Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 64
Found at i:1940695 original size:307 final size:307
Alignment explanation
Indices: 1940131--1941048 Score: 1416
Period size: 307 Copynumber: 3.0 Consensus size: 307
1940121 AAACTGATAT
* ** * * * * * * * * *
1940131 TTTAGGTACTAAATGCATAGTTTACTCCATAAAAAGGATTTTCAATAGATTATCATCTCATTTTG
1 TTTAGGTACTAAACGTGTAATTTAATCAATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
1940196 ATGACCGGTGAAATTGATTA-ATTATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATT
66 ATGACCGGTGAAATTGATTATA-TATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATT
*
1940260 GTAATAATGAGATTAGATATTTTAACAATAAAATTAATCATAACACTAAGATATGTATTTAAGTT
130 GTAACAATGAGATTAGATATTTTAACAATAAAATTAATCATAACACTAAGATATGTATTTAAGTT
* * * * * *
1940325 AAAAGATAACAGTGATTTCATAAAGTGATTTTAGTGGTTAAAGGGAATGTTGTCATTCTTTGAGG
195 CAAAGATAATAGTGATTTCATAAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGG
*
1940390 TCCTGGGTTCAAATATAT-CTGTATGTAGGGTGTGTATATTATCAATAG
260 TCCTGGGTTCAAACATATGC-GTATGTAGGGTGTGTATATTATCAATAG
**
1940438 TTTAGGTACTAAACGTGTAATTTAATTGATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
1 TTTAGGTACTAAACGTGTAATTTAATCAATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
1940503 ATGACCGGTGAAATTGATTATATATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATTG
66 ATGACCGGTGAAATTGATTATATATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATTG
* *
1940568 TAACAATGAGATTAAATATTTTAACAATAAAATTAATCATAACACTAAGATATGTGTTTAAGTTC
131 TAACAATGAGATTAGATATTTTAACAATAAAATTAATCATAACACTAAGATATGTATTTAAGTTC
1940633 AAAGATAATAGTGATTTCATAAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGGT
196 AAAGATAATAGTGATTTCATAAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGGT
* * *
1940698 CTTGGGTTCAAGCAGATGCGTATGTAGGGTGTGTATATTATCAATAG
261 CCTGGGTTCAAACATATGCGTATGTAGGGTGTGTATATTATCAATAG
* *
1940745 TTTAGGTACTAAATGTGTAATTTACTCAATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
1 TTTAGGTACTAAACGTGTAATTTAATCAATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
*
1940810 ATGACCGGTGAAATTG---AT-TATATTGAGATTGAAAATATGATAACGGTAAAATTAATTATTG
66 ATGACCGGTGAAATTGATTATATATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATTG
*
1940871 TAACAATGAGATTAGATATTTTAACAAAAAAATTAATCATAACACTAAGATATGTATTTAAGTTC
131 TAACAATGAGATTAGATATTTTAACAATAAAATTAATCATAACACTAAGATATGTATTTAAGTTC
* * * *
1940936 AAAGATAATAATTATTTCATCAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGAT
196 AAAGATAATAGTGATTTCATAAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGGT
* * * * *
1941001 TCTGGGTTCAAACATATGCGTCTTTATGGTGTGTATATTATCGATAG
261 CCTGGGTTCAAACATATGCGTATGTAGGGTGTGTATATTATCAATAG
1941048 T
1 T
1941049 AAAGAAATAT
Statistics
Matches: 563, Mismatches: 46, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
303 205 0.36
304 2 0.00
307 354 0.63
308 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (307 bp):
TTTAGGTACTAAACGTGTAATTTAATCAATAAAAAAGATTTTCAATAGACTAACACCGCGTTTTG
ATGACCGGTGAAATTGATTATATATATTGAGATTGAAAATAAGATAACGGTAAAATTAATTATTG
TAACAATGAGATTAGATATTTTAACAATAAAATTAATCATAACACTAAGATATGTATTTAAGTTC
AAAGATAATAGTGATTTCATAAAGTGACTTTAGTGGTTAAAGGGAATATTGTCCTCCTTTGAGGT
CCTGGGTTCAAACATATGCGTATGTAGGGTGTGTATATTATCAATAG
Found at i:1941121 original size:19 final size:18
Alignment explanation
Indices: 1941097--1941132 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1941087 TTTTACGATA
*
1941097 GAACTATAGGGTGTTTTGT
1 GAACTAAAGGGT-TTTTGT
1941116 GAACTAAAGGGTTTTTG
1 GAACTAAAGGGTTTTTG
1941133 CGAAGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.39
Consensus pattern (18 bp):
GAACTAAAGGGTTTTTGT
Found at i:1941140 original size:13 final size:13
Alignment explanation
Indices: 1941122--1941156 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1941112 TTGTGAACTA
1941122 AAGGGTTTTTGCG
1 AAGGGTTTTTGCG
1941135 AAGGGTTTTTGCG
1 AAGGGTTTTTGCG
1941148 AAGGGTTTT
1 AAGGGTTTT
1941157 CGCTGCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.37, T:0.40
Consensus pattern (13 bp):
AAGGGTTTTTGCG
Found at i:1945038 original size:19 final size:19
Alignment explanation
Indices: 1945014--1945057 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
1945004 AAGCTCCCTA
1945014 CAGCACGCTAGAACCACTG
1 CAGCACGCTAGAACCACTG
1945033 CAGCACGCTAGAACCACTG
1 CAGCACGCTAGAACCACTG
1945052 CAGCAC
1 CAGCAC
1945058 TCCAACAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.39, G:0.20, T:0.09
Consensus pattern (19 bp):
CAGCACGCTAGAACCACTG
Found at i:1951706 original size:15 final size:14
Alignment explanation
Indices: 1951686--1951736 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 14
1951676 GTAAAAATAT
1951686 AGAGAAAAAGAGGAG
1 AGAGAAAAAGA-GAG
* *
1951701 AGAGAAAAAGAAAA
1 AGAGAAAAAGAGAG
1951715 AGAGAAAAA-AGAG
1 AGAGAAAAAGAGAG
1951728 A-AGAAAAAG
1 AGAGAAAAAG
1951737 TCGAAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 10 0.32
15 11 0.35
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AGAGAAAAAGAGAG
Found at i:1951732 original size:26 final size:26
Alignment explanation
Indices: 1951686--1951759 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
1951676 GTAAAAATAT
1951686 AGAGAAAAAGAGGAGAGAGAAAAAGAAAA
1 AGAGAAAAA-A-GAGA-AGAAAAAGAAAA
***
1951715 AGAGAAAAAAGAGAAGAAAAAGTCGA
1 AGAGAAAAAAGAGAAGAAAAAGAAAA
*
1951741 AGAAAAAAAAGAG-AGAAAA
1 AGAGAAAAAAGAGAAGAAAA
1951760 TAAATCAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.15
26 21 0.51
27 4 0.10
28 1 0.02
29 9 0.22
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (26 bp):
AGAGAAAAAAGAGAAGAAAAAGAAAA
Found at i:1953973 original size:255 final size:255
Alignment explanation
Indices: 1953490--1954262 Score: 1044
Period size: 255 Copynumber: 3.0 Consensus size: 255
1953480 TTCTTACTTA
* * * *
1953490 GTAAGTCCTTCGGGACATTAGTAAGTCTTTCGAGCATTATGTTTAAATCCTTTGGGTCATCTATC
1 GTAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTC
* * *
1953555 AGTCTTTTGAGTAAGATGATAGGTCATTTGGGCTATCCGTAAGACCTTCAGGTAGGATGTTTTCA
66 AGTCTTTTGAGTAAGATGATA-GTCCTTT-GGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCA
*
1953620 CATTAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAAATAAAA
129 CATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAAATAAAA
* * *
1953685 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTGTTACCCAGTAAATTATTTCCCAAATTG
194 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* * * *
1953747 GTAAGTCCTTCGGGCCATCAGTAAGTCTCTCGAGCATGATGATTAAATCCTTTGGGTCACCTGTA
1 GTAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTC
* * * * * * * * *
1953812 AGTCTTTTAAATGAGAAGATAGTCCTTCGAGTCATCCGTATGATCTTCGGGTAGGATGTTTTCAT
66 AGTCTTTTGAGTAAGATGATAGTCCTTTG-GCCATCCGTAAGACCTTCGGGTAGGATGTTTTCAC
* * *
1953877 ATGAATTTGAAAAATGAGAAAGTGATTTCCAAAG-TTCTCATTTAGTATTTTCAAAAAATGAAAT
130 ATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAAATAAAAT
* * * *
1953941 TTTTTAATAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
195 TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* * * *
1954002 GTAAGTCTTTCGGGCAATTAGTAAGTCTTTCGAGAATGATGATATTAAATCCTTCGGGTCATCTG
1 GTAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATG--ATTAAATCCTTTGGGTCATCTG
* * **
1954067 TCAGTCTTTCGAGTAAGATGTTAAGTCCTTTGGGCCATCTATAAGACCTTCGGGTAGGATGTTTT
64 TCAGTCTTTTGAGTAAGATGAT-AGTCCTTT-GGCCATCCGTAAGACCTTCGGGTAGGATGTTTT
* * * *
1954132 CACATGATTTTTGAAAAAAGTGAGAAAGCGATTTTCAAAGTTTCTCATTTAATGTTTTCAGAAAA
127 CACATGA-ATTTG-AAAAA-TGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAAA
* *
1954197 TAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAATAAACTATTTCTCAAAT
189 TAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAT
1954262 T
254 T
1954263 AGATTATCAG
Statistics
Matches: 442, Mismatches: 65, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
