Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold329
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: 4121247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 5938 characters in sequence are not A, C, G, or T
File 12 of 25
Found at i:1764550 original size:32 final size:32
Alignment explanation
Indices: 1764504--1764581 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
1764494 GTAGTAGCTT
*
1764504 TGTAGCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
1764536 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
1764568 TGTATCGATACATT
1 TGTATCGATACATT
1764582 TACTGTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:1768708 original size:22 final size:23
Alignment explanation
Indices: 1768683--1768736 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
1768673 AAAAAAGGTC
** * *
1768683 AAAAGCAAAAGTATAAAACATG-
1 AAAAGCAAAAACAAAAAAAATGC
1768705 AAAAG-AAAAACAAAAAAAATGC
1 AAAAGCAAAAACAAAAAAAATGC
1768727 AAAAGCAAAA
1 AAAAGCAAAA
1768737 TAAAAAGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 12 0.46
22 10 0.38
23 4 0.15
ACGTcount: A:0.72, C:0.09, G:0.11, T:0.07
Consensus pattern (23 bp):
AAAAGCAAAAACAAAAAAAATGC
Found at i:1768741 original size:22 final size:22
Alignment explanation
Indices: 1768671--1768742 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
1768661 CAAAATGACA
*
1768671 AAAAAAAAGGTCAAAAGCAAAAGT
1 AAAAAAAATG-CAAAAGCAAAA-T
* * * *
1768695 ATAAAACATG-AAAAGAAAAAC
1 AAAAAAAATGCAAAAGCAAAAT
1768716 AAAAAAAATGCAAAAGCAAAAT
1 AAAAAAAATGCAAAAGCAAAAT
1768738 AAAAA
1 AAAAA
1768743 GGGAACAACA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 8 0.21
22 23 0.61
24 7 0.18
ACGTcount: A:0.72, C:0.08, G:0.11, T:0.08
Consensus pattern (22 bp):
AAAAAAAATGCAAAAGCAAAAT
Found at i:1770083 original size:28 final size:28
Alignment explanation
Indices: 1770005--1771246 Score: 1213
Period size: 28 Copynumber: 42.5 Consensus size: 28
1769995 ATTGTGACCT
*
1770005 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1770034 TTTCAAAGCTCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1770062 TTTCAAAGCCTACAATTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1770090 TTTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770118 -TTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770145 TTTCAAAGCCCACAATTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770173 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770201 -TTCAAAGCCTACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770228 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770256 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770284 TTTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
1770313 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770341 -TTCAAAGCCCACAAGTCAGTGGCACAC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770368 TTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1770397 TTTCAAAGCCCATAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770425 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770453 TTTTCAAAGCCCACAAGTTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770482 TTTCAAAGCCCACAAGTTAGTTAGTGGCA-TC
1 TTTCAAAGCCCAC-A---AGTCAGTGGCACCC
*
1770513 TTTCAAAGCCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1770541 TTTCAAAGCCCATAATTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
1770570 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770598 TTTTAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
1770627 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770655 TTTCAAAGCCCACAAGTTAGTGGAACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1770683 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1770712 TTTCAAAGCTCACAAGTCAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1770739 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** *
1770767 TTTCAAAGTTCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1770795 TTTCAAAGCCCAGAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
1770824 TTTCAAAGCCCACAAGTCGGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGC-ACCC
* * *
1770853 ATTTTAAAGCCCACACAAAT-AGGTGGCAACCTA
1 -TTTCAAAG-CC-CACAAGTCA-GTGGC-ACC-C
* *
1770886 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* **
1770918 TTTGAAAGCCCACATAAGTTGGTGGCAACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGC-ACCC
*
1770949 ATTTCAAAGCCCACACAAG-CAGGTGGCAACCTA
1 -TTTCAAAG-CC-CACAAGTCA-GTGGC-ACC-C
* **
1770982 TTTCAAAGCCCACACAAGTCAATGGCAACTTA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1771014 TTTCAAAGCCCACATAAGTC-GATGGCAACCC
1 TTTCAAAGCCCAC--AAGTCAG-TGGC-ACCC
** *
1771045 ATTTCAAAGCCTACACAAGTTGGTGGAAACCC
1 -TTTCAAAGCC--CACAAGTCAGTGG-CACCC
*
1771077 ATTTCAAAGCCCACACAAGTCTGTGGCAACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
* * * *
1771109 ATTTCAAAGCCCACAAGTTAGTGACATCA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
** *
1771138 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
1771170 TTTGAAAGCCCATACAAGTCGGTGGCAACCA
1 TTTCAAAGCCC--ACAAGTCAGTGGC-ACCC
** *
1771201 TTTCAAAGCCCACACAGGTTGGTGGCAACTCA
1 TTTCAAAGCCCACA-A-GTCAGTGGC-AC-CC
1771233 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1771247 TAAGTAGGTG
Statistics
Matches: 1043, Mismatches: 118, Indels: 101
0.83 0.09 0.08
Matches are distributed among these distances:
27 107 0.10
28 392 0.38
29 208 0.20
30 41 0.04
31 49 0.05
32 232 0.22
33 8 0.01
34 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1770337 original size:57 final size:56
Alignment explanation
Indices: 1770005--1771246 Score: 1188
Period size: 57 Copynumber: 21.2 Consensus size: 56
1769995 ATTGTGACCT
* * * *
1770005 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * * *
1770062 TTTCAAAGCCTACAATTTAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
1770117 CTTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACAATTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
1770173 TTTCAAAGCCCATAAGTCAGTGGCATCC-TTCAAAGCCTACAAGTCAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
*
1770227 TTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
1770284 TTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
1770340 CTTCAAAGCCCACAAGTCAGTGGCACACTTTCAAAGCCCACAAGTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* * * *
1770397 TTTCAAAGCCCATAAGTCAGTGGCACCTTTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
1770453 TTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTTAGTGGCA-TC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC-A---AGTCAGTGGCACTC
* * * *
1770513 TTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCATAATTTAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
1770570 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
1770626 TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGAACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
1770683 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTC
** * *
1770739 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGTTCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
1770795 TTTCAAAGCCCAGAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCGGTGGCAACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGC-ACTC
* * * *
1770853 ATTTTAAAGCCCACACAAAT-AGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 -TTTCAAAG-CC-CACAAGTCA-GTGGC-ACC-CTTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
* **
1770917 ATTTGAAAGCCCACATAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAG-CAGGTGGCAACCT
1 -TTTCAAAGCCCAC--AAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCA-GTGGC-A-CT
*
1770981 A
56 C
* ** *
1770982 TTTCAAAGCCCACACAAGTCAATGGCAACTTATTTCAAAGCCCACATAAGTC-GATGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCAC--AAGTCAG-TGGC-ACTC
** * * *
1771045 ATTTCAAAGCCTACACAAGTTGGTGGAAACCCATTTCAAAGCCCACACAAGTCTGTGGCAACCC
1 -TTTCAAAGCC--CACAAGTCAGTGG-CACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
* * * * **
1771109 ATTTCAAAGCCCACAAGTTAGTGACATCATTTCAAAGCCCACACAAGTTGGTGGCAACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACTC
* * * **
1771169 ATTTGAAAGCCCATACAAGTCGGTGGCAACCATTTCAAAGCCCACACAGGTTGGTGGCAACTC
1 -TTTCAAAGCCC--ACAAGTCAGTGGC-ACCCTTTCAAAGCCCACA-A-GTCAGTGGC-ACTC
1771232 ATTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
1771247 TAAGTAGGTG
Statistics
Matches: 1015, Mismatches: 118, Indels: 100
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.00
55 155 0.15
56 201 0.20
57 281 0.28
58 6 0.01
59 45 0.04
60 43 0.04
61 30 0.03
62 40 0.04
63 47 0.05
64 152 0.15
65 8 0.01
66 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:1770878 original size:32 final size:32
Alignment explanation
Indices: 1770824--1771303 Score: 501
Period size: 32 Copynumber: 15.2 Consensus size: 32
1770814 GTGGCACTCC
*
1770824 TTTCAAAG-CC-CACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * *
1770854 TTTTAAAGCCCACACAAATAGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* *
1770886 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * *
1770918 TTTGAAAGCCCACATAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* *
1770950 TTTCAAAGCCCACACAAGCAGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* **
1770982 TTTCAAAGCCCACACAAGTCA-ATGGCAACTTA
1 TTTCAAAGCCCACACAAGT-AGGTGGCAACCCA
* * *
1771014 TTTCAAAGCCCACATAAGTCGATGGCAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * *
1771046 TTTCAAAGCCTACACAAGTTGGTGGAAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
**
1771078 TTTCAAAGCCCACACAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* *
1771110 TTTCAAAG-CC-CACAAGTTA-GTGAC-A-TCA
1 TTTCAAAGCCCACACAAG-TAGGTGGCAACCCA
* *
1771138 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * *
1771170 TTTGAAAGCCCATACAAGTCGGTGGCAA-CCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * *
1771201 TTTCAAAGCCCACACAGGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* ***
1771233 TTTCAAAGCCCACATAAGTAGGTGGCAACTTG
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
* * * * * *
1771265 TTTTAAAGCCCACGCAAGTCGATGGTAACCCT
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
1771297 TTTCAAA
1 TTTCAAA
1771304 TCACCACTTT
Statistics
Matches: 376, Mismatches: 63, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
28 10 0.03
29 4 0.01
30 27 0.07
31 32 0.09
32 302 0.80
33 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTAGGTGGCAACCCA
Found at i:1770911 original size:64 final size:64
Alignment explanation
Indices: 1770570--1771303 Score: 553
Period size: 64 Copynumber: 12.1 Consensus size: 64
1770560 GTGGCACTCC
* * * *
1770570 TTTCAAAG-CC-CACAAGTCA-GTGGCATCCT-TTT-AAAG-CC-CACAAGTCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGT-AGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* **
1770627 TTTCAAAG-CC-CACAAGTCA-GTGGC-A-CTCTTTCAAAG-CC-CACAAGTTAGTGG-AACCC-
1 TTTCAAAGCCCACACAAGT-AGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
1770683 TTTCAAAG-CC-CACAAGTCA-GTGGC-ACTCT-TTTCAAAG--CTCACAAGTCAGTGGC-A-TC
1 TTTCAAAGCCCACACAAGT-AGGTGGCAAC-CTATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1770739 -
64 A
* ** **
1770739 TTTCAAAG-CC-CACAAGTCA-GTGGC-ACC-CTTTCAAAG--TTCACAAGTCAATGGC-ACCC-
1 TTTCAAAGCCCACACAAGT-AGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1770795 TTTCAAAG-CC-CAGAAGTTA-GTGGC-A-CTCCTTTCAAAG-CC-CACAAGTCGGTGGCAACCC
1 TTTCAAAGCCCACACAAG-TAGGTGGCAACCT-ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1770853 A
64 A
* * *
1770854 TTTTAAAGCCCACACAAATAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * *
1770918 TTTGAAAGCCCACATAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAG-CAGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTC-GGTGGCAACCCA
* * * *
1770982 TTTCAAAGCCCACACAAGTCA-ATGGCAACTTATTTCAAAGCCCACATAAGTCGATGGCAACCCA
1 TTTCAAAGCCCACACAAGT-AGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * *
1771046 TTTCAAAGCCTACACAAGTTGGTGGAAACCCATTTCAAAGCCCACACAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
1771110 TTTCAAAG-CC-CACAAGTTA-GTGAC-ATC-ATTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAG-TAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * * *
1771170 TTTGAAAGCCCATACAAGTCGGTGGCAACC-ATTTCAAAGCCCACACAGGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * * * * *
1771233 TTTCAAAGCCCACATAAGTAGGTGGCAACTTGTTTTAAAGCCCACGCAAGTCGATGGTAACCCT
1 TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1771297 TTTCAAA
1 TTTCAAA
1771304 TCACCACTTT
Statistics
Matches: 575, Mismatches: 70, Indels: 57
0.82 0.10 0.08
Matches are distributed among these distances:
55 27 0.05
56 79 0.14
57 88 0.15
58 6 0.01
59 7 0.01
60 41 0.07
61 14 0.02
62 27 0.05
63 66 0.11
64 219 0.38
65 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (64 bp):
TTTCAAAGCCCACACAAGTAGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:1770949 original size:96 final size:95
Alignment explanation
Indices: 1770211--1771303 Score: 656
Period size: 85 Copynumber: 12.3 Consensus size: 95
1770201 TTCAAAGCCT
* * * **
1770211 ACAAGTCAGTGGC-AC-CTTTTCAAAGCTCAC-AAGTCAGTGGC-ACCC-TTTCAAAG-CC-CAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
