Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold30
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: 2650045
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.30
Warning! 144233 characters in sequence are not A, C, G, or T
File 11 of 17
Found at i:1722982 original size:52 final size:51
Alignment explanation
Indices: 1722904--1723052 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
1722894 CGAAATATGA
1722904 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1722956 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
1723008 AAACTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1723053 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1723059 original size:13 final size:13
Alignment explanation
Indices: 1723041--1723065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1723031 CAAAGATCAG
1723041 TGTATCGATACAA
1 TGTATCGATACAA
1723054 TGTATCGATACA
1 TGTATCGATACA
1723066 TTTGAGTAAT
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:1723143 original size:33 final size:33
Alignment explanation
Indices: 1723106--1723172 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1723096 AGTAGCTTAA
1723106 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1723139 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1723172 A
1 A
1723173 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:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1723146 original size:13 final size:13
Alignment explanation
Indices: 1723128--1723152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1723118 CAAAAAAATA
1723128 TGTATCGATACAT
1 TGTATCGATACAT
1723141 TGTATCGATACA
1 TGTATCGATACA
1723153 ACACTTTATG
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:1724174 original size:49 final size:49
Alignment explanation
Indices: 1724027--1724498 Score: 460
Period size: 49 Copynumber: 9.9 Consensus size: 49
1724017 AAAAGTTATA
* * * * *
1724027 AAGATGCCAATATGTTGATTCATGGCCAACGATATGGGGCTTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1724078 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
1724131 AAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGGCTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
1724177 --G-TGCCAATGTGCTGATTCAAGGCCAGCTG-CACTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGC-GATATTGGACTTAAAGATG
* *
1724223 AAGATGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
1724269 --G-TGCCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1724315 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
1724361 --G-TGCCAATGTGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
1724407 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
1724456 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1724499 GAAGGGTTGC
Statistics
Matches: 346, Mismatches: 51, Indels: 47
0.78 0.11 0.11
Matches are distributed among these distances:
43 96 0.28
44 10 0.03
45 3 0.01
46 6 0.02
47 3 0.01
48 10 0.03
49 178 0.51
50 2 0.01
53 1 0.00
54 2 0.01
55 35 0.10
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:1724216 original size:92 final size:92
Alignment explanation
Indices: 1724093--1724498 Score: 632
Period size: 92 Copynumber: 4.3 Consensus size: 92
1724083 GGATGTCAAC
*
1724093 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
1724158 AACGATATCGGGCTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
* * *
1724185 GTGCTGATTCAAGGCCAGCTGCACTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
1724250 AGTGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
1724277 GTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1724342 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
1724369 GTGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
1724434 AGCTATATTGGACTTAAAGATAAAGGTGCCAAT
66 AGCGATATTGGAC-T-----TAAAGGTGCCAAT
* * *
1724467 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
1724499 GAAGGGTTGC
Statistics
Matches: 288, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
92 246 0.85
93 1 0.00
98 41 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1724333 original size:141 final size:141
Alignment explanation
Indices: 1724094--1724486 Score: 436
Period size: 141 Copynumber: 2.8 Consensus size: 141
1724084 GATGTCAACG
* *
1724094 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATG-AGATGCCAATATGCTGATTCAAGGCCA
* * * * * *
1724159 ACGATATCGGGCTTAAAG-----G-TGCCAATGTGCTGATTCAAGGCCAGCTG-CACTGGACTTA
65 GCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTGACACTGGACTT-
1724217 AAGATGAAGATGCCAATA
129 AA-A-G--G-TGCCAATA
* * * * *
1724235 TGCTGATTCAAGGCTAG-TGATATTGGACTT-AA-A-G-G-TGCCAATGTGCTGATTTAAGGCCA
1 TGCTGATGCAAGGCCAGCT-ACATTGGACTTAAAGATGAGATGCCAATATGCTGATTCAAGGCCA
* * *
1724294 GCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGC-GATATTGGACTTA
65 GCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTGACACTGGACTTA
*
1724358 AAGGTGCCAATG
130 AAGGTGCCAATA
1724370 TGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATG-AGATGCCAATATGCTGATTCAAGGCCA
* *
1724435 GCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
65 GCTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCT
1724487 ATATTGGGCT
Statistics
Matches: 214, Mismatches: 22, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
135 67 0.31
136 5 0.02
137 1 0.00
138 3 0.01
139 2 0.01
140 8 0.04
141 128 0.60
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (141 bp):
TGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATGAGATGCCAATATGCTGATTCAAGGCCAG
CTACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCCAGCTGACACTGGACTTAA
AGGTGCCAATA
Found at i:1724542 original size:33 final size:35
Alignment explanation
Indices: 1724498--1724567 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
1724488 TATTGGGCTT
*
1724498 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAGGA
1724532 AGAA-GGTTGCCACCGACTTATGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTATGTGGGCTTTAGGA
1724566 AG
1 AG
1724568 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTATGTGGGCTTTAGGA
Found at i:1724604 original size:34 final size:36
Alignment explanation
Indices: 1724565--1724637 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
1724555 GGGCTTTAGG
*
1724565 AAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
*
1724599 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
1724635 AAG
1 AAG
1724638 AGTGCCACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 11 0.31
35 17 0.49
36 7 0.20
ACGTcount: A:0.36, C:0.11, G:0.36, T:0.18
Consensus pattern (36 bp):
AAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAA
Found at i:1724694 original size:29 final size:29
Alignment explanation
Indices: 1724605--1725450 Score: 1043
Period size: 29 Copynumber: 29.2 Consensus size: 29
1724595 TTAAAAGGGA
* *
1724605 AAAAGAGTGCCACGGAGTTGTGGGCTTT-
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724633 AAAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724662 AAAAG-GTGCCACTGACTTGCGTGAGCTTT-
1 AAAAGAGTGCCACTGACTT--GTGGGCTTTG
1724691 AAAAGGAGTGCCACTGACTTGTGTGGGCTTT-
1 AAAA-GAGTGCCACTGAC-T-TGTGGGCTTTG
*
1724722 AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1724751 AAAA-AGTGCCACTGAATTGTGGGCTTCG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1724779 CAATG-GTGCCACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
** *
1724807 AAAAGAGTGTTACTGACTCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1724836 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724865 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1724894 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724922 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724950 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1724979 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725008 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725037 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1725065 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1725094 -AAAGGGTGCCACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1725122 -AAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725150 AAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725179 AAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725208 AAATGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
1725237 AAAGGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1725266 -AAAGGGTGCCACTAATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
1725294 AAAAAAGTGCCATTGACTTATGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
1725323 AAAGGAGTGCCACTGAGTCGTGGACTTTAAAG
1 AAAAGAGTGCCACTGACTTGTGGGCTTT---G
* * *
1725355 AAAA-AGATGCCACTGAGTCGTGGACTTTG
1 AAAAGAG-TGCCACTGACTTGTGGGCTTTG
* * * *
1725384 AGCAAAGATTGCCACTGAGTCGTGGACTTTG
1 A--AAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
1725415 AGAAGAGATTGCCACTGAGTCGTGGACTTTA
1 A-AA-AGAGTGCCACTGACTTGTGGGCTTTG
1725446 AAAAG
1 AAAAG
1725451 GTATTTGAAG
Statistics
Matches: 731, Mismatches: 65, Indels: 43
0.87 0.08 0.05
Matches are distributed among these distances:
28 249 0.34
29 352 0.48
30 25 0.03
31 77 0.11
32 27 0.04
33 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:1724914 original size:143 final size:144
Alignment explanation
Indices: 1724606--1725432 Score: 1044
Period size: 143 Copynumber: 5.7 Consensus size: 144
1724596 TAAAAGGGAA
* * *
1724606 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-GT
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
* *
1724669 GCCACTGACTTGCGTGAGCTTT-AAAAGGAGTGCCACTGACTTGTGTGGGCTTTAAAAGG-GTGC
66 GCCACTGACTT--GTGGGCTTTGAAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGTGC
1724732 CACTGACTTGTGGGCTTTG
126 CACTGACTTGTGGGCTTTG
* * * * * *
1724751 AAAAAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGGTTTTGAAAAGAGT
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
** *
1724815 GTTACTGACTCGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
66 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
1724880 ACTTGTGGGCTTTG
131 ACTTGTGGGCTTTG
* *
1724894 AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGT
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
*
1724958 GCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
66 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
1725023 ACTTGTGGGCTTTG
131 ACTTGTGGGCTTTG
* *
1725037 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGT
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
* * * * *
1725101 GCCACTGACTTGTGGGTTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCATTG
66 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
1725165 ACTTGTGGGCTTTG
131 ACTTGTGGGCTTTG
* * *
1725179 AAAAGAGTGCCACTGATTTGTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGCTTTGAAAGGAG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG
* * * ** *
1725244 TGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAATTTGTGGGCTTTGAAAAAAGTGCCATT
65 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACT
*
1725308 GACTTATGGGCTTTG
130 GACTTGTGGGCTTTG
* * * * * *
1725323 AAAGGAGTGCCACTGAGTCGTGGACTTTAAAGAAAA-AGATGCCACTGAGTCGTGGACTTTGAGC
1 AAA-GAGTGCCACTGACTTGTGGGCTTT---GAAAAGAG-TGCCACTGACTTGTGGGCTTTGA--
* * * * *
1725387 AAAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGA
59 AAAGAGTGCCACTGACTTGTGGGCTTTGA-AA-AGAGTGCCACTGA
1725433 GTCGTGGACT
Statistics
Matches: 607, Mismatches: 57, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
142 70 0.12
143 262 0.43
144 148 0.24
145 53 0.09
146 15 0.02
147 24 0.04
149 23 0.04
151 2 0.00
152 10 0.02
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (144 bp):
AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
ACTTGTGGGCTTTG
Found at i:1725053 original size:229 final size:228
Alignment explanation
Indices: 1724605--1725355 Score: 1082
Period size: 229 Copynumber: 3.3 Consensus size: 228
1724595 TTAAAAGGGA
* * *
1724605 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAGTGCCACTGACTCGTGGGCTTTGAAA-AGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTTGAAAGA-G
* * *
1724668 TGCCACTGACTTGCGTGAGCTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTAAAAGG-GTGC
65 TGCCACTGACTT--GTGGGCTTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAGGAGTGC
* * * * *
1724732 CACTGACTTGTGGGCTTTGAAAAAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACT
125 CACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACT
* * ** *
1724796 TGTGGGTTTTGAAAAGAGTGTTACTGACTCGTGGGCTTTG
190 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1724836 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGAGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTTGAAAGAGT
1724901 GCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGA
66 GCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGA
1724966 CTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGG
131 CTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGG
1725031 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
195 GCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
1725065 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGTTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTTGAAAGAGT
* * * *
1725129 GCCACTGATTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
66 GCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTG
*
1725194 ATTTGTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTG
130 ACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTG
* *
1725259 GGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTTG
194 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
1725294 AAAAAAGTGCCATTGACTTATGGGCTTTGAAAGGAGTGCCACTGAGTCGTGGACTTT-AAAGA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTTGAAAGA
1725356 AAAAGATGCC
Statistics
Matches: 478, Mismatches: 35, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
227 15 0.03
228 75 0.16
229 265 0.55
230 53 0.11
231 26 0.05
232 43 0.09
233 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (228 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTCGTGGGCTTTGAAAGAGT
GCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGA
CTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGG
CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:1726408 original size:22 final size:23
Alignment explanation
Indices: 1726381--1726431 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
1726371 TGAAAAGGGG
*
1726381 TTTTTCCTTTTTTT-TTTTG-TC
1 TTTTTTCTTTTTTTGTTTTGTTC
1726402 TTTTTTCTTTTTTTGTTTTGTTTC
1 TTTTTTCTTTTTTTGTTTTG-TTC
1726426 TTTTTT
1 TTTTTT
1726432 AGAAAAGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.50
22 5 0.19
24 8 0.31
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTTCTTTTTTTGTTTTGTTC
Found at i:1726414 original size:17 final size:16
Alignment explanation
Indices: 1726388--1726431 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
1726378 GGGTTTTTCC