255 119 0.27
256 66 0.15
257 109 0.25
258 40 0.09
259 5 0.01
260 5 0.01
261 18 0.04
262 80 0.18
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (255 bp):
GTAAGTCCTTCGGGCCATTAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGTC
AGTCTTTTGAGTAAGATGATAGTCCTTTGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
TGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATATTTTCAAAAAATAAAATT
TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
Found at i:1954662 original size:38 final size:37
Alignment explanation
Indices: 1954620--1954743 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 37
1954610 AGAAACATCG
1954620 ATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAATTCA
1 ATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAATT-A
* *
1954658 ATCTTTGTTATTCTTGACTTCCTCGCGAAGAGAAGTTG
1 ATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAA-TTA
* * *
1954696 ATCTTTCAATGTTGTTCTTAACTTCCTCGTGAAGAGAAGTAA
1 ATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAA-TTA
1954738 ATCTTT
1 ATCTTT
1954744 CAGTATTATC
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
38 37 0.50
39 4 0.05
41 2 0.03
42 31 0.42
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (37 bp):
ATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAATTA
Found at i:1954724 original size:42 final size:42
Alignment explanation
Indices: 1954625--1954745 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
1954615 CATCGATCTT
* * * *
1954625 TGTTATTCTTGACTTCCTCGTGAAGAGAATTCAATC-TT---
1 TGTTATTCTTAACTTCCTCGCGAAGAGAAGTAAATCTTTCAA
* **
1954663 TGTTATTCTTGACTTCCTCGCGAAGAGAAGTTGATCTTTCAA
1 TGTTATTCTTAACTTCCTCGCGAAGAGAAGTAAATCTTTCAA
* *
1954705 TGTTGTTCTTAACTTCCTCGTGAAGAGAAGTAAATCTTTCA
1 TGTTATTCTTAACTTCCTCGCGAAGAGAAGTAAATCTTTCA
1954746 GTATTATCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 32 0.46
39 2 0.03
42 36 0.51
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (42 bp):
TGTTATTCTTAACTTCCTCGCGAAGAGAAGTAAATCTTTCAA
Found at i:1954779 original size:45 final size:45
Alignment explanation
Indices: 1954662--1955073 Score: 320
Period size: 45 Copynumber: 9.2 Consensus size: 45
1954652 AATTCAATCT
* * * **
1954662 TTGTTATTCTTGACTTCCTCGCGAAGAGAAGTTGATCTTTCA--A
1 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
** * * *
1954705 -TGTTGTTCTTAACTTCCTCGTGAAGAGAAGTAAATCTTTCAGTA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * *
1954749 TTATCATTCTTGACTTTCTTGTGAAAAGAAGTCAATCTTTCAGTA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * * * *
1954794 TTGTAATTATGGGCTTTCTCGTGAAGAGAAGTCAATCTCTCAGTA
1 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * * * *
1954839 TTGCCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAATG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * * *
1954884 GTGTC-TTCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * * * * *
1954929 GTG-CCTTACTTAACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
* * * *
1954974 TTG-CATTCCTTGACTTTATCGCGAAGAGGAGTCAATCTTAT-AGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGAAGTCAATCTT-TCAGTA
* * * * * *
1955019 TTATC-TTCATTGACTTTCTCGGGAAGAGGAGTTAACCTTTTAGTGA
1 TTGTCATTC-TTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGT-A
1955065 -TGTCATTCT
1 TTGTCATTCT
1955074 CAACTTGATT
Statistics
Matches: 307, Mismatches: 51, Indels: 20
0.81 0.13 0.05
Matches are distributed among these distances:
42 36 0.12
44 6 0.02
45 260 0.85
46 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (45 bp):
TTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTA
Found at i:1955860 original size:134 final size:135
Alignment explanation
Indices: 1955669--1955957 Score: 384
Period size: 134 Copynumber: 2.1 Consensus size: 135
1955659 TTGATTTTTA
** *
1955669 GATTCAATCTTCCCTGAAGAGCTGTAAAGTGGATCAAAGATTTCTCAAGTTTCATCTCTCCTAAA
1 GATTCAATCTTCCCTGAAGAGCAATAAAGTGGATCAAAGATTTCTCAAGTTTCATCTCCCCTAAA
* * *
1955734 GAGTAGCGAAGTAG-ATTCTTCTTCTTTAAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCA
66 GAGTAGCGAAGAAGTATTCTTCTTCTTTAAGATTTAGTCTTCCTGAAGAGAAGTGAAGCAAATCA
1955798 AATTC
131 AATTC
* * * *
1955803 GATTCAATCTTCCCTGAAGAGCAATGAAGTGGATCAAA-AGTTTCTCGATTTTGATCTCCCCTAA
1 GATTCAATCTTCCCTGAAGAGCAATAAAGTGGATCAAAGA-TTTCTCAAGTTTCATCTCCCCTAA
* * * * *
1955867 AGAGTAGTGGAGAAGATTATTTTTCTTCTTTCAGATTTAGTCTTCTTGAAGAGAAGTGAAGCAAA
65 AGAGTAGCGAAGAAG--TATTCTTCTTCTTTAAGATTTAGTCTTCCTGAAGAGAAGTGAAGCAAA
* *
1955932 TTAATTTC
128 TCAAATTC
1955940 GATTCAATCTTCCCTGAA
1 GATTCAATCTTCCCTGAA
1955958 TAACACTGGA
Statistics
Matches: 134, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
133 1 0.01
134 67 0.50
137 66 0.49
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (135 bp):
GATTCAATCTTCCCTGAAGAGCAATAAAGTGGATCAAAGATTTCTCAAGTTTCATCTCCCCTAAA
GAGTAGCGAAGAAGTATTCTTCTTCTTTAAGATTTAGTCTTCCTGAAGAGAAGTGAAGCAAATCA
AATTC
Found at i:1972701 original size:150 final size:150
Alignment explanation
Indices: 1972430--1972727 Score: 596
Period size: 150 Copynumber: 2.0 Consensus size: 150
1972420 CGATAATACT
1972430 TTTCATGCCTCGATGCAAAATGTTCCACCCAAGTTCTCGTGAATATTCCTCCTCTTGCCTCGCAT
1 TTTCATGCCTCGATGCAAAATGTTCCACCCAAGTTCTCGTGAATATTCCTCCTCTTGCCTCGCAT
1972495 GTCTCTCCTATACATGAAGAAGGCCACGACAAGATAGACGAATATCAGCTCCTCCTCCTCTTCGT
66 GTCTCTCCTATACATGAAGAAGGCCACGACAAGATAGACGAATATCAGCTCCTCCTCCTCTTCGT
1972560 CTGAGAACACCCAAGAAAAC
131 CTGAGAACACCCAAGAAAAC
1972580 TTTCATGCCTCGATGCAAAATGTTCCACCCAAGTTCTCGTGAATATTCCTCCTCTTGCCTCGCAT
1 TTTCATGCCTCGATGCAAAATGTTCCACCCAAGTTCTCGTGAATATTCCTCCTCTTGCCTCGCAT
1972645 GTCTCTCCTATACATGAAGAAGGCCACGACAAGATAGACGAATATCAGCTCCTCCTCCTCTTCGT
66 GTCTCTCCTATACATGAAGAAGGCCACGACAAGATAGACGAATATCAGCTCCTCCTCCTCTTCGT
1972710 CTGAGAACACCCAAGAAA
131 CTGAGAACACCCAAGAAA
1972728 TCCTGCTAGA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (150 bp):
TTTCATGCCTCGATGCAAAATGTTCCACCCAAGTTCTCGTGAATATTCCTCCTCTTGCCTCGCAT
GTCTCTCCTATACATGAAGAAGGCCACGACAAGATAGACGAATATCAGCTCCTCCTCCTCTTCGT
CTGAGAACACCCAAGAAAAC
Found at i:1977231 original size:65 final size:65
Alignment explanation
Indices: 1977104--1977231 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
1977094 TAAAACATCT
*
1977104 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTC
* * *
1977169 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAATATACCTAAAACAAA-GATAAAATAT
1 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAA-AAATAATAAAATAT
1977232 GAAAATAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 5 0.09
65 49 0.86
66 3 0.05
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (65 bp):
TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTC
Found at i:1978951 original size:17 final size:17
Alignment explanation
Indices: 1978907--1978945 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
1978897 AAATGGAATG
1978907 AAATGAAATGAAAAAAACA
1 AAATGAAA--AAAAAAACA
1978926 AAATGAAAAAAAAAACA
1 AAATGAAAAAAAAAACA
1978943 AAA
1 AAA
1978946 ATAAAACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
19 8 0.40
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (17 bp):
AAATGAAAAAAAAAACA
Found at i:1981688 original size:19 final size:18
Alignment explanation
Indices: 1981669--1981717 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
1981659 GTTGTTTTTA
1981669 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
* *
1981687 AAATAAAAGAAAAATAATT
1 AAATAAAA-AATAAGAATT
1981706 AAATAAACAAAT
1 AAATAAA-AAAT
1981718 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:1982416 original size:73 final size:73
Alignment explanation
Indices: 1982346--1982484 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 73
1982336 AAACTAAATT
* * *
1982346 ACATAAAAAAT-AATATAATATTCTAAATCTTAATTAAAATACTA-ATACCTATTTAAACTAAAA
1 ACATAAAAAATAAAAATAATATCCTAAAAC-T--TTAAAATACTATA-ACCTATTTAAACTAAAA