*
1770269 AAGTCA-GTGGC-A-CTCTTTCAAAG-CC-C
66 AAGT-AGGTGGCAACCTATTTCAAAGCCCAC
* * * **
1770295 ACAAGTCAGTGGC-ATTCTTTTCAAAGCCCAC-AAGTCAGTGGC-ACCC--TTCAAAG-CC-CAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
1770353 AAGTCA-GTGGC-A-C-ACTTTCAAAG-CC-C
66 AAGT-AGGTGGCAACCTA-TTTCAAAGCCCAC
** * * ** * *
1770379 ACAAGTTAGTGGC-ACTCCTTTCAAAGCCCA-TAAGTCAGTGGC-A-CCTTTTTAAAG-CC-CAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
*
1770438 AAGTCA-GTGGCACCCT-TTTCAAAG-CC-C
66 AAGT-AGGTGGCAACCTATTTCAAAGCCCAC
** * * *
1770465 ACAAGTTAGTGGC-AC-CCTTTCAAAGCCCACAAGTTAGTTAGTGGC-A-TC-TTTCAAAG-CC-
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAA---AGTTGGTGGCAACCCATTTCAAAGCCCA
* *
1770523 CACAAGTCA-GTGG-TACC-CTTTCAAAG-CC-C
63 CACAAGT-AGGTGGCAACCTATTTCAAAGCCCAC
* * ** * ** * *
1770552 ATAATTTAGTGGC-ACTCCTTTCAAAGCCCAC-AAGTCAGTGGC-ATCC-TTTTAAAG-CC-CAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
1770611 AAGTCA-GTGGC-ACTCT-TTTCAAAG-CC-C
66 AAGT-AGGTGGCAAC-CTATTTCAAAGCCCAC
* *
1770638 ACAAGTCAGTGGC-ACTC-TTTCAAAGCCCAC-AAGTTAGTGG-AACCC-TTTCAAAG-CC-CAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
*
1770696 AAGTCA-GTGGC-ACTCT-TTTCAAAG--CTC
66 AAGT-AGGTGGCAAC-CTATTTCAAAGCCCAC
* ** **
1770723 ACAAGTCAGTGGC-A-TC-TTTCAAAGCCCAC-AAGTCAGTGGC-ACCC-TTTCAAAG--TTCAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
* *
1770780 AAGTCA-ATGGC-ACC-CTTTCAAAG-CC-C
66 AAGT-AGGTGGCAACCTATTTCAAAGCCCAC
* ** * * *
1770806 AGAAGTTAGTGGC-ACTCCTTTCAAAGCCCAC-AAGTCGGTGGCAACCCATTTTAAAGCCCACAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
*
1770869 AAATAGGTGGCAACCTATTTCAAAGCCCAC
66 AAGTAGGTGGCAACCTATTTCAAAGCCCAC
*
1770899 ACAAGTCGGTGGCAACTCATTTGAAAGCCCACATAAGTTGGTGGCAACCCATTTCAAAGCCCACA
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACA-AAGTTGGTGGCAACCCATTTCAAAGCCCACA
*
1770964 CAAGCAGGTGGCAACCTATTTCAAAGCCCAC
65 CAAGTAGGTGGCAACCTATTTCAAAGCCCAC
** * * * *
1770995 ACAAGTCAATGGCAACTTATTTCAAAGCCCACATAAGTCGATGGCAACCCATTTCAAAGCCTACA
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACA-AAGTTGGTGGCAACCCATTTCAAAGCCCACA
* * *
1771060 CAAGTTGGTGGAAACCCATTTCAAAGCCCAC
65 CAAGTAGGTGGCAACCTATTTCAAAGCCCAC
* * * * *
1771091 ACAAGTCTGTGGCAACCCATTTCAAAGCCCAC-AAGTTAGTGAC-A-TCATTTCAAAGCCCACAC
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
* * *
1771153 AAGTTGGTGGCAA-CTCATTTGAAAGCCCAT
66 AAGTAGGTGGCAACCT-ATTTCAAAGCCCAC
* *
1771183 ACAAGTCGGTGGCAAC-CATTTCAAAGCCCACACAGGTTGGTGGCAACTCATTTCAAAGCCCACA
1 ACAAGTCGGTGGCAACTCATTTCAAAGCCCACA-AAGTTGGTGGCAACCCATTTCAAAGCCCACA
* * * *
1771247 TAAGTAGGTGGCAACTTGTTTTAAAGCCCAC
65 CAAGTAGGTGGCAACCTATTTCAAAGCCCAC
* * * * *
1771278 GCAAGTCGATGGTAACCCTTTTCAAA
1 ACAAGTCGGTGGCAACTCATTTCAAA
1771304 TCACCACTTT
Statistics
Matches: 879, Mismatches: 85, Indels: 78
0.84 0.08 0.07
Matches are distributed among these distances:
83 24 0.03
84 154 0.18
85 189 0.22
86 57 0.06
87 35 0.04
88 38 0.04
89 21 0.02
90 3 0.00
91 24 0.03
92 57 0.06
93 20 0.02
94 24 0.03
95 53 0.06
96 180 0.20
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (95 bp):
ACAAGTCGGTGGCAACTCATTTCAAAGCCCACAAAGTTGGTGGCAACCCATTTCAAAGCCCACAC
AAGTAGGTGGCAACCTATTTCAAAGCCCAC
Found at i:1771427 original size:48 final size:48
Alignment explanation
Indices: 1771368--1771469 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
1771358 AGCACCTTTA
* * * * *
1771368 TTAGCTCAATGTTGCTGGCCTTGAATCAGCACATTGTCCATTTTTCGC
1 TTAGCTCAATGTGGCTAGCCTTAAATCAGCACATTGTCCACTTTTCCC
1771416 TTAGCTCAATGTGGCTAGCCTTAAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTGGCTAGCCTTAAATCAGCACATTGTCCACTTTTCCC
1771464 TTAGCT
1 TTAGCT
1771470 TGATGTCGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTGGCTAGCCTTAAATCAGCACATTGTCCACTTTTCCC
Found at i:1776474 original size:20 final size:19
Alignment explanation
Indices: 1776451--1776523 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1776441 CACACCCAGA
*
1776451 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1776471 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* *
1776490 TGTATCGATACATGGATAAT
1 TGTATCGATACAT-GTTCAT
1776510 TGTATCGATACATG
1 TGTATCGATACATG
1776524 AAACTGGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1782801 original size:33 final size:33
Alignment explanation
Indices: 1782757--1782835 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
1782747 AAAACCCAGA
*
1782757 TGTATCAATACAATATTCTTTGTATCGACACAT
1 TGTATCGATACAATATTCTTTGTATCGACACAT
*
1782790 TGTATCGATACAATATTCTTTGTATTGACACAT
1 TGTATCGATACAATATTCTTTGTATCGACACAT
1782823 TGTATCGATACAA
1 TGTATCGATACAA
1782836 AGGTTACTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATATTCTTTGTATCGACACAT
Found at i:1782991 original size:20 final size:20
Alignment explanation
Indices: 1782953--1782992 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1782943 TTACAAATTT
1782953 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
1782974 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
1782993 CACCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:1785341 original size:19 final size:19
Alignment explanation
Indices: 1785298--1785370 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1785288 CACACTCAGA
*
1785298 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1785318 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1785337 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
1785357 TGTATCGATACATG
1 TGTATCGATACATG
1785371 AAACTAACAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1794031 original size:11 final size:12
Alignment explanation
Indices: 1794017--1794078 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 12
1794007 AACTTAGCTG
*
1794017 AAAAAAAGA-AT
1 AAAAAAAGAGAC
1794028 AAAAAAAGAGAC
1 AAAAAAAGAGAC
1794040 AAAAAAA-AGA-
1 AAAAAAAGAGAC
* * *
1794050 AAGAAAATAGAG
1 AAAAAAAGAGAC
1794062 AAAAAAAG-GA-
1 AAAAAAAGAGAC
1794072 AAAAAAA
1 AAAAAAA
1794079 TAGTGAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
10 13 0.30
11 17 0.39
12 14 0.32
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAGAC
Found at i:1794048 original size:24 final size:23
Alignment explanation
Indices: 1794017--1794068 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
1794007 AACTTAGCTG
1794017 AAAAAAAGAATA-AAAAAAGAGACA
1 AAAAAAAGAA-AGAAAAAAGAGA-A
*
1794041 AAAAAAAGAAAGAAAATAGAGAA
1 AAAAAAAGAAAGAAAAAAGAGAA
1794064 AAAAA
1 AAAAA
1794069 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAAAGAAAAAAGAGAA
Found at i:1794079 original size:22 final size:22
Alignment explanation
Indices: 1794016--1794087 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
1794006 TAACTTAGCT
* *
1794016 GAAAAAAAGAATAAAAAAAGAGA
1 GAAAAAAAGGA-AAAAAAATAGA
* * *
1794039 CAAAAAAAAGAAAGAAAATAGA
1 GAAAAAAAGGAAAAAAAATAGA
*
1794061 GAAAAAAAGGAAAAAAAATAGT
1 GAAAAAAAGGAAAAAAAATAGA
1794083 GAAAA
1 GAAAA
1794088 TAGTTGGATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
22 32 0.80
23 8 0.20
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (22 bp):
GAAAAAAAGGAAAAAAAATAGA
Found at i:1796065 original size:151 final size:150
Alignment explanation
Indices: 1795748--1796730 Score: 721
Period size: 151 Copynumber: 6.4 Consensus size: 150
1795738 TTCAAAATCA
*
1795748 AGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATTTCA
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTA-GTATTTAGGATAGGTTCATTTC-
* ** *
1795813 TATATTATCCTTTTAAAGTCCTTTA-AGGTATCAAGTACTTTTACATCGAAGGTATCCCTT-AGA
64 T-T-TTATCCTTTTTAAGTCCTTTAGAGGTAT-GGGTACTTTTACGTCGAAGGTATCCCTTAAGA
* *
1795876 GGCATTTTAGTAATTTTCTAGAACCT-
126 -GCATTTTTGTAATTTTTTAGAA-CTG
** * * * *
1795902 AGTCCTAGGTTGTCACCAAGACCGCTTTTATGCCAAAGGTATGCATTTAGGATAAGTTCA-TTCT
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTA-GTATTTAGGATAGGTTCATTTCT
* * * * *
1795966 TTTATCCTTTTTAAGTCCTTCAGAGGTGATAGGTACTTTTATGTCAAAGGCATCCCTTAAGAGCA
65 TTTATCCTTTTTAAGTCCTTTAGAGGT-ATGGGTACTTTTACGTCGAAGGTATCCCTTAAGAGCA
*
1796031 TTTTTGTAATTTTTTAGAATTG
129 TTTTTGTAATTTTTTAGAACTG
* * ** * * * **
1796053 AGTCTTAGGTTGTAACTAGGTTCGCTCTTATGCCAAAAATAGATATTTAGGATAGGTTCATTTAA
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAG-TATTTAGGATAGGTTCA-TT--
* * * * * * *
1796118 TCTATTATCCTTTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGTTGAAGGTATCCCCTAGGG
62 TCTTTTATCCTTTTTAAGTCCTTTAGAGGTAT-GGGTACTTTTACGTCGAAGGTATCCCTTAAGA
** * * *
1796183 GCATTTTCATACTTCTTTGAAAACTG
126 GCATTTTTGTAATT-TTTTAGAACTG
* * * * **
1796209 AGTCCTAAGTTGTCACGGGGTCC-TTTTTTTGCCGAAGGTAGATATTTAGGATAAATTCATTTCA
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAG-TATTTAGGATAGGTTCATTT--
* * * * * *
1796273 ACTATTATCCTTTTTAAGTCATTTAGGGGTATTGGGTACCTTTACGTCGAAGGTATCCCCTAAGG
63 -CTTTTATCCTTTTTAAGTCCTTTAGAGGTA-TGGGTACTTTTACGTCGAAGGTATCCCTTAAGA
* * **
1796338 GTATTTTGGTAATTTTTTAGAACCA
126 GCATTTTTGTAATTTTTTAGAACTG
* * *
1796363 AGTCCTAGGTCGTCACCGGGTCTGTTTTTATGCCGAAGGTA-TACATTTAGGATAGGTTCA-TTC
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGT--ATTTAGGATAGGTTCATTTC
* * * * * *
1796426 TTTTATCCTTTTTAAGTCCTTCATG-GGTACCGGGTACTTTTATGCCAAAGGTATCCCTCAAGAG
64 TTTTATCCTTTTTAAGTCCTTTA-GAGGTA-TGGGTACTTTTACGTCGAAGGTATCCCTTAAGAG
* **
1796490 CATTTTTGTAATTTTCTAGAACCA
127 CATTTTTGTAATTTTTTAGAACTG
* * * * * * *
1796514 AGTCCTAGGTTATCATCGAGTCCG-TTTTAATACCGAAGGTGGGTGTTGAGGATAGGTTCATCCC
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTT-ATGCCGAAGGT-AGTATTTAGGATAGGTTCAT---
* * * * * * * **
1796578 TTTTTTTAATCCCTTTTAAGTCCTTTAG-GGATATCAGGCACTTCTACATTGAAAATATCTCC-T
61 TTCTTTT-ATCCTTTTTAAGTCCTTTAGAGG-TAT-GGGTACTTTTACGTCGAAGGTATC-CCTT
* * * *
1796641 AGGGGTATTTTGGTAATTTTTTAGAAAC-G
122 AAGAGCATTTTTGTAATTTTTTAG-AACTG
* * * * * *
1796670 AGTCCTAGGTTTTTATCGGATCCGCTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCAT
1 AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGT-AGTATTTAGGATAGGTTCAT
1796731 CCCATCTATA
Statistics
Matches: 664, Mismatches: 133, Indels: 62
0.77 0.15 0.07
Matches are distributed among these distances:
150 25 0.04
151 210 0.32
152 8 0.01
153 6 0.01
154 84 0.13
155 196 0.30
156 126 0.19
157 9 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (150 bp):
AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGTATTTAGGATAGGTTCATTTCTT
TTATCCTTTTTAAGTCCTTTAGAGGTATGGGTACTTTTACGTCGAAGGTATCCCTTAAGAGCATT
TTTGTAATTTTTTAGAACTG
Found at i:1796251 original size:155 final size:153
Alignment explanation
Indices: 1795681--1796764 Score: 771
Period size: 155 Copynumber: 7.0 Consensus size: 153
1795671 TAGTGTCCAC
** ** * *
1795681 TAGGGGTATCGGGTACTTTTACGTTAAAGGTATCCCCTAGGGATATTTTCGTAATTATTCAAAA-
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTAAAAC
*
1795745 TCAAGTCCTAGGTTGTCACCGGGT-CTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCAT
66 T-AAGTCCTAGGTTGTCACCGGGTCCT--TTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT
* *
1795809 TTCATATATTATCCTTTTAAAGTCCTT
128 TT-ATCTATTATCCTTTTTAAGTCCTT
* ** * * * * * *
1795836 TA-AGGTATCAAGTACTTTTACATCGAAGGTATCCCTTAGAGGCATTTTAGTAATTTTCTAGAAC
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTA-AAA
** * * * * *
1795900 CT-AGTCCTAGGTTGTCACCAAGACCGCTTTTATGCCAAAGGTATG-CATTTAGGATAAGTTCA-
65 CTAAGTCCTAGGTTGTCACCGGGTCC-TTTTTATGCCGAAGGTA-GATATTTAGGATAGGTTCAT
*
1795962 -T-TCTTTTATCCTTTTTAAGTCCTT
128 TTATCTATTATCCTTTTTAAGTCCTT
* * * * * * * * * * *
1795986 CAGAGGTGAT-AGGTACTTTTATGTCAAAGGCATCCCTTAAGAGCATTTTTGTAATTTTTTAGAA
1 TAGGGGT-ATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTAAAA
* * * * * * * * **
1796050 TTGAGTCTTAGGTTGTAACTAGGTTCGC-TCTTATGCCAAAAATAGATATTTAGGATAGGTTCAT
65 CTAAGTCCTAGGTTGTCAC-CGGGTC-CTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT
*
1796114 TTAATCTATTATCCTTTTTAAGTCTTT
128 TT-ATCTATTATCCTTTTTAAGTCCTT
* * * *
1796141 TAGGGGTATCGGGTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTCATACTTCTTTGAAAA
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATT-TTTTAAAA
* * * * **
1796206 CTGAGTCCTAAGTTGTCACGGGGTCCTTTTTTTGCCGAAGGTAGATATTTAGGATAAATTCATTT
65 CTAAGTCCTAGGTTGTCACCGGGTCCTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATTT
* *
1796271 CAACTATTATCCTTTTTAAGTCATT
130 -ATCTATTATCCTTTTTAAGTCCTT
* * * * * *
1796296 TAGGGGTATTGGGTACCTTTACGTCGAAGGTATCCCCTAAGGGTATTTTGGTAATTTTTTAGAAC
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTAAAAC
* * * * *
1796361 CAAGTCCTAGGTCGTCACCGGGTCTGTTTTTATGCCGAAGGTATACATTTAGGATAGGTTCA--T
66 TAAGTCCTAGGTTGTCACCGGGTC-CTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATTT
*
1796424 -TCTTTTATCCTTTTTAAGTCCTT
130 ATCTATTATCCTTTTTAAGTCCTT
* * * * * * * * * * *
1796447 CATGGGTACCGGGTACTTTTATGCCAAAGGTAT-CCCTCAAGAGCATTTTTGTAATTTTCTAGAA
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCT-AGGGGCATTTTCGTAATTTTTTAAAA
* * * * * * * * * *
1796511 CCAAGTCCTAGGTTATCATCGAGTCCGTTTTAATACCGAAGGTGGGTGTTGAGGATAGGTTCATC
65 CTAAGTCCTAGGTTGTCACCGGGTCC-TTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT-
* *
1796576 CCTT-T-TTTTAATCCCTTTTAAGTCCTT
128 --TTATCTATT-ATCCTTTTTAAGTCCTT
* * * * * * ** * * *
1796603 TAGGGATATCAGGCACTTCTACATTGAAAATATCTCCTAGGGGTATTTTGGTAATTTTTTAGAAA