1726388 TTTT-TTTTTTTGTCTT
1 TTTTCTTTTTTTGT-TT
1726404 TTTTCTTTTTTTGTTT
1 TTTTCTTTTTTTGTTT
1726420 TGTTTCTTTTTT
1 T-TTTCTTTTTT
1726432 AGAAAAGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTTTGTTT
Found at i:1733664 original size:52 final size:51
Alignment explanation
Indices: 1733586--1733734 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
1733576 CGAAATATGA
1733586 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1733638 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
1733690 AAACTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1733735 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1733741 original size:13 final size:13
Alignment explanation
Indices: 1733723--1733747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1733713 CAAAGATCAG
1733723 TGTATCGATACAA
1 TGTATCGATACAA
1733736 TGTATCGATACA
1 TGTATCGATACA
1733748 TTTGAGTAAT
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:1733825 original size:33 final size:33
Alignment explanation
Indices: 1733788--1733854 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1733778 AGTAGCTTAA
1733788 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1733821 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1733854 A
1 A
1733855 AATCGTTGAA
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:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1733828 original size:13 final size:13
Alignment explanation
Indices: 1733810--1733834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1733800 CAAAAAAATA
1733810 TGTATCGATACAT
1 TGTATCGATACAT
1733823 TGTATCGATACA
1 TGTATCGATACA
1733835 ACACTTTATG
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:1735390 original size:35 final size:34
Alignment explanation
Indices: 1735349--1735423 Score: 114
Period size: 35 Copynumber: 2.2 Consensus size: 34
1735339 GATAATAAAC
*
1735349 TTTTATCTTTTAAAGGCTACGATATAACCTCTTT
1 TTTTATCTTTTAAAGGCTAAGATATAACCTCTTT
* *
1735383 TTCTTATCTTTTAAAGGCTAAGATGTAACTTCTTT
1 TT-TTATCTTTTAAAGGCTAAGATATAACCTCTTT
1735418 TTTTAT
1 TTTTAT
1735424 AAAGAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 6 0.16
35 31 0.84
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (34 bp):
TTTTATCTTTTAAAGGCTAAGATATAACCTCTTT
Found at i:1739563 original size:29 final size:29
Alignment explanation
Indices: 1739521--1739588 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
1739511 GAAATCGACT
1739521 TTTA-CCAGGTGAATTTAGCACTTTTATAA
1 TTTATCCA-GTGAATTTAGCACTTTTATAA
1739550 TTTATCCAGTGAATTTAGCACTTTTATAA
1 TTTATCCAGTGAATTTAGCACTTTTATAA
1739579 TTTATCCAGT
1 TTTATCCAGT
1739589 CATGCTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 35 0.92
30 3 0.08
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (29 bp):
TTTATCCAGTGAATTTAGCACTTTTATAA
Found at i:1740472 original size:155 final size:151
Alignment explanation
Indices: 1740303--1740684 Score: 432
Period size: 153 Copynumber: 2.5 Consensus size: 151
1740293 TCTCCAATAA
* *
1740303 GATTTTTCTAAGTTTATGATTTTCAAAATTCTTAAAATATTATTGATTAATTCATATTAAATCAG
1 GATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATT-ATTAATTCATATTAAATCAG
* * *
1740368 TTTAGAAAAATTCAATAT-ATGTTATAAGTTTTA-AAATTTTTCCTATTATCGAGATAC-GAAAT
65 TTTTGAAAAATTCAAT-TCATGTTATAAG-TTTAGAAATTTTTCCTATTA-CCAAATACAG-AAT
* **
1740430 TTTTTACTCCGTAAAATTTCTCTGGTTG
126 TTTCTACTCCGT-AAA-TTCTCTGGAAG
* *
1740458 GATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTATTTAATTTATATTAAA-CAA
1 GATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTA-TTAATTCATATTAAATC-A
* * * * *
1740522 GTTTTG-AAAATTCAATTCATTTTATGAGTTTAGGAATTTTTTCTGTTACCAAATACAGAATTTT
64 GTTTTGAAAAATTCAATTCATGTTATAAGTTTAGAAATTTTTCCTATTACCAAATACAGAATTTT
*
1740586 CTACTCCGTAAATTCTTTGGAAG
129 CTACTCCGTAAATTCTCTGGAAG
* * * * *
1740609 GATTTTTCTAAATTTATAATTTCCAAAAAATTCTTCAAATATTGTTTTCTAATTCATGTTAAATC
1 GATTTTTCTAAGTTTATAATTTTC--AAAATTCTTCAAATATTATTAT-TAATTCATATTAAATC
1740674 AGTTTTGAAAA
63 AGTTTTGAAAA
1740685 TTGAATTTAT
Statistics
Matches: 194, Mismatches: 23, Indels: 21
0.82 0.10 0.09
Matches are distributed among these distances:
151 29 0.15
152 4 0.02
153 63 0.32
154 37 0.19
155 61 0.31
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (151 bp):
GATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATTATTATTAATTCATATTAAATCAGT
TTTGAAAAATTCAATTCATGTTATAAGTTTAGAAATTTTTCCTATTACCAAATACAGAATTTTCT
ACTCCGTAAATTCTCTGGAAG
Found at i:1740768 original size:9 final size:9
Alignment explanation
Indices: 1740754--1740800 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
1740744 TTTTTCTTGA
1740754 TTTAAAATT
1 TTTAAAATT
1740763 TTTAAAATT
1 TTTAAAATT
* *
1740772 CATCAAATATT
1 -TTTAAA-ATT
1740783 TTTAAAATT
1 TTTAAAATT
1740792 TTTAAAATT
1 TTTAAAATT
1740801 CATTAGTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 21 0.66
10 8 0.25
11 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTAAAATT
Found at i:1742325 original size:165 final size:151
Alignment explanation
Indices: 1742192--1742499 Score: 397
Period size: 150 Copynumber: 2.0 Consensus size: 151
1742182 AAAGGTGGTT
* * * * **
1742192 GGACGAATCTTTCTTGTAATTTTTGAATTTGATTTTTCTGTTGATTTTGATATGTTCAATATTTA
1 GGACAAATCTTTCTTGTAATTTTTGAATCTGATTTTTCTATGGATTTCAATATGTTCAATATTTA
* *
1742257 ATTTTGTGTTTTAATTATATAGGGA-TAATTTGTAATTTTAAAAAGTTTAGAGATTTAAATGTAA
66 ATTTTGTATTTTAATTATATAGGGACCAATTTGTAATTTTAAAAAGTTTAG-GATTTAAATGTAA
1742321 ATATTGAAAA-TTTTGTTCCAA
130 ATATTGAAAATTTTTGTTCCAA
* * * **
1742342 GGCCAAATCTTTCTTGTAATTTTTGGATCTGATTTTTGTATGGATTTCAATATGTTTGATATTTA
1 GGACAAATCTTTCTTGTAATTTTTGAATCTGATTTTTCTATGGATTTCAATATGTTCAATATTTA
* * * * *
1742407 ATTTTGTATTTTAATTGTATTGGGACCAATTTATAATTTTAGAAAGTTTAGGGATTTAAGTGTAA
66 ATTTTGTATTTTAATTATATAGGGACCAATTTGTAATTTTAAAAAGTTTA-GGATTTAAATGTAA
*
1742472 ATATTGAAAA-TTTTGTTCTAA
130 ATATTGAAAATTTTTGTTCCAA
*
1742493 GGCCAAA
1 GGACAAA
1742500 GTTACTTGGC
Statistics
Matches: 137, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
150 76 0.55
151 60 0.44
152 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.48
Consensus pattern (151 bp):
GGACAAATCTTTCTTGTAATTTTTGAATCTGATTTTTCTATGGATTTCAATATGTTCAATATTTA
ATTTTGTATTTTAATTATATAGGGACCAATTTGTAATTTTAAAAAGTTTAGGATTTAAATGTAAA
TATTGAAAATTTTTGTTCCAA
Found at i:1742587 original size:166 final size:167
Alignment explanation
Indices: 1742343--1742753 Score: 424
Period size: 166 Copynumber: 2.5 Consensus size: 167
1742333 TTGTTCCAAG
* * * *
1742343 GCCAAATCTTTCTTGT-AATTTTTGGATCTGATTTTT-GT-ATGGATTTCAATATGTTTGATATT
1 GCCAAATCTTCCTTGTGAA-TTTTGGATATGATTTTTGGTGAT-GATTTTAATATATTTGATATT
* ** *** * * * *
1742405 TAATTTTGTATTTTAATTGTATTGGGACCAATTTA-TAATTTTAGAAAGTTTAGGGATTTAA-GT
64 TAATTTTGTGTTTTAATTAAAAAAGGACCAATTTACAAATTCTA-AAAGTTTAGGG-GTCAATGT
* ** * *
1742468 GTAAAT-ATTGA-AAATTTTGTTCTAAGGCCAAAGTTACTTG
127 GTAAATAATTGAGAAA-TTTATTCTAAGGCCAAAGAAACGTA
** * * * **
1742508 GCTGAATCTTCCTTGTGACTTTTGTATGTGATTTTTGGTGATGATTTTAATATATTTGATGCTTA
1 GCCAAATCTTCCTTGTGAATTTTGGATATGATTTTTGGTGATGATTTTAATATATTTGATATTTA
* *
1742573 ATTTTATGTTTTAATTAAAAAAGGACCAATTTACAAATTCTAAAAGTTTAGGGGTCAATTTGTAA
66 ATTTTGTGTTTTAATTAAAAAAGGACCAATTTACAAATTCTAAAAGTTTAGGGGTCAATGTGTAA
*
1742638 ATAATTGAGAAATTTATTCTAAGGCCAAAGAAAGGTA
131 ATAATTGAGAAATTTATTCTAAGGCCAAAGAAACGTA
* * * *
1742675 GCCAAATCTTGCTTGTGAATTTTGGATATGA-TTTTGGTGTTAATTATAATATATTTGATATTTA
1 GCCAAATCTTCCTTGTGAATTTTGGATATGATTTTTGGTGATGATTTTAATATATTTGATATTTA
1742739 ATTTTGTGTTTTAAT
66 ATTTTGTGTTTTAAT
1742754 CACTTAGGGA
Statistics
Matches: 199, Mismatches: 40, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
165 31 0.16
166 108 0.54
167 57 0.29
168 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (167 bp):
GCCAAATCTTCCTTGTGAATTTTGGATATGATTTTTGGTGATGATTTTAATATATTTGATATTTA
ATTTTGTGTTTTAATTAAAAAAGGACCAATTTACAAATTCTAAAAGTTTAGGGGTCAATGTGTAA
ATAATTGAGAAATTTATTCTAAGGCCAAAGAAACGTA
Found at i:1743296 original size:42 final size:41
Alignment explanation
Indices: 1743249--1743407 Score: 167
Period size: 42 Copynumber: 3.8 Consensus size: 41
1743239 TATCTTTCGC
*
1743249 TTGCCCGTCGACTTTGACCTGGGAGACTCCTTCACTCTTTGT
1 TTGCCCATCGACTTTGACCTGGGAGACTCCTTCAC-CTTTGT
* * *
1743291 CTGCCCATCGACTTTGACCCT-TGAGACTCTTTCACCCTTTGT
1 TTGCCCATCGACTTTGA-CCTGGGAGACTCCTTCA-CCTTTGT
* * * *
1743333 TTGCCTATCGGCTTTGACTTGGGAGACGCCTTCACCTTTTGT
1 TTGCCCATCGACTTTGACCTGGGAGACTCCTTCACC-TTTGT
** *
1743375 TTGCCCATCGACTTAAACCCGGGAGACCTCCTT
1 TTGCCCATCGACTTTGACCTGGGAGA-CTCCTT
1743408 TATCTTTTAT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 81 0.86
43 9 0.10
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.34
Consensus pattern (41 bp):
TTGCCCATCGACTTTGACCTGGGAGACTCCTTCACCTTTGT
Found at i:1743656 original size:86 final size:84
Alignment explanation
Indices: 1743508--1743709 Score: 248
Period size: 86 Copynumber: 2.4 Consensus size: 84
1743498 TTTATTTGCT
* * *
1743508 TGTCGGCTCAGTCTCTGGTCAACCTTGATCC-ATTATTTACCTGTCAGCTTAGTCCCTAGTAAGC
1 TGTCAGCTCAGTCTC-GGTCAACCTTCATCCTATTATTTACCTGTCAGCTCAGTCCCTAGTAAGC
*
1743572 CCATTACACTTATGGTGACC
65 CCATTACACTTATGGTAACC
* * *
1743592 TGTTAGCTCAGTCTCCGGGTCAACCTTCATCCTATTATTTACCTGTCGGCTCAGTACCC-GGTAA
1 TGTCAGCTCAGTCT-C-GGTCAACCTTCATCCTATTATTTACCTGTCAGCTCAGT-CCCTAGTAA
*
1743656 GCCCATTACCCTTATGGTAACC
63 GCCCATTACACTTATGGTAACC
*
1743678 TGTCAGCTCCA-TCTTCGGTCAACCTTTATCCT
1 TGTCAGCT-CAGTC-TCGGTCAACCTTCATCCT
1743710 TCATTCACCT
Statistics
Matches: 102, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
84 12 0.12
85 30 0.29
86 54 0.53
87 6 0.06
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (84 bp):
TGTCAGCTCAGTCTCGGTCAACCTTCATCCTATTATTTACCTGTCAGCTCAGTCCCTAGTAAGCC
CATTACACTTATGGTAACC
Found at i:1746029 original size:21 final size:24
Alignment explanation
Indices: 1746003--1746047 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1745993 CCAAGCATGA
1746003 GGAAG-AAAAA-GA-GAAAAGAAG
1 GGAAGAAAAAAGGATGAAAAGAAG
1746024 GGAAGAAAAAAGGATGAAAAGAAG
1 GGAAGAAAAAAGGATGAAAAGAAG
1746048 CAAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 2 0.10
24 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (24 bp):
GGAAGAAAAAAGGATGAAAAGAAG
Found at i:1746178 original size:25 final size:25
Alignment explanation
Indices: 1746128--1746179 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1746118 CCATGAGAGC
* * *
1746128 TGAAGAAGCAAGCAAGGACAGTTGA
1 TGAAGAAGAAAGCAAAGACAGCTGA
1746153 TGAAGAAGAAAGCAACAG-CAGCTGA
1 TGAAGAAGAAAGCAA-AGACAGCTGA
1746178 TG
1 TG
1746180 GCAAAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.44, C:0.13, G:0.31, T:0.12
Consensus pattern (25 bp):
TGAAGAAGAAAGCAAAGACAGCTGA
Found at i:1747858 original size:16 final size:17
Alignment explanation
Indices: 1747837--1747872 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1747827 GAAATTTTTG
1747837 AAAATAAAAAAAT-AAT
1 AAAATAAAAAAATAAAT
*
1747853 AAAATAAAATAATAAAT
1 AAAATAAAAAAATAAAT
1747870 AAA
1 AAA
1747873 TTCTTTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATAAAAAAATAAAT
Found at i:1747863 original size:13 final size:12
Alignment explanation
Indices: 1747839--1747872 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1747829 AATTTTTGAA
1747839 AATAAA-AAAAT
1 AATAAATAAAAT
1747850 AATAAAATAAAAT
1 AAT-AAATAAAAT
1747863 AATAAATAAA
1 AATAAATAAA
1747873 TTCTTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 10 0.48
13 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:1748697 original size:155 final size:154
Alignment explanation
Indices: 1748412--1749098 Score: 665
Period size: 155 Copynumber: 4.5 Consensus size: 154
1748402 TTCTCTTATG
* * * * * *
1748412 TTTTTAAATCCCTTAGGAGTATCGGGTACTTTTACGTCAAAGGTATCCCCTA-AGGGTATTTTCA
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGA-GGCATTTTCA
* * * * * *
1748476 TAATTTTTTAGAACCAACTCCTAAGTTGTCACCGGGTCTGCTTTTATGTCGAAGGTAGATATTTA
65 TAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGTCGAAGATGGGTATTTA
*
1748541 GGATAGGTTCATCCCTTTTATGAATC
130 GGATAGGTTCATCCCATTTAT-AATC
* * *
1748567 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTATGTCAAACGTATCCCCTAGAGGCATTTTCAT
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCAT
* ** * * * *
1748632 AATTTTCTAGAACCAACTCCTAGGTCATCGTCGGGTCTGCTTTTATGCCGAAAATGGGCACTTAG
66 AATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGTCGAAGATGGGTATTTAG
*
1748697 GATAGGTTCACCCCATTTAT-ATCC
131 GATAGGTTCATCCCATTTATAAT-C
* * * * * * *
1748721 TTTTTAAGTCCTTTAGGGTTA-CTTGGATACTTTCACGTTGAAGGTATACCCATCGGGGCATTTT
1 TTTTTAAGTCCTTTAGGGGTATC-AGG-TACTTTTACGTCGAAGGTAT-CCCCTAGAGGCATTTT
* * * *
1748785 CATAATTTTTTAGAACCAACTCTTAGGTCGTCATCGGGT-TCGCTTTTATGTCGAAGGTGGGTAT
63 CATAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCT-GCTTTTATGTCGAAGATGGGTAT
* *
1748849 TTAGGATAGGTTCATCCCATTTCTAACC
127 TTAGGATAGGTTCATCCCATTTATAATC
* * * * * * *
1748877 TTTTTAAATCCTTTAAGGGTATCTGGTACTTTTATGTCGAAGGTATCCCCTA-AGGGTAGTTTCG
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGA-GGCATTTTCA
** * ** ** * * *
1748941 TAATTTTCTAGAGTCGAGACCTACATTGTCACCGGGTCTGCTTTTATATCGTAGA----TATTTA
65 TAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGTCGAAGATGGGTATTTA
*
1749002 GGATAGGTTCAT-CCATTTTAAAATC
130 GGATAGGTTCATCCCA-TTTATAATC
* * * * * *
1749027 TCTTTAAAGTCCTTTAGGGGTATTAGGTACTTCTACATCGAAGGTATCCCTTAGGGGCATTTTCA
1 T-TTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCA
1749092 TAATTTT
65 TAATTTT
1749099 TTTAACCTAC
Statistics
Matches: 433, Mismatches: 86, Indels: 30
0.79 0.16 0.05
Matches are distributed among these distances:
149 3 0.01
150 25 0.06
151 56 0.13
153 3 0.01
154 73 0.17
155 160 0.37
156 111 0.26
157 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (154 bp):
TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGAGGCATTTTCAT
AATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGTCGAAGATGGGTATTTAG
GATAGGTTCATCCCATTTATAATC
Found at i:1753159 original size:167 final size:165
Alignment explanation
Indices: 1752636--1753196 Score: 667
Period size: 162 Copynumber: 3.4 Consensus size: 165
1752626 TTTTTGGGAA
* * * * * *
1752636 GATTTTTCTTAATTTTTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCATATTAATTCA
1 GATTTTTCTCAGTTTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCA
** * * * **
1752701 GTTTTTGAAAATTCATTCATTTTCATTCA-TTTTT-TATTTTTTCTTGAAATTCCCTTTTTTTGA
66 GTTTTCAAAAATTAATTCATTTTCA-TGAGTTTTTGAATTTTTTCTTGAAATTCCCTTTTTTCCA
* * ** **
1752764 AATACAGTGTTTTTTACTTTGTAATTTTTTCAAGGG
130 AATATAGTGTTTTCTACTCCGTAATTTTTTTGAGGG
* * * *
1752800 GATTTTGT-T-AG-TTTTCAATTTTTAAAATTCATCAAACATTATTATTTATTTCATATTTATTT
1 GATTTT-TCTCAGTTTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTC
* *
1752862 AGTTTTCAAAAATCAATTCATTTTCATGAG-TTTTGAATTTTTTCTTG-AATT--TTTTTTTCCA
65 AGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCCCTTTTTTCC-
*
1752923 AAATATGGTGTTTTCTACTCCGTAAATTTTTTTGAGGG
129 AAATATAGTGTTTTCTACTCCGT-AATTTTTTTGAGGG
* * * *
1752961 GATTTTCCTC-GGTTTTAAATTTTTAAAATTCATCAAATATTATCATTTATTTTATATTAATTCA
1 GATTTTTCTCAGTTTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCA
1753025 GTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGAATTTCTTTCTTGAAATTCCCTTTTTTCCA
66 GTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGAATTT-TTTCTTGAAATTCCCTTTTTTCCA
* *
1753090 AACTTTAGTATTTTCTACTCCGTAATTTTTTTGAGGG
130 AA-TATAGTGTTTTCTACTCCGTAATTTTTTTGAGGG
* *
1753127 GATTTTTCTCAGTTTTTAAATTTTTAAAATTCATCAAACATCATCATTTGA-TTAATATTAATTC
1 GATTTTTCTCAGTTTTTAAATTTTTAAAATTCATCAAACATTATCATTT-ATTTCATATTAATTC
*
1753191 ATTTTT
65 AGTTTT
1753197 ATGAGTTTTG
Statistics
Matches: 341, Mismatches: 40, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
159 6 0.02
160 18 0.05
161 30 0.09
162 153 0.45
163 11 0.03
164 14 0.04
165 5 0.01
166 26 0.08
167 77 0.23
168 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (165 bp):
GATTTTTCTCAGTTTTTAAATTTTTAAAATTCATCAAACATTATCATTTATTTCATATTAATTCA
GTTTTCAAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTTGAAATTCCCTTTTTTCCAA
ATATAGTGTTTTCTACTCCGTAATTTTTTTGAGGG
Found at i:1753733 original size:21 final size:21
Alignment explanation
Indices: 1753696--1753735 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1753686 GCAAAGAGAG
*
1753696 AAGAAAAAGAGAAAGAAAAGA
1 AAGAAAAAGAAAAAGAAAAGA
1753717 AAGAAAAA-AAAAGAGAAAA
1 AAGAAAAAGAAAA-AGAAAA
1753736 ATAGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAGAAAAAGAAAAAGAAAAGA
Found at i:1753735 original size:12 final size:12
Alignment explanation
Indices: 1753688--1753736 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
1753678 GTCAGCTAGC
*
1753688 AAAGAGAGAAGAA
1 AAAGAGA-AAAAA
1753701 AAAGAGAAAGAAA
1 AAAGAGAAA-AAA
1753714 AGAA-AGAAAAAA
1 A-AAGAGAAAAAA
1753726 AAAGAGAAAAA
1 AAAGAGAAAAA
1753737 TAGTGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 2 0.06
12 13 0.41
13 15 0.47
14 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAAAA
Found at i:1755582 original size:157 final size:153
Alignment explanation
Indices: 1755220--1755582 Score: 349
Period size: 157 Copynumber: 2.3 Consensus size: 153
1755210 TTCTTAAGGA
* *
1755220 GTATCAAGTACTTTCATGTCGAAGGTA---CCTAAGGGCATTTTCATAA-TTTTTTAGAATCAAG
1 GTATCAAGTACTTT-ATGTCGAAGGTATCCCCT-AGGGCATTTTCATAATTTTTTTAAAACCAAG
* * * * *
1755281 TCCTAGGTTGTCACCGAGCCAACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTTACCCCATC
64 TCCTAGGTTATAACCGAGCCAACTTTTATACCGAAGGCGGGCATTTAGGATAGGTTCACCCCATC
* * * *
1755346 CACATCTTTTTTAGGTCTTTTAGGG
129 CAAATCTTTTTCAAGTCCTTTAGGG
* * * ** * * *
1755371 GTATCAGGTACTTGTACGTCGAGGGTATCCCAAAGGGGTATTTTTATATTTTTTTTTCAAAACCA
1 GTATCAAGTACTT-TATGTCGAAGGTATCCCCTA-GGGCATTTTCATA-ATTTTTTT-AAAACCA
* * * * *
1755436 AGTCCTAGGTTATAACCGGGTTC-GCTTTTATACCGAAGGCGGGTATTTAGGATAGGTTCATCCC
62 AGTCCTAGGTTATAACCGAG-CCAACTTTTATACCGAAGGCGGGCATTTAGGATAGGTTCACCCC
* **
1755500 TTTTATAATCTTTTTCAAGTCCTTTAGGG
126 ATCCA-AATCTTTTTCAAGTCCTTTAGGG
*
1755529 GTATCAAGTACTTCTATGTCGAAGGTATCCCCTAGGAGCATTTTCGTAATTTTT
1 GTATCAAGTACTT-TATGTCGAAGGTATCCCCTAGG-GCATTTTCATAATTTTT
1755583 CTTGAACTTT
Statistics
Matches: 164, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
151 22 0.13
152 1 0.01
153 1 0.01
154 12 0.07
156 6 0.04
157 66 0.40
158 56 0.34
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (153 bp):
GTATCAAGTACTTTATGTCGAAGGTATCCCCTAGGGCATTTTCATAATTTTTTTAAAACCAAGTC
CTAGGTTATAACCGAGCCAACTTTTATACCGAAGGCGGGCATTTAGGATAGGTTCACCCCATCCA
AATCTTTTTCAAGTCCTTTAGGG
Found at i:1759689 original size:14 final size:14
Alignment explanation
Indices: 1759666--1759738 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
1759656 TATTATTTTT
*
1759666 TATTAT-TAATTTA
1 TATTATATAATATA
1759679 TATTATATAATATA
1 TATTATATAATATA
*
1759693 TATCATATAA-A-A
1 TATTATATAATATA
*
1759705 -A-TAAATAA-ATA
1 TATTATATAATATA
* *
1759716 TATAATATTATATTA
1 TATTATATAATA-TA
1759731 TATTATAT
1 TATTATAT
1759739 TTTTATATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
10 6 0.13
11 2 0.04
12 2 0.04
13 11 0.24
14 16 0.35
15 9 0.20
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTATATAATATA
Found at i:1760638 original size:13 final size:13
Alignment explanation
Indices: 1760621--1760658 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1760611 TAAAAATTAA
1760621 ATTTAAAAAATATT
1 ATTTAAAAAA-ATT
1760635 -TTTAAAAAAATT
1 ATTTAAAAAAATT
*
1760647 ATATAAAAAAAT
1 ATTTAAAAAAAT
1760659 ATACGAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAAAAAATT
Found at i:1761862 original size:30 final size:30
Alignment explanation
Indices: 1761811--1761867 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1761801 AGTTGGTTTC
** *
1761811 TAGTTTCACCTAAATTGTTTTCTAAATATT
1 TAGTTTCACCTAAATCATTTTCCAAATATT
*
1761841 TAGTTTCACCTAAGTCATTTTCCAAAT
1 TAGTTTCACCTAAATCATTTTCCAAAT
1761868 TTTTTGGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (30 bp):
TAGTTTCACCTAAATCATTTTCCAAATATT
Found at i:1762676 original size:2 final size:2
Alignment explanation
Indices: 1762669--1762698 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1762659 TTGATTAAAG
*
1762669 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1762699 GATAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1763405 original size:18 final size:17
Alignment explanation
Indices: 1763369--1763407 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1763359 AAAGTTAATA
*
1763369 AAAGTTAAAAATCAACC
1 AAAGTTAAAAATAAACC
*
1763386 AAAGTTAAATATGAAACC
1 AAAGTTAAAAAT-AAACC
1763404 AAAG
1 AAAG
1763408 ATTTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.59, C:0.13, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAGTTAAAAATAAACC
Found at i:1764599 original size:54 final size:54
Alignment explanation
Indices: 1764506--1764614 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
1764496 CAAGTATGTC
* *
1764506 AGTGAAATTGGCCCCTAAATGAGAAAGCGCAATTCAGCTGCTAAGATTAATTCT
1 AGTGAAATTGGCCCCTAAATGAGAAAGCGCAAATCAGCTGCTAAGATTAAGTCT
* * *
1764560 AGTGAAATTGGCCCCTAAATGTGAAAGC-CTAACAT-AGCTGGTAGGATTAAGTCT
1 AGTGAAATTGGCCCCTAAATGAGAAAGCGC-AA-ATCAGCTGCTAAGATTAAGTCT
1764614 A
1 A
1764615 ATAAAATCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 46 0.96
55 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (54 bp):
AGTGAAATTGGCCCCTAAATGAGAAAGCGCAAATCAGCTGCTAAGATTAAGTCT
Found at i:1764761 original size:27 final size:27
Alignment explanation
Indices: 1764731--1764784 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1764721 TAGTGAAATT
*
1764731 AGCCTATAAAATTGTTTAAGTCCAATG
1 AGCCTATAAAAGTGTTTAAGTCCAATG
*
1764758 AGCCTATAGAAGTGTTTAAGTCCAATG
1 AGCCTATAAAAGTGTTTAAGTCCAATG
1764785 TAGCTAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (27 bp):
AGCCTATAAAAGTGTTTAAGTCCAATG
Found at i:1764881 original size:57 final size:57
Alignment explanation
Indices: 1764770--1764915 Score: 152
Period size: 57 Copynumber: 2.6 Consensus size: 57
1764760 CCTATAGAAG
* * *
1764770 TGTTTAAGTCCAATGTAGCTAGCTTAAGACAAGCCTAGTCCAATTGGTACCTAGATA
1 TGTTTAAGTCCAATGTAGCTAGCTTAAGACAAGCCTAGTCAAATTGGCAACTAGATA
* * * * * *
1764827 TGTTTAAGTCTATTGTAGTTGGCTTAAGACAAGCCTTGTGAAATTGGCAACTAGA-A
1 TGTTTAAGTCCAATGTAGCTAGCTTAAGACAAGCCTAGTCAAATTGGCAACTAGATA
* * *
1764883 TTATTTAAGTCCAATATGGCTAG-TTCAAGACAA
1 -TGTTTAAGTCCAATGTAGCTAGCTT-AAGACAA
1764916 TGTTAGTTAA
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
56 3 0.04
57 68 0.96
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (57 bp):
TGTTTAAGTCCAATGTAGCTAGCTTAAGACAAGCCTAGTCAAATTGGCAACTAGATA
Found at i:1768887 original size:80 final size:79
Alignment explanation
Indices: 1768667--1768889 Score: 279
Period size: 79 Copynumber: 2.8 Consensus size: 79
1768657 ACAACGGGGC
**
1768667 TGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAATCAGGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTAG-AAATAAAATTGGGGTTGGAGTATCCCC
* * **
1768730 TCGAAAATAACGGGGT
64 GCAAAAATAACAAGGT
* * * ***
1768746 TGGAGTATCCCCGATTATGGAAAATTGATGCTTTAGAAATAAGGCTGGGGTTGGAGTATCCCCGC
1 TGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCGC
1768811 AAAAATAACAAGGT
66 AAAAATAACAAGGT
* *
1768825 TGGAGTATCCTCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCG
1 TGGAGTATCCCCGATTATGAAAA-ATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCG
1768890 ATTGTGAGAA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 84 0.69
80 37 0.31
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCCGC
AAAAATAACAAGGT
Found at i:1768932 original size:51 final size:52
Alignment explanation
Indices: 1768822--1768937 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
1768812 AAAATAACAA
* *** * **
1768822 GGTTGGAGTATCCTCGATTGTGAAAAGATTGGTGTTTTAGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAACCGG
* **
1768874 GGTTGGAGTATCCCCGATTGTGAGAA-ATCAATATTTTAGAAATAAGGCCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAACCGG
1768925 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1768938 ATGAGATGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 30 0.56
52 24 0.44
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAACCGG
Found at i:1771298 original size:13 final size:13
Alignment explanation
Indices: 1771277--1771306 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1771267 GTAAACCCAG
1771277 AATGCATCGATAC
1 AATGCATCGATAC
*
1771290 AATGTATCGATAC
1 AATGCATCGATAC
1771303 AATG
1 AATG
1771307 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGCATCGATAC
Found at i:1772006 original size:42 final size:42
Alignment explanation
Indices: 1771902--1772234 Score: 275
Period size: 41 Copynumber: 7.9 Consensus size: 42
1771892 AAGGAAGGGG
* ** *
1771902 GCGTCCTGCTCTTTGAGAATTAAGG--AAAAGGAGAATGAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGA-AATAAAAT
* *
1771943 GGGTCCTGCTCCTTGAGGACAAAGGAAAAAAGGAAATAAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * * * *
1771985 GCATCATGCCCTTTGAAGACAAAGG-AAAAAGGAAATTAAAT
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* * * *
1772026 GTGTCCTGCT-TTTCAAGGACAAAGG-AAAATGGAGAATAAAGT
1 GCGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGA-AATAAAAT
* * * * * *
1772068 GCGTCCTACTCTTTGAGAACTAGAAGGGAGAAGAGGGAAATGAAGT
1 GCGTCCTGCTCTTTGAGGAC-A-AA-GGA-AAAAAGGAAATAAAAT
* *
1772114 GCGTCCTACTCTTTGAGGACAAAGGAAAAAA-GAAA-AAAAG
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
* *
1772154 GCATCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAAT
1 GCGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAATAAAAT
* * *
1772199 GTGTCCTGCTCTTTGAGGACAAAGGAGAGAAGGAAA
1 GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAA
1772235 AGGCGTCCTA
Statistics
Matches: 234, Mismatches: 43, Indels: 29
0.76 0.14 0.09
Matches are distributed among these distances:
40 23 0.10
41 64 0.27
42 60 0.26
43 20 0.09
44 11 0.05
45 24 0.10
46 26 0.11
47 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.20
Consensus pattern (42 bp):
GCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAAT
Found at i:1772026 original size:83 final size:86
Alignment explanation
Indices: 1771929--1772234 Score: 322
Period size: 85 Copynumber: 3.6 Consensus size: 86
1771919 AATTAAGGAA
* * *
1771929 AAGGAGAATGAAATGGGTCCTGCTCCTTGAGGACAAAGGAAAAAAGGAAATAAAATGCATCATGC
1 AAGGA-AATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATGCATCCTGC
*
1771994 CCTTTGAAGAC-AAA-GGAAA-
65 TCTTTGAAGACAAAAGGGAAAG
* * * * * *
1772013 AAGGAAATTAAATGTGTCCTGCT-TTTCAAGGACAAAGG-AAAATGGAGAATAAAGTGCGTCCTA
1 AAGGAAATGAAATGTGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGA-AATAAAATGCATCCTG
*
1772076 CTCTTTG-AGAACTAGAAGGGAGAAG
64 CTCTTTGAAG-AC-AAAAGGGA-AAG
* * * * *
1772101 AGGGAAATGAAGTGCGTCCTACTCTTTGAGGACAAAGGAAAAAA-GAAA-AAAAGGCATCCTGCT
1 AAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATGCATCCTGCT
*
1772164 CTTTGAGGACAAAAGGGAAAAG
66 CTTTGAAGACAAAAGGG-AAAG
* *
1772186 AAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAGAAGGAAA
1 AAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAA
1772235 AGGCGTCCTA
Statistics
Matches: 179, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
82 11 0.06
83 46 0.26
84 5 0.03
85 49 0.27
86 26 0.15
87 5 0.03
88 30 0.17
89 7 0.04
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (86 bp):
AAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATGCATCCTGCT
CTTTGAAGACAAAAGGGAAAG
Found at i:1772185 original size:40 final size:39
Alignment explanation
Indices: 1772041--1772256 Score: 132
Period size: 46 Copynumber: 5.1 Consensus size: 39
1772031 CTGCTTTTCA
*
1772041 AGGACAAA-GGAAAATGGAGAATAAAGTGCGTCCTACTCTTTG
1 AGGACAAAGGGAAAA--GA-AAAAAAG-GCGTCCTACTCTTTG
* **
1772083 AGAACTAGAAGGGAGAAGAGGGAAATGAAGTGCGTCCTACTCTTTG
1 AGGAC-A-AAGGGA-AA-A--GAAAAAAAG-GCGTCCTACTCTTTG
* * *
1772129 AGGACAAAGGAAAAAAGAAAAAAAGGCATCCTGCTCTTTG
1 AGGACAAAGG-GAAAAGAAAAAAAGGCGTCCTACTCTTTG
* * *
1772169 AGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTG
1 AGGAC-AAAGGGAAAAG-A--AAA--AAAGGCGTCCTACTCTTTG
* *
1772214 AGGACAAA-GG-AGAGAAGGAAAAGGCGTCCTACTCTTTG
1 AGGACAAAGGGAAAAGAA-AAAAAGGCGTCCTACTCTTTG
1772252 AGGAC
1 AGGAC
1772257 TAAAAAATGC
Statistics
Matches: 143, Mismatches: 18, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
38 21 0.15
39 1 0.01
40 24 0.17
41 14 0.10
42 7 0.05
43 7 0.05
44 11 0.08
45 26 0.18
46 28 0.20
47 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (39 bp):
AGGACAAAGGGAAAAGAAAAAAAGGCGTCCTACTCTTTG
Found at i:1772310 original size:61 final size:60
Alignment explanation
Indices: 1772231--1773004 Score: 658
Period size: 61 Copynumber: 12.9 Consensus size: 60
1772221 AGGAGAGAAG
* * *
1772231 GAAAAGGCGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTCGTGTGGGCTTTGAAAA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
* ** * * * *
1772292 GAAAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTATGTGGGCTTTGCAAG
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
* * * * * * * *
1772353 GAAAAGGTGTCCTGCTCTTTGAGGACT-GAAGGTGCCACTAGCTTTTGTGGGTTTTGAAAG
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
* ** * * *
1772413 GCAAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGACTTTAAAA
1 G-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
1772473 GGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAA
1 -GAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
** * * * *
1772535 GGTGTAA-GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGAC-TTAAAA
1 -G-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
1772595 GGAAAAGGTGTCCTGCTCTTTGAGGACTACAAAAGTGCCA-CAAGCTTGTATGGGCTTT----
1 -GAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAA-CTTGTGTGGGCTTTAAAA
* **
1772653 G-AAAGGCGTCCTGCTTTTTGAGGACTGGAAAAA-TGCCACCAACCGGTGTGGGCTTT----
1 GAAAAGGCGTCCTGCTCTTTGAGGACT--AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
** *
1772709 G-AAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAGCTTGTGTGGGCTTTAAAAA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
* * * * *