1982409 TACCTAAAATAA
62 TACCTAAAATAA
* *
1982421 AGATAAAATATAAAAATAATATCCTAAAACTTTAAAATACTATAACCTATTTAAACTAAAATAC
1 ACATAAAAAATAAAAATAATATCCTAAAACTTTAAAATACTATAACCTATTTAAACTAAAATAC
1982485 AAAGATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
73 31 0.54
74 1 0.02
75 10 0.18
76 15 0.26
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (73 bp):
ACATAAAAAATAAAAATAATATCCTAAAACTTTAAAATACTATAACCTATTTAAACTAAAATACC
TAAAATAA
Found at i:1994351 original size:14 final size:13
Alignment explanation
Indices: 1994324--1994387 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 13
1994314 ATACATGAAT
*
1994324 TTAAAGGACTAAAA
1 TTAAAAGAC-AAAA
1994338 TTAAAAGATCAAAA
1 TTAAAAGA-CAAAA
1994352 TTAAAAGACATAAA
1 TTAAAAGACA-AAA
1994366 TTAAAAGAACCAAAAA
1 TTAAAAG-A-C-AAAA
1994382 TTAAAA
1 TTAAAA
1994388 TGATGGAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
13 2 0.05
14 29 0.66
15 2 0.05
16 10 0.23
17 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
TTAAAAGACAAAA
Found at i:1995356 original size:9 final size:9
Alignment explanation
Indices: 1995342--1995389 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
1995332 CTTAGTGACC
1995342 AAAATGAAT
1 AAAATGAAT
1995351 AAAATGAA-
1 AAAATGAAT
*
1995359 AACTTAGTGAAT
1 AA---AATGAAT
1995371 AAAATGAAT
1 AAAATGAAT
1995380 AAAATGAAT
1 AAAATGAAT
1995389 A
1 A
1995390 CTTAGTGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
8 2 0.06
9 24 0.73
11 5 0.15
12 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (9 bp):
AAAATGAAT
Found at i:1995412 original size:29 final size:29
Alignment explanation
Indices: 1995304--1995402 Score: 171
Period size: 29 Copynumber: 3.4 Consensus size: 29
1995294 AAAATTTTGG
1995304 TTAGTGACCAAAATGAATAAAATGAAAAC
1 TTAGTGACCAAAATGAATAAAATGAAAAC
1995333 TTAGTGACCAAAATGAATAAAATGAAAAC
1 TTAGTGACCAAAATGAATAAAATGAAAAC
** *
1995362 TTAGTGAATAAAATGAATAAAATGAATAC
1 TTAGTGACCAAAATGAATAAAATGAAAAC
1995391 TTAGTGACCAAA
1 TTAGTGACCAAA
1995403 GTAGATAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.23
Consensus pattern (29 bp):
TTAGTGACCAAAATGAATAAAATGAAAAC
Found at i:1999600 original size:31 final size:33
Alignment explanation
Indices: 1999543--1999603 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1999533 TAATATTCTA
* *
1999543 ATATATATTTATTTTTTTATTATTTATTTTATT
1 ATATATATATATTATTTTATTATTTATTTTATT
1999576 ATATATATATATTATTTTA-T-TTTATTTT
1 ATATATATATATTATTTTATTATTTATTTT
1999604 TCTTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 1 0.04
33 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (33 bp):
ATATATATATATTATTTTATTATTTATTTTATT
Found at i:1999661 original size:24 final size:24
Alignment explanation
Indices: 1999629--1999728 Score: 143
Period size: 24 Copynumber: 4.3 Consensus size: 24
1999619 GTAGTAATGG
1999629 TTTGATTATTTTAATAGGTAGTGA
1 TTTGATTATTTTAATAGGTAGTGA
* *
1999653 TTTGTTTATTTTAATAGGTAGTGT
1 TTTGATTATTTTAATAGGTAGTGA
* *
1999677 TTTGATCATTTTAATAGGTAGTGG
1 TTTGATTATTTTAATAGGTAGTGA
1999701 TTTGATTATTTTAATA-GT-GTG-
1 TTTGATTATTTTAATAGGTAGTGA
1999722 TTTGATT
1 TTTGATT
1999729 TAATTAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
21 7 0.10
22 3 0.04
23 2 0.03
24 58 0.83
ACGTcount: A:0.24, C:0.01, G:0.21, T:0.54
Consensus pattern (24 bp):
TTTGATTATTTTAATAGGTAGTGA
Found at i:1999836 original size:9 final size:9
Alignment explanation
Indices: 1999825--1999896 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
1999815 TTTTTGTTCT
1999825 TTTTTACTT-
1 TTTTTA-TTA
1999834 TTTTTATTTA
1 TTTTTA-TTA
*
1999844 TTTTTATTC
1 TTTTTATTA
1999853 TTTTTATT-
1 TTTTTATTA
* *
1999861 CTTTTA-AA
1 TTTTTATTA
1999869 TTTTTAATTA
1 TTTTT-ATTA
*
1999879 TTATTATTA
1 TTTTTATTA
1999888 TTTGTTATT
1 TTT-TTATT
1999897 TTTAGTCTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 9 0.18
9 25 0.50
10 16 0.32
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTTTATTA
Found at i:1999837 original size:10 final size:9
Alignment explanation
Indices: 1999809--1999865 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
1999799 CGTTTTCCCC
1999809 TTTTATTTT
1 TTTTATTTT
* *
1999818 TTGT-TCTT
1 TTTTATTTT
*
1999826 TTTTACTTT
1 TTTTATTTT
1999835 TTTTATTTAT
1 TTTTATTT-T
*
1999845 TTTTATTCT
1 TTTTATTTT
*
1999854 TTTTATTCT
1 TTTTATTTT
1999863 TTT
1 TTT
1999866 AAATTTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 6 0.15
9 25 0.64
10 8 0.21
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTTATTTT
Found at i:1999838 original size:19 final size:18
Alignment explanation
Indices: 1999809--1999865 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
1999799 CGTTTTCCCC
*
1999809 TTTTA-TTTTTTGTTCTT
1 TTTTATTTTTTTATTCTT
1999826 TTTTACTTTTTTTATT-TAT
1 TTTTA-TTTTTTTATTCT-T
1999845 TTTTATTCTTTTTATTCTT
1 TTTTATT-TTTTTATTCTT
1999864 TT
1 TT
1999866 AAATTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.74
20 1 0.03
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTTTATTCTT
Found at i:1999908 original size:26 final size:25
Alignment explanation
Indices: 1999840--1999916 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
1999830 ACTTTTTTTA
* *
1999840 TTTATTTTTATTCTTT-TTATTCTT
1 TTTATTTTTAATCTTTATTATTATT
*
1999864 TTAAATTTTTAAT-TATTATTATTATT
1 TT-TATTTTTAATCT-TTATTATTATT
* *
1999890 TGTTATTTTTAGTCTTTATTTTTATT
1 T-TTATTTTTAATCTTTATTATTATT
1999916 T
1 T
1999917 AGATAATCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.07
25 10 0.24
26 27 0.64
27 2 0.05
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTATTTTTAATCTTTATTATTATT
Found at i:1999974 original size:18 final size:18
Alignment explanation
Indices: 1999934--1999975 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1999924 CCTTTTGAGG
*
1999934 TTTTTTTAATTATTTCAT
1 TTTTTTTAATTATTACAT
*
1999952 GTTTTTTAATT-TTACTAT
1 TTTTTTTAATTATTAC-AT
1999970 TTTTTT
1 TTTTTT
1999976 CTTTTTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTTAATTATTACAT
Found at i:2000010 original size:18 final size:19
Alignment explanation
Indices: 1999977--2000016 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
1999967 TATTTTTTTC
*
1999977 TTTTTATTCATTTTTTAGTT
1 TTTTTATT-ATTTTTTACTT
1999997 TTTTTATT-TTTTTTACTT
1 TTTTTATTATTTTTTACTT
2000015 TT
1 TT
2000017 GCCTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTATTATTTTTTACTT
Found at i:2000454 original size:19 final size:19
Alignment explanation
Indices: 2000426--2000478 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
2000416 AATGCATTTC
*
2000426 ATGCATCGATGCACTTACA
1 ATGCACCGATGCACTTACA
*
2000445 ATGCACCGATGCACTTACC
1 ATGCACCGATGCACTTACA
*
2000464 ATGCACTGATGCACT
1 ATGCACCGATGCACT
2000479 AAGGATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (19 bp):
ATGCACCGATGCACTTACA
Found at i:2006499 original size:18 final size:18
Alignment explanation
Indices: 2006478--2006516 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2006468 CCCACCGTTC
*
2006478 ATCCCTCTCTCACTCTAA
1 ATCCCTCTCTCACTCAAA
* *
2006496 ATCCTTCTCTTACTCAAA
1 ATCCCTCTCTCACTCAAA
2006514 ATC
1 ATC
2006517 ATTGGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (18 bp):
ATCCCTCTCTCACTCAAA
Found at i:2006812 original size:2 final size:2
Alignment explanation
Indices: 2006805--2006834 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2006795 AATTTTTAAA
2006805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2006835 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2009142 original size:65 final size:65
Alignment explanation
Indices: 2009022--2009252 Score: 219
Period size: 65 Copynumber: 3.6 Consensus size: 65
2009012 TTTTTCAGAG
* * * * **
2009022 TGATGCACCGATGCAC-CAGTCCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACTCA-TCCATGCACCGATGCACTATGGA-TATTTTGAAACATCGAATGCA
2009085 TT
