Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 15 of 21
Found at i:1726198 original size:20 final size:20
Alignment explanation
Indices: 1726175--1726228 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1726165 ATATTTTTTG
1726175 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
1726195 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
1726215 ATGTATCGATACAT
1 ATGTATCGATACAT
1726229 TTTGTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:1734161 original size:27 final size:27
Alignment explanation
Indices: 1734119--1734180 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
1734109 TGGTATTGCT
1734119 TTTTAAGTCCACAACTCTGTGGCAACCC
1 TTTTAAGTCCACAACTCTGTGGC-ACCC
*
1734147 -TTTAAGTCCATAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCTGTGGCACCC
1734173 TTTTAAGT
1 TTTTAAGT
1734181 TCACTCATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCACCC
Found at i:1734303 original size:151 final size:151
Alignment explanation
Indices: 1734029--1734331 Score: 428
Period size: 151 Copynumber: 2.0 Consensus size: 151
1734019 TAGCACCAAA
* * * *
1734029 TTCACTCATCACAGTTATGTCAAATCCCTAGAGAGCTTGACCTCTCTAGTAGTGTAACCTCTTCA
1 TTCACTCATCACAATTATGTCAAATCCCTAGAGAGCTTGACCTCCCTAGTACTGCAACCTCTTCA
* * * * *
1734094 AAGTCCACGATTTAGTGGTATTGCTTTTTAAGTCCACAACTCTGTGGCAACCCTTTAAGTCCATA
66 AAGTCCACGATTCAGTGGCATTGCTTTTAAACTCCACAACTCTGTGGCAACCCTTTAAGTCCACA
*
1734159 ACTCTGTGGCACCCTTTTAAG
131 ACTCCGTGGCACCCTTTTAAG
* *
1734180 TTCACTCATCATAATTATGTCAAATCCCTAGAGAGCTTGACCTCCCTAGTACTGCGA-CTCTTCA
1 TTCACTCATCACAATTATGTCAAATCCCTAGAGAGCTTGACCTCCCTAGTACTGCAACCTCTTCA
* * * * *
1734244 AAGTCCACGGTTCAGTGGCATTTCTTTTCAAACTCCATAACTCTGTGGCATCCTTTTAAGTCCAC
66 AAGTCCACGATTCAGTGGCATTGCTTTT-AAACTCCACAACTCTGTGGCAACCCTTTAAGTCCAC
*
1734309 AACTCCGTGGCATCCTTTTAAG
130 AACTCCGTGGCACCCTTTTAAG
1734331 T
1 T
1734332 CCACAACTCC
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
150 31 0.23
151 102 0.77
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (151 bp):
TTCACTCATCACAATTATGTCAAATCCCTAGAGAGCTTGACCTCCCTAGTACTGCAACCTCTTCA
AAGTCCACGATTCAGTGGCATTGCTTTTAAACTCCACAACTCTGTGGCAACCCTTTAAGTCCACA
ACTCCGTGGCACCCTTTTAAG
Found at i:1734422 original size:28 final size:28
Alignment explanation
Indices: 1734258--1735455 Score: 1386
Period size: 28 Copynumber: 42.8 Consensus size: 28
1734248 CCACGGTTCA
* * * *
1734258 GTGGCATTTCTTTTCAAACTCCATAACTCT
1 GTGGCA-TCCTTTT-AAAGTCCACAACTCC
1734288 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734315 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734342 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734369 ATGGCATCCTTTT-AAGTCCATAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * **
1734396 GTGGGAACCTTTTAAAGTTTACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734424 GTGGCATCCTTTTAAAGTACACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734452 GTGGCAACCTTTT-AAGCCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734479 GTGGCATCCTTTTAAAGTCCACAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734507 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734535 GTGGCAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734562 GTGGCATCCTTTTAAAGTCCACAATTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734590 GTGGAATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734618 GTGGCAACCTTTT-AAGTTCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734645 GTGGGGTATCCTTTTAAAGTCCACAACTCT
1 GT--GGCATCCTTTTAAAGTCCACAACTCC
* * * * *
1734675 GTGGTACCCTTTTAAAGTCCATAATTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1734703 GTGGCACCCTTTTAAAGTCTACAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734731 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * * *
1734759 ATGGCAACCATTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734787 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734815 GTGGCATCCTTTTTAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734843 GTGGCATCCTTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1734871 GTGGCATCCTTTTTAAGTCCACAGCTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734899 GTGGCAACCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734926 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1734954 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1734982 ATGGCATCCTTTTAAAGTCCACAA--CC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1735008 GTAGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* ** *
1735035 ATGGCATAATTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1735063 GTGGCATCCTTTTGAAGTCCACAACTTC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
1735091 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1735119 CTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1735147 GTGGCAT-CTTTTTAAGTCCACAACTCT
1 GTGGCATCCTTTTAAAGTCCACAACTCC
*
1735174 GTGGCATCCTTTTAAAGTTCACAACTCC
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1735202 ATGGCATCCTTTTAAAGTCCACAAATCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* *
1735230 GTGGCA--CTTTTAAAGTCCACAAATCA
1 GTGGCATCCTTTTAAAGTCCACAACTCC
* * *
1735256 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTT-AAAGTCCACAACTCC
* * * ** * *
1735284 GTTGTA-CCATTTCAAACCCCACAAATCA
1 GTGGCATCC-TTTTAAAGTCCACAACTCC
* * * * *
1735312 GTGGCACCCTTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTTAAAG-TC-CACAACTCC
* * * *
1735342 GTGGCAACTCCTTTCAAAGCCCACAAGTCA
1 GTGGC-A-TCCTTTTAAAGTCCACAACTCC
* * **
1735372 GTGGCATCTCTTTAAAAGTCCACAAGTTA
1 GTGGCATC-CTTTTAAAGTCCACAACTCC
* * *
1735401 GTGGCAT-CTTTTCAAAGCCCACACAAGTCA
1 GTGGCATCCTTTT-AAAG-TC-CACAACTCC
*
1735431 GTGGCAACTCCTTTCAAAGTCCACA
1 GTGGC-A-TCCTTTTAAAGTCCACA
1735456 CAAGTCGGTG
Statistics
Matches: 1032, Mismatches: 110, Indels: 52
0.86 0.09 0.04
Matches are distributed among these distances:
25 10 0.01
26 39 0.04
27 235 0.23
28 614 0.59
29 48 0.05
30 62 0.06
31 5 0.00
32 15 0.01
33 4 0.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
GTGGCATCCTTTTAAAGTCCACAACTCC
Found at i:1734477 original size:83 final size:83
Alignment explanation
Indices: 1734258--1735279 Score: 1371
Period size: 83 Copynumber: 12.3 Consensus size: 83
1734248 CCACGGTTCA
* * * *
1734258 GTGGCATTTCTTTTCAAACTCCATAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATC
1 GTGGCA-TCCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATC
1734323 CTTTT-AAGTCCACAACTCC
64 CTTTTAAAGTCCACAACTCC
* * * *
1734342 GTGGCATCCTTTT-AAGTCCACAACTCCATGGCATCCTTTTAAGTCCATAACTCCGTGGGAACCT
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
**
1734406 TTTAAAGTTTACAACTCC
66 TTTAAAGTCCACAACTCC
* * *
1734424 GTGGCATCCTTTTAAAGTACACAACTCCGTGGCAACCTTTTAAGCCCACAACTCCGTGGCATCCT
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
*
1734489 TTTAAAGTCCACAACTTC
66 TTTAAAGTCCACAACTCC
*
1734507 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAACTCCGTGGCATCCT
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
*
1734572 TTTAAAGTCCACAATTCC
66 TTTAAAGTCCACAACTCC
* * * *
1734590 GTGGAATCCTTTTAAAGTCCACAACTCCGTGGCAACCTTTTAAGTTCACAACTCCGTGGGGTATC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGT--GGCATC
*
1734655 CTTTTAAAGTCCACAACTCT
64 CTTTTAAAGTCCACAACTCC
* * * * * * * *
1734675 GTGGTACCCTTTTAAAGTCCATAATTTCGTGGCACCCTTTTAAAGTCTACAACTTCGTGGCATCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCC
1734740 TTTTAAAGTCCACAACTCC
65 TTTTAAAGTCCACAACTCC
* * * *
1734759 ATGGCAACCATTTAAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCC
* *
1734824 TTTTTAAGTCCACAACTCT
65 TTTTAAAGTCCACAACTCC
* * *
1734843 GTGGCATCCTTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGTCCACAGCTCCGTGGCAACC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCC
1734908 TTTT-AAGTCCACAACTCC
65 TTTTAAAGTCCACAACTCC
*
1734926 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCATCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCC
1734991 TTTTAAAGTCCACAA--CC
65 TTTTAAAGTCCACAACTCC
* * **
1735008 GTAGCATCCTTTT-AAGTCCACAACTCCATGGCATAATTTTTAAGTCCACAACTCCGTGGCATCC
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCATCC
* *
1735072 TTTTGAAGTCCACAACTTC
65 TTTTAAAGTCCACAACTCC
*
1735091 GTGGCATCCTTTTAAAGTCCACAACTCCCTGGCATCCTTTTAAAGTCCACAACTCCGTGGCAT-C
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCC
* *
1735155 TTTTTAAGTCCACAACTCT
65 TTTTAAAGTCCACAACTCC
* * * *
1735174 GTGGCATCCTTTTAAAGTTCACAACTCCATGGCATCCTTTTAAAGTCCACAAATCAGTGGCA--C
1 GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCC
* *
1735237 TTTTAAAGTCCACAAATCA
65 TTTTAAAGTCCACAACTCC
*
1735256 GTGGCA-CCTTTTCAAAGCCCACAA
1 GTGGCATCCTTTT-AAAGTCCACAA
1735280 GTCAGTTGTA
Statistics
Matches: 836, Mismatches: 88, Indels: 30
0.88 0.09 0.03
Matches are distributed among these distances:
81 109 0.13
82 79 0.09
83 364 0.44
84 209 0.25
85 62 0.07
86 13 0.02
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (83 bp):
GTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCT
TTTAAAGTCCACAACTCC
Found at i:1735461 original size:121 final size:119
Alignment explanation
Indices: 1735208--1735836 Score: 622
Period size: 121 Copynumber: 5.3 Consensus size: 119
1735198 CTCCATGGCA
* * * *
1735208 TCCTTTTAAAGTCCACA-AA-TCAGTGGCA--CTTTT-AAAGTCCACAAATCAGTGGCACCT-TT
1 TCCTTTCAAAG-CCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
* * * * *
1735267 TCAAAGCCCACAAGTCAGTTG-TAC-CATTTCAAACCCCACAAATCAGTGGC-AC
65 TCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAAC
* * *
1735319 -CCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCTCT
1 TCCTTTCAAAG-CCACACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCT
* * ** *
1735383 TTAAAAGTCCACAAGTTAGTGGC-A-TCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
64 TTCAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAG-CC-CACAAGTCAGTGGCAAC
* *
1735439 TCCTTTCAAAGTCCACACAAGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACACT-
1 TCCTTTCAAAG-CCACACAAGTCAGTGG-CACTCTTTTCAAAGCCCACAAGTCAGTGGCA-ACTC
* * *
1735503 TTT-AAAGCCCATACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCACC
63 TTTCAAAGCCC--ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAAC
* * *
1735561 T-CTTTCAAA-CCCCACAAGTTAGTGGCA-TCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCT
1 TCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCAACTC-
*
1735623 TTTCAAAGCCCACATAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATA-
63 TTTCAAAGCCCAC--AAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCA-AC
1735682 T-CTTTCAAAGCC-CACAAGTCAGTGGCA-TCTTTTCAAAGCCCACACAAGTCAGTGGCAACTCT
1 TCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCAACTC-
*
1735744 TTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGC-AC
63 TTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAAC
* * *
1735802 -CCCTTCAAAGCCCACATAAGTTAGTGGCAC-CTTTT
1 TCCTTTCAAAG-CCACACAAGTCAGTGGCACTCTTTT
1735837 TTTAAAAAGC
Statistics
Matches: 443, Mismatches: 40, Indels: 59
0.82 0.07 0.11
Matches are distributed among these distances:
110 14 0.03
111 2 0.00
112 7 0.02
113 1 0.00
115 4 0.01
116 21 0.05
117 39 0.09
118 8 0.02
119 43 0.10
120 19 0.04
121 219 0.49
122 51 0.12
123 6 0.01
124 9 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (119 bp):
TCCTTTCAAAGCCACACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTT
CAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAAC
Found at i:1735513 original size:28 final size:27
Alignment explanation
Indices: 1734267--1735802 Score: 999
Period size: 28 Copynumber: 54.0 Consensus size: 27
1734257 AGTGGCATTT
* * *
1734267 CTTTTCAAACTCCATAACTCTGTGGCATC
1 CTTTT-AAAGTCCACAACTCAGTGGCA-C
*
1734296 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1734323 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
1734350 CTTTT-AAGTCCACAACTCCA-TGGCATC
1 CTTTTAAAGTCCACAACT-CAGTGGCA-C
* * *
1734377 CTTTT-AAGTCCATAACTCCGTGGGAAC
1 CTTTTAAAGTCCACAACTCAGT-GGCAC
** *
1734404 CTTTTAAAGTTTACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* *
1734432 CTTTTAAAGTACACAACTCCGTGGCAAC
1 CTTTTAAAGTCCACAACTCAGTGGC-AC
* *
1734460 CTTTT-AAGCCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
1734487 CTTTTAAAGTCCACAACTTC-GTGGCATC
1 CTTTTAAAGTCCACAAC-TCAGTGGCA-C
*
1734515 CTTTTAAAGTCCACAACTCCGTGGCAAC
1 CTTTTAAAGTCCACAACTCAGTGGC-AC
*
1734543 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* * *
1734570 CTTTTAAAGTCCACAATTCCGTGGAATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1734598 CTTTTAAAGTCCACAACTCCGTGGCAAC
1 CTTTTAAAGTCCACAACTCAGTGGC-AC
* * *
1734626 CTTTT-AAGTTCACAACTCCGTGGGGTATC
1 CTTTTAAAGTCCACAACTCAGT--GGCA-C
* *
1734655 CTTTTAAAGTCCACAACTCTGTGGTACC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* *
1734683 CTTTTAAAGTCCATAATTTC-GTGGCACC
1 CTTTTAAAGTCCACAA-CTCAGTGGCA-C
*
1734711 CTTTTAAAGTCTACAACTTC-GTGGCATC
1 CTTTTAAAGTCCACAAC-TCAGTGGCA-C
1734739 CTTTTAAAGTCCACAACTCCA-TGGCAAC
1 CTTTTAAAGTCCACAACT-CAGTGGC-AC
* *
1734767 CATTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1734795 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* *
1734823 CTTTTTAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* *
1734851 CTTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* * *
1734879 CTTTTTAAGTCCACAGCTCCGTGGCAAC
1 CTTTTAAAGTCCACAACTCAGTGGC-AC
*
1734907 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1734934 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
1734962 CTTTTAAAGTCCACAACTCCA-TGGCATC
1 CTTTTAAAGTCCACAACT-CAGTGGCA-C
*
1734990 CTTTTAAAGTCCACAAC-C-GTAGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1735016 CTTTT-AAGTCCACAACTCCA-TGGCATA
1 CTTTTAAAGTCCACAACT-CAGTGGCA-C
* * *
1735043 ATTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1735071 CTTTTGAAGTCCACAACTTC-GTGGCATC
1 CTTTTAAAGTCCACAAC-TCAGTGGCA-C
**
1735099 CTTTTAAAGTCCACAACTCCCTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* *
1735127 CTTTTAAAGTCCACAACTCCGTGGCAT
1 CTTTTAAAGTCCACAACTCAGTGGCAC
* *
1735154 CTTTTTAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
*
1735182 CTTTTAAAGTTCACAACTCCA-TGGCATC
1 CTTTTAAAGTCCACAACT-CAGTGGCA-C
*
1735210 CTTTTAAAGTCCACAAATCAGTGGCA-
1 CTTTTAAAGTCCACAACTCAGTGGCAC
*
1735236 CTTTTAAAGTCCACAAATCAGTGGCAC
1 CTTTTAAAGTCCACAACTCAGTGGCAC
* * * *
1735263 CTTTTCAAAGCCCACAAGTCAGTTGTAC
1 CTTTT-AAAGTCCACAACTCAGTGGCAC
* ** *
1735291 CATTTCAAACCCCACAAATCAGTGGCACC
1 C-TTTTAAAGTCCACAACTCAGTGGCA-C
* * * *
1735320 CTTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 CTTTTAAAG-TC-CACAACTCAGTGGC-A--C
* * *
1735352 CTTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCAGTGGCA-C
* * * *
1735380 TCTTTAAAAGTCCACAAGTTAGTGGCAT
1 -CTTTTAAAGTCCACAACTCAGTGGCAC
* *
1735408 CTTTTCAAAGCCCACACAAGTCAGTGGCAACTC
1 CTTTT-AAAG-TC-CACAACTCAGTGGC-A--C
* * * *
1735441 CTTTCAAAGTCCACACAAGTCGGTGGTAAC
1 CTTTTAAAGT-C-CACAACTCAGTGG-CAC
* *
1735471 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CTTTT-AAAGTCCACAACTCAGTGGCAC
* * *