1772769 GAAAAGGTGTTCTGCTCTTTGAGGACTAGAAATGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
* * ** * * *
1772831 GCATAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGTCACCAACTTGTGTGGACTTTAAAA
1 G-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
** * * *
1772891 GGAAAAGGTTTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT----
1 -GAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * *
1772949 G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAA-TGTCACAAACTAGTGTGGGCTTT
1 GAAAAGGCGTCCTGCTCTTTGAGGACT--AAAAAGTGCCACCAACTTGTGTGGGCTTT
1773005 GGTGGAGTTT
Statistics
Matches: 588, Mismatches: 98, Indels: 59
0.79 0.13 0.08
Matches are distributed among these distances:
54 3 0.01
55 20 0.03
56 104 0.18
57 13 0.02
58 2 0.00
59 2 0.00
60 93 0.16
61 226 0.38
62 120 0.20
63 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (60 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:1772578 original size:123 final size:124
Alignment explanation
Indices: 1772228--1773004 Score: 761
Period size: 123 Copynumber: 6.5 Consensus size: 124
1772218 CAAAGGAGAG
* * * *
1772228 AAGGAAAAGGCGTCCTACTCTTTGAGGACTA-AAAAATGCCACCAACTCGTGTGGGCTTTGAAAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTT-AAAA
* * * **
1772292 -GAAAAGGCGTCTTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTATGTGGGCTTTGC
65 GGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1772350 AAGGAAAAGGTGTCCTGCTCTTTGAGGACT-G-AAGGTGCCACTAGCTTTTGTGGGTTTTGAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
* * * *
1772413 GCAAAA-GCATCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGCGGACTTTAA
66 G-AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
*
1772471 AAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
** * *
1772536 GTGTAA-GCATCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGAC-TTAA
66 G-AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1772593 AAGGAAAAGGTGTCCTGCTCTTTGAGGACTACAAAAGTGCCACAAGCTTGTATGGGCTTT-----
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
* * ** **
1772653 G-AAAGGCGTCCTGCTTTTTGAGGACTGGAAAAATGCCACCAACCGGTGTGGGCTTT--
66 GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* *
1772709 ---G-AAAGGCGTCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAGCTTGTGTGGGCTTTAAAAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
* * * * *
1772769 GAAAAGGTGTTCTGCTCTTTGAGGACTAGAAATGTGCCACCAGCTTGTGTGGGCTTTGA
66 GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
1772828 AAGGCATAA-GCATCCTGCTCTTTGAGGACT-GGAAGGTGTCACCAACTTGTGTGGACTTTAAAA
1 AAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAA
** * * * *
1772891 GGAAAAGGTTTCCTGCTTTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTT--
65 GGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1772949 ---G-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAATGTCACAAACTAGTGTGGGCTTT
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTT
1773005 GGTGGAGTTT
Statistics
Matches: 557, Mismatches: 73, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
111 24 0.04
112 25 0.04
113 1 0.00
115 2 0.00
116 23 0.04
117 86 0.15
118 26 0.05
120 3 0.01
121 96 0.17
122 96 0.17
123 172 0.31
124 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (124 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAG
GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1772786 original size:295 final size:296
Alignment explanation
Indices: 1772422--1773005 Score: 947
Period size: 295 Copynumber: 2.0 Consensus size: 296
1772412 GGCAAAAGCA
*
1772422 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGACTTTAAAAGGAAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGACTTTAAAAAGAAAAGGTGTCCT
**
1772487 GCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGTGTAAGCATCCTGCT
66 GCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATAAGCATCCTGCT
1772552 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGAC-TTAAAAGGAAAAGGTGTCCTGCTCTTT
131 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTGTCCTGCTCTTT
* *
1772616 GAGGACTACAAAAGTGCCACAAGCTTGTATGGGCTTTGAAAGGCGTCCTGCTTTTTGAGGACTGG
196 GAGGACTACAAAAGTGCCACAAGCTTGTATGAGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
* *
1772681 AAAAATGCCACCAACCGGTGTGGGCTTTGAAAGGCG
261 AAAAATGCCACAAACCAGTGTGGGCTTTGAAAGGCG
* * * *
1772717 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAGGTGTTC
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGCGGACTTTAAAAAGAAAAGGTGTCC
* *
1772781 TGCTCTTTGAGGACTAGAAATGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATAAGCATCCTGC
65 TGCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATAAGCATCCTGC
* * * *
1772846 TCTTTGAGGACTGGAAGGTGTCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTTTCCTGCTTTT
130 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTGTCCTGCTCTT
* * *
1772911 TGAGGACTAGAAAAGTGCCACCAGCTTGTGTGAGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
195 TGAGGACTACAAAAGTGCCACAAGCTTGTATGAGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
* *
1772976 GAAAAATGTCACAAACTAGTGTGGGCTTTG
260 GAAAAATGCCACAAACCAGTGTGGGCTTTG
1773006 GTGGAGTTTT
Statistics
Matches: 265, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
295 151 0.57
296 114 0.43
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (296 bp):
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGCGGACTTTAAAAAGAAAAGGTGTCCT
GCTCTTTGAGGACTAGAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATAAGCATCCTGCT
CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTGTCCTGCTCTTT
GAGGACTACAAAAGTGCCACAAGCTTGTATGAGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGG
AAAAATGCCACAAACCAGTGTGGGCTTTGAAAGGCG
Found at i:1773366 original size:1 final size:1
Alignment explanation
Indices: 1773360--1773422 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
1773350 TTCTTTTCTC
* * * * * * * *
1773360 TTTTTTTTTTGTTTTTTATGTTTTTTTTTGTTTTTTGTTTTGTTTTTTTGTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1773423 AAAAAGAAGG
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:1773376 original size:13 final size:13
Alignment explanation
Indices: 1773360--1773422 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
1773350 TTCTTTTCTC
1773360 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
*
1773373 TTTTATGTTTT-TT
1 TTTT-TTTTTTGTT
*
1773386 TTTGTTTTTTGTT
1 TTTTTTTTTTGTT
*
1773399 TTGTTTTTTTGTT
1 TTTTTTTTTTGTT
1773412 TTGTTTTTTTT
1 TT-TTTTTTTT
1773423 AAAAAGAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
12 5 0.12
13 24 0.59
14 12 0.29
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:1773383 original size:20 final size:19
Alignment explanation
Indices: 1773360--1773422 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
1773350 TTCTTTTCTC
1773360 TTTTTTTTTTGTTTTTTAT
1 TTTTTTTTTTGTTTTTTAT
* *
1773379 GTTTTTTTTTGTTTTTTGT
1 TTTTTTTTTTGTTTTTTAT
1773398 TTTGTTTTTTTGTTTTGTT-T
1 TTT-TTTTTTTGTTTT-TTAT
1773418 TTTTT
1 TTTTT
1773423 AAAAAGAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 21 0.54
20 16 0.41
21 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTGTTTTTTAT
Found at i:1773401 original size:31 final size:30
Alignment explanation
Indices: 1773360--1773419 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
1773350 TTCTTTTCTC
1773360 TTTTTTTTTTGTTTTTTATGTTTT-TTTTTG
1 TTTTTTTTTTGTTTTTT-TGTTTTGTTTTTG
1773390 TTTTTTGTTTTGTTTTTTTGTTTTGTTTTT
1 TTTTTT-TTTTGTTTTTTTGTTTTGTTTTT
1773420 TTTAAAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.87
Consensus pattern (30 bp):
TTTTTTTTTTGTTTTTTTGTTTTGTTTTTG
Found at i:1773419 original size:19 final size:18
Alignment explanation
Indices: 1773361--1773422 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
1773351 TCTTTTCTCT
1773361 TTTTTTTTTGTTTTTTATG
1 TTTTTTTTTGTTTTTT-TG
1773380 TTTTTTTTTG-TTTTTTG
1 TTTTTTTTTGTTTTTTTG
*
1773397 TTTTGTTTTT-TTGTTTTG
1 TTTT-TTTTTGTTTTTTTG
1773415 TTTTTTTT
1 TTTTTTTT
1773423 AAAAAGAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 10 0.25
18 20 0.50
19 10 0.25
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTTTG
Found at i:1784221 original size:37 final size:37
Alignment explanation
Indices: 1784179--1784263 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
1784169 AAAAATGAAG
*
1784179 CACAAATGCATC-CTACAAAATGAAATGTTATGAATGT
1 CACAAATGCATCAAT-CAAAATGAAATGTTATGAATGT
1784216 CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
1784253 CACAAATGCAT
1 CACAAATGCAT
1784264 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 45 0.98
38 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
Found at i:1785192 original size:13 final size:13
Alignment explanation
Indices: 1785174--1785199 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1785164 TGTTCCATAG
1785174 GCCCTTGCGAGTT
1 GCCCTTGCGAGTT
1785187 GCCCTTGCGAGTT
1 GCCCTTGCGAGTT
1785200 TTCAACCCAA
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:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (13 bp):
GCCCTTGCGAGTT
Found at i:1785278 original size:13 final size:12
Alignment explanation
Indices: 1785256--1785297 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1785246 ATCCGGACCC
*
1785256 TTTTTGTTGTTT
1 TTTTTTTTGTTT
1785268 GTTTTTTTTG-TT
1 -TTTTTTTTGTTT
*
1785280 TTTTTTTGGTTT
1 TTTTTTTTGTTT
1785292 TTTTTT
1 TTTTTT
1785298 GCAGAGGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 8 0.31
12 10 0.38
13 8 0.31
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:1785284 original size:10 final size:10
Alignment explanation
Indices: 1785265--1785298 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
1785255 CTTTTTGTTG
1785265 TTTG-TTTTT
1 TTTGTTTTTT
1785274 TTTGTTTTTT
1 TTTGTTTTTT
1785284 TTTGGTTTTTT
1 TTT-GTTTTTT
1785295 TTTG
1 TTTG
1785299 CAGAGGATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 9 0.39
11 10 0.43
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:1785285 original size:11 final size:11
Alignment explanation
Indices: 1785269--1785298 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1785259 TTGTTGTTTG
1785269 TTTTTTTT-GT
1 TTTTTTTTGGT
1785279 TTTTTTTTGGT
1 TTTTTTTTGGT
1785290 TTTTTTTTG
1 TTTTTTTTG
1785299 CAGAGGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGGT
Found at i:1790993 original size:52 final size:52
Alignment explanation
Indices: 1790912--1791031 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
1790902 AAAAGTTACT
* *
1790912 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
* *
1790964 TGGATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
1791016 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1791032 AAGATCGGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:1791044 original size:52 final size:52
Alignment explanation
Indices: 1790912--1791051 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
1790902 AAAAGTTACT
* *
1790912 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
* *** *
1790964 TGGATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
1791016 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1791052 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1791058 original size:13 final size:13
Alignment explanation
Indices: 1791040--1791064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1791030 CAAAGATCGG
1791040 TGTATCGATACAA
1 TGTATCGATACAA
1791053 TGTATCGATACA
1 TGTATCGATACA
1791065 TTTGAGTAAT
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:1791146 original size:13 final size:13
Alignment explanation
Indices: 1791128--1791152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1791118 AAAAAAAATA
1791128 TGTATCGATACAT
1 TGTATCGATACAT
1791141 TGTATCGATACA
1 TGTATCGATACA
1791153 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:1795912 original size:20 final size:20
Alignment explanation
Indices: 1795887--1795941 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1795877 ATTTGCCTGC
1795887 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
1795907 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAATA
1795927 ATGTATCGATACATT
1 ATGTATCGATACATT
1795942 TTCTTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:1796873 original size:52 final size:49
Alignment explanation
Indices: 1796748--1797278 Score: 323
Period size: 52 Copynumber: 10.6 Consensus size: 49
1796738 TCGAAGATGC
* ** * * *
1796748 GAAGAATGACAATGTGCTGATTCATTGCCAGCGACATTAGACTT---GAA
1 GAAG-ATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * ** *
1796795 GAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTT-AGGAAT
1 GAAG-ATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGG-AT
*
1796845 GTTAAAGATGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGAT
1 G---AAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * ** *
1796897 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
** * * * ** * *
1796949 GAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATTGGACTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * **
1796998 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
** * * * *
1797050 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * ** *
1797099 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * ** * *
1797148 GACGAAGGCACCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGAT
1 GAAG-ATG-A-CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * *
1797200 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
* *
1797252 GAAGGTGCCAATATGCTGATTCAAGGC
1 GAAGATGACAATATGCTGATTCAAGGC
1797279 TAGCGATATT
Statistics
Matches: 391, Mismatches: 74, Indels: 33
0.79 0.15 0.07
Matches are distributed among these distances:
47 36 0.09
49 154 0.39
50 10 0.03
51 5 0.01
52 180 0.46
53 6 0.02
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
Found at i:1796935 original size:101 final size:101
Alignment explanation
Indices: 1796748--1797382 Score: 705
Period size: 101 Copynumber: 6.4 Consensus size: 101
1796738 TCGAAGATGC
* ** * * * *
1796748 GAAGAATGACAATGTGCTGATTCATTGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTG
1 GAAG-ATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
** * ** * *
1796811 CTGAGACAAGGCCAACGACATTGGGCTT-AGGAATGTT
65 CTGATTCAAGGCCAGCGACATTGGTTTTAAAG-ATGAT
* * *
1796848 AAAGATGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1796913 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
** * * * *
1796949 GAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1797014 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
** *
1797050 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1797115 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
* *
1797151 GAAG--GCACCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGT
1 GAAGATG-A-CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGT
** *
1797214 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
64 GCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
* * * * * *