64 TT
* *
2009087 TCATGCATCGATGCACTTA-CCATGCACCGATGCA-T-TGAGA-ATTTTATGAAAACATCGAATG
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTATG-GATA-TTT-TG-AAACATCGAATG
2009148 CATT
62 CATT
* * * *
2009152 TGATGCATCGATGCAC-CATCCATGCATCGATGCACTATGGCTATTTTGAAACATTGAATGCACT
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTATGGATATTTTGAAACATCGAATGCATT
*
2009216 TGATGCATCGATGCACTC-T-TAGTGCACCGATGCACTA
1 TGATGCATCGATGCACTCATCCA-TGCACCGATGCACTA
2009253 AGGGTTCAAC
Statistics
Matches: 138, Mismatches: 16, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
61 1 0.01
62 3 0.02
63 4 0.03
64 60 0.43
65 61 0.44
66 6 0.04
67 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (65 bp):
TGATGCATCGATGCACTCATCCATGCACCGATGCACTATGGATATTTTGAAACATCGAATGCATT
Found at i:2009231 original size:17 final size:19
Alignment explanation
Indices: 2009209--2009251 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2009199 GAAACATTGA
*
2009209 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
2009226 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
2009245 ATGCACT
1 ATGCACT
2009252 AAGGGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:2015612 original size:163 final size:161
Alignment explanation
Indices: 2014928--2016072 Score: 1059
Period size: 163 Copynumber: 6.9 Consensus size: 161
2014918 TTTTAAAGAA
* * * * * *
2014928 ATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAATAAAAACCTTTGTGTTAGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* * * * *
2014993 CACTCAGCTTAAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAA
66 CACTCAGC-TCAAGACACATCATTTG-CGGATAGCTTAAGT-TAGAAGGGCTA--T-CT-ACCAA
* * * *
2015058 AGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGAAG
124 AGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* *
2015096 ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGGCC-A-AAAGACCTTCGAGTTCGA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATC--T-GCCAACAAAGACCTTTGAGTTCGA
* ** * * * * * * *
2015159 CTATGCTCAGCTCTAAGGCATATCTTTTGCAGTATAACTTAAGTTGAGAAGGGCTATTTGCCAAA
63 TTACACTCAGCTC-AAGACACATCATTTGC-GGATAGCTTAAGTT-AGAAGGGCTATCTACCAAA
* * **
2015224 CACCCTCGAGTTTGATTACACTCATATTCGAGGGCAC
125 GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * **
2015261 ATCATTTACAACATAACTTAAGGCTAGAAGGGTTATCTATC-ACAAAGACCTTTGAGTTCGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* * * *
2015325 TACTCAGCTCAACAGCACATCATTTGCAGCATAGCTTAAGTTGAGAAGGGTTATCTACCAACCAA
66 CACTCAGCTCAAGA-CACATCATTTGC-GGATAGCTTAAGTT-AGAAGGGCTATCT----ACCAA
* *
2015390 AGACCTTCGAGTTCGATTACACTCAGCCTCGAGGGCAC
124 AGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * ** *
2015428 ATCATTTGCAACATAACTCAAGGCTAAAAGGGTTATCTGCCAATAAAGACAGTTGAGTTTGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* *
2015493 CACTCAGCTCATTGACACATCATTTGCGGATAGCTCAAGGTTAGAAGGGCTATCTACCAAAGACC
66 CACTCAGCTCA-AGACACATCATTTGCGGATAGCTTAA-GTTAGAAGGGCTATCTACCAAAGACC
* * *
2015558 CTCGATTTCGATTACACTCAGCTTCAAGGGCAT
129 CTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
* * * *
2015591 ATAATTTGCATCATAACTCAAGGCTAGAAGGGTTATATGCTAACAAAGACCTTTGAGTTCGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* * * *
2015656 CACTCAGGT-AACGACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTGCCAAAGAC
66 CACTCAGCTCAA-GACACATCATTTGCGG-ATAGCTTAA-GTTAGAAGGGCTATCTACCAAAGAC
* *
2015720 CCTCGAGTTCGATTACACTCAACTTCGAGGGCAT
128 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
*
2015754 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* * * * * * * *
2015819 TACTCAGCTCAACATCATATCATTTGCGGTATAACTTAAGGCTAGATGGGTTATCTGCCAAAGA-
66 CACTCAGCTCAAGA-CACATCATTTGCGG-ATAGCTTAA-GTTAGAAGGGCTATCTACCAAAGAC
* *
2015883 CCTCTGAGTTCAATTATACTCAGC-TC-AGAGGCAC
128 CCTC-GAGTTCGATTACACTCAGCTTCGAG-GGCAC
* * * * * *
2015917 GTCATTTGCAGCATAACTCAAGTCTATAAGGGTTATATG-C-A-AAAGACCTTCGAGTTCAATTA
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
* * * * * * * *
2015979 CACTCAACTTAAAGGCACTATCATTTTCAGCATAACTTAAGTTGAGAAGGGTTATCTGCCAACCG
66 CACTCAGC-TCAAGACAC-ATCATTTGC-GGATAGCTTAAGTT-AGAAGGGCTATCT----ACCA
* * *
2016044 AAGGCCTTCGAGTTTGATTACACTCAGCT
123 AAGACCCTCGAGTTCGATTACACTCAGCT
2016073 CATAGGAAAA
Statistics
Matches: 824, Mismatches: 122, Indels: 64
0.82 0.12 0.06
Matches are distributed among these distances:
160 30 0.04
161 33 0.04
162 25 0.03
163 343 0.42
164 62 0.08
165 92 0.11
166 4 0.00
167 94 0.11
168 80 0.10
169 57 0.07
170 2 0.00
171 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (161 bp):
ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGATTA
CACTCAGCTCAAGACACATCATTTGCGGATAGCTTAAGTTAGAAGGGCTATCTACCAAAGACCCT
CGAGTTCGATTACACTCAGCTTCGAGGGCAC
Found at i:2017773 original size:15 final size:15
Alignment explanation
Indices: 2017753--2017803 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
2017743 TTCTAATATA
2017753 TATTTATTTTATTAT
1 TATTTATTTTATTAT
*
2017768 TATTTATTTTGTTAT
1 TATTTATTTTATTAT
*
2017783 ATATATTATTCTATT-T
1 -TAT-TTATTTTATTAT
2017799 TATTT
1 TATTT
2017804 TTCTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 4 0.13
17 8 0.26
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTATTTTATTAT
Found at i:2017854 original size:24 final size:24
Alignment explanation
Indices: 2017822--2017929 Score: 123
Period size: 24 Copynumber: 4.6 Consensus size: 24
2017812 ATTTTGTGGT
*
2017822 GGTAATGGTTTGATTATTTTAATA
1 GGTAGTGGTTTGATTATTTTAATA
* *
2017846 GGTAGTGGTATGTTTATTTTAATA
1 GGTAGTGGTTTGATTATTTTAATA
* * *
2017870 GATAGTGTTTTGATCATTTTAATA
1 GGTAGTGGTTTGATTATTTTAATA
* *
2017894 CGTAGTGGTTTAATTATTTTAATA
1 GGTAGTGGTTTGATTATTTTAATA
2017918 -GT-GT-GTTTGATT
1 GGTAGTGGTTTGATT
2017930 TAATTATTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
21 7 0.10
22 2 0.03
23 2 0.03
24 59 0.84
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (24 bp):
GGTAGTGGTTTGATTATTTTAATA
Found at i:2018014 original size:7 final size:7
Alignment explanation
Indices: 2018002--2018026 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2017992 GTTAATTTCG
2018002 TTTTCCC
1 TTTTCCC
2018009 TTTTCCC
1 TTTTCCC
2018016 TTTTCCC
1 TTTTCCC
2018023 TTTT
1 TTTT
2018027 ATTCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTCCC
Found at i:2018045 original size:11 final size:10
Alignment explanation
Indices: 2018031--2018055 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2018021 CCTTTTATTC
2018031 TTTTTTTTTA
1 TTTTTTTTTA
2018041 TTTTTTTTTA
1 TTTTTTTTTA
2018051 TTTTT
1 TTTTT
2018056 CTTCTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:2018194 original size:14 final size:14
Alignment explanation
Indices: 2018177--2018260 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 14
2018167 TTTAATTTAA
2018177 TATTTTTTTCTTTT
1 TATTTTTTTCTTTT
*
2018191 TATTCAGTTTTTATTTT
1 TATT---TTTTTCTTTT
2018208 TATTTTTATT-TTTT
1 TATTTTT-TTCTTTT
* **
2018222 TACTTTTACCTTTT
1 TATTTTTTTCTTTT
2018236 TACTTTATTTTCTTATT
1 TA-TTT-TTTTCTT-TT
2018253 TATATTTT
1 TAT-TTTT
2018261 CATTTATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
14 23 0.43
15 4 0.07
16 8 0.15
17 19 0.35
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (14 bp):
TATTTTTTTCTTTT
Found at i:2020281 original size:20 final size:20
Alignment explanation
Indices: 2020247--2020310 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
2020237 TTCTTTTTCC
*
2020247 TTTTCCTTATATTTTCCTTTT
1 TTTTCC-TATTTTTTCCTTTT
*
2020268 TTTTCCTATTTTTT-CATTT
1 TTTTCCTATTTTTTCCTTTT
* * *
2020287 TTCTCTCTAATTTTTCATTTT
1 TTTTC-CTATTTTTTCCTTTT
2020308 TTT
1 TTT
2020311 GTTTTTATTG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 8 0.24
20 15 0.44
21 11 0.32
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCCTATTTTTTCCTTTT
Found at i:2020309 original size:21 final size:20
