT
*
19502671 ATGTGTCGATCATATTACTACTACTGATGGCTT
1 -TGTGTCGATCATATTACTATTACTGATGGCTT
* *
19502704 TGTGCCAATCATATTA
1 TGTGTCGATCATATTA
19502720 TTGTACTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.03
32 60 0.86
33 3 0.04
34 5 0.07
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (32 bp):
TGTGTCGATCATATTACTATTACTGATGGCTT
Found at i:19502756 original size:22 final size:22
Alignment explanation
Indices: 19502726--19502772 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19502716 ATTATTGTAC
* * *
19502726 TTATGGCTTGTAGCCATTCTAT
1 TTATAGCTTATAGCCATCCTAT
*
19502748 TTATAGCTTATAGCTATCCTAT
1 TTATAGCTTATAGCCATCCTAT
19502770 TTA
1 TTA
19502773 CGGCTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTAT
Found at i:19509922 original size:20 final size:21
Alignment explanation
Indices: 19509897--19509945 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
19509887 AATTGAAGTG
19509897 AATGTGATATTGA-GTTATGA
1 AATGTGATATTGAGGTTATGA
19509917 AATGTGATATTGAGGTTATGA
1 AATGTGATATTGAGGTTATGA
19509938 AATGTGAT
1 AATGTGAT
19509946 TTTATGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.39
Consensus pattern (21 bp):
AATGTGATATTGAGGTTATGA
Found at i:19510035 original size:35 final size:35
Alignment explanation
Indices: 19509976--19510106 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 35
19509966 TAATTGATAT
* *
19509976 TGTCGATTCATCTGACTA-TCACTGGGCGCAATTTC
1 TGTCAATTTATCTGACTAGT-ACTGGGCGCAATTTC
* * *
19510011 TGTCAATTTATCTGATTAGTACTGGGCACAACTAT-
1 TGTCAATTTATCTGACTAGTACTGGGCGCAA-TTTC
* * ** *
19510046 TGTC-AGTTATCCGACTAGCGCTGGGCGCAACTTC
1 TGTCAATTTATCTGACTAGTACTGGGCGCAATTTC
* *
19510080 TGTCAGTTTATCTGACTAGTGCTGGGC
1 TGTCAATTTATCTGACTAGTACTGGGC
19510107 ACACTCTTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
33 1 0.01
34 24 0.32
35 47 0.63
36 3 0.04
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (35 bp):
TGTCAATTTATCTGACTAGTACTGGGCGCAATTTC
Found at i:19515279 original size:18 final size:18
Alignment explanation
Indices: 19515252--19515311 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
19515242 TTTTTAAAAA
19515252 TATAAA-ATTTTGATTTT
1 TATAAATATTTTGATTTT
* *
19515269 TATAAATATTTTAAATTT
1 TATAAATATTTTGATTTT
*
19515287 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTG-ATTTT
19515307 T-TAAA
1 TATAAA
19515312 ATTATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 6 0.18
18 14 0.41
19 9 0.26
20 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTGATTTT
Found at i:19515312 original size:20 final size:19
Alignment explanation
Indices: 19515264--19515319 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
19515254 TAAAATTTTG
19515264 ATTTTTATAAA-TATTTTAA
1 ATTTTTA-AAATTATTTTAA
*
19515283 ATTTTAAAAATTATTTTGAA
1 ATTTTTAAAATTATTTT-AA
*
19515303 TTTTTTAAAATTATTTT
1 ATTTTTAAAATTATTTT
19515320 TGTTGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 12 0.38
20 17 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTTAAAATTATTTTAA
Found at i:19516710 original size:9 final size:9
Alignment explanation
Indices: 19516680--19516737 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
19516670 TTTGGTTAAA
19516680 AATTAACCG
1 AATTAACCG
*
19516689 AATT-ACCTA
1 AATTAACC-G
19516698 AATTAACCG
1 AATTAACCG
19516707 AATTAACCG
1 AATTAACCG
*
19516716 AATTACCCG
1 AATTAACCG
*
19516725 AATTAACCA
1 AATTAACCG
19516734 AATT
1 AATT
19516738 GAATCACTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.07
9 36 0.86
10 3 0.07
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:19516713 original size:27 final size:27
Alignment explanation
Indices: 19516679--19516737 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
19516669 TTTTGGTTAA
*
19516679 AAATTAACCGAATTACCTAAATTAACC
1 AAATTAACCGAATTACCCAAATTAACC
* *
19516706 GAATTAACCGAATTACCCGAATTAACC
1 AAATTAACCGAATTACCCAAATTAACC
19516733 AAATT
1 AAATT
19516738 GAATCACTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATTAACCGAATTACCCAAATTAACC
Found at i:19516867 original size:18 final size:18
Alignment explanation
Indices: 19516844--19516878 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19516834 TAATTTTATG
19516844 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
19516862 ATTGGGTTGGGTTGGGT
1 ATTGGGTTGGGTTGGGT
19516879 TGAATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:19516889 original size:23 final size:23
Alignment explanation
Indices: 19516845--19516892 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
19516835 AATTTTATGA
**
19516845 TTGGGTTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTTGAATAATTGGG
*
19516868 TTGGGTTGGGTTGAATACTTGGG
1 TTGGGTTGGGTTGAATAATTGGG
19516891 TT
1 TT
19516893 TAGATTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.46, T:0.42
Consensus pattern (23 bp):
TTGGGTTGGGTTGAATAATTGGG
Found at i:19522538 original size:44 final size:44
Alignment explanation
Indices: 19522456--19522811 Score: 216
Period size: 44 Copynumber: 7.6 Consensus size: 44
19522446 ATTTTAACCC
* *
19522456 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
* * * *
19522500 GCTTCGCTGTAATCTCAGGGAGATAAGATTTTTGGCTTCAATCTGACGT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAA--T--C-T
* * * * *
19522549 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTCTA-TTTTAATCC
1 G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTCAATCT
* * *
19522598 GCTCCACTGTAATTTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
* * *
19522642 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCCATCTGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATC---T
* * * * * * * *
19522689 GCGACCTACTCTATTGTAA-CTTCAGAGAGATAAAATCCTCCA-TTTTAATCC
1 --G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTCAATCT
* *
19522740 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
*
19522784 GCTCCGCTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
19522812 CCTGTGGCTT
Statistics
Matches: 232, Mismatches: 52, Indels: 56
0.68 0.15 0.16
Matches are distributed among these distances:
43 5 0.02
44 148 0.64
45 3 0.01
46 3 0.01
47 5 0.02
48 1 0.00
49 5 0.02
50 1 0.00
51 4 0.02
52 2 0.01
53 4 0.02
54 47 0.20
55 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCT
Found at i:19522827 original size:44 final size:44
Alignment explanation
Indices: 19522735--19522830 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
19522725 CCTCCATTTT
* * * *
19522735 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGACTACTAGCTTA
* * *
19522779 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCT-GTGGCTTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-CTACTAGCTTA
19522823 AATCTGCT
1 AATCTGCT