1735500 ACTTTTAAAGCCCATACAAGTCGGTGGCAACC
1 -CTTTTAAAGTCC--ACAACTCAGTGGC-A-C
* * * *
1735532 CATTTCAAAGCCCACAAGTCAATGGCAC
1 C-TTTTAAAGTCCACAACTCAGTGGCAC
** * * *
1735560 CTCTTTCAAACCCCACAAGTTAGTGGCAT
1 CT-TTT-AAAGTCCACAACTCAGTGGCAC
* * *
1735589 CTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTT-AAAG-TC-CACAACTCAGTGGC-AC
* * *
1735620 TCTTTTCAAAGCCCACATAAGTCGGTGGCAAC
1 -CTTTT-AAAGTCCAC--AACTCAGTGGC-AC
* * *
1735652 TCTTTTCAAAGCCCACAAGTCAGTGGCATAT
1 -CTTTT-AAAGTCCACAACTCAGTGGC--AC
* * * *
1735683 CTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTAAAGTCCACAACTCAGTGGCAC
* *
1735710 CTTTTCAAAGCCCACACAAGTCAGTGGCAAC
1 CTTTT-AAAG-TC-CACAACTCAGTGGC-AC
* * *
1735741 TCTTTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 -CTTTT-AAAG-TC-CACAACTCAGTGGC-A--C
* * *
1735775 CTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTAAAGTCCACAACTCAGTGGCAC
1735802 C
1 C
1735803 CCTTCAAAGC
Statistics
Matches: 1311, Mismatches: 116, Indels: 162
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.01
26 42 0.03
27 245 0.19
28 614 0.47
29 111 0.08
30 144 0.11
31 18 0.01
32 117 0.09
33 8 0.01
34 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAAGTCCACAACTCAGTGGCAC
Found at i:1735597 original size:181 final size:177
Alignment explanation
Indices: 1735220--1735822 Score: 699
Period size: 181 Copynumber: 3.4 Consensus size: 177
1735210 CTTTTAAAGT
* * *
1735220 CCACAAATCAGTGGCA-CTTTT-AAAGTCCACA-AA-TCAGTGGCACCTTTTCAAAG-CC-CACA
1 CCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACA
* * * * * *
1735279 AGTCAGTTGT-AC-CATTTCAAACCCCACAAATCAGTGGCACCCTTTCAAAGCCCACACAAGTCG
66 AGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACACTTTCAAAGCCCA-ACAAGTCG
* * **
1735342 GTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGT
130 GTGGCAAC-CCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTCAAACC
* *
1735391 CCACAAGTTAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGCAACTCCTTTCAAAGTCCACA
1 CCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACA
*
1735456 CAAGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACACTTTTAAAGCCCATACAAGT
64 CAAGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACACTTTCAAAGCCCA-ACAAGT
* *
1735521 CGGTGGCAACCCATTTCAAAGCCCACAAGTCAATGGCACCTCTTTCAAACC
128 CGGTGGCAACCC-TTTCAAAGCCCACAAGTCAGTGGCAACTCTTTCAAACC
* * *
1735572 CCACAAGTTAGTGGCATCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 CCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACA
* * *
1735637 TAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATATCTTTCAAAGCCC-ACAAGT
64 CAAGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACA-CTTTCAAAGCCCAACAAGT
* * *
1735701 CAGTGGC-ATCTTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAAGCC
128 CGGTGGCAACCCTTTCAAAG-CC-CACAAGTCAGTGGCAACTC-TTTCAAA-CC
* * *
1735754 CACACAAGTCGGTGGCAACTCCTTTCAAAG-CC-CACAAGTCAGTGGCACCCCTTCAAAGCCCAC
1 C-CACAAGTCAGTGGC-A-TCTTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
1735817 ATAAGT
63 ACAAGT
1735823 TAGTGGCACC
Statistics
Matches: 378, Mismatches: 35, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
171 14 0.04
172 5 0.01
173 9 0.02
174 2 0.01
175 8 0.02
176 2 0.01
177 9 0.02
178 10 0.03
179 16 0.04
180 33 0.09
181 216 0.57
182 16 0.04
183 25 0.07
184 3 0.01
185 10 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (177 bp):
CCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACACA
AGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACACTTTCAAAGCCCAACAAGTCGG
TGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACTCTTTCAAACC
Found at i:1735672 original size:302 final size:297
Alignment explanation
Indices: 1735241--1735815 Score: 880
Period size: 302 Copynumber: 1.9 Consensus size: 297
1735231 TGGCACTTTT
* * * * *
1735241 AAAGTCCACAAATCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTTGTACCATTTCAAACCCCAC
1 AAAGCCCACAAATCAATGGCACCTTTTCAAACCCCACAAGTCAGTGGCACCATTTCAAACCCCAC
1735306 AAATCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTC
66 AAATCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTC
* * *
1735371 AGTGGCATCTCTTTAAAAGTCCACAAGTTAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGC
131 AGTGGCATATCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGC
* * *
1735436 AACTCCTTTCAAAGTCCACACAAGTCGGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGCACA
196 AACTCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCACA
* *
1735501 CTTTTAAAGCCCATACAAGTCGGTGGCAACCCATTTC
261 CCTTCAAAGCCCATACAAGTCGGTGGCAACCCATTTC
* * * *
1735538 AAAGCCCACAAGTCAATGGCACCTCTTTCAAACCCCACAAGTTAGTGGCATCTTTTCAAAGCCCA
1 AAAGCCCACAAATCAATGGCACCT-TTTCAAACCCCACAAGTCAGTGGCACCATTTCAAA-CCC-
* * * * *
1735603 CACAAGTCGGTGGCAACTCTTTTCAAAGCCCACATAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
63 CACAAATCAGTGGC-AC-CCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCAC
*
1735668 AAGTCAGTGGCATATCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCA
126 AAGTCAGTGGCATATCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCA
*
1735733 GTGGCAACTCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTG
191 GTGGCAACTCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTG
*
1735798 GCACCCCTTCAAAGCCCA
256 GCACACCTTCAAAGCCCA
1735816 CATAAGTTAG
Statistics
Matches: 248, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
297 21 0.08
298 29 0.12
299 3 0.01
300 12 0.05
301 2 0.01
302 181 0.73
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (297 bp):
AAAGCCCACAAATCAATGGCACCTTTTCAAACCCCACAAGTCAGTGGCACCATTTCAAACCCCAC
AAATCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTC
AGTGGCATATCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACAAGTCAGTGGC
AACTCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCACAAGTCAGTGGCACA
CCTTCAAAGCCCATACAAGTCGGTGGCAACCCATTTC
Found at i:1735979 original size:25 final size:24
Alignment explanation
Indices: 1735910--1735980 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 24
1735900 TCTGATATCA
*
1735910 CTGGCCTTGAATCAGCACATTATC
1 CTGGCCTTGAATCAGCACATTGTC
* * * * *
1735934 C--ACCTT-TATTAGCTCAATGTC
1 CTGGCCTTGAATCAGCACATTGTC
1735955 GCTGGCCTTGAATCAGCACATTGTC
1 -CTGGCCTTGAATCAGCACATTGTC
1735980 C
1 C
1735981 ACTTTTCCCT
Statistics
Matches: 32, Mismatches: 11, Indels: 8
0.63 0.22 0.16
Matches are distributed among these distances:
21 10 0.31
22 5 0.16
24 6 0.19
25 11 0.34
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (24 bp):
CTGGCCTTGAATCAGCACATTGTC
Found at i:1736013 original size:48 final size:48
Alignment explanation
Indices: 1735910--1736063 Score: 240
Period size: 48 Copynumber: 3.2 Consensus size: 48
1735900 TCTGATATCA
* *
1735910 CTGGCCTTGAATCAGCACATTATCCACCTTT--ATTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCAATGTCG
*
1735956 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTAGCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCAATGTCG
* *
1736004 CTGGCCTTGAATCAGCACAATATCCACTTTTCCCTTAGCTCGATGTCG
1 CTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCAATGTCG
*
1736052 TTGGCCTTGAAT
1 CTGGCCTTGAAT
1736064 TGGTACATTG
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 29 0.29
48 70 0.71
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTCAATGTCG
Found at i:1736827 original size:20 final size:20
Alignment explanation
Indices: 1736802--1736851 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1736792 TTTTTACCAG
* *
1736802 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATATATCA
*
1736822 ATGTATCGATACATATATGA
1 ATGTATCGATACATATATCA
1736842 ATGTATCGAT
1 ATGTATCGAT
1736852 GTATCGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATATCA
Found at i:1740779 original size:19 final size:19
Alignment explanation
Indices: 1740755--1740797 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1740745 TTAAAAAGAG
*
1740755 AAAAATAATTAATTTAAAT
1 AAAAATAAATAATTTAAAT
*
1740774 AAAAATAAATGATTTAAAT
1 AAAAATAAATAATTTAAAT
1740793 AAAAA
1 AAAAA
1740798 GCAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATAAATAATTTAAAT
Found at i:1741073 original size:12 final size:11
Alignment explanation
Indices: 1741058--1741112 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
1741048 TTAATTAAAA
1741058 TAAATATTAATT
1 TAAAT-TTAATT
1741070 TAAA-TTAA-T
1 TAAATTTAATT
*
1741079 CAAATTTAAATT
1 TAAATTT-AATT
1741091 TAAATTTAAATT
1 TAAATTT-AATT
1741103 TAAAATTTAA
1 T-AAATTTAA
1741113 AATTTTTCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 6 0.16
11 2 0.05
12 19 0.51
13 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:1741117 original size:7 final size:6
Alignment explanation
Indices: 1741066--1741113 Score: 60
Period size: 6 Copynumber: 7.3 Consensus size: 6
1741056 AATAAATATT
1741066 AATTTA AATTAATCA AATTTA AATTTA AATTTA AATTTAA AATTTA AA
1 AATTTA AATT--T-A AATTTA AATTTA AATTTA AATTT-A AATTTA AA
1741114 ATTTTTCGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 25 0.66
7 7 0.18
8 1 0.03
9 5 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTTA
Found at i:1744450 original size:14 final size:15
Alignment explanation
Indices: 1744426--1744454 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1744416 TACTATACCT
1744426 TTAATTATAAAAATA
1 TTAATTATAAAAATA
1744441 TTAA-TATAAAAATA
1 TTAATTATAAAAATA
1744455 ATATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTATAAAAATA
Found at i:1747143 original size:18 final size:18
Alignment explanation
Indices: 1747121--1747160 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1747111 TTCCCCCTTT
1747121 TTTTTTTATCTTCCCTTCC
1 TTTTTTTAT-TTCCCTTCC
*
1747140 TTTTTTTATTTCCTTTCC
1 TTTTTTTATTTCCCTTCC
1747158 TTT
1 TTT
1747161 ATAGTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTTATTTCCCTTCC
Found at i:1747159 original size:22 final size:22
Alignment explanation
Indices: 1747116--1747159 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1747106 AAAGTTTCCC
*
1747116 CCTTTTTTTTTTATCTTCCCTT
1 CCTTTTTTTTTTACCTTCCCTT
*
1747138 CCTTTTTTTATTT-CCTTTCCTT
1 CCTTTTTTT-TTTACCTTCCCTT
1747160 TATAGTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (22 bp):
CCTTTTTTTTTTACCTTCCCTT
Found at i:1747913 original size:52 final size:52
Alignment explanation
Indices: 1747846--1747975 Score: 145
Period size: 52 Copynumber: 2.5 Consensus size: 52
1747836 AATTGATAGA
* * * * *
1747846 GGTGCTAATATGCTGATTCAAGGCTAACGATA-TCGGACTTAAAGATGACAAT
1 GGTGCTAATGTGCTGATTCAAGGCCAAC-AAAGTCGGACTTAAACATGACAAG
* * * **
1747898 GGTGCCAATGTGCTGATTCGAGGCCAACAAAGTTGGACTTAAACATGGTAAG
1 GGTGCTAATGTGCTGATTCAAGGCCAACAAAGTCGGACTTAAACATGACAAG
*
1747950 GGTGCTAATGTGTTGATTCAAGGCCA
1 GGTGCTAATGTGCTGATTCAAGGCCA
1747976 GCGACATTGG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 2 0.03
52 62 0.97
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (52 bp):
GGTGCTAATGTGCTGATTCAAGGCCAACAAAGTCGGACTTAAACATGACAAG
Found at i:1748201 original size:62 final size:62
Alignment explanation
Indices: 1748105--1748916 Score: 334
Period size: 64 Copynumber: 12.8 Consensus size: 62
1748095 GAAGGAGATG
* * *
1748105 CCACCGACTTGCGTGGACTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGTTTTAGAAGGGTTA
1 CCACCGACTTGTGTGGGCTTT-GAAAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTA
* * ** * *
1748169 CCACTGACTTGTATGGGCTTTGAAAAGGTTGCCACTAACTTGTGTCGACTTTAGAAGGGTTA
1 CCACCGACTTGTGTGGGCTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTA
* * * * * * * * *
1748231 CCACCAACTTGTGTGGACTTTAGAGAGGGTTGCCACCGACTTATAT-GGCTTAAAAAGGG-TG
1 CCACCGACTTGTGTGGGCTTT-GAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTA
* * * * ****
1748292 CCACCGACTTGTATGGGCTTT-AAAAGAGATGCCATCGACTTGTGTGGGCTTTAAAAACAAATA
1 CCACCGACTTGTGTGGGCTTTGAAAAG-GTTGCCACCGACTTGTGTGGGCTTT-AGAAGGGTTA
* * * * *
1748355 CCACCAACTTGTGTGGGCTTTGAAAGGGGTTGCCACTGACTT-TGGTGGGCTTTAGAGAGGATTG
1 CCACCGACTTGTGTGGGCTTTGAAA-AGGTTGCCACCGACTTGT-GTGGGCTTTAGA-AGGGTTA
* * * * ** * * **** *
1748419 CCATCGACTTGCGTGGGCTTT-AAAAGGGGTGCCATCGACTTGTGTGTACTTAAAAAAAAATG
1 CCACCGACTTGTGTGGGCTTTGAAAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTA
* * * * * * * * * * * * *
1748481 CCATCAATTTGTGTAGGCTTTAAAACAAGGATGCCATCAATTTGTGTAGGCTTTAAAACAAGGAT
1 CCACCGACTTGTGTGGGCTTT-GAA-AAGGTTGCCACCGACTTGTGTGGGCTTT-AGA-AGGGTT
*
1748546 G
62 A
* * * * ** * * * *
1748547 CTATCAATTTGTGTAAGC-TTGAAAGGGGTTACCACCGGCTTGTGTGGGCTTTAGAGAGGGTTG
1 CCACCGACTTGTGTGGGCTTTGAAA-AGGTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGTTA
** * * ** * * ** * *
1748610 CCATTGATTTGTGTGGGCTTTAAAAAAGG-TGTTATCGACTTGTGTGGGCTTTGAAAAAAAGATG
1 CCACCGACTTGTGTGGGCTTT-GAAAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTA
* * * ** *
1748674 CCATCAACTTGTGTAGGCTTTGAAGGGGGTTGCCACC-AGCTTGTGTGGGCTTTAGAAAGGGTTG
1 CCACCGACTTGTGTGGGCTTTGAA-AAGGTTGCCACCGA-CTTGTGTGGGCTTTAG-AAGGGTTA
* * * * * ** *
1748738 CTATCGACTTGTGTGGGCTTTAAAAAGGATT-CCACCAACTTGTGTGGGCTTTAAAAAAATGATA
1 CCACCGACTTGTGTGGGCTTTGAAAAGG-TTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTA
* ** * * *
1748802 CCACCAACTTGTGTGGG-TGTTGAAGGGGGTTGCCA-CTAGCTTGTGTGGGCTTTAGAAAGGTTG
1 CCACCGACTTGTGTGGGCT-TTGAA-AAGGTTGCCACCGA-CTTGTGTGGGCTTTAGAAGGGTTA
** * * * *
1748865 CCATTGACTTGTGTGGGCTTT-AAAAGGGGTGCCACCAACTTATGTAGGCTTT
1 CCACCGACTTGTGTGGGCTTTGAAAA-GGTTGCCACCGACTTGTGTGGGCTTT
1748917 GAAAAAAGGA
Statistics
Matches: 561, Mismatches: 151, Indels: 74
0.71 0.19 0.09
Matches are distributed among these distances:
59 3 0.01
60 14 0.02
61 24 0.04
62 104 0.19
63 157 0.28
64 187 0.33
65 51 0.09
66 21 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (62 bp):
CCACCGACTTGTGTGGGCTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTA
Found at i:1748267 original size:32 final size:32
Alignment explanation
Indices: 1748103--1748954 Score: 458
Period size: 31 Copynumber: 27.0 Consensus size: 32
1748093 TGGAAGGAGA
* *
1748103 TGCCACCGACTTGCGTGGACTTTAGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAAGGGT
*
1748136 TGCCACCGACTTGTGTGGGTTTTAG-AAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * *
1748167 TACCACTGACTTGTATGGGCTTT-GAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** * *
1748198 TGCCACTAACTTGTGTCGACTTTAG-AAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * *
1748229 TACCACCAACTTGTGTGGACTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * *
1748261 TGCCACCGACTTATAT-GGC-TTAAAAAGGG-
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * *
1748290 TGCCACCGACTTGTATGGGCTTTA-AAAGAGA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * ****
1748321 TGCCATCGACTTGTGTGGGCTTTAAAAACAAA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* *
1748353 TACCACCAACTTGTGTGGGCTTT-GAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAA-GGGT
* * *
1748385 TGCCACTGACTT-TGGTGGGCTTTAGAGAGGAT
1 TGCCACCGACTTGT-GTGGGCTTTAGAAAGGGT
* * *
1748417 TGCCATCGACTTGCGTGGGCTTTA-AAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* ** * ****