Alignment explanation
Indices: 2020258--2020309 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2020248 TTTCCTTATA
* * *
2020258 TTTTCCTTTTTTTTCCTATT
1 TTTTCATTTTTTCTCCTAAT
2020278 TTTTCA-TTTTTCTCTCTAAT
1 TTTTCATTTTTTCTC-CTAAT
2020298 TTTTCATTTTTT
1 TTTTCATTTTTT
2020310 TGTTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTTTCTCCTAAT
Found at i:2028372 original size:24 final size:24
Alignment explanation
Indices: 2028345--2028416 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
2028335 ATTTCCTTAA
2028345 TGCACAAATAGTGCACCGTAGAAT
1 TGCACAAATAGTGCACCGTAGAAT
* *
2028369 TGCACATATAGTGC-CACATAGAAT
1 TGCACAAATAGTGCAC-CGTAGAAT
2028393 TGCACATAA-AGTGCTA-CGTAGAAT
1 TGCACA-AATAGTGC-ACCGTAGAAT
2028417 GTACATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (24 bp):
TGCACAAATAGTGCACCGTAGAAT
Found at i:2034808 original size:13 final size:13
Alignment explanation
Indices: 2034790--2034815 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2034780 ACACTTTCCC
2034790 ATCTTATATAATA
1 ATCTTATATAATA
2034803 ATCTTATATAATA
1 ATCTTATATAATA
2034816 TTACAACTTA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATCTTATATAATA
Found at i:2043249 original size:105 final size:105
Alignment explanation
Indices: 2043067--2043277 Score: 359
Period size: 105 Copynumber: 2.0 Consensus size: 105
2043057 TGGTACATAG
* * * *
2043067 GAAAATTTATTACCTTTGGTGTATGTTCTCAATACATAGAGAATTTAGAAAATTTTGAATTAAAC
1 GAAAATTTATCACATTGGGTGTATGTTCTCAATACATAAAGAATTTAGAAAATTTTGAATTAAAC
2043132 TCACATATTTATTAGATGTTGTAGCATATTTAGAACTAGA
66 TCACATATTTATTAGATGTTGTAGCATATTTAGAACTAGA
*
2043172 GAAAATTTATCACATTGGGTGTATGTTCTCAATACTTAAAGAATTTAGAAAATTTTGAATTAAAC
1 GAAAATTTATCACATTGGGTGTATGTTCTCAATACATAAAGAATTTAGAAAATTTTGAATTAAAC
* *
2043237 TCACATCTTTATTAGATGTTGTAGTATATTTAGAACTAGA
66 TCACATATTTATTAGATGTTGTAGCATATTTAGAACTAGA
2043277 G
1 G
2043278 GTGCCTGAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (105 bp):
GAAAATTTATCACATTGGGTGTATGTTCTCAATACATAAAGAATTTAGAAAATTTTGAATTAAAC
TCACATATTTATTAGATGTTGTAGCATATTTAGAACTAGA
Found at i:2046951 original size:19 final size:19
Alignment explanation
Indices: 2046927--2046969 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2046917 TCATTTGTTC
2046927 AGCACAAAGTTCCTGAGAA
1 AGCACAAAGTTCCTGAGAA
* *
2046946 AGCACAGAGTTTCTGAGAA
1 AGCACAAAGTTCCTGAGAA
2046965 AGCAC
1 AGCAC
2046970 TGAAGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (19 bp):
AGCACAAAGTTCCTGAGAA
Found at i:2056651 original size:119 final size:114
Alignment explanation
Indices: 2056429--2056789 Score: 372
Period size: 119 Copynumber: 3.1 Consensus size: 114
2056419 TCATCAAAGA
* * * * * *
2056429 TTTC-AATCCATCACAGAAAGAGGTAGATCAACATTTCC-GTAAGAGAGTTCATAATGAGAAGAA
1 TTTCAAATCCATCATAGAAGGAGGCATACCAACATTTCCAG-AAGAGAATTCATAATGAGAAGAA
2056492 CTCGTCCAAAAGAGAGAAAATGTTCATAATGAGAAAAACTTATTCGATCTTT
65 CTCGT-CAAAAGAGAGAAAA-GTTCATAATGAGAAAAACTTATTCGATCTTT
* * * * ** ** *
2056544 TTACTCCAGA-CCATCATAGTATGAGGTATACCAACATTTTTTAGTGGGGAATTCATAATGAGAA
1 TT--T-CAAATCCATCATAGAAGGAGGCATACCAACA-TTTCCAGAAGAGAATTCATAATGAGAA
* * *
2056608 GAACTCATCAAAAGAAGGAGAAAAGTTCATAATGAGAAGAACTTATTTGATCTTT
62 GAACTCGTCAAAAG-A-GAGAAAAGTTCATAATGAGAAAAACTTATTCGATCTTT
* * *
2056663 TTTTAAATCCATCATAGAAGGAGGCATATCAACATTTCCAGAAGAGAGTTCATAATGAGAAGAAC
1 TTTCAAATCCATCATAGAAGGAGGCATACCAACATTTCCAGAAGAGAATTCATAATGAGAAGAAC
* * *
2056728 TCGTCCAAAGATTA-AAAAGTTCATAATGAGAAAAACTTGTTCGATC-TT
66 TCGTCAAAAGA-GAGAAAAGTTCATAATGAGAAAAACTTATTCGATCTTT
*
2056776 TTTCAAACCCATCA
1 TTTCAAATCCATCA
2056790 CAAAATTAGG
Statistics
Matches: 201, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
113 14 0.07
114 29 0.14
115 4 0.02
116 35 0.17
117 24 0.12
118 28 0.14
119 59 0.29
120 8 0.04
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (114 bp):
TTTCAAATCCATCATAGAAGGAGGCATACCAACATTTCCAGAAGAGAATTCATAATGAGAAGAAC
TCGTCAAAAGAGAGAAAAGTTCATAATGAGAAAAACTTATTCGATCTTT
Found at i:2056860 original size:112 final size:113
Alignment explanation
Indices: 2056436--2056870 Score: 362
Period size: 119 Copynumber: 3.8 Consensus size: 113
2056426 AGATTTCAAT
* * *
2056436 CCATCACAGAAA-GAGGTAGATCAACATTTCC-GTAAGAGAGTTCATAATGAGAAGAACTCGTCC
1 CCATCACA-AAAGGAGGCATATCAACATTTCCAG-AAGAGAGTTCATAATGAGAAGAACTCATCC
* *
2056499 AAAAGAGAGAAAATGTTCATAATGAGAAAAACTTATTCGATCTTTTTACTCCAGA-
64 -AAAGA-A-AAAAAGTTCATAATGAGAAAAACTTATTCGATCTTTTT--T-CAAAC
* ** * * * ** ** * * *
2056554 CCATCATAGTATGAGGTATACCAACATTTTTTAGTGGGGAATTCATAATGAGAAGAACTCATCAA
1 CCATCACAAAAGGAGGCATATCAACA-TTTCCAGAAGAGAGTTCATAATGAGAAGAACTCATCCA
* * * *
2056619 AAGAAGGAGAAAAGTTCATAATGAGAAGAACTTATTTGATCTTTTTTTAAAT
65 AAGAA--A-AAAAGTTCATAATGAGAAAAACTTATTCGATCTTTTTTCAAAC
* * *
2056671 CCATCATAGAAGGAGGCATATCAACATTTCCAGAAGAGAGTTCATAATGAGAAGAACTCGTCCAA
1 CCATCACAAAAGGAGGCATATCAACATTTCCAGAAGAGAGTTCATAATGAGAAGAACTCATCCAA
* *
2056736 AGATTAAAAAGTTCATAATGAGAAAAACTTGTTCGATC-TTTTTCAAAC
66 AGA-AAAAAAGTTCATAATGAGAAAAACTTATTCGATCTTTTTTCAAAC
** * * *
2056784 CCATCACAAAATTAGGTGA-ATCAACATTTTCA-ACAG-GAGTTCATAATGAGAAGAACTCACCC
1 CCATCACAAAAGGAGG-CATATCAACATTTCCAGA-AGAGAGTTCATAATGAGAAGAACTCATCC
* *
2056846 AAGGAAAAAGAAGTTTATATATGAG
64 AAAGAAAAA-AAGTTCATA-ATGAG
2056871 TGTTTGTTAA
Statistics
Matches: 259, Mismatches: 47, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
111 3 0.01
112 37 0.14
113 39 0.15
114 30 0.12
115 1 0.00
116 36 0.14
117 25 0.10
118 26 0.10
119 61 0.24
120 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (113 bp):
CCATCACAAAAGGAGGCATATCAACATTTCCAGAAGAGAGTTCATAATGAGAAGAACTCATCCAA
AGAAAAAAAGTTCATAATGAGAAAAACTTATTCGATCTTTTTTCAAAC
Found at i:2057090 original size:2 final size:2
Alignment explanation
Indices: 2057083--2057120 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2057073 TAAACTCATA
2057083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2057121 CAAACAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2064178 original size:19 final size:19
Alignment explanation
Indices: 2064136--2064172 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2064126 TCTTGTTTTA
* *
2064136 ATTTACAATCCATCATGTT
1 ATTTACAATCCATCAGGGT
2064155 ATTTACAATCCATCAGGG
1 ATTTACAATCCATCAGGG
2064173 GTTTTAACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
ATTTACAATCCATCAGGGT
Found at i:2067493 original size:74 final size:74
Alignment explanation
Indices: 2067375--2067792 Score: 595
Period size: 74 Copynumber: 5.6 Consensus size: 74
2067365 AAAATTTATC
* * * *
2067375 TCACTTAAGATTGTTTTTCTTTAAAACCAGATTTCTCTCGCTTGAGACAATTTTTACTCGAAATA
1 TCACTCAAGATTG--TTT-TTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGA
2067440 AGACATTTCATT
63 AGACATTTCATT
* * *
2067452 TCACTAAAGATTGTTTTTTAAAATAATATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGA
1 TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGA
*
2067517 AATTTCATT
66 CATTTCATT
* * * *
2067526 TAACTCAAGATTATTTTTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCAAAATAAGA
1 TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGA
2067591 CATTTCATT
66 CATTTCATT
*
2067600 TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTTGCTTGAGACAATTTTTACTCGAAAGAAGA
1 TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGA
2067665 CATTTCATT
66 CATTTCATT
* * * *
2067674 TCACTCAAGATTATTTTTCCTAAAACAAGATTTGTCTCGCTTGAGACAGTTTTTACTTGAAAGAT
1 TCACTCAAGATTGTTTTT--TAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAA
*
2067739 GACATTTTATT
64 GACATTTCATT
* * *
2067750 TCACCCAAGATTG-TTTTTAAAACAAGATTTATTTCGCTTGAGA
1 TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTCGCTTGAGA
2067793 TAGTTTCAAT
Statistics
Matches: 309, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
73 24 0.08
74 204 0.66
75 7 0.02
76 62 0.20
77 12 0.04
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (74 bp):
TCACTCAAGATTGTTTTTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGA
CATTTCATT
Found at i:2067826 original size:39 final size:38
Alignment explanation
Indices: 2067773--2067875 Score: 152
Period size: 39 Copynumber: 2.7 Consensus size: 38
2067763 TTTTTAAAAC
* *
2067773 AAGATTTATTTCGCTTGAGATAGTTTCAATGGAAACAG
1 AAGATTTATCTCGCTTGAGATAGTTTCAATCGAAACAG
*
2067811 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGA-TTTATCTCGCTTGAGATAGTTTCAATCGAAACAG
* *
2067850 AAGATTTATCTCACTTGAGATTGTTT
1 AAGATTTATCTCGCTTGAGATAGTTT
2067876 TTCTTAAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 24 0.41
39 35 0.59
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (38 bp):
AAGATTTATCTCGCTTGAGATAGTTTCAATCGAAACAG
Found at i:2068174 original size:135 final size:135
Alignment explanation
Indices: 2067914--2068294 Score: 437
Period size: 135 Copynumber: 2.8 Consensus size: 135
2067904 GGGATTATAT
* * * *
2067914 TTTCAAATGGAGAGTTTATATTGAGAAGAACTCATCCGACAAAGGGAAAATAAGTTCATAATGAG
1 TTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCGACAAA-GGAAAAAAAGTTCATAATGAG
* * * * * * ** *
2067979 AAGATCTTGTTTGACCAATCGCTCGATTCATG-TCATTTCGAATCAGTGATGCATCTCTTGAGGA
65 AAGAGCTTGTTCGACCTATCACTTGATTCACGAT-ATTTCGAATCAACGACGCATCTCTTGAGGA
2068043 ATTAACA
129 ATTAACA
* * *
2068050 TTTC-AATGGAGAGTTCATAATGAGAAAAACTCATCCGAGAAAGGAATAAGAAGTTTATAATGAG
1 TTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCGACAAAGGAA-AAAAAGTTCATAATGAG
* * *
2068114 AAGAGCTTGTTCGATCTATCACTTGATTCACGATATTTCGAATCAACGACGCCT-TGCTTGAGGG
65 AAGAGCTTGTTCGACCTATCACTTGATTCACGATATTTCGAATCAACGACGCATCT-CTTGAGGA
2068178 ATTAACA
129 ATTAACA
* * * * *
2068185 CTTCAAATGGAGAGTTCATAATTAGAAGAAA-TCATTCGACATAGGGAGAAAAAGTTCATAATGA
1 TTTCAAATGGAGAGTTCATAATGAGAA-AAACTCATCCGACA-AAGGAAAAAAAGTTCATAATGA
* * *
2068249 GAAGAGCTTGTTCGACCTATAACTTGATTCTCGACATTTCGAATCA
64 GAAGAGCTTGTTCGACCTATCACTTGATTCACGATATTTCGAATCA
2068295 GGAACGCCTC
Statistics
Matches: 209, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
134 5 0.02
135 107 0.51
136 90 0.43
137 7 0.03
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (135 bp):
TTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCGACAAAGGAAAAAAAGTTCATAATGAGA
AGAGCTTGTTCGACCTATCACTTGATTCACGATATTTCGAATCAACGACGCATCTCTTGAGGAAT
TAACA
Found at i:2068302 original size:136 final size:134
Alignment explanation
Indices: 2067893--2068321 Score: 449
Period size: 136 Copynumber: 3.2 Consensus size: 134
2067883 AACTATCTAT
* * * *
2067893 GCCTCGCTTGAGGGATTATA-TTTTCAAATGGAGAGTTTAT-ATTGAGAAGAACTCATCCGACAA
1 GCCTTGCTTGAGGGATTA-ACATTTCAAATGGAGAGTTCATAATT-AGAAGAAATCATCCGACAA
* * * * * *
2067956 AGGGAAAATAAGTTCATAATGAGAAGATCTTGTTTGACCAATCGCTCGATTCAT-GTCATTTCGA
64 AGGGAAAA-AAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTTGATTC-TCGACATTTCGA
*
2068020 ATCAGTGAT
127 ATCAG-GAC
* * * *
2068029 GCATCT-CTTGAGGAATTAACATTTC-AATGGAGAGTTCATAATGAGAA-AAACTCATCCGAGAA
1 GCCT-TGCTTGAGGGATTAACATTTCAAATGGAGAGTTCATAATTAGAAGAAA-TCATCCGACAA
* * * *
2068091 A-GGAATAAGAAGTTTATAATGAGAAGAGCTTGTTCGATCTATCACTTGATTCACGATATTTCGA
64 AGGGAA-AA-AAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTTGATTCTCGACATTTCGA
*
2068155 ATCAACGAC
127 ATC-AGGAC
* * *
2068164 GCCTTGCTTGAGGGATTAACACTTCAAATGGAGAGTTCATAATTAGAAGAAATCATTCGACATAG
1 GCCTTGCTTGAGGGATTAACATTTCAAATGGAGAGTTCATAATTAGAAGAAATCATCCGACAAAG
*
2068229 GGAGAAAAAGTTCATAATGAGAAGAGCTTGTTCGACCTATAACTTGATTCTCGACATTTCGAATC
66 GGA-AAAAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTTGATTCTCGACATTTCGAATC
2068294 AGGAAC
130 AGG-AC
** * *
2068300 GCCTCACTTGAAGGATCAACAT
1 GCCTTGCTTGAGGGATTAACAT
2068322 CTCACTTGAG
Statistics
Matches: 241, Mismatches: 39, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
134 7 0.03
135 102 0.42
136 123 0.51
137 8 0.03
138 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (134 bp):
GCCTTGCTTGAGGGATTAACATTTCAAATGGAGAGTTCATAATTAGAAGAAATCATCCGACAAAG
GGAAAAAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTTGATTCTCGACATTTCGAATCA
GGAC
Found at i:2068376 original size:39 final size:39
Alignment explanation
Indices: 2068320--2068489 Score: 193
Period size: 39 Copynumber: 4.4 Consensus size: 39
2068310 AAGGATCAAC
*
2068320 ATCTCACTTGAGGTAGTTTCATTCGAAACAAAAGATTTT
1 ATCTCACTTGAGATAGTTTCATTCGAAACAAAAGATTTT
* **
2068359 ATCTCACTTCAGATAGTTTCACTT-GAAACTGAAGATTTTT
1 ATCTCACTTGAGATAGTTTCA-TTCGAAACAAAAGA-TTTT
* * *
2068399 ATCTAACTTGAGATAGTTTCACTCGAAACAAAAGACTTT
1 ATCTCACTTGAGATAGTTTCATTCGAAACAAAAGATTTT
* * * *
2068438 ATCTC-GTCGGAGATAGTTTCAGTCGAAATAAAAGA-TTT
1 ATCTCACT-TGAGATAGTTTCATTCGAAACAAAAGATTTT
2068476 ATCTCACTTGAGAT
1 ATCTCACTTGAGAT
2068490 TGTTGTTCTT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 14 0.13
39 61 0.56
40 34 0.31
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (39 bp):
ATCTCACTTGAGATAGTTTCATTCGAAACAAAAGATTTT
Found at i:2068473 original size:79 final size:76
Alignment explanation
Indices: 2068320--2068489 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 76
2068310 AAGGATCAAC
* * * * *
2068320 ATCTCACTTGAGGTAGTTTCATTCGAAACAAAAGATTTTATCTCACTTCAGATAGTTTCACTTGA
1 ATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTTATCT-ACGTCAGATAGTTTCACTCGA
*
2068385 AACTGAAGATTTTT
65 AACTAAAGA--TTT
* *
2068399 ATCTAACTTGAGATAGTTTCACTCGAAACAAAAGACTTTATCT-CGTCGGAGATAGTTTCAGTCG
1 ATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTTATCTACGTC--AGATAGTTTCACTCG
2068463 AAA-TAAAAGATTT
64 AAACT-AAAGATTT
2068476 ATCTCACTTGAGAT
1 ATCTCACTTGAGAT
2068490 TGTTGTTCTT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
77 19 0.24
78 1 0.01
79 59 0.75
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTCACTTGAGATAGTTTCACTCGAAACAAAAGACTTTATCTACGTCAGATAGTTTCACTCGAA
ACTAAAGATTT
Found at i:2068891 original size:21 final size:21
Alignment explanation
Indices: 2068849--2068917 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
2068839 ACCTGAAAAT
2068849 AAACCCGACCCAATCTAAAACCCA
1 AAACCCGACCCAA---AAAACCCA
* *
2068873 AAACCTGACCCAAAAAACCCG
1 AAACCCGACCCAAAAAACCCA
2068894 AAACCCGACCCAAAAAACCCA
1 AAACCCGACCCAAAAAACCCA
2068915 AAA
1 AAA
2068918 ATTGACCTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 29 0.71
24 12 0.29
ACGTcount: A:0.51, C:0.39, G:0.06, T:0.04
Consensus pattern (21 bp):
AAACCCGACCCAAAAAACCCA
Found at i:2071944 original size:17 final size:17
Alignment explanation
Indices: 2071918--2071960 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2071908 TGGTAGAGTG
* * *
2071918 TTGGCATGGAGTGGAGC
1 TTGGCGTGGACTGGAAC
2071935 TTGGCGTGGACTGGAAC
1 TTGGCGTGGACTGGAAC
2071952 TTGGCGTGG
1 TTGGCGTGG
2071961 CCCTCCTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.47, T:0.26
Consensus pattern (17 bp):
TTGGCGTGGACTGGAAC
Found at i:2073709 original size:15 final size:14
Alignment explanation
Indices: 2073686--2073737 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
2073676 AAAATGCATG
*
2073686 AATTTAAAGGACTAA
1 AATTAAAAGG-CTAA
2073701 AATTAAAA-GCTCAA
1 AATTAAAAGGCT-AA
2073715 AATTAAAAGGC-AGA
1 AATTAAAAGGCTA-A
2073729 AATTAAAAG
1 AATTAAAAG
2073738 AACGGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.09
14 21 0.64
15 9 0.27
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (14 bp):
AATTAAAAGGCTAA
Found at i:2077047 original size:46 final size:46
Alignment explanation
Indices: 2076987--2077088 Score: 141
Period size: 46 Copynumber: 2.2 Consensus size: 46
2076977 TGTGCACGTA
* *
2076987 GTAATGTAATTTTGGTACTATTGTGCACAGTTTCATGGAGTGCATG
1 GTAATGTGATTTTGGTACTATTGTGCACAATTTCATGGAGTGCATG
* * **
2077033 GTAATGTGATTTTGGTACTATTGTGCGCAATTTCATTGAGTGTGTG
1 GTAATGTGATTTTGGTACTATTGTGCACAATTTCATGGAGTGCATG
*
2077079 ATAATGTGAT
1 GTAATGTGAT
2077089 CTTTTTACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (46 bp):