19522831 TCCTTACACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGACTACTAGCTTA
Found at i:19522828 original size:142 final size:142
Alignment explanation
Indices: 19522400--19522811 Score: 680
Period size: 142 Copynumber: 2.9 Consensus size: 142
19522390 GAGATAAGAC
* * * * * *
19522400 CTGATGCGATCTACTCTGCTATAAGTTCAGAGAAATAAGATCCTTTATTTTAACCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
*
19522465 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
19522530 TTTGGCTTCAAT
131 TCTGGCTTCAAT
* *
19522542 CTGACGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
*
19522607 TAATTTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
19522672 TCTGGCTTCCAT
131 TCTGGCTTCAAT
* * * *
19522684 CTGATGCGACCTACTCTATTGTAACTTCAGAGAGATAAAATCCTCCATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
19522749 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
19522812 CCTGTGGCTT
Statistics
Matches: 251, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 251 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTCTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:19535243 original size:22 final size:22
Alignment explanation
Indices: 19535215--19535263 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
19535205 GAAATATTTG
19535215 AAATAAAACATAAAATAA-ATG-A
1 AAATAAAA-AT-AAATAATATGTA
19535237 AAATAAAAATAAATAATATGTA
1 AAATAAAAATAAATAATATGTA
19535259 AAATA
1 AAATA
19535264 TAAAGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 14 0.56
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAAAATAAATAATATGTA
Found at i:19537517 original size:21 final size:22
Alignment explanation
Indices: 19537487--19537531 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
19537477 GAGCAAATTG
19537487 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
19537509 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
19537530 TT
1 TT
19537532 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:19540990 original size:27 final size:27
Alignment explanation
Indices: 19540951--19541017 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
19540941 AACTGCATTA
19540951 TGTGAGTTGTCTCCACA-AGTGGTGAAG
1 TGTGAGTTGTCTCCACACA-TGGTGAAG
* *
19540978 TGTGATTTTTCTCCACACATGGTGAAG
1 TGTGAGTTGTCTCCACACATGGTGAAG
* *
19541005 TGCGAGATGTCTC
1 TGTGAGTTGTCTC
19541018 TACAACTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (27 bp):
TGTGAGTTGTCTCCACACATGGTGAAG
Found at i:19541143 original size:27 final size:27
Alignment explanation
Indices: 19541112--19541178 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
19541102 AAGTGGCAAT
* * * *
19541112 GTGCTAGCTGGCCTACTAATTGTCAAA
1 GTGCTAGCTGACCTACAAAGTATCAAA
* *
19541139 GTGCTAGTTGACCTACAAAGTATGAAA
1 GTGCTAGCTGACCTACAAAGTATCAAA
*
19541166 GTGCTAGTTGACC
1 GTGCTAGCTGACC
19541179 CATGAGCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (27 bp):
GTGCTAGCTGACCTACAAAGTATCAAA
Found at i:19545284 original size:27 final size:27
Alignment explanation
Indices: 19545242--19545293 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19545232 ACAAGATGCG
19545242 AGTTGTCTCCACACATCGCAAAGTGCA
1 AGTTGTCTCCACACATCGCAAAGTGCA
* * *
19545269 AGTTGTCTCCATACATGGCGAAGTG
1 AGTTGTCTCCACACATCGCAAAGTG
19545294 TGAGATGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (27 bp):
AGTTGTCTCCACACATCGCAAAGTGCA
Found at i:19545302 original size:27 final size:27
Alignment explanation
Indices: 19545245--19545306 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19545235 AGATGCGAGT
*
19545245 TGTCTCCACACATCGCAAAGTGCAAGT
1 TGTCTCCACACATCGCAAAGTGCAAGA
* * * **
19545272 TGTCTCCATACATGGCGAAGTGTGAGA
1 TGTCTCCACACATCGCAAAGTGCAAGA
19545299 TGTCTCCA
1 TGTCTCCA
19545307 AAAGTGGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (27 bp):
TGTCTCCACACATCGCAAAGTGCAAGA
Found at i:19563248 original size:43 final size:43
Alignment explanation
Indices: 19563138--19563249 Score: 99
Period size: 43 Copynumber: 2.6 Consensus size: 43
19563128 TGTTTTCGTA
* * * *
19563138 TAAGACCACGTCTGAGACGGTGGCTTCGAATTGTATATACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGAATTGTATATACATG
*
19563181 AAAGACC-CTGTCTGGG--GTAGTGGCATCG-ATATGTGAT-TACATG
1 TAAGACCAC-GTCTGGGACGT--TGGCATCGAAT-TGT-ATATACATG
19563224 TAAGACCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
19563250 TGTATGAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
41 1 0.02
42 3 0.05
43 46 0.84
44 3 0.05
45 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGAATTGTATATACATG
Found at i:19567922 original size:13 final size:13
Alignment explanation
Indices: 19567904--19567929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19567894 CCCAACAACT
19567904 TACTGAATTTGCA
1 TACTGAATTTGCA
19567917 TACTGAATTTGCA
1 TACTGAATTTGCA
19567930 CAAGTGCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TACTGAATTTGCA
Found at i:19575097 original size:18 final size:18
Alignment explanation
Indices: 19575064--19575110 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
19575054 TTTTTCAACA
* *
19575064 TCTTTTTCTATTTCAATT
1 TCTTTTTCAATCTCAATT
19575082 T-TTTTCTCAATCTCAATT
1 TCTTTT-TCAATCTCAATT
19575100 TCTTTTTCAAT
1 TCTTTTTCAAT
19575111 TTTCTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTTTTCAATCTCAATT
Found at i:19575109 original size:12 final size:12
Alignment explanation
Indices: 19575094--19575224 Score: 63
Period size: 12 Copynumber: 10.9 Consensus size: 12
19575084 TTTCTCAATC
19575094 TCAATTTCTTTT
1 TCAATTTCTTTT
19575106 TCAATTTTCTTTTCT
1 TCAA-TTTC-TTT-T
*
19575121 TCATTTTCTTTT
1 TCAATTTCTTTT
** **
19575133 TCTCTCACTTTT
1 TCAATTTCTTTT
*
19575145 TCGATTTCTTTT
1 TCAATTTCTTTT
* **
19575157 TC-TTTTGCGATT
1 TCAATTT-CTTTT
*
19575169 TCATTTTCTTTT
1 TCAATTTCTTTT
**
19575181 TCGTTTTCTTTT
1 TCAATTTCTTTT
* *
19575193 T--GTTT-TCTT
1 TCAATTTCTTTT
19575202 TCAATTTCTTTT
1 TCAATTTCTTTT
*
19575214 TCAATCTCTTT
1 TCAATTTCTTT
19575225 CTCCTTTTCT
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
9 4 0.04
10 3 0.03
11 6 0.07
12 56 0.62
13 11 0.12
14 7 0.08
15 4 0.04
ACGTcount: A:0.10, C:0.19, G:0.04, T:0.67
Consensus pattern (12 bp):
TCAATTTCTTTT
Found at i:19575161 original size:18 final size:18
Alignment explanation
Indices: 19575140--19575198 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
19575130 TTTTCTCTCA
19575140 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* *
19575158 CTTTTGCGATTTCATTTT
1 CTTTTTCGATTTCTTTTT
*
19575176 CTTTTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
19575194 GTTTT
1 CTTTT
19575199 CTTTCAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.05, C:0.15, G:0.08, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:19575197 original size:11 final size:12