1748448 TGCCATCGACTTGTGTGTAC-TTAAAAAAAAA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * * * * *
1748479 TGCCATCAATTTGTGTAGGCTTTAAAACAAGGA
1 TGCCACCGACTTGTGTGGGCTTTAGAA-AGGGT
* * * * * * *
1748512 TGCCATCAATTTGTGTAGGCTTTAAAACAAGGA
1 TGCCACCGACTTGTGTGGGCTTTAGAA-AGGGT
* * * * **
1748545 TGCTATCAATTTGTGTAAGC-TT-GAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAA-GGGT
* * *
1748576 TACCACCGGCTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** * * *
1748608 TGCCATTGATTTGTGTGGGCTTTAAAAAAGG-
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** * * ** *
1748639 TGTTATCGACTTGTGTGGGCTTTGAAAAAAAGA
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAGGGT
* * * *
1748672 TGCCATCAACTTGTGTAGGCTTT-GAAGGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAA-AGGGT
1748704 TGCCACC-AGCTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCGA-CTTGTGTGGGCTTTAGAAAGGGT
* * * *
1748736 TGCTATCGACTTGTGTGGGCTTTAAAAAGGAT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * ** *
1748768 T-CCACCAACTTGTGTGGGCTTTAAAAAAATGA
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAGGGT
* * *
1748800 TACCACCAACTTGTGTGGG-TGTT-GAAGGGGGT
1 TGCCACCGACTTGTGTGGGCT-TTAGAA-AGGGT
*
1748832 TGCCA-CTAGCTTGTGTGGGCTTTAGAAA-GGT
1 TGCCACCGA-CTTGTGTGGGCTTTAGAAAGGGT
** *
1748863 TGCCATTGACTTGTGTGGGCTTTA-AAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * * * *
1748894 TGCCACCAACTTATGTAGGCTTTGAAAAAAGGA
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAGGGT
*
1748927 TGCCACCAAC-T-TGTGGGCTTT-GAAAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGG
1748955 CGCCCTTAAC
Statistics
Matches: 650, Mismatches: 135, Indels: 72
0.76 0.16 0.08
Matches are distributed among these distances:
29 20 0.03
30 24 0.04
31 257 0.40
32 206 0.32
33 143 0.22
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
Found at i:1748455 original size:127 final size:123
Alignment explanation
Indices: 1748105--1748504 Score: 313
Period size: 126 Copynumber: 3.2 Consensus size: 123
1748095 GAAGGAGATG
* * * * * * * * * *
1748105 CCACCGACTTGCGTGGACTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGTTTTAGAAGGGTTAC
1 CCACCAACTTGTGTGGGCTTTA-AAGAGGGTTGCCACCGACTTATAT-GGCTTAAAAAGGG-TGC
* * * * * * * ****
1748170 CACTGACTTGTATGGGCTTTGAAAAG-GTTGCCA-CTAACTTGTGTCGACTTTAGAAGGGTTA
63 CACCGACTTGCATGGGCTTT-AAAAGAGATGCCATC-GACTTGTGTGGACTTAAAAAAAAATA
* *
1748231 CCACCAACTTGTGTGGACTTTAGAGAGGGTTGCCACCGACTTATATGGCTTAAAAAGGGTGCCAC
1 CCACCAACTTGTGTGGGCTTTAAAGAGGGTTGCCACCGACTTATATGGCTTAAAAAGGGTGCCAC
* * *
1748296 CGACTTGTATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGGCTTTAAAAACAAATA
66 CGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGAC-TTAAAAAAAAATA
* * * * *
1748355 CCACCAACTTGTGTGGGCTTTGAAAG-GGGTTGCCACTGACTT-TGGTGGGCTTTAGAGAGGATT
1 CCACCAACTTGTGTGGGCTTT-AAAGAGGGTTGCCACCGACTTAT-AT-GGC-TTAAAAAGG-GT
* * * * * *
1748418 GCCATCGACTTGCGTGGGCTTTAAAAGGGGTGCCATCGACTTGTGTGTACTTAAAAAAAAATG
61 GCCACCGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGACTTAAAAAAAAATA
* * *
1748481 CCATCAATTTGTGTAGGCTTTAAA
1 CCACCAACTTGTGTGGGCTTTAAA
1748505 ACAAGGATGC
Statistics
Matches: 226, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
122 5 0.02
123 38 0.17
124 54 0.24
125 29 0.13
126 56 0.25
127 44 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (123 bp):
CCACCAACTTGTGTGGGCTTTAAAGAGGGTTGCCACCGACTTATATGGCTTAAAAAGGGTGCCAC
CGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGACTTAAAAAAAAATA
Found at i:1748520 original size:33 final size:33
Alignment explanation
Indices: 1748478--1748566 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
1748468 TTAAAAAAAA
1748478 ATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
1 ATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
1748511 ATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
1 ATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
* *
1748544 ATGCTATCAATTTGTGTAAGCTT
1 ATGCCATCAATTTGTGTAGGCTT
1748567 GAAAGGGGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (33 bp):
ATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
Found at i:1748533 original size:127 final size:127
Alignment explanation
Indices: 1748290--1748535 Score: 289
Period size: 127 Copynumber: 1.9 Consensus size: 127
1748280 TTAAAAAGGG
* * *
1748290 TGCCACCGACTTGTATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGGCTTTAAAAACAAATA
1 TGCCACCGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGACTTTAAAAAAAAATA
* * ** * * * *
1748355 CCACCAACTTGTGTGGGCTTTGAAAGGGGTTGCCACTGACTTTGGTGGGCTTTAGAGAGGAT
66 CCACCAACTTGTGTAGGCTTTAAAAAAGGATGCCACTCAATTTGGTAGGCTTTAGAGAGGAT
* * * * * *
1748417 TGCCATCGACTTGCGTGGGCTTTAAAAGGGGTGCCATCGACTTGTGTGTAC-TTAAAAAAAAATG
1 TGCCACCGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGACTTTAAAAAAAAATA
* *
1748481 CCATCAATTTGTGTAGGCTTTAAAACAAGGATGCCA-TCAATTTGTGTAGGCTTTA
66 CCACCAACTTGTGTAGGCTTTAAAA-AAGGATGCCACTCAATTTG-GTAGGCTTTA
1748536 AAACAAGGAT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
126 38 0.39
127 60 0.61
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (127 bp):
TGCCACCGACTTGCATGGGCTTTAAAAGAGATGCCATCGACTTGTGTGGACTTTAAAAAAAAATA
CCACCAACTTGTGTAGGCTTTAAAAAAGGATGCCACTCAATTTGGTAGGCTTTAGAGAGGAT
Found at i:1748735 original size:128 final size:127
Alignment explanation
Indices: 1748489--1748950 Score: 540
Period size: 128 Copynumber: 3.6 Consensus size: 127
1748479 TGCCATCAAT
* * * * * *
1748489 TTGTGTAGGCTTTAAAACAAGGATGCCATCAATTTGTGTAGGCTTTAAAACAAGGATGCTATCAA
1 TTGTGTGGGCTTTAAAA-AAGGATGCCACCAACTTGTGTAGGCTTTAAAA-AAAGATGCCACCAA
* * * * * * *
1748554 TTTGTGTAAGC-TTGAAAGGGGTTACCACCGGCTTGTGTGGGCTTTAGAGAGGGTTGCCATTGAT
64 CTTGTGT-GGCTTTGAAGGGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAAGGGTTGCCATTGAC
** * * * *
1748618 TTGTGTGGGCTTTAAAAAAGG-TGTTATCGACTTGTGTGGGCTTTGAAAAAAAGATGCCATCAAC
1 TTGTGTGGGCTTTAAAAAAGGATGCCACCAACTTGTGTAGGCTTT-AAAAAAAGATGCCACCAAC
* *
1748682 TTGTGTAGGCTTTGAAGGGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAAGGGTTGCTATCGAC
65 TTGTGT-GGCTTTGAAGGGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAAGGGTTGCCATTGAC
* * *
1748746 TTGTGTGGGCTTT-AAAAAGGATTCCACCAACTTGTGTGGGCTTTAAAAAAATGATACCACCAAC
1 TTGTGTGGGCTTTAAAAAAGGATGCCACCAACTTGTGTAGGCTTTAAAAAAA-GATGCCACCAAC
* *
1748810 TTGTGTGGGTGTTGAAGGGGGTTGCCACTAGCTTGTGTGGGCTTTAGAAA-GGTTGCCATTGAC
65 TTGTGTGGCT-TTGAAGGGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAAGGGTTGCCATTGAC
* * * *
1748873 TTGTGTGGGCTTT-AAAAGGGGTGCCACCAACTTATGTAGGCTTTGAAAAAAGGATGCCACCAAC
1 TTGTGTGGGCTTTAAAAAAGGATGCCACCAACTTGTGTAGGCTTT-AAAAAAAGATGCCACCAAC
1748937 TTGTG-GGCTTTGAA
65 TTGTGTGGCTTTGAA
1748951 AGGGCGCCCT
Statistics
Matches: 291, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
125 5 0.02
126 3 0.01
127 122 0.42
128 145 0.50
129 16 0.05
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (127 bp):
TTGTGTGGGCTTTAAAAAAGGATGCCACCAACTTGTGTAGGCTTTAAAAAAAGATGCCACCAACT
TGTGTGGCTTTGAAGGGGGTTGCCACCAGCTTGTGTGGGCTTTAGAAAGGGTTGCCATTGAC
Found at i:1748965 original size:28 final size:28
Alignment explanation
Indices: 1748928--1749020 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
1748918 AAAAAAGGAT
* * *
1748928 GCCACCAACTTGTGGGCTTTGAAAGGGC
1 GCCACTAACTTGTGGGCTTTGAAAAGAC
* *
1748956 GCC-CTTAACTTATGGGCTTTGAAAAGAT
1 GCCAC-TAACTTGTGGGCTTTGAAAAGAC
* *
1748984 GCCACTAACTTGTGGGCTTAAGAAAAGGAT
1 GCCACTAACTTGTGGGCTT-TGAAAA-GAC
1749014 GCCACTA
1 GCCACTA
1749021 TCGGACTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 1 0.02
28 37 0.69
29 6 0.11
30 10 0.19
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
GCCACTAACTTGTGGGCTTTGAAAAGAC
Found at i:1749009 original size:29 final size:29
Alignment explanation
Indices: 1748749--1749020 Score: 131
Period size: 31 Copynumber: 8.9 Consensus size: 29
1748739 TATCGACTTG
* * *
1748749 TGTGGGCTTTAAAAAGGATTCCACCAACTT
1 TGTGGGCTTTGAAAAGGATGCCACTAAC-T
* * * *
1748779 GTGTGGGCTTTAAAAAAATGATACCACCAACT
1 -TGTGGGCTTT--GAAAAGGATGCCACTAACT
* ** * *
1748811 TGTGTGGGTGTTGAAGGGGGTTGCCACTAGCTT
1 TGTG-GGCT-TTGAA-AAGGATGCCACTAAC-T
* * *
1748844 GTGTGGGCTTT-AGAAAGGTTGCCATTGACTT
1 -TGTGGGCTTTGA-AAAGGATGCCACTAAC-T
* *
1748875 GTGTGGGCTTT-AAAAGGGGTGCCACCAACTT
1 -TGTGGGCTTTGAAAA-GGATGCCACTAAC-T
* *
1748906 ATGTAGGCTTTGAAAAAAGGATGCCACCAACT
1 -TGTGGGCTTTG--AAAAGGATGCCACTAACT
**
1748938 TGTGGGCTTTG-AAAGGGCGCC-CTTAACT
1 TGTGGGCTTTGAAAAGGATGCCAC-TAACT
*
1748966 TATGGGCTTTGAAAA-GATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACT
*
1748994 TGTGGGCTTAAGAAAAGGATGCCACTA
1 TGTGGGCTT-TGAAAAGGATGCCACTA
1749021 TCGGACTTAA
Statistics
Matches: 191, Mismatches: 33, Indels: 35
0.74 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 39 0.20
29 9 0.05
30 13 0.07
31 71 0.37
32 16 0.08
33 34 0.18
34 8 0.04
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTAACT
Found at i:1749259 original size:32 final size:32
Alignment explanation
Indices: 1749097--1749883 Score: 542
Period size: 31 Copynumber: 25.0 Consensus size: 32
1749087 TGGAAGGAGA
* *
1749097 TGCCACCGACTTGCGTGGACTTTAGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAAGGGT
*
1749130 TGCCACCGACTTGTGTGGGTTTTAG-AAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * *
1749161 TACCACTGACTTGTGTGGGCTTT-GAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** * *
1749192 TGCCACTAACTTGTGTCGACTTTAG-AAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* *
1749223 TGCCACCGACTTGTGTGGACTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * *
1749255 TGCCACCGGCTTATAT-GGC-TTAAAAAGGG-
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * *
1749284 TGCCACCGACTTGTATGGGCTTTA-AAAGAGA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** ****
1749315 TGCCATTGACTTGTGTGGGCTTTA-AAAAAAA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* *
1749346 TACCACCAACTTGTGTGGGCTTT-GAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAA-GGGT
* * *
1749378 TGCCACTGACTT-TGGTGGGCTTTAGAGAGGAT
1 TGCCACCGACTTGT-GTGGGCTTTAGAAAGGGT
* * *
1749410 TGCCATCGACTTGTGTGGGCTTTAAAAAGAG-
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* ** * ****
1749441 TGCCATCGACTTGTGTGTACTTTAAAAAAAAA
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * * * * *
1749473 TGCCATCAATTTGTGTAGGCTTTAAAACAAGGA
1 TGCCACCGACTTGTGTGGGCTTTAGAA-AGGGT
* **
1749506 TGCCACCAACTTGTGTAAGC-TT-GAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAA-GGGT
* *
1749537 TGCCACCGGCTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** *
1749569 TGCCATTGACTTGTGTGGGCTTTAAAAAGGG-
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
** * ** *
1749600 TGTTATCGACTTGTGTGGGCTTT-GAAAAAAGA
1 TGCCACCGACTTGTGTGGGCTTTAG-AAAGGGT
* *
1749632 TGCCATCAACTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* *
1749664 TGCTATCGACTTGTGTGGGCTTTA-AAAGGGAT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGG-T
* * ** *
1749696 T-CCACCAACTTGTGTGGGCTTTAAAAAAATGA
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAGGGT
* * *
1749728 TACCACCAACTTGTGTGGG-TATT-GAAGGGGGT
1 TGCCACCGACTTGTGTGGGCT-TTAGAA-AGGGT
* *
1749760 TGCCACTGGCTTGTGTGGGCTTTAGAAA-GGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* *
1749791 TGCCACTGACTTGTGTGGGCTTTA-AAAGGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
* * * * * *
1749822 TGCCATCGACTTATGTAGGCTTTGAAAAAAGGA
1 TGCCACCGACTTGTGTGGGCTTT-AGAAAGGGT
*
1749855 TGCCACCAAC-T-TGTGGGCTTT-GAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
1749884 GCCCTTAACT
Statistics
Matches: 604, Mismatches: 120, Indels: 64
0.77 0.15 0.08
Matches are distributed among these distances:
29 19 0.03
30 21 0.03
31 284 0.47
32 190 0.31
33 90 0.15
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
Found at i:1749396 original size:63 final size:63
Alignment explanation
Indices: 1749095--1749882 Score: 505
Period size: 63 Copynumber: 12.5 Consensus size: 63
1749085 CTTGGAAGGA
* * * * * * *
1749095 GATGCCACCGACTTGCGTGGACTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGTTTTAGAAGG
1 GATGCCACCGACTTGTGTGGGCTTTA-AAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * * * * * *
1749159 GTTACCACTGACTTGTGTGGGCTTTGAAAA--GGTTGCCACTAACTTGTGTCGACTTTAGAAGG
1 GATGCCACCGACTTGTGTGGGCTTT-AAAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * * * * *
1749221 GTTGCCACCGACTTGTGTGGACTTT-AGAGAGGGTTGCCACCGGCTTATAT-GGC-TTAAAAAG
1 GATGCCACCGACTTGTGTGGGCTTTAAAAG-GGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * * * *
1749282 GGTGCCACCGACTTGTATGGGCTTTAAAA-GAGATGCCATTGACTTGTGTGGGCTTTAAAAAA
1 GATGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * * * *
1749344 AATACCACCAACTTGTGTGGGCTTTGAAAGGGGTTGCCACTGACTT-TGGTGGGCTTTAGAGAG
1 GATGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACTGACTTGT-GTGGGCTTTAAAAAG
* * * **
1749407 GATTGCCATCGACTTGTGTGGGCTTTAAAAAGAG-TGCCA-TCGACTTGTGTGTACTTTAAAAAA
1 GA-TGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACT-GACTTGTGTGGGCTTT-AAAAA
*
1749470 A
63 G
* * * * * ** * ** ** * **
1749471 AATGCCATCAATTTGTGTAGGCTTTAAAACAAGGATGCCACCAACTTGTGTAAGCTTGAAAGGG
1 GATGCCACCGACTTGTGTGGGCTTTAAAA-GGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * *
1749535 GTTGCCACCGGCTTGTGTGGGCTTT-AGAGAGGGTTGCCATTGACTTGTGTGGGCTTTAAAAAG
1 GATGCCACCGACTTGTGTGGGCTTTAAAAG-GGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* ** * ** * * *
1749598 GGTGTTATCGACTTGTGTGGGCTTTGAAAA-AAGATGCCA-TCAACTTGTGTGGGCTTTAGAAAG
1 GATGCCACCGACTTGTGTGGGCTTT-AAAAGGGGTTGCCACT-GACTTGTGTGGGCTTTA-AAAA
1749661 G
63 G
* * * * ** *
1749662 GTTGCTATCGACTTGTGTGGGCTTTAAAAGGGATT-CCACCAACTTGTGTGGGCTTTAAAAAAAT
1 GATGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACTGACTTGTGTGGGCTTT--AAAAAG
* * * * * *
1749726 GATACCACCAACTTGTGTGGG-TATTGAAGGGGGTTGCCACTGGCTTGTGTGGGCTTTAGAAAG
1 GATGCCACCGACTTGTGTGGGCT-TTAAAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
* * * *
1749789 GTTGCCACTGACTTGTGTGGGCTTTAAAAGGGG-TGCCA-TCGACTTATGTAGGCTTTGAAAAAA
1 GATGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACT-GACTTGTGTGGGCTTT--AAAAA
1749852 G
63 G
* *
1749853 GATGCCACCAAC-T-TGTGGGCTTTGAAAGGG
1 GATGCCACCGACTTGTGTGGGCTTTAAAAGGG
1749883 TGCCCTTAAC
Statistics
Matches: 554, Mismatches: 139, Indels: 64
0.73 0.18 0.08
Matches are distributed among these distances:
60 15 0.03
61 32 0.06
62 120 0.22
63 202 0.36
64 147 0.27
65 38 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (63 bp):
GATGCCACCGACTTGTGTGGGCTTTAAAAGGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAG
Found at i:1749869 original size:191 final size:188
Alignment explanation
Indices: 1748103--1749886 Score: 813
Period size: 191 Copynumber: 9.5 Consensus size: 188
1748093 TGGAAGGAGA
* * * * * * * * * *
1748103 TGCCACCGACTTGCGTGGACTTTAGAAAAGGGTTGCCACCGACTTGTGTGGGTTTTAGAAGGGTT
1 TGCCATCGACTTGTGTGGGCTTTA-AAAAGGG-TGCCATCGACTTATGTGGCTTTAAAAAAGGAT
* * * * * * * * * *
1748168 ACCACTGACTTGTATGGGCTTTGAAAA-GGTTGCCACTAACTTGTGTCGACTTT-AGAAGGGTTA