GTAATGTGATTTTGGTACTATTGTGCACAATTTCATGGAGTGCATG
Found at i:2079343 original size:16 final size:17
Alignment explanation
Indices: 2079326--2079380 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
2079316 TCTTTGATCT
2079326 TTTTCTTCTTTTTCCT-
1 TTTTCTTCTTTTTCCTA
* *
2079342 TTTCCCTATATTTTTCCTA
1 TTT-TCT-TCTTTTTCCTA
*
2079361 TTTT-TTCATTTTCCTA
1 TTTTCTTCTTTTTCCTA
2079377 TTTT
1 TTTT
2079381 TATTTTTCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 16 0.52
17 3 0.10
18 9 0.29
19 3 0.10
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCTTCTTTTTCCTA
Found at i:2079381 original size:16 final size:16
Alignment explanation
Indices: 2079353--2079406 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
2079343 TTCCCTATAT
2079353 TTTTCCTATTTTTTCA
1 TTTTCCTATTTTTTCA
*
2079369 TTTTCCTATTTTTAT-T
1 TTTTCCTATTTTT-TCA
2079385 TTTCTCTCTATTTTTTCA
1 TTT-TC-CTATTTTTTCA
2079403 TTTT
1 TTTT
2079407 TTTATTCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 16 0.50
17 5 0.16
18 11 0.34
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCCTATTTTTTCA
Found at i:2081038 original size:16 final size:15
Alignment explanation
Indices: 2081017--2081046 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2081007 GAATTTGGTC
2081017 TCATCTCAAGATATTT
1 TCATCTCAA-ATATTT
2081033 TCATCTCAAATATT
1 TCATCTCAAATATT
2081047 CTTTCTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.43
Consensus pattern (15 bp):
TCATCTCAAATATTT
Found at i:2091818 original size:33 final size:33
Alignment explanation
Indices: 2091781--2091848 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
2091771 GGGTCAGGTT
2091781 AATTTCAGTTCAGATCGATATTAGTTCAAGTCA
1 AATTTCAGTTCAGATCGATATTAGTTCAAGTCA
* *
2091814 AATTTCATTTCAGATCGATGTTAGTTCAAGTCA
1 AATTTCAGTTCAGATCGATATTAGTTCAAGTCA
2091847 AA
1 AA
2091849 ACGATTTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
AATTTCAGTTCAGATCGATATTAGTTCAAGTCA
Found at i:2093740 original size:20 final size:20
Alignment explanation
Indices: 2093715--2093765 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2093705 CACGAAATGT
2093715 AAGATTATCAGTGATAATAA
1 AAGATTATCAGTGATAATAA
2093735 AAGATTATCAGTGATAATAA
1 AAGATTATCAGTGATAATAA
2093755 AAGATTATCAG
1 AAGATTATCAG
2093766 AGAATAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (20 bp):
AAGATTATCAGTGATAATAA
Found at i:2093997 original size:36 final size:36
Alignment explanation
Indices: 2093926--2093998 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
2093916 GTTGAAAAAT
* *
2093926 ATTTATATATATTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATATTTTTTAAAAATTGAAAATCATAAA
2093962 ATTTATATA-ATTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATATATA-TTTTTTA-AAAATTGAAAATCATAAA
2093998 A
1 A
2093999 AGCTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 1 0.03
36 22 0.67
37 10 0.30
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATATTTTTTAAAAATTGAAAATCATAAA
Found at i:2095436 original size:13 final size:13
Alignment explanation
Indices: 2095418--2095443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2095408 ACACTTTCCC
2095418 ATCTTATATAATA
1 ATCTTATATAATA
2095431 ATCTTATATAATA
1 ATCTTATATAATA
2095444 TTACAACTTA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATCTTATATAATA
Found at i:2097609 original size:19 final size:19
Alignment explanation
Indices: 2097582--2097619 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2097572 AGGAAGAGAT
*
2097582 CAAAGTCGA-TCGAAGTCC
1 CAAAGTCGAGACGAAGTCC
2097600 CAAAGATCGAGACGAAGTCC
1 CAAAG-TCGAGACGAAGTCC
2097620 AAGAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (19 bp):
CAAAGTCGAGACGAAGTCC
Found at i:2103215 original size:105 final size:105
Alignment explanation
Indices: 2103033--2103239 Score: 369
Period size: 105 Copynumber: 2.0 Consensus size: 105
2103023 ACATAGGAAC
** ** *
2103033 ATTTATTACCTTGGGTGTATGTTCTCAATACTTGGAGAATTTAGAAAATTTTGAATTAAACTCAC
1 ATTTATTACAATGGGTGTATGTTCTCAATACTTAAAGAATTTAGAAAAATTTGAATTAAACTCAC
2103098 ATCTTTATTAGATGTTGTAGCATATTTAGAACTAGAGAAA
66 ATCTTTATTAGATGTTGTAGCATATTTAGAACTAGAGAAA
2103138 ATTTATTACAATGGGTGTATGTTCTCAATACTTAAAGAATTTAGAAAAATTTGAATTAAACTCAC
1 ATTTATTACAATGGGTGTATGTTCTCAATACTTAAAGAATTTAGAAAAATTTGAATTAAACTCAC
2103203 ATCTTTATTAGATGTTGTAGCATATTTAGAACTAGAG
66 ATCTTTATTAGATGTTGTAGCATATTTAGAACTAGAG
2103240 GTGCCTGAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (105 bp):
ATTTATTACAATGGGTGTATGTTCTCAATACTTAAAGAATTTAGAAAAATTTGAATTAAACTCAC
ATCTTTATTAGATGTTGTAGCATATTTAGAACTAGAGAAA
Found at i:2114222 original size:90 final size:89
Alignment explanation
Indices: 2114070--2114242 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 89
2114060 ACACACCCTT
2114070 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
2114135 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
2114159 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
2114224 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
2114243 TTTAGGATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 30 0.38
90 50 0.62
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:2119624 original size:2 final size:2
Alignment explanation
Indices: 2119619--2119659 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2119609 TATAAGTGTG
2119619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2119660 TACTTATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2119895 original size:2 final size:2
Alignment explanation
Indices: 2119883--2119937 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
2119873 ACATGTACGA
*
2119883 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2119925 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2119938 CATAAAGGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2121717 original size:13 final size:13
Alignment explanation
Indices: 2121698--2121737 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
2121688 TTTATTTATG
2121698 ATAATAATAATTA
1 ATAATAATAATTA
*
2121711 TTAATAATAA-TA
1 ATAATAATAATTA
2121723 ATAATTAATAATTA
1 ATAA-TAATAATTA
2121737 A
1 A
2121738 AATCGGGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 15 0.65
14 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:2121719 original size:16 final size:16
Alignment explanation
Indices: 2121698--2121734 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2121688 TTTATTTATG
*
2121698 ATAATAATAATTATTA
1 ATAATAATAATAATTA
2121714 ATAATAATAATAATTA
1 ATAATAATAATAATTA
2121730 ATAAT
1 ATAAT
2121735 TAAAATCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATAATAATAATTA
Found at i:2121720 original size:19 final size:19
Alignment explanation
Indices: 2121698--2121734 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2121688 TTTATTTATG
*
2121698 ATAATAATAATTATTAATA
1 ATAATAATAATTAATAATA
2121717 ATAATAATAATTAATAAT
1 ATAATAATAATTAATAAT
2121735 TAAAATCGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATAATAATTAATAATA
Found at i:2122384 original size:104 final size:103
Alignment explanation
Indices: 2122150--2122387 Score: 260
Period size: 104 Copynumber: 2.3 Consensus size: 103
2122140 ATGACACTAA
* * * * * *
2122150 TCATCCATGTTGAAGAGTTATGACTGCTTTCATATGACGATGTTCCTTCTAGTTGAGGAAGTCAA
1 TCATCCATGTTGAAGAGTTCTGTC-GCTTTCATATAACGATGTTCCATATAGTTGAGGAAATCAA
* * * * *
2122215 GTCAATCCGGAGATAATATGGTGTTGAAGATAACATTGT
65 GTAAATCCGGAGATAATATAGTGTTGAAGACAACACTGC
* * * * **
2122254 TCGTCCATGTTGAAAAGTCCTAGTCGCTTTCATATAACGTTGTTCCATATAGTTGAGGAAATCTG
1 TCATCCATGTTGAAGAGTTCT-GTCGCTTTCATATAACGATGTTCCATATAGTTGAGGAAATCAA
* * *
2122319 GTAAATTCGGAGATAATATAGTGTTGAAGACGATACTGC
65 GTAAATCCGGAGATAATATAGTGTTGAAGACAACACTGC
*
2122358 TCATCCATGTTGAAGACTTCTGGTCGCTTT
1 TCATCCATGTTGAAGAGTTCT-GTCGCTTT
2122388 TAGGTAAATC
Statistics