Alignment explanation
Indices: 19575098--19575202 Score: 72
Period size: 12 Copynumber: 8.6 Consensus size: 12
19575088 TCAATCTCAA
*
19575098 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
19575111 TTTCTTTTCTTCAT
1 TTTC-TTT-TTCGT
19575125 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
19575136 CTCACTTTTTCGA
1 -TTTCTTTTTCGT
19575149 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
19575160 TTTGCGATTTCAT
1 TTT-CTTTTTCGT
19575173 TTTCTTTTTCGT
1 TTTCTTTTTCGT
19575185 TTTCTTTTT-GT
1 TTTCTTTTTCGT
19575196 TTTCTTT
1 TTTCTTT
19575203 CAATTTCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
11 13 0.17
12 39 0.52
13 11 0.15
14 9 0.12
15 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.05, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:19575215 original size:6 final size:6
Alignment explanation
Indices: 19575098--19575202 Score: 59
Period size: 6 Copynumber: 17.2 Consensus size: 6
19575088 TCAATCTCAA
* * * ** **
19575098 TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * * *
19575149 TTTCTT TTTCTT TTGCGA TTTCAT TTTCTT TTTCGT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
19575196 TTTCTT T
1 TTTCTT T
19575203 CAATTTCTTT
Statistics
Matches: 70, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
5 4 0.06
6 54 0.77
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.05, T:0.70
Consensus pattern (6 bp):
TTTCTT
Found at i:19576170 original size:32 final size:28
Alignment explanation
Indices: 19576134--19576200 Score: 71
Period size: 32 Copynumber: 2.2 Consensus size: 28
19576124 TTCTTTCTTC
*
19576134 TTTTTTTTTAACTCGATTTTTTTGTCACTTT
1 TTTTTTTTTTACTCGATTTTTTTG--A-TTT
**
19576165 TTTTTTCTTTTTTTCGATTTTTTTGATTT
1 TTTTTT-TTTTACTCGATTTTTTTGATTT
19576194 TTTTTTT
1 TTTTTTT
19576201 GAATTTCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.03
29 9 0.28
30 1 0.03
31 6 0.19
32 15 0.47
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (28 bp):
TTTTTTTTTTACTCGATTTTTTTGATTT
Found at i:19581268 original size:28 final size:28
Alignment explanation
Indices: 19581236--19581315 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
19581226 TGGAATATGG
19581236 GCCTTAGCCCATTTCAGTAACAGTGTGA
1 GCCTTAGCCCATTTCAGTAACAGTGTGA
* * *
19581264 GCCTTAACCCAATAT-AGTAACAGTGTGG
1 GCCTTAGCCC-ATTTCAGTAACAGTGTGA
* *
19581292 GCCTTAGCCCAATACAGTAACAGT
1 GCCTTAGCCCATTTCAGTAACAGT
19581316 ACAGCGCAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 39 0.91
29 3 0.07
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (28 bp):
GCCTTAGCCCATTTCAGTAACAGTGTGA
Found at i:19581750 original size:27 final size:27
Alignment explanation
Indices: 19581692--19581871 Score: 197
Period size: 27 Copynumber: 6.7 Consensus size: 27
19581682 CCGACTCCTA
*
19581692 AGGGTATATTAGA-CATTTTACCCTAT-G
1 AGGGTAT-TTCGATCATTTTACCCT-TCG
* *
19581719 GGGGTATTTC-AGTTATTTTACCCTTCG
1 AGGGTATTTCGA-TCATTTTACCCTTCG
* **
19581746 AGGGTTTTTCGATCATTTTACCCTTTA
1 AGGGTATTTCGATCATTTTACCCTTCG
* *
19581773 AGGGTATTTCGGTCA-TTTATCCTTCG
1 AGGGTATTTCGATCATTTTACCCTTCG
*
19581799 AGGGTATTTCGATCATTTTACCCTTTG
1 AGGGTATTTCGATCATTTTACCCTTCG
* *
19581826 GGGGTATTTTGATCATTTTACCCTTCG
1 AGGGTATTTCGATCATTTTACCCTTCG
*
19581853 GGGGTATTTCGATCATTTT
1 AGGGTATTTCGATCATTTT
19581872 CCCACAAATC
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 25 0.20
27 101 0.79
28 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
AGGGTATTTCGATCATTTTACCCTTCG
Found at i:19581778 original size:54 final size:54
Alignment explanation
Indices: 19581692--19581871 Score: 231
Period size: 54 Copynumber: 3.4 Consensus size: 54
19581682 CCGACTCCTA
* * *
19581692 AGGGTATATTAGA-CATTTTACCCTATGGGGGTATTTCAGTTATTTTACCCTTCG
1 AGGGTAT-TTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCG
* ** * *
19581746 AGGGTTTTTCGATCATTTTACCCTTTAAGGGTATTTCGGTCA-TTTATCCTTCG
1 AGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCG
*
19581799 AGGGTATTTCGATCATTTTACCCTTTGGGGGTATTT-TGATCATTTTACCCTTCG
1 AGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAG-TCATTTTACCCTTCG
*
19581853 GGGGTATTTCGATCATTTT
1 AGGGTATTTCGATCATTTT
19581872 CCCACAAATC
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 50 0.46
54 58 0.53
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (54 bp):
AGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCAGTCATTTTACCCTTCG
Found at i:19581840 original size:80 final size:80
Alignment explanation
Indices: 19581720--19581870 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
19581710 TACCCTATGG
* * *
19581720 GGGTATTTCAGTTATTTTACCCTTCGAGGGTTTTTCGATCATTTTACCCTTTAAGGGTATTTCGG
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTTTTTCGATCATTTTACCCTTCAAGGGTATTTCGA
19581785 TCATTTATCCTTCGA
66 TCATTTATCCTTCGA
* * **
19581800 GGGTATTTC-GATCATTTTACCCTTTGGGGGTATTTT-GATCATTTTACCCTTCGGGGGTATTTC
1 GGGTATTTCAG-TCATTTTACCCTTCGAGGGT-TTTTCGATCATTTTACCCTTCAAGGGTATTTC
19581863 GATCATTT
64 GATCATTT
19581871 TCCCACAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.02
80 57 0.92
81 4 0.06
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.45
Consensus pattern (80 bp):
GGGTATTTCAGTCATTTTACCCTTCGAGGGTTTTTCGATCATTTTACCCTTCAAGGGTATTTCGA
TCATTTATCCTTCGA
Found at i:19584564 original size:28 final size:27
Alignment explanation
Indices: 19584528--19584612 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 27
19584518 AACAGTGGAA
* *
19584528 TGTGGGCCTTAGCCCATTTCAGTAACAT
1 TGTGGGCCTTAGCCCATAT-AGTAACAG
* *
19584556 TGTGAGCCTTAACCCAATATAGTAACAG
1 TGTGGGCCTTAGCCC-ATATAGTAACAG
*
19584584 TGTGGGCCTTAGCCCAATAGAGTAACAG
1 TGTGGGCCTTAGCCC-ATATAGTAACAG
19584612 T
1 T
19584613 ATAGTGCAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 46 0.94
29 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (27 bp):
TGTGGGCCTTAGCCCATATAGTAACAG
Found at i:19585342 original size:25 final size:23
Alignment explanation
Indices: 19585267--19585530 Score: 163
Period size: 25 Copynumber: 11.2 Consensus size: 23
19585257 ATTATTCATC
* *
19585267 AAATTGGACAGCAATAATATGCTCT
1 AAATTGGACAGC--TAATATACTCA
*
19585292 AAA-TGGACAGC-ATTATACATC-
1 AAATTGGACAGCTAATATAC-TCA
* *
19585313 GAATTAGACAGCTTAAATATACTCA
1 AAATTGGACAGC-T-AATATACTCA
* *
19585338 AAATTGGACAGC-ATTATACATTA
1 AAATTGGACAGCTAATATAC-TCA
19585361 AAA-TGGACAGCATCAATATACTCA
1 AAATTGGACAGC-T-AATATACTCA
* *
19585385 AAATTGGACAGC-ATTATACATTA
1 AAATTGGACAGCTAATATAC-TCA
*
19585408 AAA-TGGACAACATCAATATACTCA
1 AAATTGGACAGC-T-AATATACTCA
* *
19585432 AAATTGGACAGC-ATTATACATTA
1 AAATTGGACAGCTAATATAC-TCA
*
19585455 AAA-TGGACAACATCAATATACTCA
