Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 12 of 12
Found at i:1626655 original size:52 final size:52
Alignment explanation
Indices: 1626522--1626662 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
1626512 TGAAAAGTTA
*
1626522 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
1626574 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1626626 CTGCATGTATCGATATA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1626663 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1626669 original size:13 final size:13
Alignment explanation
Indices: 1626651--1626675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626641 TAAAGATCAG
1626651 TGTATCGATACAA
1 TGTATCGATACAA
1626664 TGTATCGATACA
1 TGTATCGATACA
1626676 TGTGAGTAAT
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:1626759 original size:13 final size:13
Alignment explanation
Indices: 1626741--1626765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1626731 CAAAAAAATA
1626741 TGTATCGATACAT
1 TGTATCGATACAT
1626754 TGTATCGATACA
1 TGTATCGATACA
1626766 ACATTTTATG
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:1626761 original size:33 final size:33
Alignment explanation
Indices: 1626719--1626785 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1626709 AGTAGCTTAA
1626719 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1626752 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1626785 A
1 A
1626786 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1626864 original size:21 final size:21
Alignment explanation
Indices: 1626823--1626864 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1626813 GTTGGGACCT
*
1626823 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1626844 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1626865 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1627777 original size:171 final size:171
Alignment explanation
Indices: 1627585--1627976 Score: 673
Period size: 168 Copynumber: 2.3 Consensus size: 171
1627575 TTTTAGAGAT
*
1627585 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1627650 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAGAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1627715 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1627756 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1627818 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1627883 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1627924 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1627977 GTGCCAATGT
Statistics
Matches: 208, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
168 121 0.58
169 5 0.02
171 81 0.39
173 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:1627861 original size:64 final size:62
Alignment explanation
Indices: 1627760--1627976 Score: 180
Period size: 64 Copynumber: 3.7 Consensus size: 62
1627750 CTTAAAGATG
* *
1627760 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGATGATGAGAAAAGTGATA
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGA-GA-AAAAGTGATA
* * *
1627824 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG-GAT-
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
** * * * *
1627884 --G-T--CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--AAA---AT-
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
* *
1627934 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
1627977 GTGCCAATGT
Statistics
Matches: 133, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
50 4 0.03
52 38 0.29
54 1 0.01
55 33 0.25
57 1 0.01
58 1 0.01
61 3 0.02
62 5 0.04
63 2 0.02
64 45 0.34
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (62 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
Found at i:1628033 original size:49 final size:47
Alignment explanation
Indices: 1627880--1628116 Score: 274
Period size: 43 Copynumber: 5.1 Consensus size: 47
1627870 ATGAGAAAAA
* * *
1627880 GGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1627927 GGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-
1 GG---A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1627976 GG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
1628022 GAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-
1 G--GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1628068 GG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1628114 GGA
1 GGA
1628117 AAAGGCCAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 30
0.79 0.07 0.15
Matches are distributed among these distances:
43 70 0.43
44 5 0.03
45 2 0.01
46 4 0.02
47 3 0.02
48 3 0.02
49 37 0.23
50 2 0.01
51 2 0.01
52 33 0.20
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (47 bp):
GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1628064 original size:92 final size:93
Alignment explanation
Indices: 1627890--1628124 Score: 393
Period size: 92 Copynumber: 2.5 Consensus size: 93
1627880 GGATGTCAAC
*
1627890 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAA-GTGCCAATATGCTGATTCAAG
*
1627955 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
1627985 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGC
1628049 CAGCGATATTGGACTTAAAGGTGCCAAT
66 CAGCGATATTGGACTTAAAGGTGCCAAT
*
1628077 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG-GCCA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAAGTGCCA
1628125 GCTATATTGG
Statistics
Matches: 133, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
92 85 0.64
93 8 0.06
94 4 0.03
95 36 0.27
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (93 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1628240 original size:32 final size:33
Alignment explanation
Indices: 1628144--1628236 Score: 154
Period size: 33 Copynumber: 2.8 Consensus size: 33
1628134 GGCTTAGAGG
*
1628144 GGTTGCCACCGACTTGTGTGGGCTCTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1628177 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1628210 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
1628237 GAAGGAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 26 0.45
34 5 0.09