1 TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTA-AAA
* * * * * * * * *
1796668 C-GAGTCCTAGGTTTTTATCGGATCCGCTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCATC
65 CTAAGTCCTAGGTTGTCACCGGGTCC-TTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCAT-
** * *
1796732 CCATCTATAATCTTTTTTAAGTCCTT
128 TTATCTATTATCCTTTTTAAGTCCTT
1796758 TAGGGGT
1 TAGGGGT
1796765 GTAGACACCT
Statistics
Matches: 725, Mismatches: 173, Indels: 62
0.76 0.18 0.06
Matches are distributed among these distances:
150 28 0.04
151 203 0.28
152 4 0.01
153 3 0.00
154 122 0.17
155 229 0.32
156 130 0.18
157 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (153 bp):
TAGGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTAAAAC
TAAGTCCTAGGTTGTCACCGGGTCCTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATTTA
TCTATTATCCTTTTTAAGTCCTT
Found at i:1796574 original size:461 final size:459
Alignment explanation
Indices: 1795681--1796526 Score: 1110
Period size: 461 Copynumber: 1.8 Consensus size: 459
1795671 TAGTGTCCAC
* *
1795681 TAGGGGTATCGGGTACTTTTACGTTAAAGGTATCCCCTAGGGATATTTTCGTAATTATTCAAAAT
1 TAGGGGTATCGGGTACTTTTACGTTAAAGGTATCCCCTAGGGACATTTTCATAATTATTCAAAAT
* * **
1795746 CAAGTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATTT
66 CAAGTCCTAAGTTGTCACCGGGTCT-CTTTTATGCCGAAGGTAGATATTTAGGATAAATTCATTT
* * *
1795811 CATATATTATCCTTTTAAAGTCCTTTAAGGTATCAAGTACTTTTACATCGAAGGTATCCCTTAGA
130 CATATATTATCCTTTTAAAGTCATTTAAGGTATCAAGTACCTTTACATCGAAGGTATCCCTAAGA
* *
1795876 GGCATTTTAGTAATTTTCTAGAACCTAGTCCTAGGTTGTCACCAAGACCGCTTTTATGCCAAAGG
195 GGCATTTTAGTAATTTTCTAGAACCAAGTCCTAGGTCGTCACCAAGACCGCTTTTATGCCAAAGG
* *
1795941 TATGCATTTAGGATAAGTTCATTCTTTTATCCTTTTTAAGTCCTTCAGAGGTGATAGGTACTTTT
260 TATACATTTAGGATAAGTTCATTCTTTTATCCTTTTTAAGTCCTTCAGAGGTGACAGGTACTTTT
* * * *** * * *
1796006 ATGTCAAAGGCATCCCTTAAGAGCATTTTTGTAATTTTTTAGAATTGAGTCTTAGGTTGTAACTA
325 ATGCCAAAGGCATCCCTCAAGAGCATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTTATAACGA
* * *
1796071 GGTTCGCTCTTATGCCAAAAATAGATATTTAGGATAGGTTCATTTAATCTATTATCCTTTTTAAG
390 GGTCCGCTCTTATACCAAAAATAGATATTGAGGATAGGTTCATTTAATCTATTATCCTTTTTAAG
1796136 TCTTT
455 TCTTT
* * * * *
1796141 TAGGGGTATCGGGTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTCATACTTCTTTGAAAA
1 TAGGGGTATCGGGTACTTTTACGTTAAAGGTATCCCCTAGGGACATTTTCATAATT-ATTCAAAA
* * *
1796206 -CTGAGTCCTAAGTTGTCACGGGGTC-CTTTTTTTGCCGAAGGTAGATATTTAGGATAAATTCAT
65 TC-AAGTCCTAAGTTGTCACCGGGTCTC-TTTTATGCCGAAGGTAGATATTTAGGATAAATTCAT
* * *** *
1796269 TTCA-ACTATTATCCTTTTTAAGTCATTTAGGGGTATTGGGTACCTTTACGTCGAAGGTATCCCC
128 TTCATA-TATTATCCTTTTAAAGTCATTTA-AGGTATCAAGTACCTTTACATCGAAGGTAT-CCC
* * * ** * * *
1796333 TAAG-GGTATTTTGGTAATTTTTTAGAACCAAGTCCTAGGTCGTCACCGGGTCTGTTTTTATGCC
190 TAAGAGGCATTTTAGTAATTTTCTAGAACCAAGTCCTAGGTCGTCACCAAGACCGCTTTTATGCC
* * *
1796397 GAAGGTATACATTTAGGATAGGTTCATTCTTTTATCCTTTTTAAGTCCTTCATG-GGT-ACCGGG
255 AAAGGTATACATTTAGGATAAGTTCATTCTTTTATCCTTTTTAAGTCCTTCA-GAGGTGA-CAGG
*
1796460 TACTTTTATGCCAAAGGTATCCCTCAAGAGCATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTT
318 TACTTTTATGCCAAAGGCATCCCTCAAGAGCATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTT
1796525 AT
383 AT
1796527 CATCGAGTCC
Statistics
Matches: 331, Mismatches: 47, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
459 2 0.01
460 110 0.33
461 212 0.64
462 7 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (459 bp):
TAGGGGTATCGGGTACTTTTACGTTAAAGGTATCCCCTAGGGACATTTTCATAATTATTCAAAAT
CAAGTCCTAAGTTGTCACCGGGTCTCTTTTATGCCGAAGGTAGATATTTAGGATAAATTCATTTC
ATATATTATCCTTTTAAAGTCATTTAAGGTATCAAGTACCTTTACATCGAAGGTATCCCTAAGAG
GCATTTTAGTAATTTTCTAGAACCAAGTCCTAGGTCGTCACCAAGACCGCTTTTATGCCAAAGGT
ATACATTTAGGATAAGTTCATTCTTTTATCCTTTTTAAGTCCTTCAGAGGTGACAGGTACTTTTA
TGCCAAAGGCATCCCTCAAGAGCATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTTATAACGAG
GTCCGCTCTTATACCAAAAATAGATATTGAGGATAGGTTCATTTAATCTATTATCCTTTTTAAGT
CTTT
Found at i:1796675 original size:461 final size:459
Alignment explanation
Indices: 1795711--1796723 Score: 1072
Period size: 461 Copynumber: 2.2 Consensus size: 459
1795701 ACGTTAAAGG
* * * *
1795711 TATCCCCTAGGGATATTTTCGTAATTATTCA-AAATCAAGTCCTAGGTTGTCACCGGGTCTGCTT
1 TATCCCCTAGGGGTATTTTCGTAATTATTTAGAAA-CGAGTCCTAAGTTGTCACCGGGTCT-CTT
* ** *
1795775 TTATGCCGAAGGTAGGTATTTAGGATAGGTTCATTTCATATATTATCCTTTTAAAGTCCTTTAAG
64 TTATGCCGAAGGTAGATATTTAGGATAAATTCATTTCATATATTATCCTTTTAAAGTCATTTAAG
* * *
1795840 GTATCAAGTACTTTTACATCGAAGGTATCCCTTAGAGGCATTTTAGTAATTTTCTAGAACCTAGT
129 GTATCAAGTACCTTTACATCGAAGGTATCCCTAAGAGGCATTTTAGTAATTTTCTAGAACCAAGT
* *
1795905 CCTAGGTTGTCACCAAGACCGCTTTTATGCCAAAGGTATGCATTTAGGATAAGTTCATTCTTTTA
194 CCTAGGTCGTCACCAAGACCGCTTTTATGCCAAAGGTATACATTTAGGATAAGTTCATTCTTTTA
* * *
1795970 TCCTTTTTAAGTCCTTCAGAGGTGATAGGTACTTTTATGTCAAAGGCATCCCTTAAGAGCATTTT
259 TCCTTTTTAAGTCCTTCAGAGGTGACAGGTACTTTTATGCCAAAGGCATCCCTCAAGAGCATTTT
* *** * * * * *
1796035 TGTAATTTTTTAGAATTGAGTCTTAGGTTGTAACTAGGTTCGCTCTTATGCCAAAAATAGATATT
324 TGTAATTTTCTAGAACCAAGTCCTAGGTTATAACGAGGTCCGCTCTTATACCAAAAATAGATATT
* ** * * * * * * *
1796100 TAGGATAGGTTCATTTAATCTATTATCCTTTTTAAGTCTTTTAGGGGTATCGGGTACTTTTACGT
389 GAGGATAGGTTCATCCAATCTATTATCCCTTTTAAGTCCTTTAGGGATATCAGGCACTTCTACAT
**
1796165 TGAAGG
454 TGAAAA
* * * * *
1796171 TATCCCCTAGGGGCATTTTCATACTTCTTT-GAAAACTGAGTCCTAAGTTGTCACGGGGTC-CTT
1 TATCCCCTAGGGGTATTTTCGTAATTATTTAG-AAAC-GAGTCCTAAGTTGTCACCGGGTCTC-T
* *
1796234 TTTTTGCCGAAGGTAGATATTTAGGATAAATTCATTTCA-ACTATTATCCTTTTTAAGTCATTTA
63 TTTATGCCGAAGGTAGATATTTAGGATAAATTCATTTCATA-TATTATCCTTTTAAAGTCATTTA
* *** * * * *
1796298 GGGGTATTGGGTACCTTTACGTCGAAGGTATCCCCTAAG-GGTATTTTGGTAATTTTTTAGAACC
127 -AGGTATCAAGTACCTTTACATCGAAGGTAT-CCCTAAGAGGCATTTTAGTAATTTTCTAGAACC
** * * * * *
1796362 AAGTCCTAGGTCGTCACCGGGTCTGTTTTTATGCCGAAGGTATACATTTAGGATAGGTTCATTCT
190 AAGTCCTAGGTCGTCACCAAGACCGCTTTTATGCCAAAGGTATACATTTAGGATAAGTTCATTCT
* *
1796427 TTTATCCTTTTTAAGTCCTTCATG-GGT-ACCGGGTACTTTTATGCCAAAGGTATCCCTCAAGAG
255 TTTATCCTTTTTAAGTCCTTCA-GAGGTGA-CAGGTACTTTTATGCCAAAGGCATCCCTCAAGAG
* * * **
1796490 CATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTTATCATCGA-GTCCG-TTTTAATACCGAAGG
318 CATTTTTGTAATTTTCTAGAACCAAGTCCTAGGTTAT-AACGAGGTCCGCTCTT-ATACCAAAAA
* * * ** * *
1796553 TGGGTGTTGAGGATAGGTTCATCCCTTTTTTTAATCCCTTTTAAGTCCTTTAGGGATATCAGGCA
381 TAGATATTGAGGATAGGTTCATCCAATCTATT-ATCCCTTTTAAGTCCTTTAGGGATATCAGGCA
1796618 CTTCTACATTGAAAA
445 CTTCTACATTGAAAA
* * * * * * * * *
1796633 TATCTCCTAGGGGTATTTTGGTAATTTTTTAGAAACGAGTCCTAGGTTTTTATCGGATCCGCTTT
1 TATCCCCTAGGGGTATTTTCGTAATTATTTAGAAACGAGTCCTAAGTTGTCACCGGGT-CTCTTT
* * *
1796698 TATGCCGAAGATGGGTATTTAGGATA
65 TATGCCGAAGGTAGATATTTAGGATA
1796724 GGTTCATCCC
Statistics
Matches: 449, Mismatches: 89, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
459 2 0.00
460 86 0.19
461 257 0.57
462 102 0.23
463 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (459 bp):
TATCCCCTAGGGGTATTTTCGTAATTATTTAGAAACGAGTCCTAAGTTGTCACCGGGTCTCTTTT
ATGCCGAAGGTAGATATTTAGGATAAATTCATTTCATATATTATCCTTTTAAAGTCATTTAAGGT
ATCAAGTACCTTTACATCGAAGGTATCCCTAAGAGGCATTTTAGTAATTTTCTAGAACCAAGTCC
TAGGTCGTCACCAAGACCGCTTTTATGCCAAAGGTATACATTTAGGATAAGTTCATTCTTTTATC
CTTTTTAAGTCCTTCAGAGGTGACAGGTACTTTTATGCCAAAGGCATCCCTCAAGAGCATTTTTG
TAATTTTCTAGAACCAAGTCCTAGGTTATAACGAGGTCCGCTCTTATACCAAAAATAGATATTGA
GGATAGGTTCATCCAATCTATTATCCCTTTTAAGTCCTTTAGGGATATCAGGCACTTCTACATTG
AAAA
Found at i:1797134 original size:32 final size:32
Alignment explanation
Indices: 1797089--1797159 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1797079 AAACAGAAAT
* * *
1797089 TGTATTGATACATAAGTGTTGTATCGATAGAA
1 TGTATCGAGACATAAGTGTTGTATCGATACAA
1797121 TGTATCGAGACATAAGTGTTGTATCGATACAA
1 TGTATCGAGACATAAGTGTTGTATCGATACAA
1797153 TGTATCG
1 TGTATCG
1797160 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (32 bp):
TGTATCGAGACATAAGTGTTGTATCGATACAA
Found at i:1797222 original size:13 final size:13
Alignment explanation
Indices: 1797204--1797228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1797194 ATTACTCAAA
1797204 TGTATCGATACAT
1 TGTATCGATACAT
1797217 TGTATCGATACA
1 TGTATCGATACA
1797229 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1803401 original size:31 final size:31
Alignment explanation
Indices: 1803361--1803688 Score: 194
Period size: 34 Copynumber: 10.1 Consensus size: 31
1803351 TTCAAATACC
* *
1803361 TTCTT-AAAGTCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGCCCACGACTCAGTGGCACCTT
* *
1803391 TTCTTCAAAGTCCACGACTCAGTGGCATCTCT
1 TTCTTCAAAGCCCACGACTCAGTGGCACCT-T
* * *
1803423 TTC--CAAAGTCCATGACTCAGTGGCATCTT
1 TTCTTCAAAGCCCACGACTCAGTGGCACCTT
* * *
1803452 TTCTTCAAAGCCCACAACTCCGTGACACCTTT
1 TTCTTCAAAGCCCACGACTCAGTGGCACC-TT
* *
1803484 TTCTTTTCAAAGCCCACCACTCCGTGGCACCTTT
1 TTC--TTCAAAGCCCACGACTCAGTGGCACC-TT
* *
1803518 TTCTTTTCAAAGCCCACCACTCCGTGGCACCTTT
1 TTC--TTCAAAGCCCACGACTCAGTGGCACC-TT
** ** *
1803552 TTCTTTTCTCCAAAGCCCATAAAGCCGTGGCACCTT
1 TTC---T-T-CAAAGCCCACGACTCAGTGGCACCTT
* * * * *
1803588 TCTCTTTTAAAAGTCCATGACTCGGTGGCATCTT
1 T-TC--TTCAAAGCCCACGACTCAGTGGCACCTT
* * *
1803622 TTCTTCAAAGCCTACAACTCCGTGGCACCTTT
1 TTCTTCAAAGCCCACGACTCAGTGGCACC-TT
* * *
1803654 TTCTTTTCAAAGCCCACAATTCCGTGGCACCTT
1 TTC--TTCAAAGCCCACGACTCAGTGGCACCTT
1803687 TT
1 TT
1803689 TTCTTTTTAA
Statistics
Matches: 255, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
29 4 0.02
30 29 0.11
31 61 0.24
32 14 0.05
33 6 0.02
34 108 0.42
35 4 0.02
36 7 0.03
37 22 0.09
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (31 bp):
TTCTTCAAAGCCCACGACTCAGTGGCACCTT
Found at i:1803432 original size:30 final size:30
Alignment explanation
Indices: 1803361--1803471 Score: 152
Period size: 31 Copynumber: 3.6 Consensus size: 30
1803351 TTCAAATACC
*
1803361 TTCTTAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1803391 TTCTTCAAAGTCCACGACTCAGTGGCATCTCT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCT-T
*
1803423 TTC-CAAAGTCCATGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
* *
1803452 TTCTTCAAAGCCCACAACTC
1 TTC-TCAAAGTCCACGACTC
1803472 CGTGACACCT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
29 4 0.06
30 27 0.38
31 37 0.51
32 4 0.06
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:1803692 original size:35 final size:34
Alignment explanation
Indices: 1803455--1803789 Score: 388
Period size: 34 Copynumber: 9.8 Consensus size: 34
1803445 GCATCTTTTC
*
1803455 TTCAAAGCCCACAACTCCGTGACACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
1803489 TTCAAAGCCCACCACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
1803523 TTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
* ** *
1803558 TCTCCAAAGCCCATAAAGCCGTGGCACCTTTCTCTT
1 T-T-CAAAGCCCACAACTCCGTGGCACCTTTTTCTT
* * ** * *
1803594 TTAAAAGTCCATGACTCGGTGGCATC-TTTTC--
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
1803625 TTCAAAGCCTACAACTCCGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
1803659 TTCAAAGCCCACAATTCCGTGGCACCTTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACC-TTTTTCTT
* * *
1803694 TTTAAAGCCCACCACTCCGTGACACTCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
* *
1803729 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTT
* * *
1803764 TTTAAAGTCCACAACTCCGCGGCACC
1 TTCAAAGCCCACAACTCCGTGGCACC
1803790 CCCTCTAAAG
Statistics
Matches: 261, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
31 19 0.07
32 5 0.02
33 4 0.02
34 106 0.41
35 97 0.37
36 5 0.02
37 25 0.10
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:1803773 original size:170 final size:169
Alignment explanation
Indices: 1803418--1803774 Score: 529
Period size: 170 Copynumber: 2.1 Consensus size: 169
1803408 CTCAGTGGCA
**
1803418 TCTCTTTCCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGACACCTT
1 TCTCTTTTAAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGACACCTT
* *
1803483 TTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCAC
66 TTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGACAC
*
1803548 CTTTTTCTTTTCTCCAAAGCCCATAAAGCCGTGGCACCTT
131 CTTTTTCTTTTCT-CAAAGCCCACAAAGCCGTGGCACCTT
* * *
1803588 TCTCTTTTAAAAGTCCATGACTCGGTGGCATCTTTTCTTCAAAGCCTACAACTCCGTGGCACCTT
1 TCTCTTTTAAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGACACCTT
* *
1803653 TTTCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACCACTCCGTGACA
66 TTTCTTTTCAAAGCCCACAACTCCGTGGCACC-TTTTTCTTTTCAAAGCCCACCACTCCGTGACA
* **
1803718 CTCTTTTTCTTTT-T-AAAGTCCACAACTCCGTGGCACTCTT
130 C-CTTTTTCTTTTCTCAAAGCCCACAAAGCCGTGGCAC-CTT
* *
1803758 TTTCTTTTTAAAGTCCA
1 TCTCTTTTAAAAGTCCA
1803775 CAACTCCGCG
Statistics
Matches: 169, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
169 18 0.11
170 108 0.64
171 32 0.19
172 11 0.07
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (169 bp):
TCTCTTTTAAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGACACCTT
TTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGACAC
CTTTTTCTTTTCTCAAAGCCCACAAAGCCGTGGCACCTT
Found at i:1803829 original size:33 final size:33
Alignment explanation
Indices: 1803792--1803958 Score: 280
Period size: 33 Copynumber: 5.1 Consensus size: 33
1803782 GCGGCACCCC