1 AAATTGGACAGC-T-AATATACTCA
* *
19585479 AAATTGGACAGC-ATTATACATTA
1 AAATTGGACAGCTAATATAC-TCA
19585502 AAA-TGGACAGCATCAATATACTCA
1 AAATTGGACAGC-T-AATATACTCA
19585526 AAATT
1 AAATT
19585531 TATAACACAA
Statistics
Matches: 186, Mismatches: 27, Indels: 52
0.70 0.10 0.20
Matches are distributed among these distances:
21 7 0.04
22 63 0.34
23 20 0.11
24 30 0.16
25 66 0.35
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (23 bp):
AAATTGGACAGCTAATATACTCA
Found at i:19585346 original size:47 final size:47
Alignment explanation
Indices: 19585247--19585530 Score: 419
Period size: 47 Copynumber: 6.0 Consensus size: 47
19585237 CAACCCTGTT
* * * * *
19585247 TTGGACAGCAATTATTCATCAAATTGGACAGCAAT-AATATGCTCTAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACTCAAAA
** * * * *
19585295 -TGGACAGCATTATACATCGAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
19585341 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
*
19585388 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
*
19585435 TTGGACAGCATTATACATTAAAATGGACAACATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
19585482 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
19585529 TT
1 TT
19585531 TATAACACAA
Statistics
Matches: 220, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 30 0.14
47 189 0.86
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
Found at i:19598241 original size:25 final size:25
Alignment explanation
Indices: 19598170--19598243 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
19598160 GGATGTCACA
* *
19598170 ATCAATATACTCAAAATTGGACAGG
1 ATCAATATACTTAAAATTGGACAGC
*
19598195 AT---TATACATTAAAA-TGGGCAGC
1 ATCAATATAC-TTAAAATTGGACAGC
*
19598217 ATCAATATACTTAAAATTTGACAGC
1 ATCAATATACTTAAAATTGGACAGC
19598242 AT
1 AT
19598244 TGTACATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
22 13 0.33
23 5 0.13
24 6 0.15
25 15 0.38
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (25 bp):
ATCAATATACTTAAAATTGGACAGC
Found at i:19599002 original size:29 final size:29
Alignment explanation
Indices: 19598960--19599017 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
19598950 ACTATAAGCA
*
19598960 TTTCTTCAAATTTAAGTACAAGGTCAAGT
1 TTTCTCCAAATTTAAGTACAAGGTCAAGT
19598989 TTTCTCCAAATTTAAGTACAAGGTCAAGT
1 TTTCTCCAAATTTAAGTACAAGGTCAAGT
19599018 ACATTATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (29 bp):
TTTCTCCAAATTTAAGTACAAGGTCAAGT
Found at i:19599252 original size:28 final size:27
Alignment explanation
Indices: 19599220--19599318 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
19599210 TTAATAAGTA
*
19599220 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
19599248 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
*
19599276 CGCACACTTAGTGCATT-TCAATTAAAGT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
19599304 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19599319 AATCTCATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 54 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:19601038 original size:27 final size:27
Alignment explanation
Indices: 19600702--19601034 Score: 348
Period size: 27 Copynumber: 12.3 Consensus size: 27
19600692 TATCCTATAG
*
19600702 GGGTATTTCGGTCATTTTACCTTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
19600729 GGGTATTTCGATCATTTTATCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * *
19600756 GATTATTTCGGTCATTTTATCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
19600783 GGGTATTTAGGTTATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
19600810 GGGTATTTCAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
19600837 AGGTATTTCGGTCATTTTACCCTT-TA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
19600863 GGGGTATTTTGGTCATTTTACCCTTC-A
1 -GGGTATTTCGGTCATTTTACCCTTCGA
*
19600890 GGGGTATTTCGGTCATTTTACCCTTCAA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* * * *
19600918 GGGTATTTCAGTTATTTAACCC-TCCA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * *
19600944 GGGGTATTTCAGTTATTTTACCATTCGG
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* * * *
19600972 GGGTATTTTGATTATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
**
19600999 GGGTATTTCAATCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
19601026 GGGTATTTC
1 GGGTATTTC
19601035 AATCCTTTGC
Statistics
Matches: 259, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 252 0.97
28 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:19605720 original size:43 final size:43
Alignment explanation
Indices: 19605619--19605771 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 43
19605609 ATAAACAATG
* ** *
19605619 TTCTCATTCTTTTCCCTGATGACACTTAATTCTTCACAATTTCCTTT
1 TTCTC-TTCTTTT-TCTGATGAC-CTTTCTTCTTCCCAATTTCC-TT
* **
19605666 TTCTTCTTTCTTTTTCTGGTGATGTTTCTTCTTCCCAATTTCCTT
1 TTC-TC-TTCTTTTTCTGATGACCTTTCTTCTTCCCAATTTCCTT
* * *
19605711 TTCTCTTCTTTTTCTCTATGACCTTTCTTCTTCCAAATTTCGTT
1 TTCTCTTCTTTTTCT-GATGACCTTTCTTCTTCCCAATTTCCTT
19605755 TTCTCTTCTTTTCTCTG
1 TTCTCTTCTTTT-TCTG
19605772 CTAAAAACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
43 10 0.11
44 36 0.41
45 8 0.09
46 16 0.18
47 9 0.10
48 9 0.10
ACGTcount: A:0.11, C:0.27, G:0.06, T:0.56
Consensus pattern (43 bp):
TTCTCTTCTTTTTCTGATGACCTTTCTTCTTCCCAATTTCCTT
Found at i:19618158 original size:28 final size:28
Alignment explanation
Indices: 19618034--19618159 Score: 75
Period size: 28 Copynumber: 4.5 Consensus size: 28
19618024 GTTAAAAAAT
* * *
19618034 AATAGCCCTTGTGGC-AAATCATGAACG
1 AATAGCCCTTGTGGCGAATTCTTGAAAG
* * *
19618061 ATTAG-CCTATTTGGCGAATT-TCGAAAAG
1 AATAGCCCT-TGTGGCGAATTCTTG-AAAG
* **
19618089 AATAGCCTTTGTGGTAAATATC-TGAAAG
1 AATAGCCCTTGTGGCGAAT-TCTTGAAAG
*
19618117 AATAG--CTTGAGTGGCGAATTCTTGAACG
1 AATAGCCCTT--GTGGCGAATTCTTGAAAG
19618145 AATAGCCCTTGTGGC
1 AATAGCCCTTGTGGC
19618160 AAGATTTTGG
Statistics
Matches: 72, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
26 5 0.07
27 12 0.17
28 48 0.67
29 4 0.06
30 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
AATAGCCCTTGTGGCGAATTCTTGAAAG
Found at i:19622586 original size:11 final size:11
Alignment explanation
Indices: 19622566--19622599 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
19622556 AGAATACAAA
19622566 TTTCTTTTTTC
1 TTTCTTTTTTC
19622577 TTTCTATTTTT-
1 TTTCT-TTTTTC
19622588 TTTCTTTTTTC
1 TTTCTTTTTTC
19622599 T
1 T
19622600 GCTTTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.24
11 11 0.52
12 5 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:19623331 original size:26 final size:27
Alignment explanation
Indices: 19623275--19623344 Score: 115
Period size: 26 Copynumber: 2.6 Consensus size: 27