64 GCCACCGACTTGTGTGGGCTTT-AAAAGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGATA
* * * * * *
1748231 CCACCAACTTGTGTGGACTTT-AGAGAGGGTTGCCACCGACTTATAT-GGC-TTAAAAAGGG
128 CCACCAACTTGTGTGGGCTTTGA-AGAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGGT
* * * * *
1748290 TGCCACCGACTTGTATGGGCTTT-AAAAGAGATGCCATCGACTTGTGTGGGCTTTAAAAACA-AA
1 TGCCATCGACTTGTGTGGGCTTTAAAAAG-GGTGCCATCGACTTATGT-GGCTTTAAAAA-AGGA
* * * * ** * *
1748353 TACCACCAACTTGTGTGGGCTTTGAAAGGGGTTGCCACTGACTT-TGGTGGGCTTT-AGAGAGGA
63 TGCCACCGACTTGTGTGGGCTTT-AAAAGGGATGCCACCAACTTGT-GTGGGCTTTAAAAAAGGA
* * * * * * ** * * ***
1748416 TTGCCATCGACTTGCGTGGGCTTT-AAAAGGGGTGCCA-TCGACTTGTGTGTACTTAAAAAAAAA
126 -TACCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACT-GACTTGTGTGGGCTTTAGAAAGGT
* * * * * * *
1748479 TGCCATCAATTTGTGTAGGCTTTAAAACAAGGATGCCATCAATTTGTGTAGGCTTTAAAACAAGG
1 TGCCATCGACTTGTGTGGGCTTT-AAA-AAGGGTGCCATCGACTTATGT-GGCTTTAAAA-AAGG
* * * * ** * * * * ** * * * *
1748544 ATGCTATCAATTTGTGTAAGCTTGAAAGGGGTTACCACCGGCTTGTGTGGGCTTTAGAGAGGGTT
62 ATGCCACCGACTTGTGTGGGCTTTAAAAGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGAT
* *** * * * * ** * * *
1748609 GCCATTGATTTGTGTGGGCTTTAAAAAAGG-TGTTA-TCGACTTGTGTGGGCTTTGAAAAAAAGA
127 ACCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACT-GACTTGTGTGGGCTTT--AGAAAGGT
* * * ** * * * * *
1748672 TGCCATCAACTTGTGTAGGCTTTGAAGGGGGTTGCCA-CCAGCTTGTGTGGGCTTTAGAAAGGGT
1 TGCCATCGACTTGTGTGGGCTTTAAAAAGGG-TGCCATCGA-CTTATGT-GGCTTTAAAAAAGGA
* * * * *
1748736 TGCTATCGACTTGTGTGGGCTTTAAAAAGGATTCCACCAACTTGTGTGGGCTTTAAAAAAATGAT
63 TGCCACCGACTTGTGTGGGCTTTAAAAGGGATGCCACCAACTTGTGTGGGCTTT-AAAAAAGGAT
*
1748801 ACCACCAACTTGTGTGGG-TGTTGAAGGGGGTTGCCACT-AGCTTGTGTGGGCTTTAGAAAGGT
127 ACCACCAACTTGTGTGGGCT-TTGAAGAGGGTTGCCACTGA-CTTGTGTGGGCTTTAGAAAGGT
* * * *
1748863 TGCCATTGACTTGTGTGGGCTTTAAAAGGGGTGCCACCAACTTATGTAGGCTTTGAAAAAAGGAT
1 TGCCATCGACTTGTGTGGGCTTTAAAAAGGGTGCCATCGACTTATGT-GGCTTT-AAAAAAGGAT
* * * * * * *
1748928 GCCACCAAC-T-TGTGGGCTTTGAAAGGG-CGCC-CTTAAC-T-TATGGGCTTT-GAAAA-GATG
64 GCCACCGACTTGTGTGGGCTTTAAAAGGGATGCCAC-CAACTTGTGTGGGCTTTAAAAAAGGATA
* * * * * * *
1748985 CCACTAAC-T-TGTGGGCTTAAGAA-AAGGATGCCACT-A----T-CGGACTTAAAAAGAAACAG
128 CCACCAACTTGTGTGGGCTT-TGAAGAGGGTTGCCACTGACTTGTGTGGGCTT---TAG-AA-AG
*
1749041 TT
187 GT
* * ** * * ** * * * ** **
1749043 TGACA-AGTGTTAATGT--G-TTGACTCAA--G-ACCAACAAC--AT-TAGGCTTGGAAGGA-GA
1 TGCCATCGACTT-GTGTGGGCTTTA-AAAAGGGTGCCATCGACTTATGT-GGCTTTAAAAAAGGA
* * * * * * * *
1749097 TGCCACCGACTTGCGTGGACTTTAGAAAAGGGTTGCCACCGACTTGTGTGGG-TTTTAGAAGGGT
63 TGCCACCGACTTGTGTGGGCTTT--AAAAGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGA
** * * * * *
1749161 TACCACTGACTTGTGTGGGCTTTGAA-AAGGTTGCCACTAACTTGTGTCGACTTTAGAAGGGT
126 TACCACCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGGT
* * * * * * * *
1749223 TGCCACCGACTTGTGTGGACTTTAGAGAGGGTTGCCACCGGCTTATATGGC-TT-AAAAAGGGTG
1 TGCCATCGACTTGTGTGGGCTTTAAAAAGGG-TGCCATCGACTTATGTGGCTTTAAAAAAGGATG
* * *** *
1749286 CCACCGACTTGTATGGGCTTTAAAAGAGATGCCATTGACTTGTGTGGGCTTTAAAAAA-AATACC
65 CCACCGACTTGTGTGGGCTTTAAAAGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGATACC
*
1749350 ACCAACTTGTGTGGGCTTTGAA-AGGGGTTGCCACTGACTT-TGGTGGGCTTTAGAGAGGAT
130 ACCAACTTGTGTGGGCTTTGAAGA-GGGTTGCCACTGACTTGT-GTGGGCTTTAGAAAGG-T
* * * **
1749410 TGCCATCGACTTGTGTGGGCTTTAAAAAGAGTGCCATCGACTTGTGTGTACTTTAAAAAAAAATG
1 TGCCATCGACTTGTGTGGGCTTTAAAAAGGGTGCCATCGACTTATGTG-GCTTTAAAAAAGGATG
* * * * * ** * ** * *
1749475 CCATCAATTTGTGTAGGCTTTAAAACAAGGATGCCACCAACTTGTGTAAGC-TTGAAAGGGGTTG
65 CCACCGACTTGTGTGGGCTTT-AAA-AGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGATA
** * * *
1749539 CCACCGGCTTGTGTGGGCTTT-AGAGAGGGTTGCCATTGACTTGTGTGGGCTTTAAAAAGGG
128 CCACCAACTTGTGTGGGCTTTGA-AGAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGGT
** * * * * * * *
1749600 TGTTATCGACTTGTGTGGGCTTTGAAAAAAGATGCCATCAACTTGTGTGGGCTTTAGAAAGGGTT
1 TGCCATCGACTTGTGTGGGCTTT-AAAAAGGGTGCCATCGACTTATGT-GGCTTTAAAAAAGGAT
* * * *
1749665 GCTATCGACTTGTGTGGGCTTTAAAAGGGATTCCACCAACTTGTGTGGGCTTTAAAAAAATGATA
64 GCCACCGACTTGTGTGGGCTTTAAAAGGGATGCCACCAACTTGTGTGGGCTTT-AAAAAAGGATA
* *
1749730 CCACCAACTTGTGTGGG-TATTGAAGGGGGTTGCCACTGGCTTGTGTGGGCTTTAGAAAGGT
128 CCACCAACTTGTGTGGGCT-TTGAAGAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGGT
*
1749791 TGCCA-CTGACTTGTGTGGGCTTTAAAAGGGGTGCCATCGACTTATGTAGGCTTTGAAAAAAGGA
1 TGCCATC-GACTTGTGTGGGCTTTAAAAAGGGTGCCATCGACTTATGT-GGCTTT-AAAAAAGGA
* *
1749855 TGCCACCAAC-T-TGTGGGCTTTGAAAGGG-TGCC
63 TGCCACCGACTTGTGTGGGCTTTAAAAGGGATGCC
1749887 CTTAACTTAT
Statistics
Matches: 1204, Mismatches: 304, Indels: 177
0.71 0.18 0.11
Matches are distributed among these distances:
170 11 0.01
171 4 0.00
172 15 0.01
173 2 0.00
174 6 0.00
175 17 0.01
176 7 0.01
177 10 0.01
178 13 0.01
179 20 0.02
180 29 0.02
181 22 0.02
182 8 0.01
183 13 0.01
184 6 0.00
185 74 0.06
186 96 0.08
187 115 0.10
188 35 0.03
189 100 0.08
190 81 0.07
191 392 0.33
192 81 0.07
193 46 0.04
194 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (188 bp):
TGCCATCGACTTGTGTGGGCTTTAAAAAGGGTGCCATCGACTTATGTGGCTTTAAAAAAGGATGC
CACCGACTTGTGTGGGCTTTAAAAGGGATGCCACCAACTTGTGTGGGCTTTAAAAAAGGATACCA
CCAACTTGTGTGGGCTTTGAAGAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAGGT
Found at i:1749893 original size:28 final size:28
Alignment explanation
Indices: 1749773--1750245 Score: 346
Period size: 28 Copynumber: 16.4 Consensus size: 28
1749763 CACTGGCTTG
* *
1749773 TGTGGGCTTTAGAAAGGTTGCCACTGACTT
1 TGTGGGCTTT-GAAAGGATGCCACTAAC-T
* * *
1749803 GTGTGGGCTTTAAAAGGGGTGCCA-TCGACTT
1 -TGTGGGCTTTGAAA-GGATGCCACT-AAC-T
* *
1749834 ATGTAGGCTTTGAAAAAAGGATGCCACCAACT
1 -TGTGGGCTTTG---AAAGGATGCCACTAACT
*
1749866 TGTGGGCTTTGAAAGGGTGCC-CTTAACT
1 TGTGGGCTTTGAAAGGATGCCAC-TAACT
* *
1749894 TATGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1749922 TGTGGGCTTAAGAAAAGGATGCCACT-GCT
1 TGTGGGCTT-TG-AAAGGATGCCACTAACT
* *
1749951 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * **
1749979 TGTAGGCTTTTGAAAGGATGCCATTGGCT
1 TGTGGGC-TTTGAAAGGATGCCACTAACT
* *
1750008 TGTGGGCTTTGAAATGG-TGCCATTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTAACT
* * *
1750036 CGTGGGCTTTAAAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
*
1750064 TGTGGGCTTTAAGAAAGGATGCCACTGACT
1 TGTGGGCTTT--GAAAGGATGCCACTAACT
** * * *
1750094 CATGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * ** * *
1750122 TGTAGACTTTGAAAGGACACCCCTAGCT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * *
1750150 CGTGGGTTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
1750178 TGTGGGCTTTGAAAATG-TGCC-CTTGACT
1 TGTGGGCTTTG-AAAGGATGCCAC-TAACT
*
1750206 TGTGGGCTTTAAGAAATGATGCCACTAACT
1 TGTGGGCTTT--GAAAGGATGCCACTAACT
1750236 TGTGGGCTTT
1 TGTGGGCTTT
1750246 AAAAAGGGGG
Statistics
Matches: 355, Mismatches: 65, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
27 16 0.05
28 178 0.50
29 48 0.14
30 58 0.16
31 42 0.12
32 1 0.00
33 9 0.03
34 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTAACT
Found at i:1750042 original size:142 final size:141
Alignment explanation
Indices: 1749864--1750245 Score: 484
Period size: 142 Copynumber: 2.7 Consensus size: 141
1749854 ATGCCACCAA
* *
1749864 CTTGTGGGCTTTGAAAGGGTGCCCTTAACTTATGGGCTTTGAAAAGATGCCACTAACTTGTGGGC
1 CTTGTGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGC
*
1749929 -TTAAGAAAAGGATGCCACTGCTTATGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTTGAA
66 TTTAAG-AAAGGATGCCACTGCTTATGGGCTTTGAAAGGATGCCACTGACTTGTAGAC-TTTGAA
** * *
1749993 AGGATGCCATTGG
129 AGGACACCACTAG
* * *
1750006 CTTGTGGGCTTTGAAATGGTGCCATTGACTCGTGGGCTTT-AAAAGAATGCCACTAACTTGTGGG
1 CTTGTGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAAG-ATGCCACTAACTTGTGGG
* * *
1750070 CTTTAAGAAAGGATGCCACTGACTCATGGGCTTTGAAAGGGTGCCATTGACTTGTAGACTTTGAA
65 CTTTAAGAAAGGATGCCACTG-CTTATGGGCTTTGAAAGGATGCCACTGACTTGTAGACTTTGAA
*
1750135 AGGACACCCCTAG
129 AGGACACCACTAG
* * * *
1750148 CTCGTGGGTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAATG-TGCC-CTTGACTTGTGG
1 CTTGTGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAA-GATGCCAC-TAACTTGTGG
* * *
1750211 GCTTTAAGAAATGATGCCACTAACTTGTGGGCTTT
64 GCTTTAAGAAAGGATGCCACT-GCTTATGGGCTTT
1750246 AAAAAGGGGG
Statistics
Matches: 208, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
141 6 0.03
142 159 0.76
143 42 0.20
144 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (141 bp):
CTTGTGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGC
TTTAAGAAAGGATGCCACTGCTTATGGGCTTTGAAAGGATGCCACTGACTTGTAGACTTTGAAAG
GACACCACTAG
Found at i:1750152 original size:114 final size:113
Alignment explanation
Indices: 1749839--1750245 Score: 351
Period size: 114 Copynumber: 3.6 Consensus size: 113
1749829 GACTTATGTA
* ** * * *
1749839 GGCTTTGAAAAAAGGATGCCACCAACTTGTGGGCTTTGAAAGGGTGCCCTTAACTTATGGGCTTT
1 GGCTTT-AAGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTT
* * * * * * * *
1749904 GAAAAGATGCCACTAACTTGTGGGCTTAAGAAAAGGATGCCACT-GCTTATG
65 GAAAGGA-ACCCCTAGCTCGTGGGCTT--TAAAAGGATGCCACTAACTTGTG
* * *
1749955 GGCTTT--GAAAGGATGCCACTGACTTGTAGGCTTTTGAAAGGATGCCATTGGCTTGTGGGCTTT
1 GGCTTTAAGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCATTGACTTGTGGGCTTT
** * * *
1750018 GAAATGG-TGCCATTGACTCGTGGGCTTTAAAAGAATGCCACTAACTTGTG
65 GAAA-GGAACCCCTAG-CTCGTGGGCTTTAAAAGGATGCCACTAACTTGTG
** * *
1750068 GGCTTTAAGAAAGGATGCCACTGACTCATGGGCTTTGAAAGGGTGCCATTGACTTGTAGACTTTG
1 GGCTTTAAGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG
* * *
1750133 AAAGGACACCCCTAGCTCGTGGGTTTTGAAAGGGTGCCACTAACTTGTG
66 AAAGGA-ACCCCTAGCTCGTGGGCTTTAAAAGGATGCCACTAACTTGTG
* * * * * *
1750182 GGCTTTGA-AAATG-TGCC-CTTGACTTGTGGGCTTTAAGAAATGATGCCACTAACTTGTGGGCT
1 GGCTTTAAGAAAGGATGCCAC-TGACTTGTGGGCTTT--GAAAGGGTGCCATTGACTTGTGGGCT
1750244 TT
63 TT
1750246 AAAAAGGGGG
Statistics
Matches: 234, Mismatches: 46, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
111 1 0.00
112 30 0.13
113 40 0.17
114 130 0.56
115 27 0.12
116 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (113 bp):
GGCTTTAAGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG
AAAGGAACCCCTAGCTCGTGGGCTTTAAAAGGATGCCACTAACTTGTG
Found at i:1751586 original size:14 final size:13
Alignment explanation
Indices: 1751569--1751611 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1751559 TGCCTTTGCA
1751569 TTTTTTTCTATTTT
1 TTTTTTTCT-TTTT
* *
1751583 TTTTTTGCTTTTCA
1 TTTTTTTCTTTT-T
1751597 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
1751610 TT
1 TT
1751612 GAAAGGAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:1751588 original size:29 final size:27
Alignment explanation
Indices: 1751556--1751611 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
1751546 TTCCTTTTGA
1751556 TTTTGCCTTTGCATTTTTTTCTATTTTTT
1 TTTTG-CTTTGCATTTTTTTCT-TTTTTT
*
1751585 TTTTGCTTTTCATTTTTTTCTTTTTTT
1 TTTTGCTTTGCATTTTTTTCTTTTTTT
1751612 GAAAGGAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.23
28 15 0.58
29 5 0.19
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.77
Consensus pattern (27 bp):
TTTTGCTTTGCATTTTTTTCTTTTTTT
Found at i:1756197 original size:19 final size:19
Alignment explanation
Indices: 1756173--1756209 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1756163 AAGGAATGAG
1756173 GAGCTACGGGATGGACATA
1 GAGCTACGGGATGGACATA
1756192 GAGCTACGGGATGGACAT
1 GAGCTACGGGATGGACAT
1756210 TTTGGCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.38, T:0.16
Consensus pattern (19 bp):
GAGCTACGGGATGGACATA
Found at i:1758162 original size:19 final size:21
Alignment explanation
Indices: 1758119--1758168 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
1758109 TTCAATAATT
*
1758119 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1758140 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1758159 TGTATCGATA
1 TGTATCGATA
1758169 TAGTGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1758241 original size:13 final size:13
Alignment explanation
Indices: 1758223--1758248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1758213 ATTTGTAGAA
1758223 TGTATCGATACAT
1 TGTATCGATACAT
1758236 TGTATCGATACAT
1 TGTATCGATACAT
1758249 CGATCTTTGT
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):
TGTATCGATACAT
Found at i:1758258 original size:20 final size:20
Alignment explanation
Indices: 1758235--1758329 Score: 190
Period size: 20 Copynumber: 4.8 Consensus size: 20
1758225 TATCGATACA
1758235 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1758255 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1758275 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1758295 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1758315 TTGTATCGATACATC
1 TTGTATCGATACATC
1758330 AAGGAAGTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATCGATCT
Found at i:1760711 original size:51 final size:51
Alignment explanation
Indices: 1760655--1760943 Score: 355
Period size: 51 Copynumber: 5.6 Consensus size: 51
1760645 TTAAGTTTCT
* * *
1760655 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* * * * *
1760706 TAATTTTCCACAATCGGGGATACTCCAACTCTGATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
*
1760757 CAATTTTCCACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
* * **
1760808 CAATTTTCCACAGTCAGGGATACTCCAACCCTAGTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
** * * * * *
1760859 CAATTTTTTATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* *
1760911 TAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTCCACAATCGGGGATACTCCAACCCCG
1760944 TTATTTCCGA
Statistics
Matches: 203, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
51 164 0.81
52 39 0.19
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
Found at i:1760831 original size:102 final size:103
Alignment explanation
Indices: 1760655--1760941 Score: 393
Period size: 102 Copynumber: 2.8 Consensus size: 103
1760645 TTAAGTTTCT
* * *
1760655 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCACAA
1 CAATTTTTCATAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTCCACAA
* *
1760719 TCGGGGATACTCCAACTCT-GATTTTATTTTCGAAACAC
66 TCGGGGATACTCCAACCCTAG-TTTTATTTTCAAAACAC
* * * *
1760757 CAATTTTCCACAATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCACAG
1 CAATTTTTCATAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTCCACAA
*
1760821 TCAGGGATACTCCAACCCTAGTTTTATTTTCAAAACAC
66 TCGGGGATACTCCAACCCTAGTTTTATTTTCAAAACAC
* * * * *
1760859 CAATTTTTTATAATC-AGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACA
1 CAATTTTTCATAATCGA-GGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTCCACA
1760923 ATCGGGGATACTCCAACCC
65 ATCGGGGATACTCCAACCC
1760942 CGTTATTTCC
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
101 1 0.01
102 122 0.75
103 39 0.24
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (103 bp):
CAATTTTTCATAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTCCACAA
TCGGGGATACTCCAACCCTAGTTTTATTTTCAAAACAC