1803792 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
*
1803825 CTCTAAACCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1803858 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
* * *
1803891 CTCTAAAGCCCACACAAGTCGGTGACAACCACT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
* *
1803924 CTCTAAAGCCTACACAAGTTGGTGGCAACCCTT
1 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1803957 CT
1 CT
1803959 AAACCCAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 124 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
Found at i:1804096 original size:49 final size:48
Alignment explanation
Indices: 1804023--1804814 Score: 733
Period size: 49 Copynumber: 16.8 Consensus size: 48
1804013 TCTTCATCAC
** * *
1804023 CTTTAAGTCCAATATAGCTAGCCTTGAATCAACATATTGGCACCTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
*
1804072 CTTTAAGTCCAATGCAGCTGGCCTTGAATCAGCACATTGGCA-C-----
1 CTTTAAGTCCAATGC-GCTGGCCTTGAATCAGCATATTGGCACCTTTAT
** *
1804115 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
1804164 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCA-C-----
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
1804207 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
1804256 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C-----
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
1804299 CTTTAAGTCCAATATCGCTGGCCTT-ATATCATCATATTAGCACCTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGA-ATCAGCATATTGGCACCTTTAT
* * *
1804348 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C-----
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
*
1804391 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
1804440 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA-C-----
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
*
1804483 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
1804532 CTTTAAGTCCAATGTAGCTGGCTTTGAATCAGCACATTAGCA-C-----
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
1804575 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGC-ACCTT-T-AT
* * *
1804627 CTTTAAGTCCAATGTCTCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
1804676 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAAT-GCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-AT
*
1804728 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
1 CTTTAAGTCCAATG-CGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1804777 CTTTAAGTCCAGTAT-CGCTGGCCTTGAATCAGCATATT
1 CTTTAAGTCCA--ATGCGCTGGCCTTGAATCAGCATATT
1804815 AGCGCATTCG
Statistics
Matches: 610, Mismatches: 72, Indels: 122
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.00
43 216 0.35
44 4 0.01
48 5 0.01
49 294 0.48
50 3 0.00
51 7 0.01
52 80 0.13
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (48 bp):
CTTTAAGTCCAATGCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:1804177 original size:92 final size:91
Alignment explanation
Indices: 1804020--1804871 Score: 1121
Period size: 92 Copynumber: 9.0 Consensus size: 91
1804010 TCATCTTCAT
* * *
1804020 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAACATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1804085 GCAGCTGGCCTTGAATCAGCACATTGG
66 GC-GCTGGCCTTGAATCAGCACATTGG
* * *
1804112 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
*
1804177 GTCGCTGGCCTTGAATCAGTACATTGG
66 G-CGCTGGCCTTGAATCAGCACATTGG
* *
1804204 CACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
*
1804269 GTCGTTGGCCTTGAATCAGCACATTGG
66 G-CGCTGGCCTTGAATCAGCACATTGG
* *
1804296 CACCTTTAAGTCCAATATCGCTGGCCTT-ATATCATCATATTAGCACCTTTATCTTTAAGTCCAA
1 CACCTTTAAGTCCAATATCGCTGGCCTTGA-ATCAGCATATTGGCACCTTTATCTTTAAGTCCAA
* *
1804360 TGTAGCTGGCCTTGAATCAACACATTGG
65 TG-CGCTGGCCTTGAATCAGCACATTGG
1804388 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
* *
1804453 GTAGCTGGCCTTGAATCAACACATTGG
66 G-CGCTGGCCTTGAATCAGCACATTGG
1804480 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
* * *
1804545 GTAGCTGGCTTTGAATCAGCACATTAG
66 G-CGCTGGCCTTGAATCAGCACATTGG
* *
1804572 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCC
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTT-T-ATCTTTAAGTCC
*
1804637 AATGTCTCTGGCCTTGAATCAGCACATTGG
63 AATG-CGCTGGCCTTGAATCAGCACATTGG
*
1804667 CACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
1 CA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTT
*
1804732 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG
57 AAGTCCAATG-CGCTGGCCTTGAATCAGCACATTGG
* * * *
1804768 CACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTAGCGCATTCGTCATCTTT
1 CA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-GCA-CCTTTATCTTT
** * *
1804833 AAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGG
57 -AAGTCCAATG-CGCTGGCCTTGAATCAGCACATTGG
1804870 CA
1 CA
1804872 TTCTTCTCAT
Statistics
Matches: 701, Mismatches: 42, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
91 1 0.00
92 476 0.68
93 5 0.01
94 1 0.00
95 40 0.06
99 1 0.00
100 1 0.00
101 138 0.20
102 34 0.05
103 3 0.00
104 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (91 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
GCGCTGGCCTTGAATCAGCACATTGG
Found at i:1804209 original size:21 final size:21
Alignment explanation
Indices: 1804185--1804252 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1804175 ATGTCGCTGG
1804185 CCTTGAATCAGTACATTGGCA
1 CCTTGAATCAGTACATTGGCA
* * *
1804206 CCTTTAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAGTA-CATTGGCA
* *
1804228 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGTACATTGGCA
1804249 CCTT
1 CCTT
1804253 TATCTTTAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.32
22 7 0.21
23 4 0.12
24 5 0.15
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGTACATTGGCA
Found at i:1804653 original size:52 final size:52
Alignment explanation
Indices: 1804575--1804870 Score: 372
Period size: 52 Copynumber: 5.8 Consensus size: 52
1804565 ACATTAGCAC
*
1804575 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
* * * *
1804627 CTTTAAGTCCAATGTCTCTGGCCTTGAATCAGCACATTGGC-AC-CT-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
*
1804676 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
* *
1804728 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
* * *
1804777 CTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTAGCG-CATTCGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGAC-TTTGTCAT
** * * * *
1804829 CTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGC
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1804871 ATTCTTCTCA
Statistics
Matches: 210, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
49 85 0.40
50 3 0.01
51 3 0.01
52 90 0.43
53 29 0.14
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
Found at i:1805669 original size:19 final size:19
Alignment explanation
Indices: 1805645--1805708 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1805635 CAAATAGAAA
1805645 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1805664 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1805678 -TGTATCGAGACATAAGTG
1 TTGTATCGATACATAAGTG
1805696 TTGTATCGATACA
1 TTGTATCGATACA
1805709 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 10 0.27
15 2 0.05
17 2 0.05
19 23 0.62
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1805691 original size:32 final size:32
Alignment explanation
Indices: 1805646--1805716 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1805636 AAATAGAAAT
*
1805646 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGAGACATAAGTGTTGTATCGATACAA
1805678 TGTATCGAGACATAAGTGTTGTATCGATACAA
1 TGTATCGAGACATAAGTGTTGTATCGATACAA
1805710 TGTATCG
1 TGTATCG
1805717 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (32 bp):
TGTATCGAGACATAAGTGTTGTATCGATACAA
Found at i:1805779 original size:13 final size:13
Alignment explanation
Indices: 1805761--1805785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1805751 ATTACTCAAA
1805761 TGTATCGATACAT
1 TGTATCGATACAT
1805774 TGTATCGATACA
1 TGTATCGATACA
1805786 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1805838 original size:52 final size:52
Alignment explanation
Indices: 1805794--1805922 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1805784 CACTGATCTT
1805794 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1805846 TGTATCGATACATACAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1805898 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATACAGGCAAATTT
1805923 TCATATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1808096 original size:27 final size:27
Alignment explanation
Indices: 1808066--1808139 Score: 148
Period size: 27 Copynumber: 2.7 Consensus size: 27
1808056 TTTATTCATC
1808066 GGGGACACTCCAACCCCATTCTTCCGA
1 GGGGACACTCCAACCCCATTCTTCCGA
1808093 GGGGACACTCCAACCCCATTCTTCCGA
1 GGGGACACTCCAACCCCATTCTTCCGA
1808120 GGGGACACTCCAACCCCATT
1 GGGGACACTCCAACCCCATT
1808140 TTCAACCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.23, C:0.41, G:0.19, T:0.18
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCTTCCGA
Found at i:1815714 original size:116 final size:118
Alignment explanation
Indices: 1815508--1815732 Score: 348
Period size: 116 Copynumber: 1.9 Consensus size: 118
1815498 ATGTAAAACC
* *
1815508 AAAACCTAATCATTATTTAGTAAAATTGAAGACTAAAAAAATATTATTCAATTAACATATTATTT
1 AAAACCTAATCATTATTTAATAAAATTGAAAACTAAAAAAATATTATTCAATTAACATATTATTT
1815573 ATAAGTTAAGAAGAAAGATAAAATATAATTTTATAAATTAGTTATGAAATAAA
66 ATAAGTTAAGAAGAAAGATAAAATATAATTTTATAAATTAGTTATGAAATAAA
* * *
1815626 AAAACC-AATCATTATTTAATAGAATTGAAAACTAAAAAAATATT-TTTAATTAATATATTATTT
1 AAAACCTAATCATTATTTAATAAAATTGAAAACTAAAAAAATATTATTCAATTAACATATTATTT
* * *
1815689 ATAAGTTATGAA-TAAGAATTAAATATAATTTTATAAATTAGTTA
66 ATAAGTTAAGAAGAAAG-ATAAAATATAATTTTATAAATTAGTTA
1815733 AATTATTGTT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
115 3 0.03
116 54 0.55
117 35 0.36
118 6 0.06
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (118 bp):
AAAACCTAATCATTATTTAATAAAATTGAAAACTAAAAAAATATTATTCAATTAACATATTATTT
ATAAGTTAAGAAGAAAGATAAAATATAATTTTATAAATTAGTTATGAAATAAA
Found at i:1816059 original size:217 final size:217
Alignment explanation
Indices: 1815684--1816121 Score: 858
Period size: 217 Copynumber: 2.0 Consensus size: 217
1815674 ATTAATATAT
1815684 TATTTATAAGTTATGAATAAGAATTAAATATAATTTTATAAATTAGTTAAATTATTGTTTAGTGG
1 TATTTATAAGTTATGAATAAGAATTAAATATAATTTTATAAATTAGTTAAATTATTGTTTAGTGG
1815749 GTCCTTCTTTTTTTTTTCTTCTTGTGCAAGAATTTAACTAAATTATATTTTATCCTTATTCTTAA
66 GTCCTTCTTTTTTTTTTCTTCTTGTGCAAGAATTTAACTAAATTATATTTTATCCTTATTCTTAA
1815814 CTTATAAATAATATATTAATTACATAATTTTTTTTAGTTTACTATTTTACCAAATAATGCTTAGT
131 CTTATAAATAATATATTAATTACATAATTTTTTTTAGTTTACTATTTTACCAAATAATGCTTAGT
1815879 TTTTATTTATATATTTTAAAAA
196 TTTTATTTATATATTTTAAAAA
*
1815901 TATTTATAAGTTGTGAATAAGAATTAAATATAATTTTATAAATTAGTTAAATTATTGTTTAGTGG
1 TATTTATAAGTTATGAATAAGAATTAAATATAATTTTATAAATTAGTTAAATTATTGTTTAGTGG
*
1815966 GTCTTTCTTTTTTTTTTCTTCTTGTGCAAGAATTTAACTAAATTATATTTTATCCTTATTCTTAA
66 GTCCTTCTTTTTTTTTTCTTCTTGTGCAAGAATTTAACTAAATTATATTTTATCCTTATTCTTAA
1816031 CTTATAAATAATATATTAATTACATAATTTTTTTTAGTTTACTATTTTACCAAATAATGCTTAGT
131 CTTATAAATAATATATTAATTACATAATTTTTTTTAGTTTACTATTTTACCAAATAATGCTTAGT
1816096 TTTTATTTATATATTTTAAAAA
196 TTTTATTTATATATTTTAAAAA
1816118 TATT
1 TATT
1816122 ATTTAATTTA
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
217 219 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (217 bp):
TATTTATAAGTTATGAATAAGAATTAAATATAATTTTATAAATTAGTTAAATTATTGTTTAGTGG
GTCCTTCTTTTTTTTTTCTTCTTGTGCAAGAATTTAACTAAATTATATTTTATCCTTATTCTTAA
CTTATAAATAATATATTAATTACATAATTTTTTTTAGTTTACTATTTTACCAAATAATGCTTAGT
TTTTATTTATATATTTTAAAAA
Found at i:1816407 original size:48 final size:46
Alignment explanation
Indices: 1816355--1816507 Score: 180
Period size: 48 Copynumber: 3.2 Consensus size: 46
1816345 CATTTTATTC
*
1816355 AATAAATTAATTTGGTTTATATACAGGAGAGAGGTGATGAATACATTT
1 AATAAATTAATTTGGTTCATATA-AGGAGAGAGG-GATGAATACATTT
* * *
1816403 AATAAAGTAATTTGGTTCATGTATAGGAGAGAAGAGATGAATACATTT
1 AATAAATTAATTTGGTTCATATA-AGGAGAG-AGGGATGAATACATTT
* * **
1816451 AATAAATTAATTTGGTTCATATATGAGAGAAAGGGAATTTATACATTT
1 AATAAATTAATTTGGTTCATATAAG-GAGAGAGGG-ATGAATACATTT
1816499 AATAAATTA
1 AATAAATTA
1816508 TTTTACTAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
47 4 0.04
48 84 0.93
49 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (46 bp):
AATAAATTAATTTGGTTCATATAAGGAGAGAGGGATGAATACATTT
Found at i:1823384 original size:49 final size:49
Alignment explanation
Indices: 1823226--1823649 Score: 284
Period size: 48 Copynumber: 8.8 Consensus size: 49
1823216 CGAAGAATGA
* * * * * *
1823226 CAATATGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAG-AA-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* ** * * * * *
1823273 CAATGTGCTGAGACAAGGCCAGCAACATTGGGCTTAGGAATG-TTAAAGATGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTA--AA-GATGAAAG-TGC
*
1823325 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAAGTGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* ** * *