19623265 AAAAATAAAA
19623275 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATA-TATAACTTTTTTTT
*
19623303 ATTTATCAAAATATATAA-TTTTTTTT
1 ATTTACCAAAATATATAACTTTTTTTT
19623329 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
19623345 CAAAAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 23 0.57
27 5 0.12
28 12 0.30
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTACCAAAATATATAACTTTTTTTT
Found at i:19623442 original size:27 final size:27
Alignment explanation
Indices: 19623412--19623478 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
19623402 TGCCAATGGG
19623412 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
19623439 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
19623466 ATTGGCGGCACCA
1 ATTGGCGGCACCA
19623479 GTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:19623520 original size:4 final size:4
Alignment explanation
Indices: 19623511--19623656 Score: 79
Period size: 4 Copynumber: 36.0 Consensus size: 4
19623501 GAAGGAGAGG
* * * *
19623511 GAAA GAAA GAAA GAGA GAAA GAAA GGAA GAAA GGAGAG GGAA GAAA G-AA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA
* * * *
19623560 -AAA GAAG GAAA GAAA GGGAAA G-GA GAAGA GAAA AAAA GAAA G-AA GGAA
1 GAAA GAAA GAAA GAAA --GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA
* * *
19623608 G-AA GAAGA GAAG GAAAA GAAAA GAAA -AAA GAAA AAAA GAAG GAAA GAAA
1 GAAA GAA-A GAAA G-AAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
19623657 AGGAAAGGAG
Statistics
Matches: 109, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
3 15 0.14
4 70 0.64
5 19 0.17
6 5 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:19623573 original size:32 final size:33
Alignment explanation
Indices: 19623508--19623604 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 33
19623498 GCAGAAGGAG
19623508 AGGGAAA-GA-AAGAAAGAGAGAAAGAAAGGAAGAA
1 AGGGAAAGGAGAAGAAAGA-A-AAAG-AAGGAAGAA
*
19623542 A-GGAGAGG-GAAGAAAGAAAAAGAAGGAAAGAA
1 AGGGAAAGGAGAAGAAAGAAAAAGAAGG-AAGAA
*
19623574 AGGGAAAGGAGAAGAGAA-AAAAAGAAAGAAG
1 AGGGAAAGGAGAAGA-AAGAAAAAGAAGGAAG
19623605 GAAGAAGAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
31 4 0.07
32 10 0.19
33 14 0.26
34 24 0.44
35 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (33 bp):
AGGGAAAGGAGAAGAAAGAAAAAGAAGGAAGAA
Found at i:19623603 original size:48 final size:48
Alignment explanation
Indices: 19623551--19623689 Score: 138
Period size: 48 Copynumber: 2.9 Consensus size: 48
19623541 AAGGAGAGGG
* * * *
19623551 AAGAAAGAAAAAGAAG-GAAAGAAAGGGAAAGGAGAAGAGAAAAAAAGA
1 AAGAAAGAAAAAGAAGAGAAAGAAA-AGAAAAGAAAAAAGAAAAAAAGA
* * *
19623599 AAGAAGGAAGAAGAAGAGAAGGAAAAGAAAAGAAAAAAGAAAAAAAGA
1 AAGAAAGAAAAAGAAGAGAAAGAAAAGAAAAGAAAAAAGAAAAAAAGA
* * *
19623647 AGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAA-AAAAAAGAA
1 AAGAAAGAAAAAG-AA-GAGAA-AGAAAAGAAAAGAAAAAAGAA
19623690 GAAGAAGAGG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
48 42 0.57
49 9 0.12
50 14 0.19
51 9 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (48 bp):
AAGAAAGAAAAAGAAGAGAAAGAAAAGAAAAGAAAAAAGAAAAAAAGA
Found at i:19623630 original size:29 final size:29
Alignment explanation
Indices: 19623550--19623698 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 29
19623540 AAAGGAGAGG
19623550 GAAGAAAGAA-AA-AGAAGG-AAAG-AAA
1 GAAGAAAGAAGAAGAGAAGGAAAAGAAAA
* * *
19623575 G-GGAAAGGAGAAGAGAA-AAAAAG-AAA
1 GAAGAAAGAAGAAGAGAAGGAAAAGAAAA
*
19623601 GAAGGAAGAAGAAGAGAAGGAAAAGAAAA
1 GAAGAAAGAAGAAGAGAAGGAAAAGAAAA
* * *
19623630 GAAAAAAGAAAAAAAGAAGG-AAAGAAAA
1 GAAGAAAGAAGAAGAGAAGGAAAAGAAAA
*
19623658 G--GAAAGGAGAAGAGAAGAGAAAA-AAAA
1 GAAGAAAGAAGAAGAGAAG-GAAAAGAAAA
19623685 -AAG-AAGAAGAAGAG
1 GAAGAAAGAAGAAGAG
19623699 GGAAGGAAGG
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.06
25 3 0.03
26 24 0.24
27 28 0.29
28 18 0.18
29 19 0.19
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
GAAGAAAGAAGAAGAGAAGGAAAAGAAAA
Found at i:19623647 original size:82 final size:84
Alignment explanation
Indices: 19623558--19623722 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 84
19623548 GGGAAGAAAG
* *
19623558 AAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA-A-AAAAGAAAGAAGGAAGAAGAAGA-GAAG
1 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAA-AAA-AAAGAAGAAGAAGAGGAAG
*
19623620 GAA-AAGAAAAGAAAAAAGAA
64 GAAGAAAAAAAGAAAAAAGAA
19623640 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAAAAAAAAGAAGAAGAAGAGGGAAGG
1 AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAAAAAAAAGAAGAAGAAGA-GGAAGG
19623705 AAGGAAAAAAAGAAAAAA
65 AA-GAAAAAAAGAAAAAA
19623723 AGGTAATTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
82 46 0.62
83 4 0.05
84 11 0.15
86 13 0.18
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (84 bp):
AAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAGAAAAAAAAAAGAAGAAGAAGAGGAAGGA
AGAAAAAAAGAAAAAAGAA
Found at i:19623657 original size:33 final size:32
Alignment explanation
Indices: 19623579--19623663 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 32
19623569 AAGAAAGGGA
* * *
19623579 AAGGAGAAGAGAAA-AAAAGAAAGAAGGAAGAAG
1 AAGGA-AAGA-AAAGAAAAGAAAAAAGAAAAAAG
*
19623612 AAGAGAAGGAAAAGAAAAGAAAAAAGAAAAAAAG
1 AAG-GAAAGAAAAGAAAAGAAAAAAG-AAAAAAG
*
19623646 AAGGAAAGAAAAGGAAAG
1 AAGGAAAGAAAAGAAAAG
19623664 GAGAAGAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
32 3 0.07
33 30 0.70
34 10 0.23
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (32 bp):
AAGGAAAGAAAAGAAAAGAAAAAAGAAAAAAG
Found at i:19623689 original size:34 final size:33
Alignment explanation
Indices: 19623640--19623725 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 33
19623630 GAAAAAAGAA
19623640 AAAAAGAAGGAAAGAAAAGGAA-AGGAGAAGAGAAGAG
1 AAAAA-AA-GAAAGAAAAGGAAGAGG-GAAG-GAAG-G
19623677 AAAAAAA-AAAGAAGAA-GAAGAGGGAAGGAAGG
1 AAAAAAAGAAAGAA-AAGGAAGAGGGAAGGAAGG
19623709 AAAAAAAGAAA-AAAAGG
1 AAAAAAAGAAAGAAAAGG
19623726 TAATTTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
31 2 0.04
32 11 0.24
33 7 0.16
34 13 0.29
35 5 0.11
36 2 0.04
37 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (33 bp):
AAAAAAAGAAAGAAAAGGAAGAGGGAAGGAAGG
Found at i:19630093 original size:12 final size:12
Alignment explanation
Indices: 19630078--19630102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19630068 ATTTATACTT
19630078 AAAATAATACAC
1 AAAATAATACAC
19630090 AAAATAATACAC
1 AAAATAATACAC
19630102 A
1 A
19630103 CTAAAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAATACAC
Found at i:19630130 original size:36 final size:35
Alignment explanation
Indices: 19630084--19630168 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 35