Found at i:1761067 original size:28 final size:28
Alignment explanation
Indices: 1761007--1761084 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
1760997 TCATAATTGA
*
1761007 GGATACTCCAACCCCTGTTATTTTCGCGG
1 GGATACTCCAACCCC-GTTATTTTCGAGG
* *
1761036 GGATACTCAAACCCCGTTGTTTTCGAGG
1 GGATACTCCAACCCCGTTATTTTCGAGG
1761064 GGATACTCCAACCCCGTTATT
1 GGATACTCCAACCCCGTTATT
1761085 ACCTCCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 30 0.68
29 14 0.32
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGAGG
Found at i:1767332 original size:61 final size:60
Alignment explanation
Indices: 1767209--1767532 Score: 443
Period size: 61 Copynumber: 5.3 Consensus size: 60
1767199 TAGCCCTTCC
* *
1767209 AGTCCTCAAAGAGCAGGAAACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTT
* * *
1767270 AGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC-TTT
* * * * * *
1767331 AGTCCTCAATGAACAGGACGCCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTT-TAAAGCCCACACGAGTTGGTGGCACCTT-T
* *
1767393 AGTCCTCAAAGAGCAGGGCACCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* * *
1767453 AGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACGGGTTGGTGGCACTCCCTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA--CCTTT
1767515 -GTCCTCAAAGAGCAGGAC
1 AGTCCTCAAAGAGCAGGAC
1767533 GCTCTCTCCT
Statistics
Matches: 237, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
60 76 0.32
61 105 0.44
62 56 0.24
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
Found at i:1767521 original size:183 final size:184
Alignment explanation
Indices: 1767203--1767534 Score: 524
Period size: 183 Copynumber: 1.8 Consensus size: 184
1767193 CTCTTTTAGC
*
1767203 CCTTCCAGTCCTCAAAGAGCAGGAAACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTCCAGTCCTCAAAGAGCAGGAAACCTTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCT
* * **
1767268 TTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAG
66 TTAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCCTTAG
*
1767333 TCCTCAATGAACAGGACGCCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
131 TCCTCAAAGAACAGGACGCCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
* **
1767387 CCTTCTAGTCCTCAAAGAGCAGGGCACC-TTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTCCAGTCCTCAAAGAGCAGGAAACCTTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCT
* **
1767451 TTAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACGGGTTGGTGGCACTCCCTT-
66 TTAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CCCTTA
*
1767515 GTCCTCAAAGAGCAGGACGC
130 GTCCTCAAAGAACAGGACGC
1767535 TCTCTCCTTT
Statistics
Matches: 134, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
183 106 0.79
184 28 0.21
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (184 bp):
CCTTCCAGTCCTCAAAGAGCAGGAAACCTTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCT
TTAGTCCTCAAAGAGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCCTTAG
TCCTCAAAGAACAGGACGCCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
Found at i:1767638 original size:55 final size:55
Alignment explanation
Indices: 1767554--1768079 Score: 669
Period size: 55 Copynumber: 9.4 Consensus size: 55
1767544 TCGCATTTTT
* *
1767554 GTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* *
1767609 GTCCTCAAAGAGTAGGAAGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* * *
1767664 ATCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCA
*
1767719 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCA
* *
1767774 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* * * * * * *
1767829 GTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGTATTTTCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* * * * *
1767884 GTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCATTTTCTA
1 GTCCTCAAAGAGCAGG--A-C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* * * *
1767945 GTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTA
1 GTCCTCAAAGAGCAGG--A-C--GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
* *
1768005 GTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1768060 GTCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
1768080 TTCTCTCTTT
Statistics
Matches: 429, Mismatches: 32, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
54 8 0.02
55 303 0.71
56 7 0.02
57 2 0.00
58 2 0.00
60 54 0.13
61 53 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
Found at i:1767836 original size:165 final size:165
Alignment explanation
Indices: 1767554--1768294 Score: 739
Period size: 165 Copynumber: 4.4 Consensus size: 165
1767544 TCGCATTTTT
* * *
1767554 GTCCTCAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAA
* * * *
1767618 GAGTAGGAAGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACG
65 GAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACG
*
1767683 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
130 CTTTTCAAAGCCCACACAAGTTGGTGGCATCTTCCA
1767719 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
*
1767784 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGTAGGACGC
66 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACGC
* * * * *
1767849 CTTTCAAAGCCCACACGAGTTGGTGGTATTTTCTA
131 TTTTCAAAGCCCACACAAGTTGGTGGCATCTTCCA
* * *
1767884 GTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA-TTTTCTAGTC
1 GTCCTCAAAGAGCAGG--A-C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTC
* *
1767948 CTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCA
59 CTCAAAGAGCAGG--A---TGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCA
*
1768012 AAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTA
118 AAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCATCTTCC-A
* * * * * *
1768060 GTCCTCAAAGAGCAGGACG-C--TT------CTCTC---TT--T-TCGCCTTTTAGTCCTTAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
* * *
1768110 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGTACTTTTTAGTCCTCAAAGAGCAGGATGC
66 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGA--C
* *
1768175 TTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCA
129 --GC-TTTT-CAAAGCCCACACAAGTTGGTGGCATCTTCCA
* * * * * *
1768216 GTCCTCAAAGTGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCCAATC
1 GTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
*
1768281 CTCAAAGAGTAGGA
59 CTCAAAGAGCAGGA
1768295 CACACCTCAT
Statistics
Matches: 478, Mismatches: 50, Indels: 83
0.78 0.08 0.14
Matches are distributed among these distances:
150 47 0.10
151 4 0.01
152 1 0.00
153 2 0.00
154 3 0.01
155 17 0.04
156 44 0.09
157 5 0.01
158 2 0.00
161 2 0.00
162 1 0.00
164 2 0.00
165 165 0.35
166 3 0.01
167 3 0.01
168 1 0.00
169 1 0.00
170 4 0.01
171 48 0.10
173 2 0.00
174 3 0.01
175 7 0.01
176 88 0.18
177 8 0.02
178 15 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (165 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACGC
TTTTCAAAGCCCACACAAGTTGGTGGCATCTTCCA
Found at i:1768166 original size:95 final size:93
Alignment explanation
Indices: 1768003--1768183 Score: 281
Period size: 95 Copynumber: 1.9 Consensus size: 93
1767993 TGGCATTTTC
1768003 TAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
1768068 AGAGCAGGACGCTTCTCTCTTTTCGCCTTT
66 AGAGCAGGACGCTT-TCT-TTTTCGCCTTT
* * * * **
1768098 TAGTCCTTAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGTACTTTTTAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
*
1768163 AGAGCAGGATGCTTTCTTTTT
66 AGAGCAGGACGCTTTCTTTTT
1768184 GCAAAGCCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 4 0.05
94 3 0.04
95 72 0.91
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (93 bp):
TAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
AGAGCAGGACGCTTTCTTTTTCGCCTTT
Found at i:1768195 original size:61 final size:60
Alignment explanation
Indices: 1768094--1768294 Score: 234
Period size: 61 Copynumber: 3.4 Consensus size: 60
1768084 CTCTTTTCGC
* *
1768094 CTTTT-AGTCCTTAAAGAGCAGGATGC---C-TTTT-AAAGCCCACACAAGTTGGTGGTA
1 CTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCA
*
1768148 CTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTT-CAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1768209 CCTTCCAGTCCTCAAAGTGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1768270 CTTTTCCAATCCTCAAAGAGTAGGA
1 CTTTT-CAGTCCTCAAAGAGCAGGA
1768295 CACACCTCAT
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
54 5 0.04
55 20 0.16
58 1 0.01
59 4 0.03
61 74 0.59
62 21 0.17
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (60 bp):
CTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1769218 original size:13 final size:13
Alignment explanation
Indices: 1769200--1769257 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1769190 ACATAAGTAA
1769200 TGTATCGATACAG
1 TGTATCGATACAG
1769213 TGTATCGATACA-
1 TGTATCGATACAG
*
1769225 --TA--AATA-A-
1 TGTATCGATACAG
1769232 TGTATCGATACAG
1 TGTATCGATACAG
1769245 TGTATCGATACAG
1 TGTATCGATACAG
1769258 AAGTAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.05
10 2 0.05
11 3 0.08
12 1 0.03
13 25 0.68
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1769222 original size:32 final size:32
Alignment explanation
Indices: 1769181--1769448 Score: 291
Period size: 32 Copynumber: 8.4 Consensus size: 32
1769171 ATTCAGTAAA
1769181 TGTATCGATACATAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
*
1769213 TGTATCGATACATAAATAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
*
1769245 TGTATCGATACAGAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
* * * * *
1769277 TGTATCGCTACA-AAGCTATTGCCA-AGA-A-AA
1 TGTATCGATACATAAG-TAATG-TATCGATACAG
* * *
1769307 TGTATCGATACAT-TG-CATCGATACATTC-AGTA-AA
1 TGTATCGATACATAAGTAAT-G-T--A-TCGA-TACAG
1769341 TGTATCGATACATAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
*
1769373 TGTATCGATACATAAATAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
*
1769405 TGTATCGATACAGAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
*
1769437 TGTATCGCTACA
1 TGTATCGATACA
1769449 AAGCTATTGC
Statistics
Matches: 200, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.00
29 1 0.00
30 13 0.06
31 9 0.05
32 154 0.77
33 1 0.00
34 17 0.09
35 2 0.01
36 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAAGTAATGTATCGATACAG
Found at i:1769276 original size:19 final size:19
Alignment explanation
Indices: 1769160--1769275 Score: 103
Period size: 19 Copynumber: 6.6 Consensus size: 19
1769150 TTCAATAATT
*
1769160 TGTATCGATACATTCAGTAAA
1 TGTATCGATACA-TAAGT-AA
1769181 TGTATCGATACATAAGTAA
1 TGTATCGATACATAAGTAA
1769200 TGTATCGATAC---AG---
1 TGTATCGATACATAAGTAA
*
1769213 TGTATCGATACATAAATAA
1 TGTATCGATACATAAGTAA
1769232 TGTATCGATAC---AG---
1 TGTATCGATACATAAGTAA
*
1769245 TGTATCGATACAGAAGTAA
1 TGTATCGATACATAAGTAA
1769264 TGTATCGATACA
1 TGTATCGATACA
1769276 GTGTATCGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 26
0.73 0.03 0.24
Matches are distributed among these distances:
13 22 0.28
16 6 0.08
19 36 0.45
20 4 0.05
21 12 0.15
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATAAGTAA
Found at i:1769363 original size:19 final size:19
Alignment explanation
Indices: 1769323--1769435 Score: 97
Period size: 19 Copynumber: 6.5 Consensus size: 19
1769313 GATACATTGC
*
1769323 ATCGATACATTCAGTAAATGT
1 ATCGATACA-TAAGT-AATGT
1769344 ATCGATACATAAGTAATGT
1 ATCGATACATAAGTAATGT
1769363 ATCGATAC---AG---TGT
1 ATCGATACATAAGTAATGT
*
1769376 ATCGATACATAAATAATGT
1 ATCGATACATAAGTAATGT
1769395 ATCGATAC---AG---TGT
1 ATCGATACATAAGTAATGT
*
1769408 ATCGATACAGAAGTAATGT
1 ATCGATACATAAGTAATGT
1769427 ATCGATACA
1 ATCGATACA
1769436 GTGTATCGCT
Statistics
Matches: 77, Mismatches: 3, Indels: 26
0.73 0.03 0.25
Matches are distributed among these distances:
13 22 0.29
16 6 0.08
19 36 0.47
20 4 0.05
21 9 0.12
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (19 bp):
ATCGATACATAAGTAATGT
Found at i:1769366 original size:53 final size:51
Alignment explanation
Indices: 1769305--1769403 Score: 144
Period size: 53 Copynumber: 1.9 Consensus size: 51
1769295 TTGCCAAGAA
* * *
1769305 AATGTATCGATACATTGCATCGATACATTCAGTAAATGTATCGATACATAAGT
1 AATGTATCGATACAGTGCATCGATACA-TAAAT-AATGTATCGATACATAAGT
*
1769358 AATGTATCGATACAGTGTATCGATACATAAATAATGTATCGATACA
1 AATGTATCGATACAGTGCATCGATACATAAATAATGTATCGATACA
1769404 GTGTATCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 14 0.33
52 3 0.07
53 25 0.60
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (51 bp):
AATGTATCGATACAGTGCATCGATACATAAATAATGTATCGATACATAAGT
Found at i:1769378 original size:13 final size:13
Alignment explanation
Indices: 1769360--1769417 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1769350 ACATAAGTAA
1769360 TGTATCGATACAG
1 TGTATCGATACAG
1769373 TGTATCGATACA-
1 TGTATCGATACAG
*
1769385 --TA--AATA-A-
1 TGTATCGATACAG
1769392 TGTATCGATACAG
1 TGTATCGATACAG
1769405 TGTATCGATACAG
1 TGTATCGATACAG
1769418 AAGTAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
9 2 0.05
10 2 0.05
11 3 0.08
12 1 0.03
13 25 0.68
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1769427 original size:160 final size:160
Alignment explanation
Indices: 1769163--1769492 Score: 660
Period size: 160 Copynumber: 2.1 Consensus size: 160
1769153 AATAATTTGT
1769163 ATCGATACATTCAGTAAATGTATCGATACATAAGTAATGTATCGATACAGTGTATCGATACATAA
1 ATCGATACATTCAGTAAATGTATCGATACATAAGTAATGTATCGATACAGTGTATCGATACATAA
1769228 ATAATGTATCGATACAGTGTATCGATACAGAAGTAATGTATCGATACAGTGTATCGCTACAAAGC
66 ATAATGTATCGATACAGTGTATCGATACAGAAGTAATGTATCGATACAGTGTATCGCTACAAAGC
1769293 TATTGCCAAGAAAATGTATCGATACATTGC
131 TATTGCCAAGAAAATGTATCGATACATTGC
1769323 ATCGATACATTCAGTAAATGTATCGATACATAAGTAATGTATCGATACAGTGTATCGATACATAA
1 ATCGATACATTCAGTAAATGTATCGATACATAAGTAATGTATCGATACAGTGTATCGATACATAA
1769388 ATAATGTATCGATACAGTGTATCGATACAGAAGTAATGTATCGATACAGTGTATCGCTACAAAGC
66 ATAATGTATCGATACAGTGTATCGATACAGAAGTAATGTATCGATACAGTGTATCGCTACAAAGC
1769453 TATTGCCAAGAAAATGTATCGATACATTGC
131 TATTGCCAAGAAAATGTATCGATACATTGC
1769483 ATCGATACAT
1 ATCGATACAT
1769493 CGATCTTTGT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 170 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (160 bp):
ATCGATACATTCAGTAAATGTATCGATACATAAGTAATGTATCGATACAGTGTATCGATACATAA
ATAATGTATCGATACAGTGTATCGATACAGAAGTAATGTATCGATACAGTGTATCGCTACAAAGC
TATTGCCAAGAAAATGTATCGATACATTGC
Found at i:1769436 original size:19 final size:18
Alignment explanation
Indices: 1769160--1769435 Score: 95
Period size: 19 Copynumber: 16.7 Consensus size: 18
1769150 TTCAATAATT
*
1769160 TGTATCGATACATTCAGTAAA
1 TGTATCGATACA--AAGT-AA
1769181 TGTATCGATACATAAGTAA
1 TGTATCGATACA-AAGTAA
1769200 TGTATCGATAC--AG---
1 TGTATCGATACAAAGTAA
*
1769213 TGTATCGATACATAAATAA
1 TGTATCGATACA-AAGTAA
1769232 TGTATCGATAC--AG---
1 TGTATCGATACAAAGTAA
1769245 TGTATCGATACAGAAGTAA
1 TGTATCGATACA-AAGTAA
1769264 TGTATCGATAC--AG---
1 TGTATCGATACAAAGTAA
*
1769277 TGTATCGCTACAAAGCT-A
1 TGTATCGATACAAAG-TAA
* * *
1769295 T-T-GCCA-A-GAA--AA