1823374 CAATATGCTGATTCAAGGCCAACGACATTGTTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* ** * *
1823422 CAATATGCTGATTCAAGGCCAACGACATTGTTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* * *
1823470 CAATATGCTGATTCAAGGTCAGCGATATTGGGC-T-----T---A-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* * * * ** * *
1823509 CAATGTGTTGATTCAAAGCCGACGACCTTGGTCTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGA--AA-GTGC
* * * *
1823561 CAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTCC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
* * * *
1823610 CAATGTGCTGATTCAAGGCCAGCGATATCGGACTTGAAGA
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
1823650 AGATGCCACC
Statistics
Matches: 301, Mismatches: 55, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
39 27 0.09
40 1 0.00
45 1 0.00
47 29 0.10
48 82 0.27
49 80 0.27
50 12 0.04
52 69 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAAGTGC
Found at i:1823589 original size:91 final size:87
Alignment explanation
Indices: 1823419--1823596 Score: 230
Period size: 91 Copynumber: 2.0 Consensus size: 87
1823409 AAAGACAAGG
* * *
1823419 TGCCAATATGCTGATTCAAGGCCAACGACATTGTTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTTAAAGACAAGGCGCCAATATGCTGATTC
* *
1823484 AAGGTCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
* * * * *
1823506 TGCCAATGTGTTGATTCAAAGCCGACGACCTTGGTCTTAAAGATGACGAAGGCGCCAATATGTTG
1 TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTT-AA-A-GAC-AAGGCGCCAATATGCTG
1823571 ATTCAAGGCCAGCGATATTGGACTTA
62 ATTCAAGGCCAGCGATATTGGACTTA
1823597 AAGATGAAGG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 32 0.42
88 2 0.03
89 1 0.01
90 3 0.04
91 39 0.51
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTTAAAGACAAGGCGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTA
Found at i:1823597 original size:52 final size:50
Alignment explanation
Indices: 1823507--1823649 Score: 157
Period size: 49 Copynumber: 2.8 Consensus size: 50
1823497 TTGGGCTTAT
* ** *
1823507 GCCAATGTGTTGATTCAAAGCC-GACGACCTTGGTCTTAAAGATGACGAAGG-C
1 GCCAATGTGTTGATTCAAGGCCAG-CGATATTGGACTTAAAGAT---GAAGGTC
*
1823559 GCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTC
1 GCCAATGTGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTC
* * *
1823609 -CCAATGTGCTGATTCAAGGCCAGCGATATCGGACTTGAAGA
1 GCCAATGTGTTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1823650 AGATGCCACC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
49 42 0.52
50 1 0.01
52 36 0.45
53 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
GCCAATGTGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTC
Found at i:1823599 original size:139 final size:136
Alignment explanation
Indices: 1823371--1823637 Score: 347
Period size: 139 Copynumber: 1.9 Consensus size: 136
1823361 AAGATGAAAG
* * *
1823371 TGCCAATATGCTGATTCAAGGCCAACGACATTGTTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTTAAAGACAAGGCGCCAATATGCTGATTC
** * *
1823436 AAGGCCAACGACATTGTTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTG
66 AAGGCCAACGACATTGGACTTAAAGATCAAGGTCCCAATATGCTGATTCAAGGCCAGCGATATTG
1823500 GGCTTA
131 GGCTTA
* * * * *
1823506 TGCCAATGTGTTGATTCAAAGCCGACGACCTTGGTCTTAAAGATGACGAAGGCGCCAATATGTTG
1 TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTT-AA-A-GAC-AAGGCGCCAATATGCTG
* * * *
1823571 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTCCCAATGTGCTGATTCAAGGCCAGCGAT
62 ATTCAAGGCCAACGACATTGGACTTAAAGATCAAGGTCCCAATATGCTGATTCAAGGCCAGCGAT
1823636 AT
127 AT
1823638 CGGACTTGAA
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
135 32 0.29
136 2 0.02
137 1 0.01
138 3 0.03
139 41 0.37
140 32 0.29
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (136 bp):
TGCCAATATGCTGATTCAAAGCCAACGACATTGGTCTTAAAGACAAGGCGCCAATATGCTGATTC
AAGGCCAACGACATTGGACTTAAAGATCAAGGTCCCAATATGCTGATTCAAGGCCAGCGATATTG
GGCTTA
Found at i:1823714 original size:28 final size:28
Alignment explanation
Indices: 1823678--1823823 Score: 184
Period size: 28 Copynumber: 5.1 Consensus size: 28
1823668 TGGGCTTTTC
* *
1823678 AAGGTTGCCATTGTCTTGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTGAA
* **
1823707 AAGGTGCCACTAACTTGTGGAATTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAA
*
1823735 AGAGGTGCCACCGACTTGTGGGCTTTGAA
1 A-AGGTGCCACTGACTTGTGGGCTTTGAA
* * * *
1823764 AAGATGCCACTAACTTGTGAGCTTCGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAA
1823792 AAGGTGCCACTGACTTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAA
1823820 AAGG
1 AAGG
1823824 GTGAAGAATG
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 70 0.71
29 28 0.29
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (28 bp):
AAGGTGCCACTGACTTGTGGGCTTTGAA
Found at i:1823757 original size:57 final size:56
Alignment explanation
Indices: 1823692--1823823 Score: 203
Period size: 57 Copynumber: 2.3 Consensus size: 56
1823682 TTGCCATTGT
*
1823692 CTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTG-GAATTTGAAAGAGGTGCCACCGA
1 CTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGAG-ATTCGAAA-AGGTGCCACCGA
* * *
1823749 CTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGAGCTTCGAAAAGGTGCCACTGA
1 CTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGAGATTCGAAAAGGTGCCACCGA
1823805 CTTGTGGGCTTTGAAAAGG
1 CTTGTGGGCTTTGAAAAGG
1823824 GTGAAGAATG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 29 0.42
57 39 0.57
58 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (56 bp):
CTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGAGATTCGAAAAGGTGCCACCGA
Found at i:1824891 original size:21 final size:21
Alignment explanation
Indices: 1824836--1824894 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
1824826 TTAAAAGTTA
*
1824836 CATTTTTTTCATCCAAAAAATG
1 CATTCTTTT-ATCCAAAAAATG
* *
1824858 CATTCTTTCATCCAAATAATG
1 CATTCTTTTATCCAAAAAATG
*
1824879 TA-TCATTTTATCCAAA
1 CATTC-TTTTATCCAAA
1824895 GATACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.06
21 22 0.71
22 7 0.23
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (21 bp):
CATTCTTTTATCCAAAAAATG
Found at i:1825152 original size:21 final size:21
Alignment explanation
Indices: 1825128--1825175 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1825118 ATGTAAATAA
* *
1825128 ATTTAAACTTTAAACCT-TATG
1 ATTTAAA-TTAAAAACTATATG
*
1825149 ATTTATATTAAAAACTATATG
1 ATTTAAATTAAAAACTATATG
1825170 ATTTAA
1 ATTTAA
1825176 TAAAATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTTAAATTAAAAACTATATG
Found at i:1825263 original size:20 final size:20
Alignment explanation
Indices: 1825215--1825252 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1825205 AGATCTAATA
1825215 TTATTTAATATTAAAATTAC
1 TTATTTAATATTAAAATTAC
*
1825235 TTATTTAATATTCAAATT
1 TTATTTAATATTAAAATT
1825253 CTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTTAATATTAAAATTAC
Found at i:1825740 original size:4 final size:4
Alignment explanation
Indices: 1825733--1825760 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1825723 GATAACTAAC
1825733 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1825761 AACCTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:1840781 original size:1 final size:1
Alignment explanation
Indices: 1840771--1840861 Score: 74
Period size: 1 Copynumber: 91.0 Consensus size: 1
1840761 TGGCAATTGG
* * * ** * * * **
1840771 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAACAAAACAAAAAAAAGGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1840836 AGAAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
1840862 GTGAAGATTT
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:1840818 original size:32 final size:31
Alignment explanation
Indices: 1840769--1840859 Score: 152
Period size: 32 Copynumber: 3.0 Consensus size: 31
1840759 CATGGCAATT
1840769 GGAAAAAG--AAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAAACAAAACAAAAAAAA
1840798 GGAAAAAGAAAAAAAAAACAAAACAAAAAAAA
1 GGAAAAAG-AAAAAAAAACAAAACAAAAAAAA
1840830 GGAAAAAGAAAAAAAAA-AAAACAAAAAAAA
1 GGAAAAAGAAAAAAAAACAAAACAAAAAAAA
1840860 AAGTGAAGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
29 8 0.14
30 13 0.22
31 9 0.15
32 29 0.49
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (31 bp):
GGAAAAAGAAAAAAAAACAAAACAAAAAAAA
Found at i:1846339 original size:33 final size:33
Alignment explanation
Indices: 1846297--1846365 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1846287 CCATTAGAAG
* *
1846297 CAATGTATCGATACAAT-TCATCATGTATTAATA
1 CAATGTATCGATACAATAT-ACCATGTATCAATA
1846330 CAATGTATCGATACAATATACCATGTATCAATA
1 CAATGTATCGATACAATATACCATGTATCAATA
1846363 CAA
1 CAA
1846366 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATATACCATGTATCAATA
Found at i:1846350 original size:20 final size:20
Alignment explanation
Indices: 1846327--1846365 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1846317 TCATGTATTA
*
1846327 ATACAATGTATCGATACAAT
1 ATACAATGTATCAATACAAT
*
1846347 ATACCATGTATCAATACAA
1 ATACAATGTATCAATACAA
1846366 ACAGTGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (20 bp):
ATACAATGTATCAATACAAT
Found at i:1852140 original size:9 final size:9
Alignment explanation
Indices: 1852126--1852155 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
1852116 TTAATCTTTA
1852126 AAATTATAT
1 AAATTATAT
1852135 AAATTATAT
1 AAATTATAT
1852144 AAATTATAT
1 AAATTATAT
1852153 AAA
1 AAA
1852156 ATGTCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATTATAT
Found at i:1860570 original size:33 final size:33
Alignment explanation
Indices: 1860528--1860596 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1860518 CCATTAGAAG
* * *
1860528 CAATGTATCGATACAATTCATCATGTATTGATA
1 CAATGTATCGATACAATGCACCATGTATTAATA
1860561 CAATGTATCGATACAATGCACCATGTATTAATA
1 CAATGTATCGATACAATGCACCATGTATTAATA
1860594 CAA
1 CAA
1860597 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGCACCATGTATTAATA
Found at i:1864692 original size:21 final size:21
Alignment explanation
Indices: 1864664--1864763 Score: 132
Period size: 21 Copynumber: 4.8 Consensus size: 21
1864654 CACTGTTATC
*
1864664 CAAATGTATTGATACATTTGTA
1 CAAATGTATCGATACA-TTGTA
*
1864686 -GAATGTATCGATACATTTGT-
1 CAAATGTATCGATACA-TTGTA
**
1864706 GGAATGTATCGATACATTGTA
1 CAAATGTATCGATACATTGTA
1864727 CAAATGTATCGATACATTGTA
1 CAAATGTATCGATACATTGTA
1864748 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1864764 AGGTCCCAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
20 4 0.06
21 68 0.94
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
CAAATGTATCGATACATTGTA
Found at i:1864824 original size:19 final size:18
Alignment explanation
Indices: 1864800--1864864 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
1864790 TTTCAGTGAT
1864800 TTGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
1864819 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
1864833 -TGTATCGATACACAAGTG
1 TTGTATCGATACA-AAGTG
*
1864851 ATGTATCGATACAA
1 TTGTATCGATACAA
1864865 TGTATCGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:1864838 original size:13 final size:13
Alignment explanation
Indices: 1864820--1864877 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1864810 ACATAAGTGT
1864820 TGTATCGATACAA
1 TGTATCGATACAA
1864833 TGTATCGATACACAAGTGA
1 TGTATCGAT--AC-A---A
1864852 TGTATCGATACAA
1 TGTATCGATACAA
*
1864865 TGTATCGCTACAA
1 TGTATCGATACAA
1864878 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 22 0.58
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1864842 original size:32 final size:32
Alignment explanation
Indices: 1864801--1864876 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
1864791 TTCAGTGATT
* *
1864801 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
1864833 TGTATCGATACACAAGTGATGTATCGATACAA
1 TGTATCGATACACAAGTGATGTATCGATACAA
*
1864865 TGTATCGCTACA
1 TGTATCGATACA
1864877 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACACAAGTGATGTATCGATACAA
Found at i:1867488 original size:102 final size:103
Alignment explanation
Indices: 1867307--1867615 Score: 367
Period size: 102 Copynumber: 3.0 Consensus size: 103
1867297 AATTCTCCAC
* * * *
1867307 AATCGGGGATATTCTC-ACTCCGATTTTATTT-TCAAAACACTAATTTTCTATAATCGGGGATAC
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATAC
* * * *
1867370 TTCAGCCCCGGCTTTATTTCCAAAATATTGATTTCTCAT
65 TCCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
* *
1867409 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTCCACAATCGGGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
* * ** *
1867473 CCAACCCCGGTTTTATTTTCAAAACACCAATTT-TCCTTT
66 CCAACCCCGGTTTTATTTCCAAAATATTAATTTCT-C-AT
* * *
1867512 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
*
1867577 CCAACCCC-GTTATTATCTCCAAAATATTAAATTTCTCAT
66 CCAACCCCGGTT-TTATTTCCAAAATATT-AATTTCTCAT
1867616 CGGGAAATAT
Statistics
Matches: 174, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
101 2 0.01
102 81 0.47
103 36 0.21
104 48 0.28
105 6 0.03
106 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (103 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
CCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
Found at i:1867539 original size:52 final size:51