ACGTcount: A:0.15, C:0.20, G:0.37, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:1628314 original size:34 final size:35
Alignment explanation
Indices: 1628238--1628431 Score: 272
Period size: 35 Copynumber: 5.5 Consensus size: 35
1628228 GGGCTTTGGG
*
1628238 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
1628272 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1628308 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
1628342 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1628378 ACGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
1628413 AAGGGAAAGAGAGTGCCAC
1 AA-GGAAAAAGAGTGCCAC
1628432 AAAGTCGTAG
Statistics
Matches: 146, Mismatches: 4, Indels: 17
0.87 0.02 0.10
Matches are distributed among these distances:
33 23 0.16
34 34 0.23
35 35 0.24
36 24 0.16
37 30 0.21
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.18
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:1628316 original size:70 final size:70
Alignment explanation
Indices: 1628241--1628431 Score: 305
Period size: 71 Copynumber: 2.7 Consensus size: 70
1628231 CTTTGGGAAG
*
1628241 GAAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1628304 TTAAAA
65 TTAAAA
*
1628310 GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1628375 TAAACG
66 TAAA-A
* *
1628381 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
1628432 AAAGTCGTAG
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
68 17 0.15
69 10 0.09
70 39 0.34
71 48 0.42
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (70 bp):
GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TAAAA
Found at i:1628477 original size:33 final size:36
Alignment explanation
Indices: 1628440--1628589 Score: 204
Period size: 33 Copynumber: 4.3 Consensus size: 36
1628430 ACAAAGTCGT
1628440 AGGTGCCACAGAGTTGTGGGCTTT-AAAA-G-AAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1628473 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
* *
1628509 AGAGTGCCACAAAGTTGTGGGCTTT-AAAA-G-AAGA
1 AG-GTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1628543 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
1628579 AGAGTGCCACA
1 AG-GTGCCACA
1628590 AAGTCGTAGG
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
33 43 0.43
34 13 0.13
35 3 0.03
36 15 0.15
37 27 0.27
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (36 bp):
AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
Found at i:1628502 original size:87 final size:88
Alignment explanation
Indices: 1628354--1628523 Score: 288
Period size: 87 Copynumber: 1.9 Consensus size: 88
1628344 GGGAAAAAGA
* * *
1628354 GTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
1628419 AAGAGAGTGCCACAAAGTCGTAG
66 AAAAGAGTGCCACAAAGTCGTAG
*
1628442 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1628506 AAAAGAGTGCCACAAAGT
66 AAAAGAGTGCCACAAAGT
1628524 TGTGGGCTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 53 0.69
88 24 0.31
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTCGTAG
Found at i:1628555 original size:70 final size:70
Alignment explanation
Indices: 1628442--1628593 Score: 286
Period size: 70 Copynumber: 2.2 Consensus size: 70
1628432 AAAGTCGTAG
*
1628442 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628507 AAAGA
66 AAAGA
*
1628512 GTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628577 AAAGA
66 AAAGA
1628582 GTGCCACAAAGT
1 GTGCCACAAAGT
1628594 CGTAGGTGCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 80 1.00
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (70 bp):
GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGA
Found at i:1628602 original size:157 final size:156
Alignment explanation
Indices: 1628284--1629180 Score: 1195
Period size: 157 Copynumber: 5.9 Consensus size: 156
1628274 GGGAAAAAGA
* * *
1628284 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
** * * *
1628349 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
66 AAAGAGTGCCACAAAGTTGTGGGCTTTAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
*
1628414 AGGGAAAGAGAGTGCCACAAAGTCGTAG
130 A-GGAAAAAGAGTGCCACAAAGTCGTAG
1628442 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628507 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
66 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1628572 GGAAAAAAGAGTGCCACAAAGTCGTAG
131 GG-AAAAAGAGTGCCACAAAGTCGTAG
1628599 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1628664 AAAGAGTGCCAAAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
66 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1628729 GGAAAAAAGAGTGCCACAAAGTCGTAG
131 GG-AAAAAGAGTGCCACAAAGTCGTAG
1628756 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1628821 AAGGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
66 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
*
1628886 -GAAGAAG-GTTGCCAC-----C----
131 GGAAAAAGAG-TGCCACAAAGTCGTAG
** * * * *
1628902 --G--AC-TTG-TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGG
1 GTGCCACAGAGTTGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
* ** * *
1628959 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
63 AAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
1629024 AAAGG-----GA-----A-AAA---G-A-
128 AAAGGAAAAAGAGTGCCACAAAGTCGTAG
* *
1629037 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAATGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
* *
1629101 GAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
65 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA
*
1629166 A-GAAGAAG-GTGCCAC
130 AGGAAAAAGAGTGCCAC
1629181 GGAGTTGTGG
Statistics
Matches: 670, Mismatches: 38, Indels: 71
0.86 0.05 0.09
Matches are distributed among these distances:
132 1 0.00
137 2 0.00
139 27 0.04
140 78 0.12
141 84 0.13
142 7 0.01
143 23 0.03
144 2 0.00
148 1 0.00
150 1 0.00
154 1 0.00
155 11 0.02
156 3 0.00
157 339 0.51
158 90 0.13
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (156 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
GGAAAAAGAGTGCCACAAAGTCGTAG
Found at i:1628644 original size:33 final size:36
Alignment explanation
Indices: 1628597--1628746 Score: 195