1 TGTATCGATACAAAGTAA
1769307 TGTATCGATAC--A-T--
1 TGTATCGATACAAAGTAA
* *
1769320 TGCATCGATACATTCAGTAAA
1 TGTATCGATACA--AAGT-AA
1769341 TGTATCGATACATAAGTAA
1 TGTATCGATACA-AAGTAA
1769360 TGTATCGATAC--AG---
1 TGTATCGATACAAAGTAA
*
1769373 TGTATCGATACATAAATAA
1 TGTATCGATACA-AAGTAA
1769392 TGTATCGATAC--AG---
1 TGTATCGATACAAAGTAA
1769405 TGTATCGATACAGAAGTAA
1 TGTATCGATACA-AAGTAA
1769424 TGTATCGATACA
1 TGTATCGATACA
1769436 GTGTATCGCT
Statistics
Matches: 197, Mismatches: 15, Indels: 88
0.66 0.05 0.29
Matches are distributed among these distances:
12 2 0.01
13 65 0.33
14 5 0.03
15 4 0.02
16 15 0.08
17 2 0.01
18 2 0.01
19 71 0.36
20 8 0.04
21 23 0.12
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (18 bp):
TGTATCGATACAAAGTAA
Found at i:1771896 original size:51 final size:50
Alignment explanation
Indices: 1771840--1772115 Score: 236
Period size: 51 Copynumber: 5.6 Consensus size: 50
1771830 TTAAGTTTCT
* *
1771840 CAATTTTTCATAATCGGGGGTACTCCAACCCTGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTT-TAAAACAC
* * *
1771891 TAATTTTTCACAATCGGGGATACTCCAACTCC-GATTTTATTTTTGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAAC-CCTGGTTTTA-TTTTAAAACAC
* * * *
1771942 CAATTTTCCACAACCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACCC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTT-AAAACAC
* *
1771993 CAATTTTTCATAGTC-GGG----T------CTGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTT-AAAACAC
* * * *
1772033 CAA-TTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCTGGTTTTATTT--TAAAACAC
* *
1772085 CAATTTTTCACAGTCGGGGACACTCCAACCC
1 CAATTTTTCACAATCGGGGATACTCCAACCC
1772116 CGTTAATAAT
Statistics
Matches: 182, Mismatches: 24, Indels: 37
0.75 0.10 0.15
Matches are distributed among these distances:
39 5 0.03
40 27 0.15
41 3 0.02
45 1 0.01
46 1 0.01
50 9 0.05
51 98 0.54
52 33 0.18
53 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (50 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCTGGTTTTATTTTAAAACAC
Found at i:1772035 original size:91 final size:92
Alignment explanation
Indices: 1771925--1772102 Score: 250
Period size: 91 Copynumber: 1.9 Consensus size: 92
1771915 CCAACTCCGA
** * *
1771925 TTTTATTTTTGAAACACCAATTTTCCACAACCGGGGATACTCCAACCCCGGTTTTATTTTC-AAA
1 TTTTATTTTCAAAACACCAATTTTCCACAACCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
* *
1771989 ACCCCAATTTTTCATAGTCGGGTCTGG
66 ACACCAATTTTTCACAGTCGGGTCTGG
* * * * *
1772016 TTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAA
1 TTTTATTTTCAAAACACCAATTTTCCACAACCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
1772081 ACACCAATTTTTCACAGTCGGG
66 ACACCAATTTTTCACAGTCGGG
1772103 GACACTCCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
91 52 0.69
92 23 0.31
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (92 bp):
TTTTATTTTCAAAACACCAATTTTCCACAACCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
ACACCAATTTTTCACAGTCGGGTCTGG
Found at i:1772050 original size:40 final size:40
Alignment explanation
Indices: 1771974--1772050 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
1771964 CTCCAACCCC
* *
1771974 GGTTTTATTTTCAAAACCCCAATTTTTCATAGTCGGGTCT
1 GGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGTCT
1772014 GGTTTTATTTTCAAAACACCAA-TTTTCTATAATCGGG
1 GGTTTTATTTTCAAAACACCAATTTTTC-ATAATCGGG
1772051 GATACTCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 5 0.15
40 29 0.85
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (40 bp):
GGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGTCT
Found at i:1772090 original size:52 final size:51
Alignment explanation
Indices: 1772011--1772113 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
1772001 CATAGTCGGG
* * * *
1772011 TCTGGTTTTATTTTCAAAACACCAA-TTTTCTATAATCGGGGATACTCCAAC
1 TCTGATTTTATTTCCAAAACACCAATTTTTC-ACAATCGGGGACACTCCAAC
*
1772062 TCTGATTTTATTTCCAAAAACACCAATTTTTCACAGTCGGGGACACTCCAAC
1 TCTGATTTTATTTCC-AAAACACCAATTTTTCACAATCGGGGACACTCCAAC
1772114 CCCGTTAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 13 0.29
52 27 0.60
53 5 0.11
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (51 bp):
TCTGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGACACTCCAAC
Found at i:1772267 original size:79 final size:79
Alignment explanation
Indices: 1772123--1772280 Score: 184
Period size: 79 Copynumber: 2.0 Consensus size: 79
1772113 CCCCGTTAAT
* *
1772123 AATCGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACCTCAACTTTATTTCTAAAA
1 AATCGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTC-ACGTTATTTCTAAAA
*
1772188 TATT-GATTTCTCAC
65 TATTAAATTTCTCAC
1772202 AATC-GGAGATACTCCAACCCCGTTATTT-TCG-GGAGGATACTCCAACC-C-CGTTATTATCTC
1 AATCGGGA-ATACTCCAACCCCGTTATTTCT-GAGG-GGATACTCCAACCTCACGTTATT-TCT-
1772262 CAAAATATTAAATTTCTCA
61 -AAAATATTAAATTTCTCA
1772281 TCAGGAGATG
Statistics
Matches: 69, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
76 6 0.09
77 3 0.04
78 7 0.10
79 45 0.65
80 8 0.12
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (79 bp):
AATCGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCACGTTATTTCTAAAAT
ATTAAATTTCTCAC
Found at i:1777037 original size:6 final size:6
Alignment explanation
Indices: 1777028--1777084 Score: 71
Period size: 6 Copynumber: 9.3 Consensus size: 6
1777018 GTTTTGGTTT
* *
1777028 TTTTTC TTTTTTC TTTTTC TTTTTC TTCTTC -TTTTC TTTTTT TTCTTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC
1777077 TTTTTC TT
1 TTTTTC TT
1777085 CCCTTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
5 4 0.09
6 29 0.66
7 11 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:1777045 original size:23 final size:23
Alignment explanation
Indices: 1777025--1777084 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
1777015 TTCGTTTTGG
*
1777025 TTTTTTTTCTT-TTTTCTTTTTC
1 TTTTTCTTCTTCTTTTCTTTTTC
*
1777047 TTTTTCTTCTTCTTTTCTTTTTT
1 TTTTTCTTCTTCTTTTCTTTTTC
*
1777070 TTCTTTCTTTTTCTT
1 TT-TTTCTTCTTCTT
1777085 CCCTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 10 0.30
23 12 0.36
24 11 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTCTTCTTCTTTTCTTTTTC
Found at i:1777063 original size:30 final size:30
Alignment explanation
Indices: 1777029--1777085 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
1777019 TTTTGGTTTT
1777029 TTTTCTTTTTTCTT-TTTCTTTTTCTTCTTC
1 TTTTCTTTTTT-TTCTTTCTTTTTCTTCTTC
1777059 TTTTCTTTTTTTTCTTTCTTTTTCTTC
1 TTTTCTTTTTTTTCTTTCTTTTTCTTC
1777086 CCTTTAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTCTTTTTTTTCTTTCTTTTTCTTCTTC
Found at i:1777090 original size:24 final size:23
Alignment explanation
Indices: 1777040--1777090 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1777030 TTTCTTTTTT
**
1777040 CTTTTTCTTTTTCTTCTTCTTTT
1 CTTTTTCTTTTTCTTCTTCTTCC
* *
1777063 CTTTTTTTTCTTTCTTTTTCTTCC
1 CTTTTTCTT-TTTCTTCTTCTTCC
1777087 CTTT
1 CTTT
1777091 AAAACTAGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
CTTTTTCTTTTTCTTCTTCTTCC
Found at i:1777599 original size:14 final size:13
Alignment explanation
Indices: 1777580--1777614 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
1777570 TCGAAAGTTA
1777580 TTTTTTTATCTTTT
1 TTTTTTTAT-TTTT
1777594 TTTTTTTATTTTT
1 TTTTTTTATTTTT
1777607 TTATTTTT
1 TT-TTTTT
1777615 TTCATAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTATTTTT
Found at i:1777616 original size:8 final size:8
Alignment explanation
Indices: 1777577--1777616 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1777567 CCATCGAAAG
1777577 TTATTTTT
1 TTATTTTT
*
1777585 TTA-TCTT
1 TTATTTTT
1777592 TT-TTTTT
1 TTATTTTT
1777599 TTATTTTT
1 TTATTTTT
1777607 TTATTTTT
1 TTATTTTT
1777615 TT
1 TT
1777617 CATAACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 10 0.36
8 18 0.64
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:1777632 original size:25 final size:24
Alignment explanation
Indices: 1777604--1777667 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 24
1777594 TTTTTTTATT
1777604 TTTTTATTTTTTTCATAACTTTTTC
1 TTTTTATTTTTTTCATAAC-TTTTC
* * *
1777629 TTTTTCTTTTTTTTAAAACTTTTC
1 TTTTTATTTTTTTCATAACTTTTC
* *
1777653 -ATTTATTTTTGTCAT
1 TTTTTATTTTTTTCAT
1777668 TTTATGACCA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 10 0.32
24 5 0.16
25 16 0.52
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTATTTTTTTCATAACTTTTC
Found at i:1777652 original size:24 final size:25
Alignment explanation
Indices: 1777604--1777651 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1777594 TTTTTTTATT
*
1777604 TTTTTATTTTTTTCATAACTTTTTC
1 TTTTTATTTTTTTCAAAACTTTTTC
* *
1777629 TTTTTCTTTTTTTTAAAACTTTT
1 TTTTTATTTTTTTCAAAACTTTT
1777652 CATTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTTTTCAAAACTTTTTC
Found at i:1782613 original size:3 final size:3
Alignment explanation
Indices: 1782605--1782629 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1782595 AGTGATAACA
1782605 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
1782630 GGTTGAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:1789945 original size:20 final size:20
Alignment explanation
Indices: 1789920--1789971 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1789910 TTTTTAAGTA
1789920 ATGTATTGATACCTTGCATT
1 ATGTATTGATACCTTGCATT
*
1789940 ATGTATCGATACCTTGCATT
1 ATGTATTGATACCTTGCATT
1789960 ATGTATTGATAC
1 ATGTATTGATAC
1789972 AAAGTCGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATTGATACCTTGCATT
Found at i:1794838 original size:20 final size:21
Alignment explanation
Indices: 1794806--1794844 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1794796 GAATAAAAAA
1794806 TTTGATAATTTTTTCTTCAAT
1 TTTGATAATTTTTTCTTCAAT
1794827 TTTGATAA-TTTTTCTTCA
1 TTTGATAATTTTTTCTTCA
1794845 TGGTATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTGATAATTTTTTCTTCAAT
Found at i:1796690 original size:90 final size:90
Alignment explanation
Indices: 1796519--1796692 Score: 199
Period size: 90 Copynumber: 1.9 Consensus size: 90
1796509 AGGCAAGAAC
* * * * *
1796519 AATCCACTGAATTGAGTCCTGGAAATGAGGTCACAACTCTTGAACCAAATTCCATGTCTATACTA
1 AATCCACTAAACTGAGTCCTGGAAATGAGGTCACAAATCTTAAACCAAATTCCATGTCTATACCA
* *
1796584 CAATTCGATCCCCATAATTCTAAGT
66 CAATTCAAACCCCATAATTCTAAGT
** * *
1796609 AATCCACTAAACTGAGTTTTGGGAATGAGGT-AGCAAATCTTAAACCAAATTCTATGTCTATACC
1 AATCCACTAAACTGAGTCCTGGAAATGAGGTCA-CAAATCTTAAACCAAATTCCATGTCTATACC
* *
1796673 GCAA-TCTAAACCTCATAATT
65 ACAATTC-AAACCCCATAATT
1796693 TTGAGCATGA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 3 0.04
90 66 0.96
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (90 bp):
AATCCACTAAACTGAGTCCTGGAAATGAGGTCACAAATCTTAAACCAAATTCCATGTCTATACCA
CAATTCAAACCCCATAATTCTAAGT
Found at i:1802963 original size:2 final size:2
Alignment explanation
Indices: 1802950--1802980 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1802940 GGTGTAAACC
*
1802950 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1802981 GGTATCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1803583 original size:29 final size:29
Alignment explanation
Indices: 1803544--1803660 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
1803534 ATATAAAGCT
*
1803544 AAGAAA-TAAAAATCAACT-AAACTACAAA
1 AAGAAATTAAAAAGCAACTAAAAC-ACAAA
* *
1803572 AAGTAATT-AAAAGTCAATTAAAACACAAA
1 AAGAAATTAAAAAG-CAACTAAAACACAAA
*
1803601 AAGAAATT-AAAAGCAAACTAAAACATAAA
1 AAGAAATTAAAAAGC-AACTAAAACACAAA
* *
1803630 AAGAAATTAAAAGGCAACTAAAACACCAA
1 AAGAAATTAAAAAGCAACTAAAACACAAA
1803659 AA
1 AA
1803661 CTTTCCTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
28 10 0.13
29 56 0.75
30 9 0.12
ACGTcount: A:0.66, C:0.13, G:0.07, T:0.15
Consensus pattern (29 bp):
AAGAAATTAAAAAGCAACTAAAACACAAA
Found at i:1803621 original size:58 final size:57
Alignment explanation
Indices: 1803544--1803660 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
1803534 ATATAAAGCT
* * * *
1803544 AAGAAATAAAAATCAACT-AAACTACAAAAAGTAATTAAAAGTCAATTAAAACACAAA
1 AAGAAATAAAAAGCAACTAAAAC-ACAAAAAGAAATTAAAAGGCAACTAAAACACAAA
* * *
1803601 AAGAAATTAAAAGCAAACTAAAACATAAAAAGAAATTAAAAGGCAACTAAAACACCAA
1 AAGAAATAAAAAGC-AACTAAAACACAAAAAGAAATTAAAAGGCAACTAAAACACAAA
1803659 AA
1 AA
1803661 CTTTCCTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 12 0.24
58 35 0.69
59 4 0.08
ACGTcount: A:0.66, C:0.13, G:0.07, T:0.15
Consensus pattern (57 bp):
AAGAAATAAAAAGCAACTAAAACACAAAAAGAAATTAAAAGGCAACTAAAACACAAA
Found at i:1806780 original size:13 final size:13
Alignment explanation
Indices: 1806762--1806786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1806752 CATGGCATAT
1806762 TGTATCAATACAA
1 TGTATCAATACAA
1806775 TGTATCAATACA
1 TGTATCAATACA
1806787 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:1815104 original size:13 final size:14
Alignment explanation
Indices: 1815086--1815114 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1815076 ATAAGAACAT
1815086 AAATGC-TATTTGA
1 AAATGCATATTTGA
1815099 AAATGCATATTTGA
1 AAATGCATATTTGA
1815113 AA
1 AA
1815115 TTTTCATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
AAATGCATATTTGA
Found at i:1815611 original size:33 final size:32
Alignment explanation
Indices: 1815574--1815638 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1815564 TACCACTGTT
1815574 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
1815607 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGA-GAATTGTATCGATACA
1815639 TTGTCCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:1815612 original size:13 final size:13
Alignment explanation
Indices: 1815594--1815618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1815584 CATGGCACAT
1815594 TGTATCGATACAA
1 TGTATCGATACAA
1815607 TGTATCGATACA
1 TGTATCGATACA
1815619 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1817407 original size:57 final size:57
Alignment explanation
Indices: 1817308--1817416 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
1817298 CTAGAAAGCT
1817308 AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAATAGTA
1 AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAATAGTA
* * * ** *
1817365 AAAGAATTTTAAAGTTAGCTAAAACACAAAATGTAA-TCAAAGTCAACTAAAA
1 AAAGAA-TTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAA
1817417 CAAAAAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.60, C:0.11, G:0.08, T:0.21
Consensus pattern (57 bp):
AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAATAGTA
Found at i:1817425 original size:57 final size:57
Alignment explanation
Indices: 1817308--1817425 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 57
1817298 CTAGAAAGCT
* **
1817308 AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAATAGTA
1 AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAACAAAA
* * * ** *
1817365 AAAGAATTTTAAAGTTAGCTAAAACACAAAATGTAA-TCAAAGTCAACTAAAACAAAA
1 AAAGAA-TTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAACAAAA
1817422 AAAG
1 AAAG
1817426 GAAACTAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.19