Alignment explanation
Indices: 1867307--1867585 Score: 296
Period size: 51 Copynumber: 5.4 Consensus size: 51
1867297 AATTCTCCAC
* * *
1867307 AATCGGGGATATTCTC-ACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTC-CAACCCCGGTTTTATTTTCAAAACACTAATTTTCTAT
* * * * * * *
1867358 AATCGGGGATACTTCAGCCCCGGCTTTATTTCCAAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCT-AT
* *
1867409 AATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCTAT
* *
1867460 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTT-CTAT
* * * * *
1867512 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACTAATTTTCT-AT
*
1867564 AATCGAGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
1867586 TTATTATCTC
Statistics
Matches: 190, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
50 9 0.05
51 108 0.57
52 58 0.31
53 15 0.08
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCTAT
Found at i:1879984 original size:12 final size:12
Alignment explanation
Indices: 1879967--1879999 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1879957 CTTCTTTTCT
1879967 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
1879979 AAAAAAAACAAC
1 AAAAAAAAAAAC
1879991 AAAAAAAAA
1 AAAAAAAAA
1880000 GAAGAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:1881258 original size:55 final size:54
Alignment explanation
Indices: 1880968--1881794 Score: 886
Period size: 55 Copynumber: 14.4 Consensus size: 54
1880958 CTCCTTCCGC
*
1880968 TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCA
** *
1881028 CCTTCAGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1881088 TTTTCCAATCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** *
1881148 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1881208 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAATTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1881263 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTTGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1881318 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * **
1881379 CCTTTCAGTCCCCAAAGTGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
1881434 TTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGTA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
1881489 CCTTTCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* **
1881550 CTTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
**
1881605 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
1881660 CCTTTT-AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1881715 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1881770 CTTTTTAGTCCTCAAAGAGCAGGAT
1 -TTTTCAGTCCTCAAAGAGCAGGAT
1881795 ACATTTTATT
Statistics
Matches: 671, Mismatches: 57, Indels: 83
0.83 0.07 0.10
Matches are distributed among these distances:
54 11 0.02
55 387 0.58
56 13 0.02
57 4 0.01
59 17 0.03
60 99 0.15
61 124 0.18
62 4 0.01
64 5 0.01
65 7 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1881378 original size:171 final size:172
Alignment explanation
Indices: 1880967--1881793 Score: 1128
Period size: 171 Copynumber: 4.8 Consensus size: 172
1880957 TCTCCTTCCG
* *
1880967 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC-
1 CTTTCTAGTCCTCAAAGAGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
1881030 TTCAGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
65 TTCAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * * *
1881095 ATCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCAC
124 GTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
1881149 C-TTC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
1881211 TCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTC
66 T-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
** *
1881276 AAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTTGTGGCA-
130 AAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
*
1881318 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
1881383 TCAGTCCCCAAAGTGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
1881448 AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGTAC
131 AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
* * *
1881490 CTTTC-AGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
1881554 TCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
1881619 AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
131 AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
1881661 CTTT-TAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
1881719 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTC
66 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
1881783 AAAGAGCAGGA
130 AAAGAGCAGGA
1881794 TACATTTTAT
Statistics
Matches: 591, Mismatches: 43, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
165 95 0.16
166 5 0.01
169 2 0.00
170 25 0.04
171 327 0.55
172 10 0.02
175 51 0.09
176 1 0.00
179 7 0.01
180 44 0.07
181 23 0.04
182 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (172 bp):
CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:1881439 original size:29 final size:29
Alignment explanation
Indices: 1881352--1881721 Score: 94
Period size: 29 Copynumber: 13.2 Consensus size: 29
1881342 TGCTTTTTCT
1881352 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
**
1881381 TTTC--AGTCCC-CA-AAG-TGCAGGACACC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
**
1881407 TTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* * * **
1881436 TTTC--AGTCCTCA-AAG-AGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGG-CACC
*
1881462 TCTT-AAAGCCCACACAAGTTGGTGGTACC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACC
* * * * * *
1881491 TTTC--AGTCCTCAAAGAGTAGGAT-GCTTTTTCT
1 TTTCAAAGCCCACACA-AGTTGG-TGGC----ACC
* *
1881523 TTTCAAAGCCCACACGAGTTGGTGGCACT
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* **
1881552 TTTC--AGTCCC-CA-AAG-AGCAGGACACC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
*
1881578 TTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
* * * * **
1881606 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGG-CACC
1881633 TCTT-AAAGCCCACACAAGTTGGTGGCACC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACC
* * * * **
1881662 TTT--TAGTCCTCA-AAG-AGCAGG-ATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCA--CC
1881688 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
1881717 TTTCA
1 TTTCA
1881722 GTCCTCAAAG
Statistics
Matches: 232, Mismatches: 66, Indels: 86
0.60 0.17 0.22
Matches are distributed among these distances:
24 1 0.00
25 16 0.07
26 39 0.17
27 42 0.18
28 48 0.21
29 50 0.22
30 16 0.07
31 1 0.00
32 6 0.03
33 7 0.03
34 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:1881457 original size:226 final size:227
Alignment explanation
Indices: 1880968--1881794 Score: 1028
Period size: 226 Copynumber: 3.6 Consensus size: 227
1880958 CTCCTTCCGC
1880968 TTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TT
1 TTTTTAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1881032 CAGTCCTCAAAGAGCATGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAA
60 CAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
* *
1881096 TCCCCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTAGTGGCACC-TTCAGTCCT
121 TCCCCAAAGAGCAGGATG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
*
1881159 CAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
185 CAAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1881208 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAATTGGTGGCA-TTTTCCAGT
1 TTTT-TAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
* *
1881272 CCTCAAAGAGCAGGATGC-C-TTTCAAAGCCCACACAAGTTTGTGGCA-TTTTCTAGTCCTCAAA
64 CCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCCCAAA
* *
1881334 GAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGTGC
129 GAGCAGGATGC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
1881399 AGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
193 AGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
** *
1881434 TTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGTACCTTTCAGT
1 TTTTT-AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
1881498 CCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTC-AGTCCC
64 CCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCC
* * *
1881562 CAAAGAGCAGGA--C---ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAA
125 CAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAA
1881621 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
189 GAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
1881660 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 -TTTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
* * *
1881725 CTCAAAGAGCAGGACGC-C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAG
65 CTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCCCAAAG
1881787 AGCAGGAT
130 AGCAGGAT
1881795 ACATTTTATT
Statistics
Matches: 530, Mismatches: 35, Indels: 63
0.84 0.06 0.10
Matches are distributed among these distances:
220 49 0.09
221 1 0.00
225 5 0.01
226 238 0.45
227 11 0.02
229 1 0.00
230 58 0.11
231 26 0.05
232 61 0.12
233 5 0.01
235 24 0.05
236 21 0.04
239 1 0.00
240 7 0.01
241 22 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (227 bp):
TTTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCCCAAAGA
GCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
ACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1881982 original size:40 final size:42
Alignment explanation
Indices: 1881886--1881983 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
1881876 GACGTACTTT
* *
1881886 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
1881929 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
1881969 TTTTCCTTTGTCCTC
1 TTTTCCTTTGTCCTC
1881984 GAAAAGTGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 15 0.33
41 5 0.11
42 22 0.48
43 4 0.09
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:1882569 original size:21 final size:21
Alignment explanation
Indices: 1882545--1882622 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
1882535 ACTTTTATCC
1882545 AAATGTATCGATACATTTGTA
1 AAATGTATCGATACATTTGTA
* *
1882566 AAATGTATTGATACATTTGTG
1 AAATGTATCGATACATTTGTA
*
1882587 GAATGTATCGATACA-TTGTA
1 AAATGTATCGATACATTTGTA
1882607 CAAATGTATCGATACA
1 -AAATGTATCGATACA
1882623 AGGTCCCAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.08
21 46 0.92
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (21 bp):
AAATGTATCGATACATTTGTA
Found at i:1882683 original size:19 final size:18
Alignment explanation
Indices: 1882659--1882755 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
1882649 TTTCAGTGAT
1882659 TTGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
1882678 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
*
1882692 -TGTATCGAAACATAAGTG
1 TTGTATCGATACA-AAGTG
1882710 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
1882724 -TGTATCGATACACAAGTG
1 TTGTATCGATACA-AAGTG
*
1882742 ATGTATCGATACAA
1 TTGTATCGATACAA
1882756 TGTATCGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:1882697 original size:13 final size:13
Alignment explanation
Indices: 1882679--1882768 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
1882669 ACATAAGTGT
1882679 TGTATCGATACAA
1 TGTATCGATACAA
*
1882692 TGTATCGAAACATAA
1 TGTATCGATAC--AA
1882707 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1882724 TGTATCGATACACAAGTGA
1 TGTATCGAT--AC-A---A
1882743 TGTATCGATACAA
1 TGTATCGATACAA
*
1882756 TGTATCGCTACAA
1 TGTATCGATACAA
1882769 AGCTACTGCC
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 32 0.52
15 4 0.06
16 2 0.03
17 4 0.06
19 20 0.32
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1882705 original size:32 final size:32
Alignment explanation
Indices: 1882660--1882767 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
1882650 TTCAGTGATT
1882660 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1882692 TGTATCGAAACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
1882724 TGTATCGATACACAAGTGATGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1882756 TGTATCGCTACA
1 TGTATCGATACA
1882768 AAGCTACTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1882824 original size:13 final size:13
Alignment explanation
Indices: 1882806--1882831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1882796 CATTATTCCA
1882806 TGTATCGATACAT
1 TGTATCGATACAT
1882819 TGTATCGATACAT
1 TGTATCGATACAT
1882832 GGATCGTTGT
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:1885378 original size:102 final size:103
Alignment explanation
Indices: 1885197--1885505 Score: 376
Period size: 102 Copynumber: 3.0 Consensus size: 103
1885187 AATTCTCCGC
* * * *
1885197 AATCGGGGATATTCTC-ACTCCGATTTTATTT-TCAAAACACTAATTTTCTATAATCGGGGATAC
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATAC
* *
1885260 TCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCAT
65 TCCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
* *
1885299 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTCCACAATCGGGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