19630074 ACTTAAAATA
*
19630084 ATACACAAAATAATACACACTAAAATTATTAATTTT
1 ATACTCAAAATAATACACACTAAAATTATTAA-TTT
19630120 ATACTCAAAATAATACACACTAAAATTATTAATTT
1 ATACTCAAAATAATACACACTAAAATTATTAATTT
*
19630155 -TACTAAAAATAATA
1 ATACTCAAAATAATA
19630169 ACTAACTAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 13 0.28
35 3 0.06
36 31 0.66
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (35 bp):
ATACTCAAAATAATACACACTAAAATTATTAATTT
Found at i:19630329 original size:3 final size:3
Alignment explanation
Indices: 19630321--19630346 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19630311 TCTTAATACT
19630321 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
19630347 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19630351 original size:3 final size:3
Alignment explanation
Indices: 19630345--19630382 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
19630335 CAACAACAAC
*
19630345 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
19630383 CTTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19630452 original size:19 final size:21
Alignment explanation
Indices: 19630428--19630466 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19630418 ACTAAAACAA
*
19630428 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
19630447 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
19630467 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:19630509 original size:11 final size:11
Alignment explanation
Indices: 19630493--19630529 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
19630483 AAAATACCTC
19630493 CTTTTTCTCCT
1 CTTTTTCTCCT
19630504 CTTTTTCT-CT
1 CTTTTTCTCCT
*
19630514 CTTTTTCTCTT
1 CTTTTTCTCCT
19630525 CTTTT
1 CTTTT
19630530 CCGTGCCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTTCTCCT
Found at i:19630682 original size:27 final size:27
Alignment explanation
Indices: 19630610--19630676 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
19630600 ATAATACGAG
*
19630610 TGGTGCCGCCAACGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
* *
19630637 TGGTGCCGCAAATGGCATTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
19630664 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
19630677 TCCATTAGCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.22
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:19630767 original size:26 final size:27
Alignment explanation
Indices: 19630733--19630804 Score: 110
Period size: 26 Copynumber: 2.7 Consensus size: 27
19630723 TAGTTTTTTT
*
19630733 TTATATATTTTGTTAAATAAAAAAAA-
1 TTATATATTTTGATAAATAAAAAAAAG
*
19630759 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGATAAATAAAAAAAAG
19630786 TTATAATATTTTGATAAAT
1 TTAT-ATATTTTGATAAAT
19630805 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 25 0.60
27 4 0.10
28 13 0.31
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (27 bp):
TTATATATTTTGATAAATAAAAAAAAG
Found at i:19644736 original size:146 final size:149
Alignment explanation
Indices: 19644583--19644896 Score: 431
Period size: 146 Copynumber: 2.1 Consensus size: 149
19644573 AAATCAAATT
*
19644583 TTTCTTTAAAAAAAATCACTACTTTCCTTAAAAATCAAAACTTTATATCGAAATAGTTGAAAAAA
1 TTTCTTTAAAAAAAATCACTACTTTCCTTAAAAATCAAAACTTTATATCAAAATAGTTG-AAAAA
* *
19644648 AATCAAAACTTTATTTTAAAAAATTTAAACTTTTCC-TT-TA-GGCT-AAAAAACAGATTTTTAT
65 AATCAAAACTTTATTTT-AAAAATTTAAACATTTCCTTTATATGACTAAAAAAACAGATTTTTAT
*
19644709 GTTAATAATCTAAACTTTCTC
129 GTTAAAAATCTAAACTTTCTC
* * * *
19644730 -TTCTTTAAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAG
1 TTTCTTTAAAAAAAATCACTACTTTCCTTAAAAATCAAAACTTTATATCAAAATAGTTGAAAAAA
* * * * *
19644794 ATCAAAACTTTGTTTTAAGAATTTAAACATTTCCTTTAATATGATTAAAAAAACATATTTTTATT
66 ATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTT-ATATGACTAAAAAAACAGATTTTTATG
*
19644859 TTAAAAATCTAAATTTTCTC
130 TTAAAAATCTAAACTTTCTC
*
19644879 TTTTTTTAAAAAAAATCA
1 TTTCTTTAAAAAAAATCA
19644897 AAATTTTATT
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
144 16 0.11
145 22 0.15
146 54 0.37
147 2 0.01
148 2 0.01
149 34 0.23
150 16 0.11
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (149 bp):
TTTCTTTAAAAAAAATCACTACTTTCCTTAAAAATCAAAACTTTATATCAAAATAGTTGAAAAAA
ATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTTATATGACTAAAAAAACAGATTTTTATGT
TAAAAATCTAAACTTTCTC
Found at i:19644898 original size:131 final size:128
Alignment explanation
Indices: 19644758--19645027 Score: 468
Period size: 131 Copynumber: 2.1 Consensus size: 128
19644748 TATTTTTCTT
*
19644758 AAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAGAATTTAAACA
1 AAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAGAATTTAAAAA
*
19644823 TTTCCTTTAATATGATTAAAAAAACATATTTTTATTTTAAAAATCTAAATTTTCTCTTTTTTTAA
66 TTTCCTTTAATATGATT-AAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTC--TTTTTAA
19644888 A
128 A
* *
19644889 AAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAGAATTTAAAAA
1 AAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAGAATTTAAAAA
19644954 TTTCCTTTAATATGATTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTTTTAAA
66 TTTCCTTTAATATGATTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTTTTAAA
*
19645017 AAAAATAAAAA
1 AAAAATCAAAA
19645028 AAATTTCCCA
Statistics
Matches: 134, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
128 18 0.13
130 37 0.28
131 79 0.59
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (128 bp):
AAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAGAATTTAAAAA
TTTCCTTTAATATGATTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTTTTAAA
Found at i:19645338 original size:3 final size:3
Alignment explanation
Indices: 19645330--19645377 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
19645320 TATAAAAAAG
* * *
19645330 ATA ATA ATA ATA ATA TTTT ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19645376 AT
1 AT
19645378 TTGAGCCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 37 0.97
4 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:19645349 original size:28 final size:28
Alignment explanation
Indices: 19645318--19645372 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
19645308 ATCTTATTTA
19645318 TTTATAA-AAAAGATAATAATAATAATAT
1 TTTATAATAAAA-ATAATAATAATAATAT
*
19645346 TTTATAATAACAATAATAATAATAATA
1 TTTATAATAAAAATAATAATAATAATA
19645373 ATAATTTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTATAATAAAAATAATAATAATAATAT
Found at i:19647810 original size:7 final size:7
Alignment explanation
Indices: 19647798--19647849 Score: 104
Period size: 7 Copynumber: 7.4 Consensus size: 7
19647788 TAATTAAAAT
19647798 TATTTTA
1 TATTTTA
19647805 TATTTTA