Period size: 33 Copynumber: 4.3 Consensus size: 36
1628587 ACAAAGTCGT
1628597 AGGTGCCACAGAGTTGTGGGCTTT-AAAA-G-AAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1628630 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
* * *
1628666 AGAGTGCCAAAAAGTTGTGGGCTTT-AAAA-G-AAGA
1 AG-GTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1628700 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
1628736 AGAGTGCCACA
1 AG-GTGCCACA
1628747 AAGTCGTAGG
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
33 42 0.42
34 13 0.13
35 3 0.03
36 15 0.15
37 26 0.26
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.19
Consensus pattern (36 bp):
AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
Found at i:1628658 original size:87 final size:87
Alignment explanation
Indices: 1628512--1628680 Score: 311
Period size: 87 Copynumber: 1.9 Consensus size: 87
1628502 GGAAAAAAGA
*
1628512 GTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1628577 AAAGAGTGCCACAAAGTCGTAG
66 AAAGAGTGCCAAAAAGTCGTAG
*
1628599 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628664 AAAGAGTGCCAAAAAGT
66 AAAGAGTGCCAAAAAGT
1628681 TGTGGGCTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.20
Consensus pattern (87 bp):
GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGAGTGCCAAAAAGTCGTAG
Found at i:1628712 original size:70 final size:70
Alignment explanation
Indices: 1628599--1629822 Score: 567
Period size: 70 Copynumber: 16.8 Consensus size: 70
1628589 AAAGTCGTAG
*
1628599 GTGCCAC-AGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACGA-AGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1628663 AAAAGA
65 AAAAGA
**
1628669 GTGCCAAAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628734 AAAGA
66 AAAGA
* * * * ** ** *** * * * *
1628739 GTGCCACAAAGTCGTAGGTGC--CACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAG-T
1 GTGCCACGAAGTTGT-GG-GCTTTA-AAAGAAGAAGG--TGCCACG---GAGTTG---TGG-GCT
**** *
1628801 TGTGGGCTTTGAAAAGGAAAAAGGA
54 T-T--GAAAAGGAAA----AAA-GA
*
1628826 GTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-AA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1628889 GAAG-
66 AAAGA
** * * * *
1628893 GTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAA
1 G-TGCCA-CGAAGT-TGTGGGCTTTA--AAAGAAG-AAGGTGCCACGGAGTTGTGGGCTTTGAAA
*
1628956 AGGGAAAAAGA
60 AGGAAAAAAGA
* * * *
1628967 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1629032 AAAGA
66 AAAGA
* * *
1629037 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAATGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 GTGCCACGAAGTTGTGGGCTTTAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
*
1629101 GAAAGA
65 AAAAGA
1629107 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-AA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1629170 GAAG-
66 AAAGA
* * ** * * *
1629174 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTCGTAGGTGCCATAGAG
1 GTGCCACGAAGTTGTGGGCTTT-AAAA-G-AAGAAG-GTGCCACGGAGTTGT-GG-G-CTTTGA-
*** *
1629239 TTGTGGGCTTTAAAAGAAAAA
58 --AAAGG-----AAA-AAAGA
* * ** *
1629260 GGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGG-TTTTAAAA
1 -GTGCCACGAAGTTGTGGGCTTT-AAAA-G-AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
*
1629324 -G-AAGAAG-
61 GGAAAAAAGA
* * ** * *
1629331 GTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAACTCGTAGGTGCCACAGAG
1 GTGCCACGAAGTTGTGGGCTTT-AAAA-G-AAGAAG-GTGCCACGGAGTTGT-GG-G---C----
****** *
1629396 TTGTGGGCTTTAAAAGAAAAA
53 TT-T-GAAAAGGAAA-AAAGA
* * **
1629417 GGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTT-AAAA
1 -GTGCCACGAAGTTGTGGGCTTT-AAAA-G-AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
*
1629481 -G-AAGAAG-
61 GGAAAAAAGA
* * * * * * *
1629488 CTGCCACGGAGTTATGAGCTTTGAAAAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGGAA
1 GTGCCACGAAGTTGTGGGCTTT-AAAAGAAGAAGG-TGCCACGGA-GT-TGTGGGCTTTGA-AAA
* *
1629552 GGGAGAAAGA
61 GGAAAAAAGA
* * *
1629562 -TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-G
1 GTGCCACGAAGTTGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGG
1629623 -AAAAA-A
63 AAAAAAGA
* *
1629629 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACA
1 GTGCCACGAAGTTGTGGGCTTT-AAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAA-A
1629693 -G-AAAAAG-
61 GGAAAAAAGA
* *
1629700 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAAGAGTGCCACGAAGTTGTGGGCTTT-AAAA-G
1 GTGCCACGAAGTTGTGGGCTTT-AAAAGAAG-AAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGG
*
1629763 -AAGAAG-
63 AAAAAAGA
*
1629769 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1 GTGCCACGAAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1629823 GAAACGGGTG
Statistics
Matches: 935, Mismatches: 130, Indels: 181
0.75 0.10 0.15
Matches are distributed among these distances:
67 43 0.05
68 69 0.07
69 92 0.10
70 320 0.34
71 123 0.13
72 24 0.03
73 73 0.08
74 6 0.01
75 1 0.00
76 4 0.00
77 3 0.00
78 7 0.01
79 5 0.01
80 4 0.00
81 5 0.01
82 6 0.01
83 2 0.00
84 7 0.01
85 8 0.01
86 15 0.02
87 118 0.13
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (70 bp):
GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGA
Found at i:1628760 original size:87 final size:87
Alignment explanation
Indices: 1628669--1628837 Score: 302
Period size: 87 Copynumber: 1.9 Consensus size: 87
1628659 GGAAAAAAGA
*
1628669 GTGCCAAAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCAAAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1628734 AAAGAGTGCCACAAAGTCGTAG
66 AAAGAGTGCCACAAAGTCGTAG
* *
1628756 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCAAAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
*
1628821 AAGGAGTGCCACAAAGT
66 AAAGAGTGCCACAAAGT
1628838 TGTGGGCTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (87 bp):
GTGCCAAAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGAGTGCCACAAAGTCGTAG
Found at i:1628891 original size:34 final size:34
Alignment explanation
Indices: 1628754--1629217 Score: 546
Period size: 34 Copynumber: 13.3 Consensus size: 34
1628744 ACAAAGTCGT
*
1628754 AGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1628787 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAA
** *
1628822 AGGAGTGCCACAAAGTTGTGGGCTTT-AAAAGAAGA
1 A-G-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
*
1628857 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
* * ** *
1628891 AGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAA
1 AGG-TGCCACGGA-GT-TGTGGGCTTT--GAAAAGAAAA
* *
1628930 AGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAA
1628964 AGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
*
1628998 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAA
1629034 AGAGTGCCACGGAGTTGTGGGCTTT-AAACAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTGAAA-AGAAAA
*
1629069 ATGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA-AA
* *
1629104 AGAGTGCCACGAAGTTGTGGGCTTT-AAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
*
1629138 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1629172 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-AAAA
1629208 AGAGTGCCAC
1 AG-GTGCCAC
1629218 AAAGTCGTAG
Statistics
Matches: 376, Mismatches: 29, Indels: 48
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.01
33 86 0.23
34 100 0.27
35 58 0.15
36 53 0.14
37 61 0.16
38 8 0.02
39 8 0.02
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
Found at i:1629273 original size:33 final size:36
Alignment explanation
Indices: 1629226--1629375 Score: 186
Period size: 33 Copynumber: 4.3 Consensus size: 36
1629216 ACAAAGTCGT
*
1629226 AGGTGCCATAGAGTTGTGGGCTTT-AAAA-G-AAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1629259 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
* * *
1629295 AGAGTGCCACAAAGTTGTGGG-TTTTAAAA-G-AAGA
1 AG-GTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
*
1629329 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
1629365 AGAGTGCCACA
1 AG-GTGCCACA
1629376 AACTCGTAGG
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
33 38 0.39
34 16 0.16
35 3 0.03
36 18 0.18
37 23 0.23
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (36 bp):
AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
Found at i:1629285 original size:87 final size:88
Alignment explanation
Indices: 1629138--1629309 Score: 310
Period size: 87 Copynumber: 2.0 Consensus size: 88
1629128 TAAAAGAAGA
* *
1629138 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1629203 AAAAAAGAGTGCCACAAAGTCGT
66 AAAAAAGAGTGCCACAAAGTCGT
*
1629226 AGGTGCCATAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1629290 AAAAAAGAGTGCCACAAAGT
66 AAAAAAGAGTGCCACAAAGT
1629310 TGTGGGTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 59 0.73
88 22 0.27
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.20
Consensus pattern (88 bp):
AGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
AAAAAAGAGTGCCACAAAGTCGT
Found at i:1629357 original size:157 final size:146
Alignment explanation
Indices: 1629236--1629796 Score: 695
Period size: 157 Copynumber: 3.8 Consensus size: 146
1629226 AGGTGCCATA
1629236 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTG
1 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTG
* *
1629301 CCACAAAGTTGTGGGTTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
66 CCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
*
1629366 GAGTGCCACAAACTCGTAGGTGCCACA
131 GAGTGCCAC--A--CG-A---G---CT
1629393 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTG
1 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTG
* * * * *
1629458 CCACAAAGTTGTGGGCTTTAAAAGAAGAAGCTGCCACGGAGTTATGAGCTTTGAAAA-G-AAGAA
66 CCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
1629521 G-GTTGCCAC-CGA-CT
131 GAG-TGCCACACGAGCT
* * * * * *
1629535 -TG-TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGA
1 GAGTTGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGA
* * * *
1629596 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
63 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1629661 AAAGAGTG-C-CAC--G--
128 AAAGAGTGCCACACGAGCT
*
1629674 GAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAAGAGT
1 GAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGT
1629738 GCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
65 GCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1629797 AAGAAGGTGC
Statistics
Matches: 360, Mismatches: 31, Indels: 43
0.83 0.07 0.10
Matches are distributed among these distances:
139 25 0.07
140 79 0.22
141 83 0.23
142 8 0.02
143 30 0.08
144 1 0.00
149 1 0.00
150 2 0.01
154 1 0.00
155 11 0.03
156 1 0.00
157 118 0.33
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (146 bp):
GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTG
CCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAA
GAGTGCCACACGAGCT
Found at i:1629389 original size:87 final size:87
Alignment explanation
Indices: 1629298--1629464 Score: 307
Period size: 87 Copynumber: 1.9 Consensus size: 87
1629288 GGAAAAAAGA
* *
1629298 GTGCCACAAAGTTGTGGGTTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1629363 AAAGAGTGCCACAAACTCGTAG
66 AAAGAGTGCCACAAACTCGTAG
*
1629385 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1629450 AAAGAGTGCCACAAA
66 AAAGAGTGCCACAAA
1629465 GTTGTGGGCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (87 bp):
GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAAGAGTGCCACAAACTCGTAG
Found at i:1629816 original size:34 final size:33
Alignment explanation
Indices: 1629383--1629890 Score: 528
Period size: 34 Copynumber: 14.9 Consensus size: 33
1629373 ACAAACTCGT
*
1629383 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1629416 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
** *
1629452 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * * *
1629486 AGCTGCCACGGAGTTATGAGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
* * * *
1629520 AGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAA
1 AGG-TGCCACGGA-GT-TGTGGGCTTTA--AA-AGAAAA
* *
1629559 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAA
1629593 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
1629627 AAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAA
1629663 AGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAA
1629698 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAA-AA
* *
1629733 AGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
1629767 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
1629801 AGGTGCCACGGAGTTGTGGGC--T----GAAAC
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
1629828 GGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* *
1629862 AAGTGCCACGGAATTGTGGGCTTTAAAAG
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAG
1629891 GGTGCCACGG
Statistics
Matches: 404, Mismatches: 39, Indels: 64
0.80 0.08 0.13
Matches are distributed among these distances:
27 22 0.05
28 1 0.00
32 1 0.00
33 86 0.21
34 117 0.29
35 56 0.14
36 54 0.13
37 52 0.13
38 10 0.02
39 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:1629843 original size:61 final size:62
Alignment explanation
Indices: 1629694--1629915 Score: 245
Period size: 61 Copynumber: 3.5 Consensus size: 62
1629684 CTTTAAACAG
* *
1629694 AAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAG-AAG-GTGCCACGGAGTTGTGGGC-TT
*
1629758 AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-
1 -AAA-AAG--GGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCT
1629822 T
62 T
* * * * *
1629823 GAAACGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-A-GAAGAAGGTGCCACGGAGTTGTGGGCTT
* *
1629885 TAAAAGGGTGCCACGGAATTGTGGACTTTGA
1 AAAAAGGGTGCCACGGAGTTGTGGACTTTGA
1629916 GCAGAGATTG
Statistics
Matches: 138, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 42 0.30
62 24 0.17
63 4 0.03
64 3 0.02
65 4 0.03
66 2 0.01
67 18 0.13
68 3 0.02
69 32 0.23
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (62 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTT
Found at i:1629940 original size:31 final size:31
Alignment explanation
Indices: 1629905--1629971 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
1629895 CCACGGAATT
*
1629905 GTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTGAGAAGAGATTGCCACTGAGTC
1629936 GTGGACTTTGAGAAGAGATTGCCACTGAGTC
1 GTGGACTTTGAGAAGAGATTGCCACTGAGTC
1629967 GTGGA
1 GTGGA
1629972 TTTTTTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.25
Consensus pattern (31 bp):
GTGGACTTTGAGAAGAGATTGCCACTGAGTC
Found at i:1630990 original size:17 final size:17
Alignment explanation
Indices: 1630958--1630989 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1630948 GTTTTTCCTC
1630958 TTTTGTTTTCTTTTTTG
1 TTTTGTTTTCTTTTTTG
1630975 TTTTG-TTTCTTTTTT
1 TTTTGTTTTCTTTTTT
1630990 TTGGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTCTTTTTTG
Found at i:1631244 original size:12 final size:11
Alignment explanation
Indices: 1631229--1631300 Score: 98
Period size: 12 Copynumber: 6.7 Consensus size: 11
1631219 TGCCTTTGCA
1631229 TTTTTTTTGTGT
1 TTTTTTTTGT-T
1631241 TTTTTTTTG--
1 TTTTTTTTGTT
1631250 -TTTTTTTGTT
1 TTTTTTTTGTT
1631260 TTTTTTTTGTGT
1 TTTTTTTTGT-T
1631272 TTTTTTTTGTT
1 TTTTTTTTGTT
1631283 TTTTTTTT-TT
1 TTTTTTTTGTT
1631293 TTTTTTTT
1 TTTTTTTT
1631301 TTTCATCACT
Statistics
Matches: 56, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.14
10 10 0.18
11 18 0.32
12 20 0.36
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:1631264 original size:31 final size:31
Alignment explanation
Indices: 1631229--1631298 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
1631219 TGCCTTTGCA
1631229 TTTTTTTTGTGTTTTTTTTTGTTTTTTTGTT
1 TTTTTTTTGTGTTTTTTTTTGTTTTTTTGTT
*
1631260 TTTTTTTTGTGTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTGTGTTTTTTTTTGTTTTTTTGTT
1631291 TTTTTTTT
1 TTTTTTTT
1631299 TTTTTCATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (31 bp):
TTTTTTTTGTGTTTTTTTTTGTTTTTTTGTT
Found at i:1631314 original size:1 final size:1
Alignment explanation
Indices: 1631229--1631303 Score: 87
Period size: 1 Copynumber: 75.0 Consensus size: 1
1631219 TGCCTTTGCA
* * * * * * *
1631229 TTTTTTTTGTGTTTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1631294 TTTTTTTTTT
1 TTTTTTTTTT
1631304 CATCACTTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:1638274 original size:52 final size:52
Alignment explanation
Indices: 1638193--1638311 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
1638183 TGAAAAGTTA
*
1638193 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1638245 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1638297 CTGCATGTATCGATA
1 CTGCATGTATCGATA
1638312 TAAAGATCAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1638326 original size:52 final size:52
Alignment explanation
Indices: 1638193--1638333 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
1638183 TGAAAAGTTA
*
1638193 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
1638245 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1638297 CTGCATGTATCGATATA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1638334 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1638340 original size:13 final size:13
Alignment explanation
Indices: 1638322--1638346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1638312 TAAAGATCAG
1638322 TGTATCGATACAA
1 TGTATCGATACAA
1638335 TGTATCGATACA
1 TGTATCGATACA
1638347 TGTGAGTAAT
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:1638430 original size:13 final size:13
Alignment explanation
Indices: 1638412--1638436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1638402 CAAAAAAATA
1638412 TGTATCGATACAT
1 TGTATCGATACAT
1638425 TGTATCGATACA
1 TGTATCGATACA
1638437 ACATTTTATG
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:1638432 original size:33 final size:33
Alignment explanation
Indices: 1638390--1638456 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1638380 AGTAGCTTAA
1638390 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1638423 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1638456 A
1 A
1638457 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1638535 original size:21 final size:21
Alignment explanation
Indices: 1638494--1638535 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1638484 GTTGGGACCT
*