* * ** *
1885363 CCAACCCCGGTTTTATTTTCAAAACACCAATTT-TCCTTT
66 CCAACCCCGGTTTTATTTCCAAAATATTAATTTCT-C-AT
* * * *
1885402 AATCGGGGATACTCCAATTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
*
1885467 CCAACCCC-GTTATTATCTCCAAAATATTAAATTTCTCAT
66 CCAACCCCGGTT-TTATTTCCAAAATATT-AATTTCTCAT
1885506 CGGGAAATAT
Statistics
Matches: 175, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
101 2 0.01
102 83 0.47
103 35 0.20
104 48 0.27
105 6 0.03
106 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (103 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTCCACAATCGGGGATACT
CCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
Found at i:1885429 original size:52 final size:51
Alignment explanation
Indices: 1885197--1885475 Score: 305
Period size: 51 Copynumber: 5.4 Consensus size: 51
1885187 AATTCTCCGC
* * *
1885197 AATCGGGGATATTCTC-ACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTC-CAACCCCGGTTTTATTTTCAAAACACTAATTTTCTAT
* * * * *
1885248 AATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCT-AT
* *
1885299 AATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCTAT
* *
1885350 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTT-CTAT
** * * * *
1885402 AATCGGGGATACTCCAATTCCGATTTTATTTCTAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACTAATTTTCT-AT
*
1885454 AATCGAGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
1885476 TTATTATCTC
Statistics
Matches: 192, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
50 9 0.05
51 112 0.58
52 56 0.29
53 15 0.08
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCTAT
Found at i:1887544 original size:13 final size:13
Alignment explanation
Indices: 1887526--1887649 Score: 101
Period size: 13 Copynumber: 9.1 Consensus size: 13
1887516 ATATTATGCT
1887526 TTGTATCGATACA
1 TTGTATCGATACA
1887539 TTGTATCGATACA
1 TTGTATCGATACA
*
1887552 TTGTATAGATACA
1 TTGTATCGATACA
* *
1887565 ATGTATAC-ATGGCATA
1 TTGTAT-CGAT---ACA
1887581 TTGTATCGATACA
1 TTGTATCGATACA
1887594 TTGTATAC-ATACA
1 TTGTAT-CGATACA
* *
1887607 ATGTATAC-ATGGCATA
1 TTGTAT-CGAT---ACA
1887623 TTGTATCGATACA
1 TTGTATCGATACA
1887636 TTGTATCGATACA
1 TTGTATCGATACA
1887649 T
1 T
1887650 GGCATATTGT
Statistics
Matches: 91, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
13 70 0.77
14 1 0.01
15 2 0.02
16 18 0.20
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1887585 original size:42 final size:42
Alignment explanation
Indices: 1887538--1887648 Score: 204
Period size: 42 Copynumber: 2.6 Consensus size: 42
1887528 GTATCGATAC
1887538 ATTGTATCGATACATTGTATAGATACAATGTATACATGGCAT
1 ATTGTATCGATACATTGTATAGATACAATGTATACATGGCAT
*
1887580 ATTGTATCGATACATTGTATACATACAATGTATACATGGCAT
1 ATTGTATCGATACATTGTATAGATACAATGTATACATGGCAT
*
1887622 ATTGTATCGATACATTGTATCGATACA
1 ATTGTATCGATACATTGTATAGATACA
1887649 TGGCATATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (42 bp):
ATTGTATCGATACATTGTATAGATACAATGTATACATGGCAT
Found at i:1887594 original size:20 final size:20
Alignment explanation
Indices: 1887569--1887751 Score: 96
Period size: 20 Copynumber: 9.2 Consensus size: 20
1887559 GATACAATGT
1887569 ATACATGGCATATTGTATCG
1 ATACATGGCATATTGTATCG
* * ***
1887589 ATACATTGTATACATACAAT-G
1 ATACATGGCAT--ATTGTATCG
1887610 TATACATGGCATATTGTATCG
1 -ATACATGGCATATTGTATCG
1887631 AT--A---C--ATTGTATCG
1 ATACATGGCATATTGTATCG
1887644 ATACATGGCATATTGTATCG
1 ATACATGGCATATTGTATCG
** ** * *
1887664 ATACATGAAACTGACAGTAGCT
1 ATACATGGCA-T-ATTGTATCG
* ** *
1887686 AT-CCTACCACTGTTTGTATCG
1 ATACATGGCA-TAT-TGTATCG
1887707 ATACATGGCATATTGTATCG
1 ATACATGGCATATTGTATCG
*
1887727 ATACATGGCACATTGTATCG
1 ATACATGGCATATTGTATCG
1887747 ATACA
1 ATACA
1887752 ATGTATCGAT
Statistics
Matches: 118, Mismatches: 30, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
13 11 0.09
15 2 0.02
18 2 0.02
20 63 0.53
21 16 0.14
22 24 0.20
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
ATACATGGCATATTGTATCG
Found at i:1887635 original size:33 final size:33
Alignment explanation
Indices: 1887598--1887669 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
1887588 GATACATTGT
1887598 ATACATACAAT-GTATACATGGCATATTGTATCG
1 ATACATACAATCG-ATACATGGCATATTGTATCG
***
1887631 ATACATTGTATCGATACATGGCATATTGTATCG
1 ATACATACAATCGATACATGGCATATTGTATCG
1887664 ATACAT
1 ATACAT
1887670 GAAACTGACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (33 bp):
ATACATACAATCGATACATGGCATATTGTATCG
Found at i:1887758 original size:13 final size:13
Alignment explanation
Indices: 1887740--1887764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1887730 CATGGCACAT
1887740 TGTATCGATACAA
1 TGTATCGATACAA
1887753 TGTATCGATACA
1 TGTATCGATACA
1887765 TGATAAATTG
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:1887762 original size:33 final size:33
Alignment explanation
Indices: 1887720--1887784 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1887710 CATGGCATAT
* *
1887720 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGACAAATTGTATCGATACAA
* *
1887753 TGTATCGATACATGATAAATTGTATCTATACA
1 TGTATCGATACATGACAAATTGTATCGATACA
1887785 TTGGTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTGTATCGATACAA
Found at i:1887769 original size:20 final size:20
Alignment explanation
Indices: 1887699--1887785 Score: 62
Period size: 20 Copynumber: 4.7 Consensus size: 20
1887689 CTACCACTGT
** *
1887699 TTGTATCGATACATGGCATA
1 TTGTATCGATACATGATAAA
** *
1887719 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGATAAA
1887739 TTGTATCGATAC------AA
1 TTGTATCGATACATGATAAA
1887753 -TGTATCGATACATGATAAA
1 TTGTATCGATACATGATAAA
*
1887772 TTGTATCTATACAT
1 TTGTATCGATACAT
1887786 TGGTTCAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
13 11 0.19
14 1 0.02
19 2 0.04
20 43 0.75
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGATAAA
Found at i:1893940 original size:13 final size:13
Alignment explanation
Indices: 1893922--1893948 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1893912 ACAATGTTCT
1893922 TTGTATCGATACA
1 TTGTATCGATACA
1893935 TTGTATCGATACA
1 TTGTATCGATACA
1893948 T
1 T
1893949 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1896349 original size:19 final size:20
Alignment explanation
Indices: 1896325--1896376 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1896315 CACATCCAGA
* *
1896325 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCATAAT
1896344 TGTATCGATACATGCATAAT
1 TGTATCGATACATGCATAAT
1896364 TGTATCGATACAT
1 TGTATCGATACAT
1896377 AAAACTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCATAAT
Found at i:1902769 original size:38 final size:38
Alignment explanation
Indices: 1902725--1902800 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
1902715 GTAGGTTTCG
1902725 ATTTAATAAGTTTTAAATATCTTACATATTTGTGAGAT
1 ATTTAATAAGTTTTAAATATCTTACATATTTGTGAGAT
*
1902763 ATTTAATAAGTTTTAAATATCTTATATATTTGTGAGAT
1 ATTTAATAAGTTTTAAATATCTTACATATTTGTGAGAT
1902801 TCATCTTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (38 bp):
ATTTAATAAGTTTTAAATATCTTACATATTTGTGAGAT
Found at i:1903916 original size:15 final size:16
Alignment explanation
Indices: 1903891--1903921 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1903881 TAAAAAATTG
1903891 GTAGAAGAGAGAAAAA
1 GTAGAAGAGAGAAAAA
1903907 GTAG-AGAGAGAAAAA
1 GTAGAAGAGAGAAAAA
1903922 ATTTACCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.06
Consensus pattern (16 bp):
GTAGAAGAGAGAAAAA
Found at i:1906088 original size:5 final size:5
Alignment explanation
Indices: 1906078--1906105 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1906068 CATCATATTG
1906078 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1906106 GACTAGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:1913132 original size:75 final size:75
Alignment explanation
Indices: 1913009--1913157 Score: 298
Period size: 75 Copynumber: 2.0 Consensus size: 75
1912999 CTCTATCAGG
1913009 GTGCAGAGTATTAAGTAAGGTCTCACTAAAAGAAAATTATAACAAATGAGCACAGAAAAGAGTGA
1 GTGCAGAGTATTAAGTAAGGTCTCACTAAAAGAAAATTATAACAAATGAGCACAGAAAAGAGTGA
1913074 ACAATTCTTT
66 ACAATTCTTT
1913084 GTGCAGAGTATTAAGTAAGGTCTCACTAAAAGAAAATTATAACAAATGAGCACAGAAAAGAGTGA
1 GTGCAGAGTATTAAGTAAGGTCTCACTAAAAGAAAATTATAACAAATGAGCACAGAAAAGAGTGA
1913149 ACAATTCTT
66 ACAATTCTT
1913158 AGTATAGATG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (75 bp):
GTGCAGAGTATTAAGTAAGGTCTCACTAAAAGAAAATTATAACAAATGAGCACAGAAAAGAGTGA
ACAATTCTTT
Found at i:1917539 original size:3 final size:3
Alignment explanation
Indices: 1917531--1917568 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1917521 TTTTCAACAC
1917531 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1917569 TAGATTGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1917669 original size:9 final size:9
Alignment explanation
Indices: 1917653--1917709 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
1917643 TATATAATAA
1917653 AAAT-TATT
1 AAATATATT
1917661 AAATATATT
1 AAATATATT
*
1917670 AAA-ATTTT
1 AAATATATT
1917678 AAATATAAATAT
1 AAATAT--AT-T
1917690 AATATATATT
1 AA-ATATATT
1917700 AAATATATT
1 AAATATATT
1917709 A
1 A
1917710 CATTAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 11 0.27
9 17 0.41
10 3 0.07
11 3 0.07
12 3 0.07
13 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATATATT
Found at i:1918859 original size:21 final size:22
Alignment explanation
Indices: 1918835--1918891 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
1918825 AAATTTTAAA
1918835 AATTTTTAA-TTATATTTA-ATT
1 AATTTTTAATTTAT-TTTATATT
*
1918856 AATTTTTAGTTTATTTTATATT
1 AATTTTTAATTTATTTTATATT
1918878 AA-TTTT-ATTTATTT
1 AATTTTTAATTTATTT
1918892 ACTTCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 16 0.50
22 9 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
AATTTTTAATTTATTTTATATT
Found at i:1919812 original size:16 final size:15
Alignment explanation
Indices: 1919791--1919825 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1919781 GCTTTTAGTT
1919791 TTTATTATTTGCTTTA
1 TTTATTATTT-CTTTA
*
1919807 TTTATTATTTTTTTA
1 TTTATTATTTCTTTA
1919822 TTTA
1 TTTA
1919826 GTTCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTATTATTTCTTTA
Found at i:1919832 original size:27 final size:27
Alignment explanation
Indices: 1919789--1919845 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
1919779 AAGCTTTTAG
* *
1919789 TTTTTATTATTTGCTTTATTTATTATT
1 TTTTTATTAGTTGCTTTATTTATAATT
1919816 TTTTTATTTAGTT-CTTTATTTATAATT
1 TTTTTA-TTAGTTGCTTTATTTATAATT
1919843 TTT
1 TTT
1919846 AATCATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTTTATTAGTTGCTTTATTTATAATT
Found at i:1920267 original size:14 final size:14
Alignment explanation
Indices: 1920231--1920271 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1920221 TAATTTTGAG
1920231 AATTATTTTTCTTTC
1 AATTATTTTT-TTTC
1920246 -A-TATTTTTTTTTC
1 AATTA-TTTTTTTTC
1920259 AATTATTTTTTTT
1 AATTATTTTTTTT
1920272 GTTCCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 6 0.26
14 15 0.65
15 2 0.09
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
AATTATTTTTTTTC
Found at i:1922229 original size:22 final size:23
Alignment explanation
Indices: 1922189--1922231 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1922179 TTTGAAATAA
* *
1922189 ATTTATTAAATTAAGTTTCAAAG
1 ATTTATTAAAATAAATTTCAAAG
1922212 ATTT-TTAAAATAAATTTCAA
1 ATTTATTAAAATAAATTTCAA
1922232 TATCGAAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
ATTTATTAAAATAAATTTCAAAG
Found at i:1922646 original size:2 final size:2
Alignment explanation
Indices: 1922639--1922667 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1922629 ATTTGGAATA
1922639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1922668 ATGTAAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1923495 original size:15 final size:16
Alignment explanation
Indices: 1923470--1923506 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1923460 TTTAGAGTAA
1923470 TTTAGATTTGGA-TATT
1 TTTA-ATTTGGACTATT
1923486 TTTAATTTGGACTATT
1 TTTAATTTGGACTATT
1923502 TTTAA
1 TTTAA
1923507 GTTTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.57
Consensus pattern (16 bp):
TTTAATTTGGACTATT
Found at i:1924166 original size:11 final size:11
Alignment explanation
Indices: 1924135--1924180 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
1924125 AAACTCGAAC
1924135 TTAAATTTAAT
1 TTAAATTTAAT
*
1924146 TCAAAATTTAAT
1 T-TAAATTTAAT
*
1924158 TTGAATTTAA-
1 TTAAATTTAAT
1924168 TTAAATTTAAT
1 TTAAATTTAAT
1924179 TT
1 TT
1924181 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 10 0.34
12 10 0.34
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:1925002 original size:19 final size:19
Alignment explanation
Indices: 1924978--1925015 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1924968 ATCAAATATA
1924978 AATATATAA-ATATATATTT
1 AATATA-AATATATATATTT
*
1924997 AATATAAATATATTTATTT
1 AATATAAATATATATATTT
1925016 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATAAATATATATATTT
Found at i:1925514 original size:28 final size:29
Alignment explanation