1 TATTTTA
19647812 TATTTTA
1 TATTTTA
19647819 TATTTTA
1 TATTTTA
19647826 TATTTTA
1 TATTTTA
19647833 TATTTTA
1 TATTTTA
19647840 TATTTTA
1 TATTTTA
19647847 TAT
1 TAT
19647850 AGACACTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTTA
Found at i:19650717 original size:29 final size:29
Alignment explanation
Indices: 19650675--19650761 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
19650665 ACGGCGTATC
* *
19650675 GACGCCCATCGAATATGAAAAAGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
19650704 GACGACCATGGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
19650733 GATGACCATCGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
19650762 TTCAACCATC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:19650769 original size:29 final size:29
Alignment explanation
Indices: 19650680--19650772 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
19650670 GTATCGACGC
*
19650680 CCATCGAATATGAAAAAGGATGGTGA-CGA
1 CCATCGAATATGAAAAGGGATGGT-ATCGA
*
19650709 CCATGGAATATGAAAAGGGATGGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-ATCGA
* *
19650738 CCATCGAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTATCGA
19650767 CCATCG
1 CCATCG
19650773 TTTAGTATAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 56 0.98
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTATCGA
Found at i:19652227 original size:23 final size:22
Alignment explanation
Indices: 19652191--19652258 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
19652181 GAACTCACCA
* *
19652191 CAGCTCATATGAGCTTATCGTTC
1 CAGCTCATA-GAGCTTACCATTC
*
19652214 CAGCTCTATAGAGCTTACCATTT
1 CAGCTC-ATAGAGCTTACCATTC
*
19652237 CAGCTCGATAAAGCTTACCATT
1 CAGCTC-ATAGAGCTTACCATT
19652259 TATTAGCTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 36 0.92
24 3 0.08
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (22 bp):
CAGCTCATAGAGCTTACCATTC
Found at i:19652259 original size:23 final size:23
Alignment explanation
Indices: 19652214--19652259 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19652204 CTTATCGTTC
* *
19652214 CAGCTCTATAGAGCTTACCATTT
1 CAGCTCGATAAAGCTTACCATTT
19652237 CAGCTCGATAAAGCTTACCATTT
1 CAGCTCGATAAAGCTTACCATTT
19652260 ATTAGCTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (23 bp):
CAGCTCGATAAAGCTTACCATTT
Found at i:19652463 original size:20 final size:20
Alignment explanation
Indices: 19652435--19652483 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
19652425 GTAATTATAT
* *
19652435 GGATGAATTACCGTTGATAT
1 GGATAAATTACCGTTGATAC
* **
19652455 GTATAAATTATGGTTGATAC
1 GGATAAATTACCGTTGATAC
19652475 GGATAAATT
1 GGATAAATT
19652484 TTTGTTATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (20 bp):
GGATAAATTACCGTTGATAC
Found at i:19653421 original size:382 final size:382
Alignment explanation
Indices: 19652715--19653478 Score: 1510
Period size: 382 Copynumber: 2.0 Consensus size: 382
19652705 TTGTTTTAAT
19652715 CCTTAAATGTTAAATTGGTAAATTTAATTCTATACTATACGGCTTACTAAGCTTAATGCTTACTT
1 CCTTAAATGTTAAATTGGTAAATTTAATTCTATACTATACGGCTTACTAAGCTTAATGCTTACTT
19652780 CATTCATTTTCTTATGTTCTATAGATTTCGGAAGCTAGCTCGATTTCGGATGAGGTCGGAGATTT
66 CATTCATTTTCTTATGTTCTATAGATTTCGGAAGCTAGCTCGATTTCGGATGAGGTCGGAGATTT
19652845 TCTATCACACTATCAAAATGATTTTCGGTACTTTTGGACCTTATGTAAATAATGTAAATATGGCA
131 TCTATCACACTATCAAAATGATTTTCGGTACTTTTGGACCTTATGTAAATAATGTAAATATGGCA
19652910 TGTATAGTTAGTTTTTGGTATGAATTTTGGGTTTTGATCAAGCTATGTGATATGGCTTGAGTTGG
196 TGTATAGTTAGTTTTTGGTATGAATTTTGGGTTTTGATCAAGCTATGTGATATGGCTTGAGTTGG
* *
19652975 AAATGTTTAGTTTAGAATGGAAACATTATGTGTTATGTTCATTTTTGGTGCACTTTGATAAAGGG
261 AAATGTTTAGTTTAGAATGGAAACATTATGTGTTATGTTCATTTTGGGTACACTTTGATAAAGGG
19653040 TATTTTGGTATAATTGAGTATATAAATGCATTGGTTGCGATTTGAAATTTGCAGGGA
326 TATTTTGGTATAATTGAGTATATAAATGCATTGGTTGCGATTTGAAATTTGCAGGGA
19653097 CCTTAAATGTTAAATTGGTAAATTTAATTCTATACTATACGGCTTACTAAGCTTAATGCTTACTT
1 CCTTAAATGTTAAATTGGTAAATTTAATTCTATACTATACGGCTTACTAAGCTTAATGCTTACTT
19653162 CATTCATTTTCTTATGTTCTATAGATTTCGGAAGCTAGCTCGATTTCGGATGAGGTCGGAGATTT
66 CATTCATTTTCTTATGTTCTATAGATTTCGGAAGCTAGCTCGATTTCGGATGAGGTCGGAGATTT
19653227 TCTATCACACTATCAAAATGATTTTCGGTACTTTTGGACCTTATGTAAATAATGTAAATATGGCA
131 TCTATCACACTATCAAAATGATTTTCGGTACTTTTGGACCTTATGTAAATAATGTAAATATGGCA
19653292 TGTATAGTTAGTTTTTGGTATGAATTTTGGGTTTTGATCAAGCTATGTGATATGGCTTGAGTTGG
196 TGTATAGTTAGTTTTTGGTATGAATTTTGGGTTTTGATCAAGCTATGTGATATGGCTTGAGTTGG
19653357 AAATGTTTAGTTTAGAATGGAAACATTATGTGTTATGTTCATTTTGGGTACACTTTGATAAAGGG
261 AAATGTTTAGTTTAGAATGGAAACATTATGTGTTATGTTCATTTTGGGTACACTTTGATAAAGGG
19653422 TATTTTGGTATAATTGAGTATATAAATGCATTGGTTGCGATTTGAAATTTGCAGGGA
326 TATTTTGGTATAATTGAGTATATAAATGCATTGGTTGCGATTTGAAATTTGCAGGGA
19653479 AGGTTCAATA
Statistics
Matches: 380, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
382 380 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (382 bp):
CCTTAAATGTTAAATTGGTAAATTTAATTCTATACTATACGGCTTACTAAGCTTAATGCTTACTT
CATTCATTTTCTTATGTTCTATAGATTTCGGAAGCTAGCTCGATTTCGGATGAGGTCGGAGATTT
TCTATCACACTATCAAAATGATTTTCGGTACTTTTGGACCTTATGTAAATAATGTAAATATGGCA
TGTATAGTTAGTTTTTGGTATGAATTTTGGGTTTTGATCAAGCTATGTGATATGGCTTGAGTTGG
AAATGTTTAGTTTAGAATGGAAACATTATGTGTTATGTTCATTTTGGGTACACTTTGATAAAGGG
TATTTTGGTATAATTGAGTATATAAATGCATTGGTTGCGATTTGAAATTTGCAGGGA
Found at i:19660066 original size:20 final size:21
Alignment explanation
Indices: 19660027--19660069 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19660017 TATAATTTAA
19660027 ATCTCAAATATTATTATAAAT
1 ATCTCAAATATTATTATAAAT
*
19660048 ATCTCGAATATTA-TATAAAT
1 ATCTCAAATATTATTATAAAT
19660068 AT
1 AT
19660070 ATAACAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (21 bp):
ATCTCAAATATTATTATAAAT
Found at i:19679384 original size:27 final size:27
Alignment explanation
Indices: 19679354--19679407 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19679344 ATAACTTTTT
19679354 TTTATTTACCAAAATATATAAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAAA
*
19679381 TTTATTTACCAAAATATATCAAAAAAA
1 TTTATTTACCAAAATATATAAAAAAAA
19679408 CAAAAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (27 bp):
TTTATTTACCAAAATATATAAAAAAAA
Found at i:19679500 original size:27 final size:27
Alignment explanation
Indices: 19679465--19679531 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
19679455 CGCCAATGGG
*
19679465 ATTGACGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * *
19679492 ATTTGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
19679519 ATTGGCGGCACCA
1 ATTGGCGGCACCA
19679532 GTTAATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:19679582 original size:4 final size:4
Alignment explanation
Indices: 19679573--19679710 Score: 99