1638494 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1638515 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1638536 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1639448 original size:171 final size:171
Alignment explanation
Indices: 1639256--1639647 Score: 673
Period size: 168 Copynumber: 2.3 Consensus size: 171
1639246 TTTTAGAGAT
*
1639256 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1639321 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAGAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1639386 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1639427 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
1639489 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
1639554 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
1639595 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1639648 GTGCCAATGT
Statistics
Matches: 208, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
168 121 0.58
169 5 0.02
171 81 0.39
173 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:1639532 original size:64 final size:62
Alignment explanation
Indices: 1639431--1639647 Score: 180
Period size: 64 Copynumber: 3.7 Consensus size: 62
1639421 CTTAAAGATG
* *
1639431 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGATGATGAGAAAAGTGATA
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGA-GA-AAAAGTGATA
* * *
1639495 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG-GAT-
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
** * * * *
1639555 --G-T--CAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--AAA---AT-
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
* *
1639605 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
1639648 GTGCCAATGT
Statistics
Matches: 133, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
50 4 0.03
52 38 0.29
54 1 0.01
55 33 0.25
57 1 0.01
58 1 0.01
61 3 0.02
62 5 0.04
63 2 0.02
64 45 0.34
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (62 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAAGTGATA
Found at i:1639704 original size:49 final size:47
Alignment explanation
Indices: 1639551--1639787 Score: 274
Period size: 43 Copynumber: 5.1 Consensus size: 47
1639541 ATGAGAAAAA
* * *
1639551 GGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1639598 GGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-
1 GG---A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1639647 GG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
1639693 GAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-
1 G--GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1639739 GG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1639785 GGA
1 GGA
1639788 AAAGGCCAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 30
0.79 0.07 0.15
Matches are distributed among these distances:
43 70 0.43
44 5 0.03
45 2 0.01
46 4 0.02
47 3 0.02
48 3 0.02
49 37 0.23
50 2 0.01
51 2 0.01
52 33 0.20
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (47 bp):
GGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1639735 original size:92 final size:93
Alignment explanation
Indices: 1639561--1639795 Score: 393
Period size: 92 Copynumber: 2.5 Consensus size: 93
1639551 GGATGTCAAC
*
1639561 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAA-GTGCCAATATGCTGATTCAAG
*
1639626 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
1639656 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGC
1639720 CAGCGATATTGGACTTAAAGGTGCCAAT
66 CAGCGATATTGGACTTAAAGGTGCCAAT
*
1639748 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG-GCCA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAAAGTGCCA
1639796 GCTATATTGG
Statistics
Matches: 133, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
92 85 0.64
93 8 0.06
94 4 0.03
95 36 0.27
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (93 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1639853 original size:33 final size:34
Alignment explanation
Indices: 1639810--1639903 Score: 149
Period size: 33 Copynumber: 2.8 Consensus size: 34
1639800 TATTGGGCTT
1639810 AGAAGGGTTGCCACCGACTTGTGTGGGCTCT-GGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTCTAGGA
*
1639844 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTCTAGGA
1639878 AG-A-GTTGCCACCGACTTGTGTGGGCT
1 AGAAGGTTGCCACCGACTTGTGTGGGCT
1639904 TCAAATTGTC
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
32 23 0.40
33 26 0.45
34 9 0.16
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.26
Consensus pattern (34 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTCTAGGA
Found at i:1647381 original size:22 final size:22
Alignment explanation
Indices: 1647353--1647407 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1647343 TGGACATGTT
1647353 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1647375 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1647397 AAAAATGCATG
1 AAAAATGCATG
1647408 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1648368 original size:20 final size:20
Alignment explanation
Indices: 1648321--1648395 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1648311 AAAAAGACAT
*
1648321 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1648340 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1648361 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1648381 AATGTATCGATACAT
1 AATGTATCGATACAT
1648396 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1648389 original size:40 final size:39
Alignment explanation
Indices: 1648318--1648395 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1648308 GGTAAAAAGA
* *
1648318 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1648357 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1648396 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1648886 original size:45 final size:46
Alignment explanation
Indices: 1648769--1648886 Score: 130
Period size: 49 Copynumber: 2.5 Consensus size: 46
1648759 AGATGAGAGG
** *
1648769 AGTGCCAATGTGCCAATTCAAAGCCAGCGACATTGGGCTAAGGGAAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA-GGAAA
* * *