Consensus pattern (57 bp):
AAAGAATTAAAAGCTAACTAAAACACAAAAAATAATTAAAAGTCAACTAAAACAAAA
Found at i:1817838 original size:16 final size:17
Alignment explanation
Indices: 1817817--1817853 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
1817807 TCCTTTAAAA
1817817 TTAATGTTGAGTTTC-C
1 TTAATGTTGAGTTTCTC
1817833 TTAATGTTGAGTTTCTC
1 TTAATGTTGAGTTTCTC
1817850 TTAA
1 TTAA
1817854 CTTTTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (17 bp):
TTAATGTTGAGTTTCTC
Found at i:1821319 original size:2 final size:2
Alignment explanation
Indices: 1821314--1821344 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1821304 TATGTGTGTG
1821314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1821345 CCACTGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1823292 original size:25 final size:23
Alignment explanation
Indices: 1823259--1823311 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 23
1823249 TCAATACAAG
*
1823259 AAAAATTAAAGAAGAGTAAGGGAA
1 AAAAATTAAA-AAGAATAAGGGAA
1823283 AAAAATTTAAAAAGAATAAGGGAA
1 AAAAA-TTAAAAAGAATAAGGGAA
1823307 AAAAA
1 AAAAA
1823312 CTAAGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (23 bp):
AAAAATTAAAAAGAATAAGGGAA
Found at i:1823369 original size:21 final size:21
Alignment explanation
Indices: 1823340--1823388 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1823330 TAATCTTCGT
*
1823340 GCTTTTTTGAAATCTATATGA
1 GCTTCTTTGAAATCTATATGA
*
1823361 GCTTCTTTGAAATCTATATTA
1 GCTTCTTTGAAATCTATATGA
1823382 GCTTCTT
1 GCTTCTT
1823389 GATTGCTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.49
Consensus pattern (21 bp):
GCTTCTTTGAAATCTATATGA
Found at i:1826837 original size:13 final size:13
Alignment explanation
Indices: 1826819--1826844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1826809 TACAGCAAGT
1826819 ATGTATCGATACA
1 ATGTATCGATACA
1826832 ATGTATCGATACA
1 ATGTATCGATACA
1826845 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1829104 original size:21 final size:21
Alignment explanation
Indices: 1829071--1829115 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1829061 TTGCAAGTTG
*
1829071 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1829093 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1829113 AAA
1 AAA
1829116 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1830939 original size:15 final size:15
Alignment explanation
Indices: 1830919--1830949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1830909 TAAAAATGTC
*
1830919 CAAAATGACGAAGCT
1 CAAAATGAAGAAGCT
1830934 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1830949 C
1 C
1830950 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1833045 original size:13 final size:13
Alignment explanation
Indices: 1833027--1833065 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1833017 ATACATTTTC
1833027 TTGTATCGATACA
1 TTGTATCGATACA
1833040 TTGTATCGATACA
1 TTGTATCGATACA
1833053 TTGTATCGATACA
1 TTGTATCGATACA
1833066 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1835639 original size:13 final size:13
Alignment explanation
Indices: 1835621--1835646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1835611 TACAGCAAGT
1835621 ATGTATCGATACA
1 ATGTATCGATACA
1835634 ATGTATCGATACA
1 ATGTATCGATACA
1835647 CAAAAAATTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1848294 original size:233 final size:234
Alignment explanation
Indices: 1847886--1848346 Score: 798
Period size: 233 Copynumber: 2.0 Consensus size: 234
1847876 AAACTAGGTC
1847886 TATTTATGGATGTATTTTTATTCAAAAATAAACAATAAAGAAACATCTACACCTACAACACCTGC
1 TATTTATGGATGTATTTTTATTCAAAAATAAACAATAAAGAAACATCTACACCTACAACACCTGC
* * *
1847951 AAACATGACATTATAACTGTGTTTGCTACAAAACCCATGATCATGATTTAGAAATTTGGATGGAC
66 AAACATGACATTATAACTGTGTTCGCTACAAAACCCACGATCATCATTTAGAAATTTGGATGGAC
*
1848016 CTTCTAAGAAACATCTTCTCACTTCTCTAATTTTTTTCACATATAATTGTCTTTTTAATGTCATC
131 CTTCCAAGAAACATCTTCTCACTTCTCTAATTTTTTTCACATATAATTGTCTTTTTAATGTCATC
1848081 AGCAATGGCCTTTGCATCCATTGACACACCAAAACATCT
196 AGCAATGGCCTTTGCATCCATTGACACACCAAAACATCT
* * * *
1848120 TATTTATGGATTTATTTTTATTC-AAAATAAACAATAAGGAAACATCTACATCTACGACACCTGC
1 TATTTATGGATGTATTTTTATTCAAAAATAAACAATAAAGAAACATCTACACCTACAACACCTGC
* *
1848184 AAACATGACATTGTAACTGTGTTCGCTATAAAACCCACGATCATCATTTAGAAATTTGGATGGAC
66 AAACATGACATTATAACTGTGTTCGCTACAAAACCCACGATCATCATTTAGAAATTTGGATGGAC
* * *
1848249 CTTCCAAGAAACATCTTTTCACTTTTTTAATTTTTTTCACATATAATTGTCTTTTTAATGTCATC
131 CTTCCAAGAAACATCTTCTCACTTCTCTAATTTTTTTCACATATAATTGTCTTTTTAATGTCATC
1848314 AGCAATGGCCTTTGCATCCATTGACACACCAAA
196 AGCAATGGCCTTTGCATCCATTGACACACCAAA
1848347 TAGTCCCCTC
Statistics
Matches: 214, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
233 192 0.90
234 22 0.10
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (234 bp):
TATTTATGGATGTATTTTTATTCAAAAATAAACAATAAAGAAACATCTACACCTACAACACCTGC
AAACATGACATTATAACTGTGTTCGCTACAAAACCCACGATCATCATTTAGAAATTTGGATGGAC
CTTCCAAGAAACATCTTCTCACTTCTCTAATTTTTTTCACATATAATTGTCTTTTTAATGTCATC
AGCAATGGCCTTTGCATCCATTGACACACCAAAACATCT
Found at i:1855324 original size:157 final size:155
Alignment explanation
Indices: 1855028--1855461 Score: 408
Period size: 157 Copynumber: 2.8 Consensus size: 155
1855018 TTTAGAAGTG
* * * * * * * * * * *
1855028 AAAACGGGGTTGGAGTATCCCCTCGAAAGTGATGGGGTTGAAGTATCCCCGATGGTGAAAAA-TC
1 AAAACGAGGTTGAAGTATCCCCTTGAAAATAAAGAGGTTAAAGTATCCCC-AAGATGAAAAATTA
* * * * ** *
1855092 GATATTTTAGAAATAAAAACAGGGTTAGAGTATCTCTTCAAAAATAACGGGATGGGAGGATCCCG
65 AATATTTTAGAAATAAAAATAGGGTTGGAGTATCTCTT-AGAAATAACGGG-TTAGAAGATCCCG
* * ** * *
1855157 ATGGTGAAAAATTGATTTTTTGGAGATA
128 ATGGTAAAAAATTGATATAGTGAAAATA
* * * * * *
1855185 AAAATGGGGTTGAAGTATCCTCTTGAAAATAACAG-GGTTGGAA-TATCCTCAAGATGAAGAATT
1 AAAACGAGGTTGAAGTATCCCCTTGAAAATAA-AGAGGTT-AAAGTATCCCCAAGATGAAAAATT
* * *
1855248 TAATATTTTAGAAATAAAAATAGGGTTGGAGTATCTCTTAGAAATAACGAGGTTAGAATATTCTC
64 AAATATTTTAGAAATAAAAATAGGGTTGGAGTATCTCTTAGAAATAACG-GGTTAGAAGA-TCCC
1855313 GATGGTAAAAAATTGATATAGTGAAAATA
127 GATGGTAAAAAATTGATATAGTGAAAATA
* *
1855342 AAAACGAGGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCCGAGATGAAAAATTAA
1 AAAACGAGGTTGAAGTATCCCCTTGAAAATAAAGAGGTTAAAGTATCCCCAAGATGAAAAATTAA
* * * *
1855407 ATATTTTGGAAATAAAAAT-GGGATTGGAGTATCCCTCAGAAATAATGGGGTTAGA
66 ATATTTTAGAAATAAAAATAGGG-TTGGAGTATCTCTTAGAAATAA-CGGGTTAGA
1855462 GTGTCCCCGT
Statistics
Matches: 228, Mismatches: 40, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
156 27 0.12
157 196 0.86
158 5 0.02
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (155 bp):
AAAACGAGGTTGAAGTATCCCCTTGAAAATAAAGAGGTTAAAGTATCCCCAAGATGAAAAATTAA
ATATTTTAGAAATAAAAATAGGGTTGGAGTATCTCTTAGAAATAACGGGTTAGAAGATCCCGATG
GTAAAAAATTGATATAGTGAAAATA
Found at i:1855402 original size:78 final size:77
Alignment explanation
Indices: 1855035--1855547 Score: 290
Period size: 78 Copynumber: 6.5 Consensus size: 77
1855025 GTGAAAACGG
* * * * **
1855035 GGTTGGAGTATCCCCTCGAAAGTGATGGGGTT-GAAGTATCCCCGATGGTGAAAAATCGATATTT
1 GGTTGGAGTATCCCCTTGAAAATAATGGGGTTAG-AGTATCCCCGA-GATGAAAAATTAATATTT
*
1855099 T-AGAAATAAAAACA
64 TGA-AAATAAAAAGA
* * * * * ** * * * *
1855113 GGGTTAGAGTAT-CTCTTCAAAAATAACGGGATGGGAGGAT-CCCGATGGTGAAAAATTGATTTT
1 -GGTTGGAGTATCCCCTT-GAAAATAATGGGGTTAGAGTATCCCCGA-GATGAAAAATTAATATT
* * *
1855176 TTGGAGATAAAAATGG
63 TTGAAAATAAAAA-GA
* * ** * * * * *
1855192 GGTTGAAGTATCCTCTTGAAAATAACAGGGTTGGAATATCCTCAAGATGAAGAATTTAATATTTT
1 GGTTGGAGTATCCCCTTGAAAATAATGGGGTTAGAGTATCCCCGAGATGAA-AAATTAATATTTT
*
1855257 -AGAAATAAAAATA
65 GA-AAATAAAAAGA
* * * * * * * * * *
1855270 GGGTTGGAGTAT-CTCTT-AGAAATAACGAGGTTAGAATATTCTCGATGGTAAAAAATTGATATA
1 -GGTTGGAGTATCCCCTTGA-AAATAATGGGGTTAGAGTATCCCCGA-GATGAAAAATTAATATT
*
1855333 GTGAAAATAAAAACGA
63 TTGAAAATAAAAA-GA
* * *
1855349 GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCCGAGATGAAAAATTAAATATTTT
1 GGTTGGAGTATCCCCTTGAAAATAATGGGGTTAGAGTATCCCCGAGATGAAAAATT-AATATTTT
*
1855414 GGAAATAAAAATG-
65 GAAAATAAAAA-GA
* * * *
1855427 GGATTGGAGTAT-CCC-TCAGAAATAATGGGGTTAGAGTGTCCCCGTGATGAAAATTTTAATATT
1 GG-TTGGAGTATCCCCTTGA-AAATAATGGGGTTAGAGTATCCCCGAGATGAAAA-ATTAATATT
* *
1855490 TTAAAAATAAAAATA
63 TTGAAAATAAAAAGA
* * *
1855505 TGGTTGGAGTATCCCCTCGGAAATGATGGGGTTAGAGTATCCC
1 -GGTTGGAGTATCCCCTTGAAAATAATGGGGTTAGAGTATCCC
1855548 TAATGGTAAA
Statistics
Matches: 335, Mismatches: 76, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
77 3 0.01
78 188 0.56
79 142 0.42
80 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (77 bp):
GGTTGGAGTATCCCCTTGAAAATAATGGGGTTAGAGTATCCCCGAGATGAAAAATTAATATTTTG
AAAATAAAAAGA
Found at i:1855497 original size:157 final size:156
Alignment explanation
Indices: 1855035--1855547 Score: 365
Period size: 157 Copynumber: 3.3 Consensus size: 156
1855025 GTGAAAACGG
* * * * * * * * **
1855035 GGTTGGAGTATCCCCTCGAAAGTGATGGGGTTGAAGTATCCCCGATGGTGAAAAA-TCGATATTT
1 GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCC-AAGATGAAAAATTAAATATTT
* * * * ** ** *
1855099 TAGAAATAAAAACAGGGTTAGAGTATCTCTTCAAAAATAACG-GGATGGGAGGAT-CCCGATGGT
65 TAGAAATAAAAATAGGGTTGGAGTATC-CCTCAGAAATAACGAGG-TTAGAATATCCCCGATGAT
* * * ** ** * *
1855162 GAAAAATTGATTTTTTGGAGATAAAAATGG
128 AAAAAATTAATATAGTAAAAATAAAAA-GA
* * * * * *
1855192 GGTTGAAGTATCCTCTTGAAAATAA-CAGGGTTGGAA-TATCCTCAAGATGAAGAATTTAATATT
1 GGTTGAAGTATCCCCTTGAAAATAATGA-GGTT-AAAGTATCCCCAAGATGAAAAATTAAATATT
* * * * *
1855255 TTAGAAATAAAAATAGGGTTGGAGTATCTCTTAGAAATAACGAGGTTAGAATATTCTCGATGGTA
64 TTAGAAATAAAAATAGGGTTGGAGTATCCCTCAGAAATAACGAGGTTAGAATATCCCCGATGATA
* *
1855320 AAAAATTGATATAGTGAAAATAAAAACGA
129 AAAAATTAATATAGTAAAAATAAAAA-GA
*
1855349 GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCCGAGATGAAAAATTAAATATTTT
1 GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCCAAGATGAAAAATTAAATATTTT
* * * * *
1855414 GGAAATAAAAAT-GGGATTGGAGTATCCCTCAGAAATAATGGGGTTAGAGTGTCCCCG-TGATGA
66 AGAAATAAAAATAGGG-TTGGAGTATCCCTCAGAAATAACGAGGTTAGAATATCCCCGATGAT-A
** ** *
1855477 AAATTTTAATATTTTAAAAATAAAAATA
129 AAAAATTAATATAGTAAAAATAAAAAGA
* * * * * *
1855505 TGGTTGGAGTATCCCCTCGGAAATGATGGGGTTAGAGTATCCC
1 -GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCC
1855548 TAATGGTAAA
Statistics
Matches: 284, Mismatches: 62, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
156 32 0.11
157 248 0.87
158 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (156 bp):
GGTTGAAGTATCCCCTTGAAAATAATGAGGTTAAAGTATCCCCAAGATGAAAAATTAAATATTTT
AGAAATAAAAATAGGGTTGGAGTATCCCTCAGAAATAACGAGGTTAGAATATCCCCGATGATAAA
AAATTAATATAGTAAAAATAAAAAGA
Found at i:1858791 original size:51 final size:51
Alignment explanation
Indices: 1858736--1858840 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
1858726 GGGATTGGAG
*
1858736 TATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
1858787 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
1858838 TAT
1 TAT
1858841 TTTGGAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
Found at i:1858813 original size:79 final size:77
Alignment explanation
Indices: 1858641--1858821 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 77
1858631 TTTTGGAGAT
* * ** *
1858641 AATAACGGGGTTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCTCGGTTGTGAAAAATC
1 AATAACGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATC
* *
1858706 GATGATTAGGAA
66 AATGATTACGAA
* * * * *
1858718 ATAAAATCGGGATTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAA
1 A-ATAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAA
1858783 TCAAT-ATCCCCT-CGAA
64 TCAATGAT----TACGAA
1858799 AATAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
1858822 AATTATGAGA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.01
78 5 0.06
79 70 0.83
80 3 0.04
81 4 0.05
82 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (77 bp):
AATAACGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATC
AATGATTACGAA
Found at i:1858890 original size:130 final size:130
Alignment explanation
Indices: 1858657--1858900 Score: 294
Period size: 130 Copynumber: 1.9 Consensus size: 130
1858647 GGGGTTGGAG
* * ** * *
1858657 TATCCCCTTGAAAATAACGAGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGATTAGGAAATAA
1 TATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAA
* *
1858722 AATCGGGATTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
66 AACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
* * *
1858787 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGAAATA
1 TATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATA
** * * * **
1858851 ATGCCGGGGTTTGG-GTATCCCCTTGGAGGTAACGGGGTTGGAGTATCCCC
65 AAACC-GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1858901 GATGAAATAA
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
129 1 0.01
130 86 0.91
131 7 0.07
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (130 bp):
TATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAA
AACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAA
Found at i:1859149 original size:49 final size:49
Alignment explanation
Indices: 1859041--1859170 Score: 154
Period size: 49 Copynumber: 2.6 Consensus size: 49
1859031 CGAAAATATG
* * * *
1859041 GGGTTGGAGTATCCCCAGTTATGAAAAACTGATGTTTTAGAAATAAAATC
1 GGGTTGGAGTATCCCCAATTATGAAAAATTAATG-TTTAGAAATAAAACC
* * *
1859091 GGAGTTGGAGTTTCCCCAATTGTGGAAAATTAATG-TTAGAAATAAAACC
1 GG-GTTGGAGTATCCCCAATTATGAAAAATTAATGTTTAGAAATAAAACC
*
1859140 AGGGTTGGAGTATCCCCGATTATGAAAAATT
1 -GGGTTGGAGTATCCCCAATTATGAAAAATT
1859171 GAGAAACTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 37 0.55
50 4 0.06
51 26 0.39
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (49 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATTAATGTTTAGAAATAAAACC
Found at i:1861540 original size:21 final size:21
Alignment explanation
Indices: 1861516--1861557 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1861506 GTATCGATAC
1861516 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1861537 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1861558 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1861592 original size:13 final size:13
Alignment explanation
Indices: 1861574--1861625 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1861564 AGCTTCGTAG
1861574 CGATACATTGTAT
1 CGATACATTGTAT
1861587 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1861606 CGATACATTGTAT
1 CGATACATTGTAT
1861619 CGATACA
1 CGATACA
1861626 AAACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1861606 original size:19 final size:19
Alignment explanation
Indices: 1861582--1861644 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1861572 AGCGATACAT
1861582 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1861601 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
1861614 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1861633 TGTATCGATACA
1 TGTATCGATACA
1861645 TTTTCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1861615 original size:32 final size:32