Period size: 4 Copynumber: 34.0 Consensus size: 4
19679563 AGAGGAGAGG
* * * *
19679573 GAAA GAAA GAAA GAAA GAGA GAAA GAAA GGAA GAAA GGAGAG GGAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA
* *
19679623 G-AA -AAA GAAG GAAA GAAA GGGAAA GGAGAA GAAAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA --GAAA -GA-AA G-AAA GAAA GAAA GAAA
*
19679670 G-AA G-AA G-AA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
19679711 AGGAAAGGAG
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
3 16 0.15
4 72 0.66
5 13 0.12
6 8 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:19679670 original size:33 final size:33
Alignment explanation
Indices: 19679594--19679737 Score: 125
Period size: 33 Copynumber: 4.3 Consensus size: 33
19679584 AGAAAGAGAG
* *
19679594 AAAGAAAGGAAGAAA-GGAGAGG-GAAGAAAGAA
1 AAAGAAAGAAAGAAAGGGAAAGGAGAAGAAA-AA
*
19679626 AAAGAAGGAAAGAAAGGGAAAGGAGAAGAAAAA
1 AAAGAAAGAAAGAAAGGGAAAGGAGAAGAAAAA
* * *
19679659 AAAGAAAGAAAG-AAGAAGAAGAGAAGAAAAAAGAAA
1 AAAGAAAGAAAGAAAG-GGAA-AGGAG-AAGAA-AAA
* * *
19679695 GAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
1 -AAAGAAAGAAAGAAAGGGAAAGGAGAAGAAAAA
19679729 AAA-AAAGAA
1 AAAGAAAGAA
19679738 GAATAAGAGG
Statistics
Matches: 90, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
32 21 0.23
33 25 0.28
34 14 0.16
35 7 0.08
36 7 0.08
37 14 0.16
38 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (33 bp):
AAAGAAAGAAAGAAAGGGAAAGGAGAAGAAAAA
Found at i:19679687 original size:65 final size:69
Alignment explanation
Indices: 19679592--19679779 Score: 189
Period size: 70 Copynumber: 2.8 Consensus size: 69
19679582 AAAGAAAGAG
* *
19679592 AGAAAGAAAGGAAGAAAGGAGAGGGAAG-AAAG-AA-AAAGAAGGAAAGAAAGGGAAAGGAGAAG
1 AGAAAGAAA-GAAG-AA-GAGAGAGAAGAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAG
19679654 AAAAAAA
63 AAAAAAA
19679661 AGAAAGAAAGAAGAAGA-AGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
1 AGAAAGAAAGAAGAAGAGAGAGAAG--AAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
*
19679725 GAAAAA
64 AAAAAA
* * * * *
19679731 A-AAAG-AAGAATAAGAG-G-GAAGGAAGGAAA-AAA-AAAGAAAAAAAAGGAAA
1 AGAAAGAAAGAAGAAGAGAGAGAAGAAAAGAAAGAAAGAAGGAAAGAAAAGGAAA
19679780 TTTTATTTAT
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
63 15 0.14
64 3 0.03
65 12 0.11
66 2 0.02
67 6 0.06
68 18 0.17
69 15 0.14
70 34 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (69 bp):
AGAAAGAAAGAAGAAGAGAGAGAAGAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA
AAAA
Found at i:19679707 original size:70 final size:69
Alignment explanation
Indices: 19679570--19679745 Score: 202
Period size: 70 Copynumber: 2.6 Consensus size: 69
19679560 GGCAGAGGAG
* * *
19679570 AGGGAAA-GA-AAGAAAGAAAGAGAGAAAGAAAGGAAGAA-AGGAGAGGGAAGAAAGAAAAAGAA
1 AGGGAAAGGAGAAGAAA-AAA-A-AGAAAGAAA-GAAGAAGAAGAGAGAGAAAAAAGAAAAAGAA
19679632 GGAAAGAA
62 GGAAAGAA
19679640 AGGGAAAGGAGAAGAAAAAAAAGAAAGAAAGAAGAAGAAGAGA-AGAAAAAAGAAAGAAAGAAGG
1 AGGGAAAGGAGAAGAAAAAAAAGAAAGAAAGAAGAAGAAGAGAGAGAAAAAAG-AA-AAAGAAGG
19679704 AAAGAA
64 AAAGAA
* * *
19679710 AAGGAAAGGAGAAGAGAAAAAA-AAAG-AAGAATAAGA
1 AGGGAAAGGAGAAGAAAAAAAAGAAAGAAAGAAGAAGA
19679746 GGGAAGGAAG
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
68 22 0.23
69 20 0.21
70 42 0.44
71 5 0.05
72 6 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.01
Consensus pattern (69 bp):
AGGGAAAGGAGAAGAAAAAAAAGAAAGAAAGAAGAAGAAGAGAGAGAAAAAAGAAAAAGAAGGAA
AGAA
Found at i:19679716 original size:29 final size:29
Alignment explanation
Indices: 19679573--19679716 Score: 98
Period size: 29 Copynumber: 4.8 Consensus size: 29
19679563 AGAGGAGAGG
* *
19679573 GAAAGAAAGAAAGAAAGAGAGAAAGAAAGGAA
1 GAAAGAAGGAAAGAAA-AG-GAAA-AAAGAAA
* *
19679605 GAAAGGAGAGGGAAG-AAA-G-AAAAAGAAG
1 GAAA-GA-AGGAAAGAAAAGGAAAAAAGAAA
* *
19679633 GAAAGAAAGGGAAAGGAGAAGAAAAAAAAGAAA
1 GAAAG-AA-GGAAA-GAAAAG-GAAAAAAGAAA
* *
19679666 GAAAGAAGAAGAAGAGAA-GAAAAAAGAAA
1 GAAAGAAGGA-AAGAAAAGGAAAAAAGAAA
19679695 GAAAGAAGGAAAGAAAAGGAAA
1 GAAAGAAGGAAAGAAAAGGAAA
19679717 GGAGAAGAGA
Statistics
Matches: 89, Mismatches: 12, Indels: 25
0.71 0.10 0.20
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 26 0.29
30 3 0.03
31 7 0.08
32 9 0.10
33 17 0.19
34 5 0.06
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (29 bp):
GAAAGAAGGAAAGAAAAGGAAAAAAGAAA
Found at i:19679722 original size:29 final size:29
Alignment explanation
Indices: 19679656--19679745 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
19679646 AGGAGAAGAA
*
19679656 AAAAAAGAAAGAAAGAAGAAGAAGAGAAG
1 AAAAAAGAAAGAAAGAAGAAGAAGAAAAG
*
19679685 AAAAAAGAAAGAAAGAAGGA-AAGAAAAGG
1 AAAAAAGAAAGAAAGAAGAAGAAGAAAA-G
** * *
19679714 AAAGGAGAAGAGAAAAAAAAAGAAGAATAAG
1 AAAAAAGAA-AGAAAGAAGAAGAAGAA-AAG
19679745 A
1 A
19679746 GGGAAGGAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 6 0.12
29 27 0.54
30 8 0.16
31 7 0.14
32 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (29 bp):
AAAAAAGAAAGAAAGAAGAAGAAGAAAAG
Found at i:19686295 original size:15 final size:12
Alignment explanation
Indices: 19686252--19686288 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19686242 TTACTTAAAA
* *
19686252 AAAATTATACTC
1 AAAATAATACAC
19686264 AAAATAATACAC
1 AAAATAATACAC
19686276 AAAATAATACAC
1 AAAATAATACAC
19686288 A
1 A
19686289 CTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAATACAC
Found at i:19686482 original size:3 final size:3
Alignment explanation
Indices: 19686474--19686529 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
19686464 TCTTAATACT
19686474 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
19686522 AAC AAC AA
1 AAC AAC AA
19686530 TAATACTAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19686614 original size:19 final size:21
Alignment explanation
Indices: 19686590--19686628 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19686580 ATTAAAACAA
*
19686590 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
19686609 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
19686629 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:19686811 original size:27 final size:28
Alignment explanation
Indices: 19686773--19686848 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
19686763 ATAATACGAG
*
19686773 TGGTGCCGCCAATTAGTA-TGGCACCAT
1 TGGTGCCGCCAATTAGCATTGGCACCAT
*
19686800 TGGTGCCGCCAA-TGGCATTGGCACCAT
1 TGGTGCCGCCAATTAGCATTGGCACCAT
*
19686827 TGGTGCCGCCAATT-CCATTGGC
1 TGGTGCCGCCAATTAGCATTGGC
19686849 GTGACTAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 40 0.91
28 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.28, T:0.25
Consensus pattern (28 bp):
TGGTGCCGCCAATTAGCATTGGCACCAT
Done.