1648816 AGTAGACCAATGTGTTGACTCAAGGCCAGCGACATTGGGCTTA-GAAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAAA
* *
1648863 GGTGCCAATATGCTGATTCAAGGC
1 AGTGCCAATGTGCTGATTCAAGGC
1648887 TAACGATATC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
45 17 0.29
46 1 0.02
47 9 0.15
48 1 0.02
49 31 0.53
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (46 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAAA
Found at i:1648999 original size:32 final size:31
Alignment explanation
Indices: 1648921--1649013 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
1648911 CAAAAATGGT
* *
1648921 GGTTTGAAAAGGGTTGCCACTGACTTGCGTG
1 GGTTTGAAAAGGGTTGCCACCGACTTGTGTG
1648952 GGTTTGAAATA-GGTTGCCACCGACTTGTGTG
1 GGTTTGAAA-AGGGTTGCCACCGACTTGTGTG
1648983 GGCTTTGAAAAGGGTTGCCACCGACTTGTGT
1 GG-TTTGAAAAGGGTTGCCACCGACTTGTGT
1649014 TCCCATCAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 30 0.53
32 27 0.47
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (31 bp):
GGTTTGAAAAGGGTTGCCACCGACTTGTGTG
Found at i:1649049 original size:80 final size:79
Alignment explanation
Indices: 1648943--1649093 Score: 259
Period size: 80 Copynumber: 1.9 Consensus size: 79
1648933 GTTGCCACTG
1648943 ACTTGCGTGGGTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGAC
1 ACTTGCGTGGGTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGAC
1649008 TTGTGTTCCCATCA
66 TTGTGTTCCCATCA
* *
1649022 ACTTGTGTGGGCTTTGAAA-AGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTTCCACCG
1 ACTTGCGTGGG-TTTGAAATA-GGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCG
1649086 ACTTGTGT
64 ACTTGTGT
1649094 GGGCTTTGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
79 11 0.16
80 57 0.84
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (79 bp):
ACTTGCGTGGGTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGAC
TTGTGTTCCCATCA
Found at i:1649063 original size:32 final size:31
Alignment explanation
Indices: 1649022--1649911 Score: 932
Period size: 32 Copynumber: 29.2 Consensus size: 31
1649012 GTTCCCATCA
1649022 ACTTGTGTGGGCTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649054 ACTTGTGTGGGCTTTGAAAAGGGTTTCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649086 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
**
1649118 ACTTACGTGGGCTTTGAAATA--GTGCCACCG
1 ACTTGTGTGGGCTTTGAAA-AGGGTGCCACCG
* * *
1649148 ACTTGTGTGGGCTTCG-AAATGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
* *
1649178 AC-T-TGTGGGCTTTGAAAAGGATTTCCACCG
1 ACTTGTGTGGGCTTTGAAAAGG-GTGCCACCG
* *
1649208 ACTTGTGTGGGCTTTGAAATGGGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
* *
1649240 ACTTGTTTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649272 ACTTATGTGGGCTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649304 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
1649336 ACTTGTGTGGGCTTTGAAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649368 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
*
1649400 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
**
1649432 ACTTACGTGGGCTTTGAAATA--GTGCCACCG
1 ACTTGTGTGGGCTTTGAAA-AGGGTGCCACCG
* *
1649462 ACTTGTGTGGGGTTTGAAAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGG-TGCCACCG
* * *
1649494 ACTTGTGTGGGCTTTG-CAATGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
* *
1649524 AC-T-TGTGGGCTTCG-AAAGGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
* **
1649552 AC-T-TGTGGGCTCTG-AAAGGGTGCCACTA
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
*
1649580 AC-T-TGTGGGCTTTG-AAAGGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
** *
1649608 AC-T-TGTGGGCTTTGAAAAAAGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
* *
1649637 A-TT-TGTGGGCTTTGAAAAGAGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
*
1649666 AC-T-TGTGGGCTTTG-AAAGGAGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGG-GTGCCACCG
** *
1649695 AC-T-TGTGGGCTTTGAAAAAAGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
* **
1649724 A-TT-TGTGGGCTTTGAAAAGAGTGCCACTA
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
*
1649753 AC-T-TGTGGGCTTTG-AAAGGAGTGCCACTG
1 ACTTGTGTGGGCTTTGAAAAGG-GTGCCACCG
1649782 AC-T-TGTGGGCTTTG-AAAGGGTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
*
1649810 ACTTGTGTGGGCTTTGAAAAGTGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAG-GGTGCCACCG
1649842 ACTTGTGTGGGCTTT-AAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAA-GGG-TGCCACCG
** *
1649874 ACTTGTGTGGGCTTTGAAGTGGGTGCCACAG
1 ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
*
1649905 AGTTGTG
1 ACTTGTG
1649912 GATTTTAAAA
Statistics
Matches: 768, Mismatches: 63, Indels: 55
0.87 0.07 0.06
Matches are distributed among these distances:
28 116 0.15
29 160 0.21
30 87 0.11
31 30 0.04
32 373 0.49
33 2 0.00
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTGAAAAGGGTGCCACCG
Found at i:1650019 original size:27 final size:27
Alignment explanation
Indices: 1649894--1650331 Score: 633
Period size: 27 Copynumber: 16.0 Consensus size: 27
1649884 GCTTTGAAGT
* *
1649894 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
1649922 GAGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
1649950 GGGTGCCACAGAGTTGTGGACTCAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1649977 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
1650005 GGGTGCCACGGAGTTATGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1650032 GGGTGCCACGGAGTTGTAGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1650059 GGATGCCATGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1650086 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1650113 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1650140 AGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1650167 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1650194 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1650222 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1650249 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
1650276 GTGATGCCACAGAATTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