1797252 GAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T--A--CGCCAAAGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1797307 TGATTCAAGGCCAGCGACATTGGTTTT-AA-A-GA-
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
* * * * *
1797339 CAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1797383 TGCTAATGTG
Statistics
Matches: 479, Mismatches: 47, Indels: 29
0.86 0.08 0.05
Matches are distributed among these distances:
87 40 0.08
88 3 0.01
89 1 0.00
90 2 0.00
91 34 0.07
93 1 0.00
95 1 0.00
99 40 0.08
100 4 0.01
101 350 0.73
102 2 0.00
103 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (101 bp):
GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
Found at i:1797065 original size:202 final size:201
Alignment explanation
Indices: 1796856--1797712 Score: 810
Period size: 174 Copynumber: 4.6 Consensus size: 201
1796846 TTAAAGATGA
*
1796856 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-GATGAAGGTGCCAATGTGCTGATTCAA
*
1796921 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATT
65 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGTGATATT
** *
1796986 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGATG
130 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
1797051 AAGGCGC
195 AAGGCGC
1797058 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
1797123 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCACCAATATGTTGATTCAAGGCCAGTGATATT
65 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGTGATATT
1797188 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
130 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
*
1797253 AAGGTGC
195 AAGGCGC
* * * *
1797260 CAATATGCTGATTCAAGGCTAGCGATATTGGGC-T----T--A--CGCCAAAGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
* *
1797316 GCCAGCGACATTGGTTTT-AA-A-GAC-AAGGTGCCAATATGCTGATTCAA-GGCTAGCGATATT
66 GCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGC-AGTGATATT
* * * *
1797376 GGGC-T-----T--A--TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTC-TCAA-A-GAC-
130 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
**
1797427 AAGGTTC
195 AAGGCGC
* * * * * *
1797434 CAATATGCAGATTTAAGGCTAGCAATATTGGGC-T----T--A--TGCCAAAGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
* * * *
1797490 GCCAGCGACATTGGTCTT--AGA-GAC-AAGGTGCCAATATGCTGATTTAA-GGCTAGCGATATT
66 GCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGC-AGTGATATT
* * * *
1797550 GGGC-T-----T--A--TGCCAAAGTGCTGATTCAAGGCCAACGACATTGGTCTT--AGA-GAC-
130 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
*
1797601 AAGGTGC
195 AAGGCGC
* * * *
1797608 CAATATGCTGATTCAAGGCTAGCGATATTGGGC-T----T--A--TGCCAAAGTGCTGATTCATG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
*
1797664 GCCAGCGACATTGGTCTTT---GA-GAC-AAGGTGCCAATATGCTGATTCAAGG
66 GCCAGCGACATTGGT-TTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGG
1797713 CTAGCGGTAT
Statistics
Matches: 609, Mismatches: 39, Indels: 41
0.88 0.06 0.06
Matches are distributed among these distances:
173 2 0.00
174 258 0.42
175 7 0.01
176 1 0.00
177 3 0.00
178 34 0.06
180 1 0.00
182 1 0.00
187 3 0.00
188 31 0.05
189 3 0.00
190 1 0.00
191 2 0.00
192 36 0.06
194 1 0.00
196 1 0.00
201 1 0.00
202 221 0.36
203 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (201 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
GCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGTGATATTG
GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGA
AGGCGC
Found at i:1797284 original size:52 final size:51
Alignment explanation
Indices: 1796856--1797295 Score: 545
Period size: 52 Copynumber: 8.7 Consensus size: 51
1796846 TTAAAGATGA
* *
1796856 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGGTGC
* * ** *
1796905 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GAAGGTGC
* * *
1796957 CAATATGCTAATTCAAGGGCAGTGATATTGGACTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGGTGC
* * ** *
1797006 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGATGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GAAGGTGC
1797058 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGGTGC
* * ** **
1797107 CAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GAAGGTGC
* *
1797159 CAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGAT--GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGGTGC
* *
1797208 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-GAAGGTGC
* *
1797260 CAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1797296 CGCCAAAGTG
Statistics
Matches: 329, Mismatches: 50, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
49 163 0.50
52 166 0.50
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAGGTGC
Found at i:1797378 original size:87 final size:87
Alignment explanation
Indices: 1797205--1797817 Score: 956
Period size: 87 Copynumber: 7.0 Consensus size: 87
1797195 AAGATGAAGG
* *
1797205 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGCCAATATGCTG
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA-GAC-AAGGTGCCAATATGCTG
1797270 ATTCAAGGCTAGCGATATTGGGCTTA
62 ATTCAAGGCTAGCGATATTGGGCTTA
* * *
1797296 CGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1797361 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * * * * * *
1797383 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGACAAGGTTCCAATATGCAGATTT
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
*
1797448 AAGGCTAGCAATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
*
1797470 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTT
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1797535 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
*
1797557 TGCCAAAGTGCTGATTCAAGGCCAACGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1797622 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* *
1797644 TGCCAAAGTGCTGATTCATGGCCAGCGACATTGGTCTTTGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
*
1797709 AAGGCTAGCGGTATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * * *
1797731 TGCCAAAGTGTTGATTTAAAGCCAGCGATATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
* * * *
1797796 AAGACCAACGATATTGGACTTA
66 AAGGCTAGCGATATTGGGCTTA
1797818 GAATAAGACG
Statistics
Matches: 484, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
87 445 0.92
88 3 0.01
89 2 0.00
91 34 0.07
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
AAGGCTAGCGATATTGGGCTTA
Found at i:1797725 original size:48 final size:48
Alignment explanation
Indices: 1797644--1797812 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 48
1797634 ATTGGGCTTA
* *
1797644 TGCCAAAGTGCTGATTCATGGCCAGCGACATTGGTCTTTGAGACAAGG
1 TGCCAAAGTGCTGATTCAAGGCCAGCGATATTGGTCTTTGAGACAAGG
* * *
1797692 TGCCAATA-TGCTGATTCAAGGCTAGCGGTATTGGGC-TT------A--
1 TGCCAA-AGTGCTGATTCAAGGCCAGCGATATTGGTCTTTGAGACAAGG
* * * *
1797731 TGCCAAAGTGTTGATTTAAAGCCAGCGATATTGGTCTTAGAGACAAGG
1 TGCCAAAGTGCTGATTCAAGGCCAGCGATATTGGTCTTTGAGACAAGG
* *
1797779 TGCCAATA-TGCTGATTCAAGACCAACGATATTGG
1 TGCCAA-AGTGCTGATTCAAGGCCAGCGATATTGG
1797813 ACTTAGAATA
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
38 1 0.01
39 28 0.30
40 1 0.01
41 1 0.01
46 1 0.01
47 2 0.02
48 56 0.61
49 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TGCCAAAGTGCTGATTCAAGGCCAGCGATATTGGTCTTTGAGACAAGG
Found at i:1797878 original size:29 final size:29
Alignment explanation
Indices: 1797839--1797962 Score: 130
Period size: 29 Copynumber: 4.3 Consensus size: 29
1797829 CACCAACTTG
1797839 TGTGGGCTTTTGAAAGGGTTGCATCAACT
1 TGTGGGCTTTTGAAAGGGTTGCATCAACT
* * *
1797868 TATGTGCTTTTG-AA-GGTTGCACCAACT
1 TGTGGGCTTTTGAAAGGGTTGCATCAACT
* **
1797895 TGTGGGC-TTTGAAAGGGGTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGTTG-CATCAACT
*
1797924 TGTGGGCTTTTGAAAAGGG-TGCCACCAACT
1 TGTGGGCTTTTG-AAAGGGTTG-CATCAACT
1797954 TGTGGGCTT
1 TGTGGGCTT
1797963 AAAAGGAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.05
27 19 0.24
28 6 0.08
29 22 0.28
30 21 0.27
31 6 0.08
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTTGCATCAACT
Found at i:1797933 original size:56 final size:57
Alignment explanation
Indices: 1797827--1797962 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 57
1797817 AGAATAAGAC
* * *
1797827 GCCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCATCAACTTATGTGCTTTTG-AAGGTT
1 GCCACCAAC-T-TGTGGGC-TTTGAAAGGGGTGCATCAACTTATGGGCTTTTGAAAGGGT
** *
1797886 G-CACCAACTTGTGGGCTTTGAAAGGGGTGCCATTGACTTGTGGGCTTTTGAAAAGGGT
1 GCCACCAACTTGTGGGCTTTGAAAGGGGTG-CATCAACTTATGGGCTTTTG-AAAGGGT
1797944 GCCACCAACTTGTGGGCTT
1 GCCACCAACTTGTGGGCTT
1797963 AAAAGGAGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
55 12 0.18
56 23 0.34
57 1 0.01
58 13 0.19
59 18 0.27
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (57 bp):
GCCACCAACTTGTGGGCTTTGAAAGGGGTGCATCAACTTATGGGCTTTTGAAAGGGT
Found at i:1797938 original size:30 final size:30
Alignment explanation
Indices: 1797827--1797962 Score: 131
Period size: 30 Copynumber: 4.6 Consensus size: 30
1797817 AGAATAAGAC
1797827 GCCACCAACTTGTGTGGGCTTTTG-AAAGGGTT
1 GCCACCAAC-T-TGTGGGCTTTTGAAAAGGG-T
* * * *
1797859 G-CATCAACTTATGTGCTTTTG--AAGGTT
1 GCCACCAACTTGTGGGCTTTTGAAAAGGGT
*
1797886 G-CACCAACTTGTGGGC-TTTGAAAGGGGT
1 GCCACCAACTTGTGGGCTTTTGAAAAGGGT
***
1797914 GCCATTGACTTGTGGGCTTTTGAAAAGGGT
1 GCCACCAACTTGTGGGCTTTTGAAAAGGGT
1797944 GCCACCAACTTGTGGGCTT
1 GCCACCAACTTGTGGGCTT
1797963 AAAAGGAGAA
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.05
27 14 0.17
28 9 0.11
29 22 0.26
30 28 0.33
31 6 0.07
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (30 bp):
GCCACCAACTTGTGGGCTTTTGAAAAGGGT
Found at i:1798042 original size:27 final size:27
Alignment explanation
Indices: 1798011--1798874 Score: 540
Period size: 34 Copynumber: 28.9 Consensus size: 27
1798001 GAACAAGGCA
1798011 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798038 CCACGAAGTTGTGGACTTAAAAGGAAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGG-----G--TG
* *
1798072 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
1798099 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGG-----G--TG
*
1798133 CCACGGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798160 CCACGGAGTTGTAGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1798187 CCACGGACTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
*
1798221 CCATGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798248 CCACGGAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
*
1798276 CCACGGAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
** *
1798304 TTATGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
**
1798331 CCACAAAGTTGTGGACTTTGAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* * * *
1798365 CTATGGAGTTATGGGCTTTGAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* *
1798399 CCACGGAGTTATGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* *
1798427 CCACGGAGTTATGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* *
1798455 CCACAGAGTTATGGACTTAAAAGAAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAAG------G-GTG
*
1798489 CCACGGAGTTGTAGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798516 CCACGGAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* *
1798544 CCACGGAGTTGTGGGCTTTAAAAGAGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
1798572 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1798599 CCACAGAGTTATGGACTTTGAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* * *
1798633 CCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* *
1798667 CCACGGAATTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
** *
1798695 CCACAAAGTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
* *
1798729 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798756 CCACGGAGTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
** *
1798790 CCACAAAGTTGTGGGCTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
* *
1798824 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1798851 CCACAGAGTTGTGGACTTAAAAGG
1 CCACGGAGTTGTGGACTTAAAAGG
1798875 AAAAAGAGTG
Statistics
Matches: 710, Mismatches: 69, Indels: 116
0.79 0.08 0.13
Matches are distributed among these distances:
27 234 0.33
28 175 0.25
29 12 0.02
32 2 0.00
33 17 0.02
34 270 0.38
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTAAAAGGGTG
Found at i:1798097 original size:61 final size:59
Alignment explanation
Indices: 1797982--1798813 Score: 648
Period size: 61 Copynumber: 13.9 Consensus size: 59
1797972 AAGATGTCGT
* *
1797982 GGAGTTGTGGACTTAAAAGGAACAAG-GCACCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAGTG--CCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* *
1798042 GAAGTTGTGGACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAG--TGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1798103 GGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAG--TGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* * * *
1798164 GGAGTTGTAGACTTAAAAGG-----GTGCCACGGACTTATGGACTTAAAAGGAAAAAGAGTGCCA
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAA-G-----G-GTGCCA
*
1798224 T
59 C
1798225 GGAGTTGTGGACTTAAAAGG-----GTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* ** * *
1798280 GGAGTTGTGGGCTTTAAAAGG-----GTGTTATGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
** * * *
1798335 AAAGTTGTGGACTTTGAAAA-GAAAAAGGTGCTATGGAGTTATGGGCTTTGAAAAGAAAAAGGTG
1 GGAGTTGTGGAC-TT-AAAAGGAAAAA-GTGCCACGGAGTTGTGGGC-TT-AAAAG-----GGTG
1798399 CCAC
56 CCAC
* * *
1798403 GGAGTTATGGGCTTTAAAAGG-----GTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* * * * *
1798459 AGAGTTATGGACTTAAAAGAAAAAAGAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAG-GAAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* *
1798520 GGAGTTGTGGGCTTTAAAAGG-----GTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* * *
1798576 GGAGTTGTGGACTTAAAAGG-----GTGCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCA
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-----GGTGCCA
1798636 C
59 C
* * * *
1798637 AGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGAC-TT-AAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
** * *
1798699 AAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* **
1798760 GGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGG
1 GGAGTTGTGGACTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGG
1798814 AAAAAGAGTG
Statistics
Matches: 654, Mismatches: 67, Indels: 101
0.80 0.08 0.12
Matches are distributed among these distances:
54 21 0.03
55 97 0.15
56 77 0.12
60 30 0.05
61 283 0.43
62 88 0.13
63 11 0.02
67 9 0.01
68 38 0.06
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (59 bp):
GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
Found at i:1798384 original size:34 final size:34
Alignment explanation
Indices: 1798322--1798971 Score: 288
Period size: 34 Copynumber: 20.9 Consensus size: 34
1798312 TTGTGGACTT
* ** * *
1798322 AAAAGGGTGCCACAAAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* *