Indices: 1925460--1925526 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
1925450 TATACAAACA
*
1925460 TAAATATAATAGATATAATATTTTAAAAATT
1 TAAATAT-ATAGATATAAAATTTTAAAAA-T
1925491 TAAATATATA-ATA-AAAATTTTAAAAAT
1 TAAATATATAGATATAAAATTTTAAAAAT
1925518 TAAATATAT
1 TAAATATAT
1925527 TTATATCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 10 0.29
28 12 0.34
29 3 0.09
30 3 0.09
31 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAATATATAGATATAAAATTTTAAAAAT
Found at i:1925515 original size:27 final size:30
Alignment explanation
Indices: 1925460--1925526 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 30
1925450 TATACAAACA
* *
1925460 TAAATATAATAGATATAATATTTTAAAAATT
1 TAAATAT-ATAGATATAAAATTTTAAAAAAT
1925491 TAAATATATA-ATA-AAAATTTT-AAAAAT
1 TAAATATATAGATATAAAATTTTAAAAAAT
1925518 TAAATATAT
1 TAAATATAT
1925527 TTATATCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 14 0.41
28 7 0.21
29 3 0.09
30 3 0.09
31 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (30 bp):
TAAATATATAGATATAAAATTTTAAAAAAT
Found at i:1926597 original size:3 final size:3
Alignment explanation
Indices: 1926591--1926621 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1926581 AGAAGAAACT
1926591 GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1926622 GACAAGGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:1927381 original size:33 final size:32
Alignment explanation
Indices: 1927338--1927401 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
1927328 AAAAAATAAA
* * * *
1927338 AATTATTTTTATATTAATATTTATATATTTTAT
1 AATTAATTTTAAATAAAAATTTAT-TATTTTAT
1927371 AATTAATTTTAAATAAAAATTTATTATTTTA
1 AATTAATTTTAAATAAAAATTTATTATTTTA
1927402 ATTAAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AATTAATTTTAAATAAAAATTTATTATTTTAT
Found at i:1927401 original size:20 final size:21
Alignment explanation
Indices: 1927376--1927416 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1927366 TTTATAATTA
1927376 ATTTTAAATAAAAAT-TTATT
1 ATTTTAAATAAAAATGTTATT
*
1927396 ATTTTAATTAAAAATGTTATT
1 ATTTTAAATAAAAATGTTATT
1927417 CTGAGCTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTTAAATAAAAATGTTATT
Found at i:1929641 original size:6 final size:6
Alignment explanation
Indices: 1929630--1929657 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1929620 ATCTTTAACT
1929630 CAAGCC CAAGCC CAAGCC CAAGCC CAAG
1 CAAGCC CAAGCC CAAGCC CAAGCC CAAG
1929658 TCTAAGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.46, G:0.18, T:0.00
Consensus pattern (6 bp):
CAAGCC
Found at i:1930498 original size:9 final size:9
Alignment explanation
Indices: 1930484--1930519 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
1930474 ATCGATTTTC
*
1930484 ACTGTTTAT
1 ACTGTTCAT
1930493 ACTGTTCAT
1 ACTGTTCAT
1930502 ACTGTTCAT
1 ACTGTTCAT
1930511 ACTGTTCAT
1 ACTGTTCAT
1930520 GTATCGATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (9 bp):
ACTGTTCAT
Found at i:1930632 original size:34 final size:32
Alignment explanation
Indices: 1930589--1930662 Score: 114
Period size: 34 Copynumber: 2.3 Consensus size: 32
1930579 CTATTCACGT
1930589 ATCACTATTCATGTATCGATAAAAATCACTGTTC
1 ATCACTATTCATGTATCGAT--AAATCACTGTTC
*
1930623 ATCACTATTCATGTATCGATACATCACTGTTC
1 ATCACTATTCATGTATCGATAAATCACTGTTC
1930655 A-CACTATT
1 ATCACTATT
1930663 TAATAAAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 7 0.18
32 12 0.31
34 20 0.51
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (32 bp):
ATCACTATTCATGTATCGATAAATCACTGTTC
Found at i:1931159 original size:34 final size:35
Alignment explanation
Indices: 1931096--1931162 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1931086 CTAAGTGATT
1931096 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1931132 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1931163 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1940045 original size:20 final size:20
Alignment explanation
Indices: 1940020--1940093 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
1940010 GTAAAAAGAC
1940020 AGAATGTATCGATATATTGA
1 AGAATGTATCGATATATTGA
* *
1940040 AGAATGTATCGATACATTCA
1 AGAATGTATCGATATATTGA
*
1940060 TA-CATGTATCGATATATTGA
1 -AGAATGTATCGATATATTGA
1940080 AGAATGTATCGATA
1 AGAATGTATCGATA
1940094 CATCTAGGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATATATTGA
Found at i:1941123 original size:28 final size:28
Alignment explanation
Indices: 1940994--1941368 Score: 390
Period size: 28 Copynumber: 12.9 Consensus size: 28
1940984 TTTAAAAAAA
*
1940994 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* * *
1941025 AGTTGTCACCGACTTATGTGGGCTTTGAAAAG
1 -GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* * *
1941057 AGTTACCACTGGCTTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
1941087 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1941115 GGTGCCACTGACTTGTAGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1941143 GATGTCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** *
1941172 AATTGCCACTGACTTATGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1941201 GATGCCATTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
1941230 AGTTGCTACTGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1941259 GTTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1941287 GGGGCCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
** * *
1941315 AATGCCACTGACTTGTGGGCTTTAAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1941343 GGTGCCACTAACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
1941369 GAGATGAACG
Statistics
Matches: 294, Mismatches: 45, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
28 166 0.56
29 36 0.12
30 56 0.19
31 1 0.00
32 35 0.12
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1941199 original size:58 final size:57
Alignment explanation
Indices: 1940989--1941368 Score: 433
Period size: 58 Copynumber: 6.5 Consensus size: 57
1940979 TTTTTTTTAA
* * * * *
1940989 AAAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGTCACCGACTTATGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTG
* * * *
1941052 AAAAGAGTTACCACTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* *
1941111 -AAAGGGTGCCACTGACTTGTAGGCTTTGAAAGGATGTCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
** * *
1941167 AAAAGAATTGCCACTGACTTATGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
1941225 AAAAGAGTTGCTACTGACTCGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
1941283 -AAAGGGGGCCACTGACTTATGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
1941338 AAAATGGTGCCACTAACTTGTGGGCTTTGAA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAA
1941369 GAGATGAACG
Statistics
Matches: 274, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
56 91 0.33
57 33 0.12
58 102 0.37
59 11 0.04
60 2 0.01
61 11 0.04
62 11 0.04
63 5 0.02
64 8 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (57 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:1941199 original size:86 final size:85
Alignment explanation
Indices: 1940990--1941368 Score: 412
Period size: 86 Copynumber: 4.4 Consensus size: 85
1940980 TTTTTTTAAA
* * * *
1940990 AAAAG-GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGTCACCGACTTATGTGGGCTTTGAA
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T-TGTGGGCTTTGAA
* *
1941054 AAGA-GTTACCACTGGCTTGTGGGCTTTG
60 AGGATG-T--CACTGACTTGTGGGCTTTG
*
1941082 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTAGGCTTTGAAAGGATG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
1941147 TCACTGACTTGTGGGCTTTG
66 TCACTGACTTGTGGGCTTTG
* * * * *
1941167 AAAAGAATTGCCACTGACTTATGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGA-
1 AAAAG-AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAT
*
1941231 GTTGCTACTGACTCGTGGGCTTTG
65 G-T-C-ACTGACTTGTGGGCTTTG
* * *
1941255 -AAAG-GTTGCCACTGACTTGTGGGCTTTGAAAGGGGGCCACTGACTTATGGGCTTTGAAAGAAT
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAT
*
1941318 GCCACTGACTTGTGGGCTTT-
65 GTCACTGACTTGTGGGCTTTG
*
1941338 AAAATG-GTGCCACTAACTTGTGGGCTTTGAA
1 AAAA-GAGTGCCACTGACTTGTGGGCTTTGAA
1941369 GAGATGAACG
Statistics
Matches: 252, Mismatches: 25, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
84 42 0.17
85 27 0.11
86 102 0.40
87 22 0.09
88 19 0.08
89 9 0.04
90 4 0.02
91 11 0.04
92 6 0.02
93 10 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (85 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
TCACTGACTTGTGGGCTTTG
Found at i:1942589 original size:7 final size:7
Alignment explanation
Indices: 1942577--1942653 Score: 52
Period size: 7 Copynumber: 10.6 Consensus size: 7
1942567 TCTGGACCCC
1942577 TTTTGTT
1 TTTTGTT
1942584 TTTTGTT
1 TTTTGTT
1942591 ATTTT-TT
1 -TTTTGTT
* *
1942598 CTTGGTT
1 TTTTGTT
1942605 TTTTGTTT
1 TTTTG-TT
1942613 TTTTGTT
1 TTTTGTT
1942620 TTTT-TT
1 TTTTGTT
1942626 TGTTAT-TT
1 T-TT-TGTT
*
1942634 TCTATTTTT
1 T-T-TTGTT
1942643 TTTTGTT
1 TTTTGTT
1942650 TTTT
1 TTTT
1942654 TTGGGTATGG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 5 0.09
7 30 0.53
8 18 0.32
9 4 0.07
ACGTcount: A:0.04, C:0.03, G:0.10, T:0.83
Consensus pattern (7 bp):
TTTTGTT
Found at i:1942597 original size:10 final size:9
Alignment explanation
Indices: 1942577--1942656 Score: 67
Period size: 10 Copynumber: 8.6 Consensus size: 9
1942567 TCTGGACCCC
1942577 TTTTGTTTT
1 TTTTGTTTT
*
1942586 TTGTTATTTT
1 TT-TTGTTTT
*
1942596 TTCTTG-GTT
1 TT-TTGTTTT
1942605 TTTTG-TTT
1 TTTTGTTTT
1942613 TTTTGTTTTT
1 TTTTG-TTTT
1942623 TTTTGTTATT
1 TTTTGTT-TT
1942633 TTCTAT-TTTT
1 TT-T-TGTTTT
1942643 TTTTGTTTT
1 TTTTGTTTT
1942652 TTTTG
1 TTTTG
1942657 GGTATGGGGG
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
8 11 0.19
9 18 0.31
10 26 0.44
11 3 0.05
12 1 0.02
ACGTcount: A:0.04, C:0.03, G:0.11, T:0.82
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:1942634 original size:28 final size:29
Alignment explanation
Indices: 1942577--1942655 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
1942567 TCTGGACCCC
* *
1942577 TTTTG-TTTTTTGTTATTTTTTCTTGGTT
1 TTTTGTTTTTTTGTTTTTTTTTCTTGATT
*
1942605 TTTTGTTTTTTTGTTTTTTTTTGTT-ATT
1 TTTTGTTTTTTTGTTTTTTTTTCTTGATT
*
1942633 TTCTATTTTTTTTTGTTTTTTTT
1 TT-T-TGTTTTTTTGTTTTTTTT
1942656 GGGTATGGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 9 0.20
29 18 0.41
30 17 0.39
ACGTcount: A:0.04, C:0.03, G:0.10, T:0.84
Consensus pattern (29 bp):
TTTTGTTTTTTTGTTTTTTTTTCTTGATT
Found at i:1956441 original size:52 final size:52
Alignment explanation
Indices: 1956293--1956421 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
1956283 TGAAATATGA
* *
1956293 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
* *
1956345 AAATTTGT-CTGTATGTATCAATACATTTCATAGTGTATCGATACATATGGGC
1 AAATTT-TCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
1956397 AAATTTTCCTGCATGTATCGATACA
1 AAATTTTCCTGCATGTATCGATACA
1956422 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 1 0.01
52 68 0.99
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:1956448 original size:13 final size:13
Alignment explanation
Indices: 1956430--1956454 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1956420 CAAAGATCAG
1956430 TGTATCGATACAA
1 TGTATCGATACAA
1956443 TGTATCGATACA
1 TGTATCGATACA
1956455 TTTTCTTGGC
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:1956514 original size:19 final size:18
Alignment explanation
Indices: 1956486--1956548 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1956476 AGCGATATAT
*
1956486 TGTATTGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1956505 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1956518 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1956537 TGTATCGATACA
1 TGTATCGATACA
1956549 TTGTATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1956520 original size:32 final size:32
Alignment explanation
Indices: 1956478--1956563 Score: 138
Period size: 32 Copynumber: 2.7 Consensus size: 32
1956468 AGTTTCATAG
* *
1956478 CGATATATTGTATTGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1956510 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1956542 CGATACATTGTATCGATA-AAAA
1 CGATACATTGTATCGATACAAAA
1956564 TTGTTGAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 3 0.06
32 47 0.94
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1956523 original size:13 final size:13
Alignment explanation
Indices: 1956505--1956559 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
1956495 ACAAAACTTA
1956505 TGTATCGATACAT
1 TGTATCGATACAT
1956518 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1956536 ATGTATCGATACAT
1 -TGTATCGATACAT
1956550 TGTATCGATA
1 TGTATCGATA
1956560 AAAATTGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
16 6 0.17
18 1 0.03
19 9 0.25
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1957474 original size:17 final size:17
Alignment explanation
Indices: 1957438--1957480 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
1957428 GTATATATAA
1957438 ATATAAAT-TTTAAAAT
1 ATATAAATATTTAAAAT
*
1957454 -TATAAATATTTAATAT
1 ATATAAATATTTAAAAT
1957470 ATATAAA-ATTT
1 ATATAAATATTT
1957481 CCAAACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAAATATTTAAAAT
Done.