1650304 GGGTGCCACGGAGTTGTGGACTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1650331 G
1 G
1650332 AGGTCACAGT
Statistics
Matches: 370, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
27 255 0.69
28 115 0.31
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1650046 original size:82 final size:81
Alignment explanation
Indices: 1649894--1650331 Score: 633
Period size: 82 Copynumber: 5.3 Consensus size: 81
1649884 GCTTTGAAGT
* * * *
1649894 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
* *
1649959 AGAGTTGTGGACTCAAAA
64 GGAGTTGTGGACTTAAAA
* * * *
1649977 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGTCTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1650042 GAGTTGTAGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1650059 GGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1650124 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * *
1650140 AGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACG
*
1650205 GAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1650222 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGTGATGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACG
*
1650287 GAATTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1650304 GGGTGCCACGGAGTTGTGGACTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG
1650332 AGGTCACAGT
Statistics
Matches: 322, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
81 125 0.39
82 157 0.49
83 24 0.07
84 16 0.05
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:1657804 original size:22 final size:22
Alignment explanation
Indices: 1657776--1657830 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1657766 TGGACATGTT
1657776 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1657798 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1657820 AAAAATGCATG
1 AAAAATGCATG
1657831 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1658791 original size:20 final size:20
Alignment explanation
Indices: 1658744--1658818 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1658734 AAAAAGACAT
*
1658744 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1658763 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1658784 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1658804 AATGTATCGATACAT
1 AATGTATCGATACAT
1658819 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1658812 original size:40 final size:39
Alignment explanation
Indices: 1658741--1658818 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1658731 GGTAAAAAGA
* *
1658741 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1658780 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1658819 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1660829 original size:19 final size:20
Alignment explanation
Indices: 1660792--1660829 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1660782 TCTCGTAGCT
1660792 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
1660812 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
1660830 TAGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1660907 original size:19 final size:20
Alignment explanation
Indices: 1660864--1660916 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1660854 GTGAGAAGCA
1660864 ATGTATCGATACAATCCCTC
1 ATGTATCGATACAATCCCTC
**
1660884 ATGTATCGATACAATGTC-C
1 ATGTATCGATACAATCCCTC
1660903 ATGTATCGATACAA
1 ATGTATCGATACAA
1660917 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATCCCTC
Found at i:1660991 original size:19 final size:19
Alignment explanation
Indices: 1660944--1661000 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1660934 ACTGCTAGTT
*
1660944 TCATATATCGATACAATTGA
1 TCATGTATCGATACAA-TGA
* *
1660964 CCGTGTATCGATACAATGA
1 TCATGTATCGATACAATGA
1660983 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
1661001 TATTGGTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1665345 original size:13 final size:13
Alignment explanation
Indices: 1665327--1665351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1665317 CATAAAGTGT
1665327 TGTATCGATACAA
1 TGTATCGATACAA
1665340 TGTATCGATACA
1 TGTATCGATACA
1665352 TATTTTTTTG
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:1665349 original size:33 final size:33
Alignment explanation
Indices: 1665307--1665373 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1665297 TTCAATGATT
1665307 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1665340 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1665373 T
1 T
1665374 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1665432 original size:13 final size:13
Alignment explanation
Indices: 1665414--1665438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1665404 ATTACTCAAA
1665414 TGTATCGATACAT
1 TGTATCGATACAT
1665427 TGTATCGATACA
1 TGTATCGATACA
1665439 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:1665490 original size:52 final size:53
Alignment explanation
Indices: 1665427--1665564 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 53
1665417 ATCGATACAT
*** * *
1665427 TGTATCGATACACTGAT-CTTTGTATTGATACATGAAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGAAGGAAAATTTGCCCAGA
* *
1665479 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGAAGGAAAATTTGCCCAGA
* *
1665531 TGTATCGATACACT-ATTAAATATATCGATACATG
1 TGTATCGATACACTGATAAAATGTATCGATACATG
1665565 CAAGCAACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 3 0.04
52 71 0.95
53 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGAAGGAAAATTTGCCCAGA
Found at i:1665565 original size:52 final size:52
Alignment explanation
Indices: 1665453--1665566 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 52
1665443 TCTTTGTATT
* * * *
1665453 GATACATGAAGGCAAATTTGCCCAGATGTATCGATACATTATAAAATGTATC
1 GATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
*
1665505 GATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAATATATC
1 GATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
1665557 GATACATGCA
1 GATACATGCA
1665567 AGCAACTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (52 bp):
GATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAATATATC
Done.