1798356 AAAAAGGTGCTATGGAGTTATGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
1798390 AAAAAGGTGCCACGGAGTTATGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
1798423 -----GGTGCCACGGAGTTATGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* *
1798451 -----GGTGCCACAGAGTTATGGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* * *
1798478 AAAAAAGAGTGCCACGGAGTTGTAGAC-TT-AAAAG
1 -AAAAAG-GTGCCACGGAGTTATGGGCTTTGAAAAG
*
1798512 -----GGTGCCACGGAGTTGTGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
*
1798540 -----GGTGCCACGGAGTTGTGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* *
1798568 ----A-GTGCCACGGAGTTGTGGAC-TT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* *
1798595 -----GGTGCCACAGAGTTATGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* *
1798624 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* * *
1798658 AAAAAAGTGCCACGGAATTGTGGGCTTT-AAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
** *
1798691 -----GGTGCCACAAAGTTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAA-G
* *
1798719 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAG
1 AAAAAG-GTGCCACGGAGTTATGGGCTTTGAAAAG
*
1798752 -----GGTGCCACGGAGTTATGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAA-G
** *
1798780 AAAAAGAGTGCCACAAAGTTGTGGGC-TT-AAAAGG
1 AAAAAG-GTGCCACGGAGTTATGGGCTTTGAAAA-G
* *
1798814 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAG
1 AAAAAG-GTGCCACGGAGTTATGGGCTTTGAAAAG
* * *
1798847 -----GGTGCCACAGAGTTGTGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAA-G
* * *
1798875 AAAAAGAGTGCCACAGAGTTGTGGAC-TT-AAAAGG
1 AAAAAG-GTGCCACGGAGTTATGGGCTTTGAAAA-G
* * * *
1798909 AATAAGGGGCCACAGAGTTATGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
* * *
1798943 AAAAAGGTGCCACAGAGTCATGGCCTTTG
1 AAAAAGGTGCCACGGAGTTATGGGCTTTG
1798972 GGAAGAGATT
Statistics
Matches: 527, Mismatches: 49, Indels: 80
0.80 0.07 0.12
Matches are distributed among these distances:
27 100 0.19
28 121 0.23
29 5 0.01
33 33 0.06
34 264 0.50
35 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAG
Found at i:1798508 original size:268 final size:267
Alignment explanation
Indices: 1798090--1798960 Score: 960
Period size: 268 Copynumber: 3.2 Consensus size: 267
1798080 TTGTGGGCTT
* * * * *
1798090 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAATGCCACGGAGTTGTGGGC-TTA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
* * * *
1798152 AAAGGGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGACTTATGGACTTAAAAGGAAAAAG
64 AAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGACTTATGGACTTAAAAGAAAAAAG
* *
1798217 AGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGG
129 AGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGG
* ** * *
1798282 AGTTGTGGGCTTTAAAAGGGTGTTATGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGAC
194 AGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGAC
1798347 TTTGAAAAG
259 TTTGAAAAG
* ** *
1798356 AAAAAGGTGCTATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
* *
1798421 AGGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGA
66 AGGGTGCCACGGAGTTATGGAC-TTAAAAGGGTGCCACAGACTTATGGACTTAAAAGAAAAAAGA
1798486 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGA
130 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGA
*
1798551 GTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACT
195 GTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACT
1798616 TTGAAAAG
260 TTGAAAAG
* * *
1798624 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAA
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
** * * *
1798689 AGGGTGCCACAAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG--
66 AGGGTGCCACGGAGTTATGGACTTAAAA-G-----G-GTGCCACAGACTTATGGACTTAAAAGAA
* * **
1798752 ----G-GTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGC-TTAAA
124 AAAAGAGTGCCACGGAGTTGTAGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGGCTTTAAA
* * *
1798811 AGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
182 A-G-----G-GTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAA-G
* *
1798875 AAAAAGAGTGCCACAGAGTTGTGGAC-TT-AAAAGG
239 -----G-GTGCCACAAAGTTATGGACTTTGAAAA-G
* * * *
1798909 AATAAGGGGCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACAGAGT
1 AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT
1798961 CATGGCCTTT
Statistics
Matches: 524, Mismatches: 48, Indels: 47
0.85 0.08 0.08
Matches are distributed among these distances:
266 37 0.07
267 62 0.12
268 253 0.48
273 8 0.02
274 42 0.08
279 32 0.06
280 19 0.04
284 4 0.01
285 49 0.09
286 18 0.03
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (267 bp):
AAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
AGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGACTTATGGACTTAAAAGAAAAAAGAG
TGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAG
TTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACTT
TGAAAAG
Found at i:1798530 original size:240 final size:236
Alignment explanation
Indices: 1798239--1798894 Score: 748
Period size: 240 Copynumber: 2.7 Consensus size: 236
1798229 TTGTGGACTT
*
1798239 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTG
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTG
** * * *
1798304 TTATGGAGTTGTGGAC-TTAAAAGGGTGCCACAAAGTTGTGGACTTTGAAAAGAAAAAGGTGCTA
65 CCACGGAGTTGTGGACTTTAAAAGAGTGCCACAAAGTTGTGGAC-TT-AAAAG-----GGTGCCA
** * * *
1798368 TGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTT-AAAAG-GGTGCCAC
123 CAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAGTGCCAC
* *
1798431 GGAGTTATGGGCTTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGAA
188 GGAATTATGGGCTTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGAA
* *
1798480 AAAAGAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGC
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGC
* **
1798545 CACGGAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTA
66 CACGGAGTTGTGGACTTTAAAAGAGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTA
*
1798610 TGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAA
131 TGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAG----AAGTGCCACGGAA
* *
1798675 TTGTGGGCTTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGA
192 TTATGGGCTTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGAA
* * *
1798720 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA-G----
** * * * *
1798784 AGAGTGCCACAAAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGG
61 -G-GTGCCACGGAGTTGTGGACTT------TAAAAGAGTGCCACAAAGTTGTGGACTTAAAAGGG
*
1798849 TGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTT
118 TGCCACAGAGTTATGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGTT
1798895 GTGGACTTAA
Statistics
Matches: 361, Mismatches: 32, Indels: 33
0.85 0.08 0.08
Matches are distributed among these distances:
234 51 0.14
235 5 0.01
239 11 0.03
240 153 0.42
241 46 0.13
245 1 0.00
246 19 0.05
250 4 0.01
251 9 0.02
252 62 0.17
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.22
Consensus pattern (236 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGC
CACGGAGTTGTGGACTTTAAAAGAGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTA
TGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGGCTTTGAAAAGAAGTGCCACGGAATTAT
GGGCTTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGAA
Found at i:1798908 original size:61 final size:61
Alignment explanation
Indices: 1798781--1798960 Score: 220
Period size: 61 Copynumber: 2.9 Consensus size: 61
1798771 CTTAAAAGGA
* * * *
1798781 AAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
1798842 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
* *
1798903 AAAAGGAATAAGGGGCCACAGAGTTATGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGT
1 AAAA-G-----GGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGT
1798961 CATGGCCTTT
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
61 61 0.58
62 1 0.01
67 30 0.29
68 9 0.09
69 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (61 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:1800294 original size:23 final size:22
Alignment explanation
Indices: 1800268--1800324 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1800258 TGATTTTTCC
**
1800268 TTTGCACTTTTTTTGTGTTTTTT
1 TTTG-ACTTTTTTTGTGTTTAAT
**
1800291 TTTGTTTTGTTTTTGTGTTTAAT
1 TTTGACTT-TTTTTGTGTTTAAT
1800314 TTTGACTTTTT
1 TTTGACTTTTT
1800325 CATCATTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.07, C:0.05, G:0.14, T:0.74
Consensus pattern (22 bp):
TTTGACTTTTTTTGTGTTTAAT
Found at i:1800363 original size:23 final size:24
Alignment explanation
Indices: 1800333--1800391 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
1800323 TTCATCATTT
1800333 TTTTTGTTTTTTGTTTTTTTT-TG
1 TTTTTGTTTTTTGTTTTTTTTGTG
1800356 TTTTTG-TTTTTGTTTTTTTTGTG
1 TTTTTGTTTTTTGTTTTTTTTGTG
*
1800379 TTGTT-TTTTTTGT
1 TTTTTGTTTTTTGT
1800392 GTTTGCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (24 bp):
TTTTTGTTTTTTGTTTTTTTTGTG
Found at i:1800388 original size:16 final size:15
Alignment explanation
Indices: 1800330--1800395 Score: 78
Period size: 16 Copynumber: 4.2 Consensus size: 15
1800320 TTTTTCATCA
1800330 TTTTTTTTGTTTTTTG
1 TTTTTTTT-TTTTTTG
1800346 TTTTTTTTTGTTTTTG
1 TTTTTTTTT-TTTTTG
*
1800362 TTTTTGTTTTTTTTG
1 TTTTTTTTTTTTTTG
* *
1800377 TGTTGTTTTTTTTGTG
1 T-TTTTTTTTTTTTTG
1800393 TTT
1 TTT
1800396 GCACTTTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
15 10 0.23
16 34 0.77
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:1800388 original size:29 final size:29
Alignment explanation
Indices: 1800333--1800396 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
1800323 TTCATCATTT
*
1800333 TTTTTGTTTTTTGTTTTTTTTTGTTTTTG
1 TTTTTGTTTTTTGTTTTTGTTTGTTTTTG
1800362 TTTTTGTTTTTT-TTGTGTTGTTT-TTTTTG
1 TTTTTGTTTTTTGTT-T-TTGTTTGTTTTTG
*
1800391 TGTTTG
1 TTTTTG
1800397 CACTTTTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 24 0.77
30 5 0.16
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (29 bp):
TTTTTGTTTTTTGTTTTTGTTTGTTTTTG
Found at i:1800394 original size:14 final size:13
Alignment explanation
Indices: 1800330--1800391 Score: 74
Period size: 14 Copynumber: 4.8 Consensus size: 13
1800320 TTTTTCATCA
1800330 TTTTTTTTGTTT-
1 TTTTTTTTGTTTG
*
1800342 TTTGTTTTTTTTTG
1 TTT-TTTTTGTTTG
*
1800356 TTTTTGTT-TTTG
1 TTTTTTTTGTTTG
1800368 TTTTTTTTGTGTTG
1 TTTTTTTTGT-TTG
1800382 TTTTTTTTGT
1 TTTTTTTTGT
1800392 GTTTGCACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
12 14 0.33
13 13 0.30
14 16 0.37
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:1807380 original size:20 final size:20
Alignment explanation
Indices: 1807327--1807381 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1807317 AAATTCCTAG
**
1807327 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1807347 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
1807367 ATGTATCGATACATT
1 ATGTATCGATACATT
1807382 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1807469 original size:19 final size:19
Alignment explanation
Indices: 1807410--1807469 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
1807400 TAGCGATACA
*
1807410 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ATTGT
* *
1807429 ATGTATCGATACAGTTATTGT
1 TTGTATCGATACA--AATTGT
1807450 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
1807469 T
1 T
1807470 GAAATTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:1817802 original size:13 final size:13
Alignment explanation
Indices: 1817784--1817808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1817774 TACAAAGATC
1817784 AATGTATCGATAT
1 AATGTATCGATAT
1817797 AATGTATCGATA
1 AATGTATCGATA
1817809 CATTGAATAA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1817802 original size:33 final size:33
Alignment explanation
Indices: 1817765--1817828 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1817755 AAATTCTGAG
1817765 ATGTATCGATACAAAG-ATCAATGTATCGATATA
1 ATGTATCGATACAAAGAAT-AATGTATCGATATA
**
1817798 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACAAAGAATAATGTATCGATA
1817829 CATTTCCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATATA
Found at i:1817820 original size:20 final size:20
Alignment explanation
Indices: 1817795--1817832 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1817785 ATGTATCGAT
1817795 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
1817815 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
1817833 TCCTTGGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:1823906 original size:4 final size:4
Alignment explanation
Indices: 1823897--1823923 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1823887 AAAACAAAAC
1823897 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1823924 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1826115 original size:79 final size:80
Alignment explanation
Indices: 1826018--1826201 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
1826008 GGTGTTTTGA
* * * * **
1826018 AAATAAAATCAGGGTTGGAGTATCCCCTA-TAAAATAACAGGGTTGGAGTATCTCCGATTGTGGA
1 AAATAAAATCGGGGTTGGAGTATCCCC-ACGAAAATAACAGGGTTGAAGTATCCCCGATTGTAAA
1826082 AA-ATCGA-TGCTTTAG
65 AAGAT-GAGTGCTTTAG
**
1826097 AAATAAGGTCGGGGTTGGAGTATCCCCACGAAAATAACAGGGTTGAAGTATCCCCGATTGTAAAA
1 AAATAAAATCGGGGTTGGAGTATCCCCACGAAAATAACAGGGTTGAAGTATCCCCGATTGTAAAA
* *
1826162 AGATTAGTGTTTTAG
66 AGATGAGTGCTTTAG
*
1826177 AAATAAAATTGGGGTTGGAGTATCC
1 AAATAAAATCGGGGTTGGAGTATCC
1826202 ACGATTGTGA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (80 bp):
AAATAAAATCGGGGTTGGAGTATCCCCACGAAAATAACAGGGTTGAAGTATCCCCGATTGTAAAA
AGATGAGTGCTTTAG
Found at i:1826516 original size:11 final size:11
Alignment explanation
Indices: 1826500--1826530 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
1826490 TTAGGGTCGA
1826500 TCTAAAAATAT
1 TCTAAAAATAT
1826511 TCTAAAAATAT
1 TCTAAAAATAT
1826522 TCTAAAAAT
1 TCTAAAAAT
1826531 CCTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (11 bp):
TCTAAAAATAT
Found at i:1828592 original size:20 final size:20
Alignment explanation
Indices: 1828567--1828640 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
1828557 TAAACCCAGA
1828567 ATGTATCGATACAATGAACC
1 ATGTATCGATACAATGAACC
1828587 ATGTATCGATACAATGAACC
1 ATGTATCGATACAATGAACC
*
1828607 ATGTATCGATACAATGAACA
1 ATGTATCGATACAATGAACC
*
1828627 ATGTATTGATACAA
1 ATGTATCGATACAA
1828641 ATTGTGAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAATGAACC
Found at i:1830198 original size:166 final size:166
Alignment explanation
Indices: 1829359--1830244 Score: 698
Period size: 166 Copynumber: 5.3 Consensus size: 166
1829349 TCAAACGTCT
* ** * ** **
1829359 TCAAATATTATCATTTAATTCCCATCAAATCAGTTTTGAAAATTTTCTTTTATTTT-ATGAGTTA
1 TCAAATATTATCATTTAACTCATATTAAATCAGTTTT-AAAAAATTAATTTATTTTCATGAGTT-
* * *
1829423 TTG-A--TTTTCTTTTAGAATTCTCTCTATTT--TC-AAAATAC-AGAATTTTCTACTCCGTAAA