Alignment explanation
Indices: 1861574--1861646 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
1861564 AGCTTCGTAG
1861574 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1861606 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1861638 CGATACATT
1 CGATACATT
1861647 TTCTGTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1862526 original size:55 final size:55
Alignment explanation
Indices: 1862429--1862991 Score: 724
Period size: 55 Copynumber: 10.0 Consensus size: 55
1862419 ATAAAGTGCA
* *
1862429 TCCTGCTACTTTGAGGACTAAAAATGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCT-CTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1862486 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
1862541 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1862596 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACAA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GC-G
* *
1862658 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTTTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1862713 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1862768 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
*
1862829 TCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1862884 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1862939 TCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCCTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1862992 AGAAGGCGTC
Statistics
Matches: 458, Mismatches: 24, Indels: 50
0.86 0.05 0.09
Matches are distributed among these distances:
54 11 0.02
55 309 0.67
56 28 0.06
57 11 0.02
59 4 0.01
60 2 0.00
61 49 0.11
62 40 0.09
63 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1862708 original size:28 final size:28
Alignment explanation
Indices: 1862677--1862818 Score: 73
Period size: 28 Copynumber: 5.1 Consensus size: 28
1862667 TTGAGGACTA
1862677 GAAAATGCCACCAACTTTTGTGGGCTTT
1 GAAAATGCCACCAACTTTTGTGGGCTTT
* ** * *
1862705 G-AAA-GGCATCCTGCTCTTTGAGGAC--T
1 GAAAATGCCA-CCAACT-TTTGTGGGCTTT
*
1862731 GAAAAATGCCACCAACTTGTGTGGGCTTT
1 G-AAAATGCCACCAACTTTTGTGGGCTTT
* ** * * *
1862760 G-AAA-GGCATCCTGCTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TTTGTGGGCTTT
*
1862787 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTTTGTGGGCTTT
1862815 GAAA
1 GAAA
1862819 GGAGAAGGCG
Statistics
Matches: 77, Mismatches: 25, Indels: 24
0.61 0.20 0.19
Matches are distributed among these distances:
26 8 0.10
27 28 0.36
28 33 0.43
29 8 0.10
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (28 bp):
GAAAATGCCACCAACTTTTGTGGGCTTT
Found at i:1862739 original size:172 final size:170
Alignment explanation
Indices: 1862429--1862990 Score: 755
Period size: 172 Copynumber: 3.3 Consensus size: 170
1862419 ATAAAGTGCA
* * * *
1862429 TCCTGCTACTTTGAGGACTAAAAATGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GCGTC
1 TCCTGCT-CTTTGAGGACT-GAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATC
*
1862488 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTT
63 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTT
* * *
1862552 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
127 GAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1862596 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACAATCC
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAC-ATCC
* * *
1862661 TGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTTTGTGGGCTTTGAAAGGCATCCTGCTCTTTG
64 TGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
*
1862725 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
128 AGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * ** *
1862768 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATCCT
*
1862833 ACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
65 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
** *
1862898 GACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCG
130 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1862939 TCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCCTT-AAAAG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
1862991 GAGAAGGCGT
Statistics
Matches: 350, Mismatches: 33, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
165 27 0.08
166 14 0.04
167 7 0.02
170 8 0.02
171 141 0.40
172 144 0.41
173 9 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (170 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACATCCTG
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
ACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1862881 original size:29 final size:28
Alignment explanation
Indices: 1862848--1862936 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 28
1862838 TTGAGGACTA
1862848 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCAACTT-TGTGGGCTTTG
* ** * * *
1862877 AAAGGCGTCCTGC-TCTTTGAGGAC--TG
1 AAAGGTG-CCACCAACTTTGTGGGCTTTG
1862903 AAAGGTGCCACCAACTTATGTGGGCTTTG
1 AAAGGTGCCACCAACTT-TGTGGGCTTTG
1862932 AAAGG
1 AAAGG
1862937 CGTCCTGCTC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 11 0.26
27 5 0.12
28 5 0.12
29 16 0.37
30 3 0.07
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTTGTGGGCTTTG
Found at i:1862905 original size:26 final size:26
Alignment explanation
Indices: 1862875--1862960 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
1862865 GTGTGGGCTT
1862875 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
1862901 TGAAAGGTG-CCACCAACTTATGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
1862928 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
1862956 TGAAA
1 TGAAA
1862961 AGTGTCACCA
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 5 0.12
28 5 0.12
29 11 0.26
30 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:1862914 original size:171 final size:170
Alignment explanation
Indices: 1862421--1863020 Score: 822
Period size: 171 Copynumber: 3.5 Consensus size: 170
1862411 ATAGGAAAAT
* *
1862421 AAAGTGCATCCTGCTACTTTGAGGACTAAAAATGTGCCACCAACTCGTGTGGGCTTT-----GA-
1 AAAG-GCATCCTGCT-CTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGAG
* *
1862480 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCC
63 AAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCC
*
1862544 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTA
127 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
** * * * * *
1862589 AAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAG
* * * * * *
1862654 ACAATCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTTTGTGGGCTTTGAAAGGCATCCTG
66 GC-GTCCTACTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
1862718 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG
129 CTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG
1862761 AAAGGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAA
1862825 GGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
65 GGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGC
* *
1862890 TCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTG
130 TCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG
* * * *
1862932 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCCTTAAAAGGAGAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAG
*
1862997 GCGTCCTACTCTTTGTGGACTAAA
66 GCGTCCTACTCTTTGAGGACTAAA
1863021 GGGCGAAAGG
Statistics
Matches: 384, Mismatches: 34, Indels: 25
0.87 0.08 0.06
Matches are distributed among these distances:
165 23 0.06
166 13 0.03
167 8 0.02
168 4 0.01
170 13 0.03
171 171 0.45
172 143 0.37
173 9 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (170 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAG
GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1863109 original size:100 final size:100
Alignment explanation
Indices: 1862936--1863120 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 100
1862926 GCTTTGAAAG
* * *
1862936 GCGTCCTGCTCTTTGAGGACTGAAAAGTGTCACCAACTTGTGTGGGCCTTAAAAGGAGAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCAT
*
1863001 CCTACTCTTTGTGGACTAAAGGGCGAAAGGAGAGA
66 CCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
** * *
1863036 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGTGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCAT
*
1863101 CCTGCTCTTTGAGGACTAAA
66 CCTACTCTTTGAGGACTAAA
1863121 AAGCGGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (100 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCAT
CCTACTCTTTGAGGACTAAAGGGCGAAAGGAGAGA
Found at i:1864093 original size:1 final size:1
Alignment explanation
Indices: 1864083--1864180 Score: 97
Period size: 1 Copynumber: 98.0 Consensus size: 1
1864073 CTTAAGTAGA
* * * * * * *
1864083 TTTTTCTTTTTTTTTCTCTTTTTTTGTTTTTTTTTGTTTTTTTTTTTTTGTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
1864148 TTTGTTTTTTTGTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1864181 AAAAAAAGAA
Statistics
Matches: 75, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:1864098 original size:10 final size:10
Alignment explanation
Indices: 1864083--1864179 Score: 108
Period size: 10 Copynumber: 9.5 Consensus size: 10
1864073 CTTAAGTAGA
*
1864083 TTTTTCTTTT
1 TTTTTGTTTT
* *
1864093 TTTTTCTCTT
1 TTTTTGTTTT
1864103 TTTTTGTTTT
1 TTTTTGTTTT
1864113 TTTTTGTTTT
1 TTTTTGTTTT
1864123 TTTTT-TTTT
1 TTTTTGTTTT
1864132 GTTTTT-TTTT
1 -TTTTTGTTTT
*
1864142 GTTTTTTTTGTT
1 -TTTTTGTT-TT
1864154 TTTTTGTTGTT
1 TTTTTGTT-TT
1864165 TTTTTGTTTT
1 TTTTTGTTTT
1864175 TTTTT
1 TTTTT
1864180 TAAAAAAAGA
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
9 4 0.05
10 54 0.68
11 20 0.25
12 2 0.03
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:1864112 original size:19 final size:17
Alignment explanation
Indices: 1864083--1864180 Score: 117
Period size: 18 Copynumber: 5.6 Consensus size: 17
1864073 CTTAAGTAGA
* *
1864083 TTTTTCTTTTTTTTTCTC
1 TTTTT-TTTTTTTTTTTG
1864101 TTTTTTTGTTTTTTTTTG
1 TTTTTTT-TTTTTTTTTG
*
1864119 TTTTTTTTTTTTTGTT-
1 TTTTTTTTTTTTTTTTG
*
1864135 TTTTTTTGTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
1864152 TTTTTTTGTTGTTTTTTTG
1 TTTTTTT-TT-TTTTTTTG
1864171 TTTTTTTTTT
1 TTTTTTTTTT
1864181 AAAAAAAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
16 14 0.20
17 18 0.26
18 23 0.33
19 15 0.21
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:1864112 original size:20 final size:18
Alignment explanation
Indices: 1864083--1864180 Score: 110
Period size: 19 Copynumber: 5.4 Consensus size: 18
1864073 CTTAAGTAGA
* *
1864083 TTTTTCTTTTTTTTT-CT
1 TTTTTTTTTTTTTTTGTT
* *
1864100 CTTTTTTTGTTTTTT-TT
1 TTTTTTTTTTTTTTTGTT
*
1864117 TGTTTTTTTTTTTTTGTT
1 TTTTTTTTTTTTTTTGTT
1864135 TTTTTTTGTTTTTTTTGTT
1 TTTTTTT-TTTTTTTTGTT
*
1864154 TTTTTGTTGTTTTTTTGTT
1 TTTTT-TTTTTTTTTTGTT
1864173 TTTTTTTT
1 TTTTTTTT
1864181 AAAAAAAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
17 25 0.37
18 10 0.15
19 31 0.46
20 2 0.03
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTGTT
Found at i:1874503 original size:4 final size:4
Alignment explanation
Indices: 1874494--1874520 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1874484 AAAAACAGAC
1874494 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1874521 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1876724 original size:79 final size:79
Alignment explanation
Indices: 1876589--1876790 Score: 219
Period size: 79 Copynumber: 2.5 Consensus size: 79
1876579 TAATAACTGG
* * * * ** *
1876589 GGTTGGAGTATCCCCTTGAAAATATCGAGGTTGGAGTATCCCCGGTTGTGAAAAATCAATGA-TT
1 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTT
* *
1876653 AGGAAATAAAATCG-
65 AGAAAATAAAACCGA
* *
1876667 GGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATATTT
1 GG-TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTT
* *
1876732 TGAAAATAAAGCCGA
65 AGAAAATAAAACCGA
* **
1876747 GGTTGGAGTATCCCCTCAGAGGGTAACGGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCTCGGA-AATAACGGGGTTGGAGTATCCCC
1876791 GATGAAATAA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 3 0.03
79 78 0.76
80 22 0.21
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTA
GAAAATAAAACCGA
Found at i:1876810 original size:28 final size:29
Alignment explanation
Indices: 1876744--1876821 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
1876734 AAAATAAAGC
* **
1876744 CGAGGTTGGAGTATCCCCTCA-GAGGGTAA
1 CGAGGTTGGAGTATCCCC-GATGAGAATAA
*
1876773 CGGGGTTGGAGTATCCCCGATGA-AATAA
1 CGAGGTTGGAGTATCCCCGATGAGAATAA
*
1876801 CGAGGTTGGAGTATCCTCGAT
1 CGAGGTTGGAGTATCCCCGAT
1876822 TGTGAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 23 0.55
29 19 0.45
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (29 bp):
CGAGGTTGGAGTATCCCCGATGAGAATAA
Found at i:1876860 original size:108 final size:108
Alignment explanation
Indices: 1876665--1876869 Score: 252
Period size: 108 Copynumber: 1.9 Consensus size: 108
1876655 GAAATAAAAT
** * *
1876665 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCAATAT
*
1876730 TTTGAAAATAAAGCCGAGGTTGGAGTATCCCCTCAGAGGGTAA
66 TTTGAAAATAAAGCCGAGGTTGGAATATCCCCTCAGAGGGTAA
* * * * * *
1876773 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAA-CTAGTG
1 CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATC-AATA
* **
1876837 TTTTGGAAATAAAATCG-GAGTTGGAATATCCCC
65 TTTTGAAAATAAAGCCGAG-GTTGGAATATCCCC
1876870 GATTGTGGAG
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 2 0.02
108 79 0.98
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCTCAATTATGAAAAATCAATAT
TTTGAAAATAAAGCCGAGGTTGGAATATCCCCTCAGAGGGTAA
Found at i:1876918 original size:51 final size:51
Alignment explanation
Indices: 1876804--1876920 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
1876794 GAAATAACGA
* *
1876804 GGTTGGAGTATCCTCGATTGTGAAAAACTAGTGTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAACTAGTGTTTTAGAAATAAAATCGG
* * * * * *
1876855 AGTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAACTAGTGTTTTAGAAATAAAATC-GG
*
1876906 GGTTCGAGTATCCCC
1 GGTTGGAGTATCCCC
1876921 TCGAGAATAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAACTAGTGTTTTAGAAATAAAATCGG
Found at i:1877028 original size:52 final size:50
Alignment explanation
Indices: 1876933--1877115 Score: 203
Period size: 52 Copynumber: 3.6 Consensus size: 50
1876923 GAGAATATGA
* *
1876933 GGTTGGAGTATCCCCGGTTATGAAAAATTGATGTTTT-AGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGA-AAATAAAATCG
* *
1876983 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 G-GTTGGAGTATCCCCGATT-ATGGAAAATTGATGTTTTGAAAATAAAATC-G
* * * *
1877036 GGTTGGAGTATCCCTGATTGTGGAAAATTAATG-TTAG-AAATAAAA-CTG
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGAAAATAAAATC-G
*
1877084 TGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 -GGTTGGAGTATCCCCGATTATGGAAAATTGA
1877116 GAAACTTAAC
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.02
49 35 0.31
50 4 0.04
51 27 0.24
52 42 0.37
53 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGAAAATAAAATCG
Done.