64 TTGAATTTTTTCTTTGA-AATTCTC-CT-TTTCCTCGAAAA-ACTA-AGTTTTCTACTCCATAAA
*
1829481 TATTTTCGGGAGGATTTTTCTTGGTTTTTAATTTTTTAAATTCA
124 TATTTTCGGG-GGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
* * * * * ** * * * *
1829525 TCAAATATTATTACTTAATTCATGTTAAATTAGTTTCCAAAAATTCATTTATTTTAATAAATTTT
1 TCAAATATTATCATTTAACTCATATTAAATCAGTTTTAAAAAATTAATTTATTTTCAT-GAGTTT
* * * * ***
1829590 TCAATTTTTTCCTTGAAAATCTCCTATTT--TCGAAATA-TAGAGTTTTCTACTTTGTAAAT-TT
65 TGAATTTTTTCTTTGAAATTCTCCT-TTTCCTCGAAAAACTA-AGTTTTCTACTCCATAAATATT
* ** * *
1829651 TTTGAGGGGATTTTTCTCAGTTTTCAATTTGTAAAATTCA
128 TTCG-GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
* * * * *
1829691 TCAAATATAACCATTT-ATTCTATATTAAATCAGTTCTAAAAAATTAATTCATTTTCATGAGTTT
1 TCAAATATTATCATTTAACTC-ATATTAAATCAGTTTTAAAAAATTAATTTATTTTCATGAGTTT
* * ** * **
1829755 TAAATTTTTTCTTTGACATTC-CCTTTTCCTTC-AAAAACCGAGTTTTCTACTCTATAAATGCTT
65 TGAATTTTTTCTTTGAAATTCTCCTTTTCC-TCGAAAAACTAAGTTTTCTACTCCATAAATATTT
*
1829818 TCGGGGGGATTTTTCTTGGTTTCTAATTTTTAAAATTCA
129 TC-GGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
* *** * * * * *
1829857 TCAAATATCATCATTTAACTTGCATTAAATCAGTTCTGAAAAATTAATTCATTTTTATGCA-CTT
1 TCAAATATTATCATTTAACTCATATTAAATCAGTTTTAAAAAATTAATTTATTTTCATG-AGTTT
* * * **
1829921 TGAATTTTTTTTCTTTGAAATTCT-CTTTTCCTGGAAAAATTGAA-TTTTTTACTCCATAAATGC
65 TGAA--TTTTTTCTTTGAAATTCTCCTTTTCCTCGAAAAACT-AAGTTTTCTACTCCATAAATAT
*
1829984 TTTCGGGGGATTTTT-TTAGGTTTTTAATTTTTAAAATTTA
127 TTTCGGGGGATTTTTCTT-GGTTTTTAATTTTTAAAATTCA
* *
1830024 TTAAATATTATCATTTAACTCATATTAAATTAGTTTTAAAAAATTAATTTATTTTCATGAGTTTT
1 TCAAATATTATCATTTAACTCATATTAAATCAGTTTTAAAAAATTAATTTATTTTCATGAGTTTT
* * *
1830089 GAATTTTGTTTTTTGAAATTTTCCTGTTT-CT-GAAAAACTAAGTTTTCTATTCCATAAATATTT
66 GAATTTT-TTCTTTGAAATTCTCCT-TTTCCTCGAAAAACTAAGTTTTCTACTCCATAAATATTT
* * ** *
1830152 TCAGGGGATTTTTCTTGATTTAAAATTTTTAAAATTTA
129 TCGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
* * ** * **
1830190 TCAAATATTATTATTAAACTCCCATTAAATCAATTTTGCAAAATTCAATTTATTT
1 TCAAATATTATCATTTAACTCATATTAAATCAGTTTTAAAAAATT-AATTTATTT
1830245 CTTATCTTTT
Statistics
Matches: 582, Mismatches: 108, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
163 3 0.01
164 3 0.01
165 66 0.11
166 301 0.52
167 139 0.24
168 61 0.10
169 9 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (166 bp):
TCAAATATTATCATTTAACTCATATTAAATCAGTTTTAAAAAATTAATTTATTTTCATGAGTTTT
GAATTTTTTCTTTGAAATTCTCCTTTTCCTCGAAAAACTAAGTTTTCTACTCCATAAATATTTTC
GGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
Found at i:1832766 original size:79 final size:79
Alignment explanation
Indices: 1832654--1832836 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 79
1832644 TATTTTGGAG
* * **
1832654 ATAAAGAT-GGGATTGGAGTAGCCCCTCAGAAATAATGGGGCTGGAGTATCCTCGATTGTAAAAA
1 ATAAA-ATCGGGATTAGAGTATCCCCTCAGAAATAACAGGGCTGGAGTATCCTCGATTGTAAAAA
*
1832718 ATCGATGTT-TCGAAA
65 ATCAATGTTCTCG-AA
* * *
1832733 ATAAAATCGGGATTTGAGTATCCCCTC-GAAAATAACAGGGTTGGAGTATCCTCGATTGTAGAAA
1 ATAAAATCGGGATTAGAGTATCCCCTCAG-AAATAACAGGGCTGGAGTATCCTCGATTGTAAAAA
1832797 ATCAATGTTCTCGAA
65 ATCAATGTTCTCGAA
* *
1832812 GTAAAATCAGGG-TTAAAGTATCCCC
1 ATAAAATC-GGGATTAGAGTATCCCC
1832837 GTTGGTGGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 81 0.90
80 6 0.07
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (79 bp):
ATAAAATCGGGATTAGAGTATCCCCTCAGAAATAACAGGGCTGGAGTATCCTCGATTGTAAAAAA
TCAATGTTCTCGAA
Found at i:1832904 original size:79 final size:79
Alignment explanation
Indices: 1832821--1832994 Score: 260
Period size: 79 Copynumber: 2.2 Consensus size: 79
1832811 AGTAAAATCA
* * * *
1832821 GGGTTAAAGTATCCCCG-TTGGTGGAAAATTGGTGTTTTGGAAATAAAACTGGGGTTAGAGTATC
1 GGGTTAGAGTATCCCCGATT-GTGGAAAATTGATGTTTTGAAAATAAAACTGAGGTTAGAGTATC
*
1832885 CCCTCGAAAATAATG
65 CCCTCGAAAATAACG
* * *
1832900 GGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAATTGAGGTTGGAGTATCC
1 GGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCC
1832965 CCTCGAAAATAACG
66 CCTCGAAAATAACG
1832979 GGGTTAGAGTATCCCC
1 GGGTTAGAGTATCCCC
1832995 TCGAAAATAA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 83 0.98
80 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (79 bp):
GGGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAACTGAGGTTAGAGTATCC
CCTCGAAAATAACG
Found at i:1832988 original size:28 final size:28
Alignment explanation
Indices: 1832952--1833022 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
1832942 ATAAAATTGA
*
1832952 GGTTGGAGTATCCCCTCGAAAATAACGG
1 GGTTGGAGTATCCCCTCGAAAATAACAG
* *
1832980 GGTTAGAGTATCCCCTCGAAAATAATAG
1 GGTTGGAGTATCCCCTCGAAAATAACAG
1833008 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1833023 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGAAAATAACAG
Found at i:1833011 original size:107 final size:107
Alignment explanation
Indices: 1832871--1833190 Score: 471
Period size: 107 Copynumber: 3.0 Consensus size: 107
1832861 AAATAAAACT
1832871 GGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTT
1 GGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTT
* * *
1832936 TTGAAAATAAAATTGAGGTTGGAGTATCCCCTCGAAAATAAC
66 TTGAAAACAAAATCGAGGTTGGAGTATCCCCTCGGAAATAAC
* *
1832978 GGGGTTAGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTT
1 GGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTT
*
1833043 TTGAAAACAAAATCG-GCGTTGGAGTATCCACTCGGAAATAAC
66 TTGAAAACAAAATCGAG-GTTGGAGTATCCCCTCGGAAATAAC
* * * * * * *
1833085 AGGATTTGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTCTGGAAAATTGATGTT
1 GGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTT
* * * *
1833150 TTGGAAACAAAACCAAGGTTGGAGTATCCCCTTGGAAATAA
66 TTGAAAACAAAATCGAGGTTGGAGTATCCCCTCGGAAATAA
1833191 AAACATGAAT
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 1 0.01
107 189 0.99
108 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GGGGTTAGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTT
TTGAAAACAAAATCGAGGTTGGAGTATCCCCTCGGAAATAAC
Found at i:1833128 original size:28 final size:28
Alignment explanation
Indices: 1833060--1833129 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
1833050 CAAAATCGGC
*
1833060 GTTGGAGTATCCACTCGGAAATAACAGG
1 GTTGGAGTATCCCCTCGGAAATAACAGG
* * * *
1833088 ATTTGAGTATCCCCTTGGAAATAACGGG
1 GTTGGAGTATCCCCTCGGAAATAACAGG
1833116 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1833130 GATTCTGGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (28 bp):
GTTGGAGTATCCCCTCGGAAATAACAGG
Found at i:1838899 original size:21 final size:18
Alignment explanation
Indices: 1838849--1838902 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
1838839 TAGCGATACA
1838849 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
* *
1838867 TATGTGTCGATACATTTACAGT
1 T-TGTATCGATACA---ACACT
1838889 TTGTATCGATACAA
1 TTGTATCGATACAA
1838903 ATTGTGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 2 0.07
19 11 0.38
21 11 0.38
22 5 0.17
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:1842606 original size:37 final size:37
Alignment explanation
Indices: 1842564--1842648 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
1842554 AAAAATGAAG
*
1842564 CACAAATGCATC-CTACAAAATGAAATGTTATGAATGT
1 CACAAATGCATCAAT-CAAAATGAAATGTTATGAATGT
1842601 CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
1842638 CACAAATGCAT
1 CACAAATGCAT
1842649 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 45 0.98
38 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCAATCAAAATGAAATGTTATGAATGT
Found at i:1843653 original size:21 final size:21
Alignment explanation
Indices: 1843629--1843669 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1843619 TCCGGACCCT
1843629 TTTTGTTGTTT-GTTTTTTTTG
1 TTTT-TTGTTTGGTTTTTTTTG
*
1843650 TTTTTTTTTTGGTTTTTTTT
1 TTTTTTGTTTGGTTTTTTTT
1843670 TGCAGAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (21 bp):
TTTTTTGTTTGGTTTTTTTTG
Found at i:1843656 original size:12 final size:12
Alignment explanation
Indices: 1843628--1843670 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1843618 ATCCGGACCC
*
1843628 TTTTTGTTGTTT
1 TTTTTTTTGTTT
1843640 GTTTTTTTTGTTT
1 -TTTTTTTTGTTT
*
1843653 TTTTTTTGGTTT
1 TTTTTTTTGTTT
1843665 TTTTTT
1 TTTTTT
1843671 GCAGAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:1843657 original size:11 final size:11
Alignment explanation
Indices: 1843641--1843671 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1843631 TTGTTGTTTG
*
1843641 TTTTTTTTGTT
1 TTTTTTTTGGT
1843652 TTTTTTTTGGT
1 TTTTTTTTGGT
1843663 TTTTTTTTG
1 TTTTTTTTG
1843672 CAGAGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGGT
Found at i:1850667 original size:20 final size:20
Alignment explanation
Indices: 1850642--1850729 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 20
1850632 ATTTGCCTGC
1850642 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
1850662 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGAATA
1850682 ATGTATCGATAC-----A-A
1 ATGTATCGATACATTGAATA
*
1850696 A-GTATCGATACATTGAGTA
1 ATGTATCGATACATTGAATA
1850715 ATGTATCGATACATT
1 ATGTATCGATACATT
1850730 TTCTTGGCAG
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
13 10 0.17
14 2 0.03
19 2 0.03
20 44 0.76
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:1850706 original size:33 final size:33
Alignment explanation
Indices: 1850664--1850727 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
1850654 ATTGAATAAT
1850664 GTATCGATACATTGAGTAATGTATCGATACAAA
1 GTATCGATACATTGAGTAATGTATCGATACAAA
1850697 GTATCGATACATTGAGTAATGTATCGATACA
1 GTATCGATACATTGAGTAATGTATCGATACA
1850728 TTTTCTTGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (33 bp):
GTATCGATACATTGAGTAATGTATCGATACAAA
Found at i:1851661 original size:52 final size:49
Alignment explanation
Indices: 1851536--1852066 Score: 305
Period size: 52 Copynumber: 10.6 Consensus size: 49
1851526 TCGAAGATGC
* ** * * *
1851536 GAAGAATGACAATGTGCTGATTCATTGCCAGCGACATTAGACTT---GAA
1 GAAG-ATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * ** *
1851583 GAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTT-AGGAAT
1 GAAG-ATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGG-AT
*
1851633 GTTAAAGATGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGAT
1 G---AAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * ** *
1851685 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
** * * * ** * *
1851737 GAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATTGGACTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * **
1851786 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
** * * * *
1851838 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * * ** *
1851887 GAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTTTTAAAGAT
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * * *
1851936 GACGAAGGCACCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 GAAG-ATG-A-CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
* * * * * * *
1851988 GAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAC
1 GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAG--GAT
* *
1852040 GAAGGTGCCAATATGCTGATTCAAGGC
1 GAAGATGACAATATGCTGATTCAAGGC
1852067 TAGCGATATT
Statistics
Matches: 388, Mismatches: 77, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
47 36 0.09
49 152 0.39
50 10 0.03
51 5 0.01
52 179 0.46
53 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
GAAGATGACAATATGCTGATTCAAGGCCAACGACATTGGACTTAAGGAT
Found at i:1851723 original size:101 final size:101
Alignment explanation
Indices: 1851536--1852170 Score: 687
Period size: 101 Copynumber: 6.4 Consensus size: 101
1851526 TCGAAGATGC
* ** * * * *
1851536 GAAGAATGACAATGTGCTGATTCATTGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAATGTG
1 GAAG-ATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTG
** * ** * *
1851599 CTGAGACAAGGCCAACGACATTGGGCTT-AGGAATGTT
65 CTGATTCAAGGCCAGCGACATTGGTTTTAAAG-ATGAT
* * *
1851636 AAAGATGACAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1851701 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
** * * * *
1851737 GAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1851802 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
** * *
1851838 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTAC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1851903 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAC
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
*
1851939 GAAG--GCACCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGT
1 GAAGATG-A-CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGT
* * ** *
1852002 ACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAC
64 GCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
* * * * * *
1852040 GAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T--A--CGCCAAAGTGC
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
1852095 TGATTCAAGGCCAGCGACATTGGTTTT-AA-A-GA-
66 TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
* * * * *
1852127 CAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTA
1 GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1852171 TGCTAATGTG
Statistics
Matches: 477, Mismatches: 49, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
87 40 0.08
88 3 0.01
89 1 0.00
90 2 0.00
91 32 0.07
93 1 0.00
95 1 0.00
99 40 0.08
100 4 0.01
101 350 0.73
102 2 0.00
103 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (101 bp):
GAAGATGACAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAT
Found at i:1851853 original size:202 final size:201
Alignment explanation
Indices: 1851644--1852170 Score: 758
Period size: 202 Copynumber: 2.7 Consensus size: 201
1851634 TTAAAGATGA
*
1851644 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-GATGAAGGTGCCAATGTGCTGATTCAA
* *
1851709 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGGGCAGTGATATT
65 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGCGATATT
* * ** *
1851774 GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGATG
130 GGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACG
1851839 AAGGCGC
195 AAGGCGC
*
1851846 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
1851911 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCACCAATATGTTGATTCAAGGCCAGCGATATT
65 GGCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGCGATATT
1851976 GGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACG
130 GGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACG
*
1852041 AAGGTGC
195 AAGGCGC
* * * *
1852048 CAATATGCTGATTCAAGGCTAGCGATATTGGGC-T----T--A--CGCCAAAGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
*
1852104 GCCAGCGACATTGGTTTT-AA-A-GAC-AAGGTGCCAATATGCTGATTCAA-GGCTAGCGATATT
66 GCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGC-AGCGATATT
*
1852164 GGGCTTA
130 GGACTTA
1852171 TGCTAATGTG
Statistics
Matches: 300, Mismatches: 23, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
187 2 0.01
188 35 0.12
189 3 0.01
190 1 0.00
191 2 0.01
192 35 0.12
194 1 0.00
196 1 0.00
201 1 0.00
202 217 0.72
203 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (201 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGAAGGTGCCAATGTGCTGATTCAAG
GCCAGCGACATTGGTTTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGGCAGCGATATTG
GACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACGA
AGGCGC
Found at i:1852161 original size:87 final size:87
Alignment explanation
Indices: 1851993--1852605 Score: 920
Period size: 87 Copynumber: 7.0 Consensus size: 87
1851983 AAGATGAAGG
* * * *
1851993 TGCCAATGTACTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACGAAGGTGCCAATATGCTG
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
1852058 ATTCAAGGCTAGCGATATTGGGCTTA
62 ATTCAAGGCTAGCGATATTGGGCTTA
* *
1852084 CGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1852149 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * * * * *
1852171 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGACAAGGTTCCAATATGCAGATTT
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
1852236 AAGGCTAGCAATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * *
1852258 TGCCAAAGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTT
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1852323 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* *
1852345 TGCCAAAGTGCTGATTCAAGGCCAACGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1852410 AAGGCTAGCGATATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
**
1852432 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTTGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
1852497 AAGGCTAGTGGTATTGGGCTTA
66 AAGGCTAGCGATATTGGGCTTA
* * * *
1852519 TGCCAAAGTGTTGATTTAAGGCCAGCGATATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
1 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* * * *
1852584 AAGACCAACGATATTGGACTTA
66 AAGGCTAGCGATATTGGGCTTA
1852606 GAATAAGACA
Statistics
Matches: 480, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 442 0.92
88 3 0.01
89 1 0.00
90 2 0.00
91 32 0.07
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (87 bp):
TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCTAGCGATATTGGGCTTA
Found at i:1852667 original size:29 final size:30
Alignment explanation
Indices: 1852616--1852750 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 30
1852606 GAATAAGACA
1852616 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAAC-T-TGTGGGCTTTTGAAAGGGTTG
* *
1852648 -CATCAACTTGTGTGCTTTTG-AA-GGTTG
1 CCACCAACTTGTGGGCTTTTGAAAGGGTTG
*
1852675 -CACCAACTTGTGGGC-TTTGAAAGGGGTG
1 CCACCAACTTGTGGGCTTTTGAAAGGGTTG
* *
1852703 CCATCGACTTGTGGGCTTTTGAAAAGGG-TG
1 CCACCAACTTGTGGGCTTTTG-AAAGGGTTG
1852733 CCACCAACTTGTGGGCTT
1 CCACCAACTTGTGGGCTT
1852751 AAAAGGAGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.04
27 20 0.22
28 6 0.07
29 24 0.27
30 23 0.26
31 12 0.13
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (30 bp):
CCACCAACTTGTGGGCTTTTGAAAGGGTTG
Found at i:1852713 original size:56 final size:57
Alignment explanation
Indices: 1852616--1852750 Score: 175
Period size: 56 Copynumber: 2.3 Consensus size: 57
1852606 GAATAAGACA
* * *
1852616 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCATCAACTTGTGTGCTTTTG-AAGGTTG
1 CCACCAAC-T-TGTGGGC-TTTGAAAGGGGTGCATCAACTTGTGGGCTTTTGAAAGGGTG
*
1852675 -CACCAACTTGTGGGCTTTGAAAGGGGTGCCATCGACTTGTGGGCTTTTGAAAAGGGTG
1 CCACCAACTTGTGGGCTTTGAAAGGGGTG-CATCAACTTGTGGGCTTTTG-AAAGGGTG
1852733 CCACCAACTTGTGGGCTT
1 CCACCAACTTGTGGGCTT
1852751 AAAAGGAGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
55 12 0.18
56 25 0.37
57 1 0.01
58 13 0.19
59 17 0.25
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (57 bp):
CCACCAACTTGTGGGCTTTGAAAGGGGTGCATCAACTTGTGGGCTTTTGAAAGGGTG
Found at i:1852726 original size:30 final size:29
Alignment explanation
Indices: 1852617--1852750 Score: 148
Period size: 30 Copynumber: 4.6 Consensus size: 29
1852607 AATAAGACAC
*
1852617 CACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CACCAAC-T-TGTGGGCTTTTGAAAGGGGTG
* * *
1852648 CATCAACTTGTGTGCTTTTG-AA-GGTTG
1 CACCAACTTGTGGGCTTTTGAAAGGGGTG
1852675 CACCAACTTGTGGGC-TTTGAAAGGGGTG
1 CACCAACTTGTGGGCTTTTGAAAGGGGTG
* * *
1852703 CCATCGACTTGTGGGCTTTTGAAAAGGGTG
1 -CACCAACTTGTGGGCTTTTGAAAGGGGTG
1852733 CCACCAACTTGTGGGCTT
1 -CACCAACTTGTGGGCTT
1852751 AAAAGGAGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
26 4 0.04
27 20 0.22
28 6 0.07
29 24 0.27
30 29 0.33
31 6 0.07
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (29 bp):
CACCAACTTGTGGGCTTTTGAAAGGGGTG
Found at i:1852830 original size:27 final size:27
Alignment explanation
Indices: 1852799--1853662 Score: 524
Period size: 34 Copynumber: 28.9 Consensus size: 27
1852789 GAACAAGGCA
1852799 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
1852826 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGG-----G--TG
* *
1852860 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
1852887 CCACGGAGTTGTGGACTTAAAAGGAAAAAGAATG
1 CCACGGAGTTGTGGACTTAAAAGG-----G--TG
*
1852921 CCACGGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1852948 CCACGGAGTTGTAGACTCAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1852975 CCACGGACTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
*
1853009 CCATGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1853036 CCACGGAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
*
1853064 CCACGGAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
** *
1853092 TTATGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1853119 CCA-GAAAGTTGTGGACTTTGAAAAGAAAAAGGTG
1 CCACG-GAGTTGTGGAC-TT-AAAAG-----GGTG
* * * *
1853153 CTATGGAGTTATGGGCTTTGAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* *
1853187 CCACGGAGTTATGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* *
1853215 CCACGGAGTTATGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* *
1853243 CCACGGAGTTATAGACTTAAAAGAAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAAG------G-GTG
*
1853277 CCACGGAGTTGTAGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1853304 CCACGAAGTTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
* * *
1853332 CCACAGAGTTGTGGGCTTTAAAAGAGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
1853360 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
* *
1853387 CCACAGAGTTATGGACTTTGAAAAGAAAAAGGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* *
1853421 CCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTG
1 CCACGGAGTTGTGGAC-TT-AAAAG-----GGTG
* *
1853455 CCACGGAATTGTGGGCTTTAAAAGGGTG
1 CCACGGAGTTGTGGAC-TTAAAAGGGTG
** *
1853483 CCACAAAGTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
* *
1853517 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1853544 CCACGGAGTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
** *
1853578 CCACAAAGTTGTGGGCTTAAAAGGAAAAAGAGTG
1 CCACGGAGTTGTGGACTTAAAA-G-----G-GTG
* *
1853612 CCACAGAGTTGTGGGCTTAAAAGGGTG
1 CCACGGAGTTGTGGACTTAAAAGGGTG
*
1853639 CCACAGAGTTGTGGACTTAAAAGG
1 CCACGGAGTTGTGGACTTAAAAGG
1853663 AAAAAGAGTG
Statistics
Matches: 710, Mismatches: 67, Indels: 120
0.79 0.07 0.13
Matches are distributed among these distances:
26 1 0.00
27 232 0.33
28 172 0.24
29 12 0.02
32 2 0.00
33 17 0.02
34 273 0.38
35 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (27 bp):
CCACGGAGTTGTGGACTTAAAAGGGTG
Found at i:1852887 original size:61 final size:59
Alignment explanation
Indices: 1852770--1853601 Score: 632
Period size: 61 Copynumber: 13.9 Consensus size: 59
1852760 AAGATGTCGT
* *
1852770 GGAGTTGTGGACTTAAAAGGAACAAG-GCACCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAGTG--CCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
*
1852830 GGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAG--TGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1852891 GGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAG--TGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* * * * *
1852952 GGAGTTGTAGACTCAAAAGG-----GTGCCACGGACTTATGGACTTAAAAGGAAAAAGAGTGCCA
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAA-G-----G-GTGCCA
*
1853012 T
59 C
1853013 GGAGTTGTGGACTTAAAAGG-----GTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* ** * *
1853068 GGAGTTGTGGGCTTTAAAAGG-----GTGTTATGGAGTTGTGGACTTAAAAGGGTGCCA-
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* * * *
1853122 GAAAGTTGTGGACTTTGAAAA-GAAAAAGGTGCTATGGAGTTATGGGCTTTGAAAAGAAAAAGGT
1 G-GAGTTGTGGAC-TT-AAAAGGAAAAA-GTGCCACGGAGTTGTGGGC-TT-AAAAG-----GGT
1853186 GCCAC
55 GCCAC
* * *
1853191 GGAGTTATGGGCTTTAAAAGG-----GTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* * * * *
1853247 GGAGTTATAGACTTAAAAGAAAAAAGAGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAG-GAAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* * * *
1853308 GAAGTTGTGGGCTTTAAAAGG-----GTGCCACAGAGTTGTGGGCTTTAAAAGAGTGCCAC
1 GGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
* * *
1853364 GGAGTTGTGGACTTAAAAGG-----GTGCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCA
1 GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-----GGTGCCA
1853424 C
59 C
* * *
1853425 GGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCAC
1 GGAGTTGTGGAC-TT-AAAAGGAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCAC
** * *
1853487 AAAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
* **
1853548 GGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGG
1 GGAGTTGTGGACTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGG
1853602 AAAAAGAGTG
Statistics
Matches: 652, Mismatches: 67, Indels: 105
0.79 0.08 0.13
Matches are distributed among these distances:
54 22 0.03
55 96 0.15
56 76 0.12
60 31 0.05
61 282 0.43
62 87 0.13
63 11 0.02
67 9 0.01
68 37 0.06
69 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (59 bp):
GGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC
Found at i:1853230 original size:151 final size:144
Alignment explanation
Indices: 1852799--1853662 Score: 576
Period size: 151 Copynumber: 5.8 Consensus size: 144
1852789 GAACAAGGCA
* * * * * *
1852799 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCAC
1 CCACGGAGTTGTAGACTTAAAAGGGTGCCACGAACTTATGGACTTAAAAGGAAAAAGAGTGCCAT
* * * * *
1852864 AGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAATGCCACGGA
66 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGG-----G--TGCCACGGA
1852928 GTTGTGGGC-TTAAAAGGGTG
124 GTTGTGGGCTTTAAAAGGGTG
* *
1852948 CCACGGAGTTGTAGACTCAAAAGGGTGCCACGGACTTATGGACTTAAAAGGAAAAAGAGTGCCAT
1 CCACGGAGTTGTAGACTTAAAAGGGTGCCACGAACTTATGGACTTAAAAGGAAAAAGAGTGCCAT
* *
1853013 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGG
66 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCACGGAGTTGTGG
1853078 GCTTTAAAAGGGTG
131 GCTTTAAAAGGGTG
** * * * *
1853092 TTATGGAGTTGTGGACTTAAAAGGGTGCCA-GAAAGTTGTGGACTTTGAAAA-GAAAAAG-GTGC
1 CCACGGAGTTGTAGACTTAAAAGGGTGCCACG-AACTTATGGAC-TT-AAAAGGAAAAAGAGTGC
* *
1853154 TATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCAC
63 CATGGAGTTATGGAC-TT-AAAAG-----GGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCAC
*
1853219 GGAGTTATGGGCTTTAAAAGGGTG
121 GGAGTTGTGGGCTTTAAAAGGGTG
* * * * *
1853243 CCACGGAGTTATAGACTTAAAAGAAAAAAGAGTGCCACGGAGTTGTAGACTTAAAA-G-----G-
1 CCACGGAGTTGTAGACTTAAAAG------G-GTGCCACGAACTTATGGACTTAAAAGGAAAAAGA
* * * * * * *
1853301 GTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAGAGTGCCACGG
59 GTGCCATGGAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCACGG
*
1853366 AGTTGTGGAC-TTAAAAGGGTG
123 AGTTGTGGGCTTTAAAAGGGTG
* * * * * * *
1853387 CCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA
1 CCACGGAGTTGTAGAC-TT-AAAAG-----GGTGCCACGAACTTATGGAC-TT-AAAAGGAAAAA
* * * * ** *
1853451 -AGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACAAAGTTATGGAC-TTAAAAGGAAAAAGA
57 GAGTGCCATGGAGTTATGGAC-TTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAA-G-----G-
*
1853514 GTGCCACAGAGTTGTGGGC-TTAAAAGGGTG
114 GTGCCACGGAGTTGTGGGCTTTAAAAGGGTG
* * * * * *
1853544 CCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAGGAAAAAGA
1 CCACGGAGTTGTAGACTTAAAA-G-----G-GTGCCACGAACTTATGGACTTAAAAGGAAAAAGA
** * * * * *
1853609 GTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGG
59 GTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGG
1853663 AAAAAGAGTG
Statistics
Matches: 617, Mismatches: 57, Indels: 81
0.82 0.08 0.11
Matches are distributed among these distances:
143 19 0.03
144 102 0.17
145 65 0.11
146 19 0.03
149 95 0.15
150 20 0.03
151 138 0.22
155 9 0.01
156 53 0.09
157 81 0.13
158 15 0.02
159 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.22
Consensus pattern (144 bp):
CCACGGAGTTGTAGACTTAAAAGGGTGCCACGAACTTATGGACTTAAAAGGAAAAAGAGTGCCAT
GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCACGGAGTTGTGG
GCTTTAAAAGGGTG
Found at i:1853296 original size:268 final size:267
Alignment explanation
Indices: 1852878--1853506 Score: 940
Period size: 268 Copynumber: 2.4 Consensus size: 267
1852868 TTGTGGGCTT
* * * *
1852878 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAATGCCACGGAGTTGTGGGC-TTA
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
* * * * *
1852940 AAAGGGTGCCACGGAGTTGTAGACTCAAAAGGGTGCCACGGACTTATGGACTTAAAAGGAAAAAG
64 AAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGACTTATAGACTTAAAAGAAAAAAG
* * * *
1853005 AGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGG
129 AGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACAG
* ** * * *
1853070 AGTTGTGGGCTTTAAAAGGGTGTTATGGAGTTGTGGACTTAAAAGGGTGCCAGAAAGTTGTGGAC
194 AGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGAC
1853135 TTTGAAAAG
259 TTTGAAAAG
* * *
1853144 AAAAAGGTGCTATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
* *
1853209 AGGGTGCCACGGAGTTATGGGCTTTAAAAGGGTGCCACGGAGTTATAGACTTAAAAGAAAAAAGA
66 AGGGTGCCACGGAGTTATGGAC-TTAAAAGGGTGCCACGGACTTATAGACTTAAAAGAAAAAAGA
1853274 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACAGA
130 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACAGA
*
1853339 GTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACT
195 GTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACT
1853404 TTGAAAAG
260 TTGAAAAG
* * *
1853412 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
**
1853477 AGGGTGCCACAAAGTTATGGACTTAAAAGG
66 AGGGTGCCACGGAGTTATGGACTTAAAAGG
1853507 AAAAAGAGTG
Statistics
Matches: 325, Mismatches: 34, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
266 37 0.11
267 41 0.13
268 247 0.76
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.23
Consensus pattern (267 bp):
AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
AGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGACTTATAGACTTAAAAGAAAAAAGAG
TGCCACGGAGTTGTAGACTTAAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACAGAG
TTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACTT
TGAAAAG
Done.