Matches: 108, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
104 106 0.98
105 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (103 bp):
TCATCCATGTTGAAGAGTTCTGTCGCTTTCATATAACGATGTTCCATATAGTTGAGGAAATCAAG
TAAATCCGGAGATAATATAGTGTTGAAGACAACACTGC
Found at i:2125293 original size:12 final size:11
Alignment explanation
Indices: 2125273--2125433 Score: 99
Period size: 11 Copynumber: 14.7 Consensus size: 11
2125263 CGCCTTTCAA
*
2125273 TTTTCTTTTCC
1 TTTTCTTTTTC
2125284 TTTTCTTTTTC
1 TTTTCTTTTTC
2125295 TTTAT-TTTTCTC
1 TTT-TCTTTT-TC
2125307 TTTTCTCTTTTC
1 TTTTCT-TTTTC
*
2125319 TTTCTTTTTTTC
1 TTT-TCTTTTTC
2125331 TCTTTCTTTTTC
1 T-TTTCTTTTTC
2125343 --TT-TTTTTC
1 TTTTCTTTTTC
*
2125351 ATTTCTTATTT-
1 TTTTCTT-TTTC
2125362 TTCTT-TTTTTC
1 TT-TTCTTTTTC
* **
2125373 CTTTCTCATTC
1 TTTTCTTTTTC
*
2125384 TTTTATTCTTT-
1 TTTTCTT-TTTC
*
2125395 TATTC-TTTTC
1 TTTTCTTTTTC
2125405 -TTTCTTTTTC
1 TTTTCTTTTTC
2125415 TTTT-TTTTCTC
1 TTTTCTTTT-TC
2125426 TTTTCTTT
1 TTTTCTTT
2125434 CTTTTTTATT
Statistics
Matches: 117, Mismatches: 14, Indels: 37
0.70 0.08 0.22
Matches are distributed among these distances:
8 6 0.05
9 8 0.07
10 17 0.15
11 44 0.38
12 35 0.30
13 7 0.06
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:2125312 original size:7 final size:6
Alignment explanation
Indices: 2125273--2125447 Score: 73
Period size: 6 Copynumber: 28.3 Consensus size: 6
2125263 CGCCTTTCAA
* *
2125273 TTTTC- TTTTCC TTTTCT TTTTC- -TTTAT TTTTCT CTTTTCT CTTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT -TTTTCT
* *
2125320 TTCTT-T TTTTCT CTTTCT TTTTCTTT TTTTCAT TTCTTAT TTTTCT TTTT-T
1 TT-TTCT TTTTCT TTTTCT TTTTC--T TTTTC-T TT-TTCT TTTTCT TTTTCT
**
2125371 TCCTTTCT CATTCTT TTATTCT TTTAT-T CTTTTC- -TTTCT TTTTCT
1 T--TTTCT TTTTC-T TT-TTCT TTT-TCT -TTTTCT TTTTCT TTTTCT
* *
2125416 TTTT-T TTCTC- TTTTCT TTCTTTT TTATTCT TT
1 TTTTCT TTTTCT TTTTCT TT-TTCT TT-TTCT TT
2125448 GAGTGTAGTC
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
4 7 0.05
5 17 0.13
6 53 0.40
7 42 0.32
8 12 0.09
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:2125318 original size:41 final size:40
Alignment explanation
Indices: 2125273--2125431 Score: 141
Period size: 38 Copynumber: 4.0 Consensus size: 40
2125263 CGCCTTTCAA
*
2125273 TTTTCTTTTCCTTTTCTTTTTCTTTATTTTTCTCTTTTCTC
1 TTTTCTTTT-CTTTTCTTTTTCTTTCTTTTTCTCTTTTCTC
* *
2125314 TTTTC-TTTCTTTT-TTTCTCTTTCTTTTTCT-TTTTTTC
1 TTTTCTTTTCTTTTCTTTTTCTTTCTTTTTCTCTTTTCTC
* * ** * *
2125351 ATTTCTTATT-TTTCTTTTTTTCCTTTCTCATTCTTTTATTCTT
1 TTTTCTT-TTCTTT-TCTTTTT-CTTTCTTTTTCTCTT-TTCTC
2125394 TTATTCTTTTC-TTTCTTTTTCTTT-TTTTTCTCTTTTCT
1 TT-TTCTTTTCTTTTCTTTTTCTTTCTTTTTCTCTTTTCT
2125432 TTCTTTTTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
37 10 0.11
38 19 0.20
39 12 0.13
40 14 0.15
41 19 0.20
42 8 0.08
43 8 0.08
44 5 0.05
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (40 bp):
TTTTCTTTTCTTTTCTTTTTCTTTCTTTTTCTCTTTTCTC
Found at i:2125329 original size:19 final size:19
Alignment explanation
Indices: 2125307--2125440 Score: 106
Period size: 18 Copynumber: 7.2 Consensus size: 19
2125297 TATTTTTCTC
2125307 TTTTCTCTTTTCTTTCTTT
1 TTTTCTCTTTTCTTTCTTT
*
2125326 TTTTCTCTTTCTTTTTCTTT
1 TTTTCTCTTT-TCTTTCTTT
2125346 TTTTCATTTCTTATT-TTTCTTT
1 TTTTC---TCTT-TTCTTTCTTT
*
2125368 TTTTC-CTTTCTCATTC-TT
1 TTTTCTCTTT-TCTTTCTTT
* *
2125386 TTAT-TCTTTT-ATTCTTT
1 TTTTCTCTTTTCTTTCTTT
2125403 TCTTTCT-TTTTC--T-TTT
1 T-TTTCTCTTTTCTTTCTTT
2125419 TTTTCTCTTTTCTTTCTTT
1 TTTTCTCTTTTCTTTCTTT
2125438 TTT
1 TTT
2125441 ATTCTTTGAG
Statistics
Matches: 95, Mismatches: 4, Indels: 32
0.73 0.03 0.24
Matches are distributed among these distances:
15 5 0.05
16 13 0.14
17 6 0.06
18 20 0.21
19 20 0.21
20 13 0.14
22 12 0.13
23 5 0.05
24 1 0.01
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTCTTTTCTTTCTTT
Found at i:2125330 original size:53 final size:52
Alignment explanation
Indices: 2125273--2125440 Score: 146
Period size: 60 Copynumber: 3.1 Consensus size: 52
2125263 CGCCTTTCAA
*
2125273 TTTTCTTTTCCTTTTCTTTTTCTTTATTTTTCTCTTTTCTCTTTTCTTTCTTT
1 TTTTCTTTTCATTTTCTTTTTCTTTATTTTTCT-TTTTCTCTTTTCTTTCTTT
* * *
2125326 TTTTCTCTTTCTTTTTCTTTTTTTCATTTCTTATTTTTCTTTTTTTCCTTTCTCATTCTTT
1 TTTTCT-TTTCATTTTC--TTTTTC---T-TTATTTTTCTTTTTCT-CTTT-TCTTTCTTT
*
2125387 TATTCTTTT-ATTCTT-TTCTTTCTTT-TTCTTT-TTTTTCTCTTTTCTTTCTTT
1 TTTTCTTTTCATT-TTCTT-TTTCTTTATT-TTTCTTTTTCTCTTTTCTTTCTTT
2125438 TTT
1 TTT
2125441 ATTCTTTGAG
Statistics
Matches: 95, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
51 10 0.11
52 4 0.04
53 14 0.15
54 14 0.15
55 1 0.01
56 6 0.06
57 2 0.02
58 4 0.04
59 8 0.08
60 19 0.20
61 13 0.14
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (52 bp):
TTTTCTTTTCATTTTCTTTTTCTTTATTTTTCTTTTTCTCTTTTCTTTCTTT
Found at i:2125340 original size:59 final size:61
Alignment explanation
Indices: 2125274--2125431 Score: 177
Period size: 59 Copynumber: 2.6 Consensus size: 61
2125264 GCCTTTCAAT
* *
2125274 TTTCTTTTCCTTTTCTTTTTCTTTATTTTTCTCTTTTCT-CTTT-TCTTTCTTTTTTTC-TC
1 TTTCTTTT-CTTTTCTTTTTCTTTATTTTTCTCTTTTCTCCTTTCTCATTCTTTTATTCTTC
* * *
2125333 TTTCTTTTTCTTTTTTTCATTTC-TTATTTTTCT-TTTTTTCCTTTCTCATTCTTTTATTCTTT
1 TTTC-TTTTCTTTTCTT--TTTCTTTATTTTTCTCTTTTCTCCTTTCTCATTCTTTTATTCTTC
2125395 TATTCTTTTC-TTTCTTTTTCTTT-TTTTTCTCTTTTCT
1 T-TTCTTTTCTTTTCTTTTTCTTTATTTTTCTCTTTTCT
2125432 TTCTTTTTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 17
0.78 0.07 0.16
Matches are distributed among these distances:
59 27 0.33
60 25 0.30
61 21 0.25
62 7 0.08
63 3 0.04
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (61 bp):
TTTCTTTTCTTTTCTTTTTCTTTATTTTTCTCTTTTCTCCTTTCTCATTCTTTTATTCTTC
Found at i:2125446 original size:19 final size:17
Alignment explanation
Indices: 2125289--2125447 Score: 101
Period size: 17 Copynumber: 9.1 Consensus size: 17
2125279 TTTCCTTTTC
2125289 TTTTTCTTTATTTTTCTCT
1 TTTTTCTTT-TTTTTCT-T
* *
2125308 TTTCTCTTTTCTTTCTT
1 TTTTTCTTTTTTTTCTT
*
2125325 TTTTTCTCTTTCTTT-TT
1 TTTTTCT-TTTTTTTCTT
* **
2125342 CTTTT-TTTCATTTCTT
1 TTTTTCTTTTTTTTCTT
*
2125358 ATTTTTCTTTTTTTCCTT
1 -TTTTTCTTTTTTTTCTT
* *
2125376 TCTCATTC-TTTTATTCTT
1 T-T-TTTCTTTTTTTTCTT
* *
2125394 TTATTCTTTTCTTTCTT
1 TTTTTCTTTTTTTTCTT
*
2125411 TTTCTT-TTTTTTCTCTT
1 TTT-TTCTTTTTTTTCTT
2125428 TTCTTTCTTTTTTATTCTT
1 TT-TTTCTTTTTT-TTCTT
2125447 T
1 T
2125448 GAGTGTAGTC
Statistics
Matches: 110, Mismatches: 19, Indels: 22
0.73 0.13 0.15
Matches are distributed among these distances:
15 5 0.05
16 7 0.06
17 42 0.38
18 40 0.36
19 16 0.15
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCTT
Found at i:2129479 original size:16 final size:17
Alignment explanation
Indices: 2129451--2129483 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2129441 AATATCAATC
2129451 CTACCCAGACATGCTTT
1 CTACCCAGACATGCTTT
2129468 CTACCC-GACATGCTTT
1 CTACCCAGACATGCTTT
2129484 ATTTTCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
CTACCCAGACATGCTTT
Found at i:2136545 original size:12 final size:12
Alignment explanation
Indices: 2136530--2136580 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 12
2136520 AGAAGTCTAC
2136530 ATATAAGTATAT
1 ATATAAGTATAT
2136542 ATAT-A-TATAT
1 ATATAAGTATAT
2136552 A-A-AAGTATA-
1 ATATAAGTATAT
*
2136561 A-ATAAGTACAT
1 ATATAAGTATAT
2136572 ATATAAGTA
1 ATATAAGTA
2136581 ATCATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
9 4 0.12
10 16 0.48
11 2 0.06
12 11 0.33
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (12 bp):
ATATAAGTATAT
Found at i:2137758 original size:32 final size:32
Alignment explanation
Indices: 2137712--2137774 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2137702 GTGAGTCGGG
2137712 ACAAAGCTCAATATAGAGCTATGATATTCAAT
1 ACAAAGCTCAATATAGAGCTATGATATTCAAT
*
2137744 ACAAAGCTCGATATAGAGCTATGATATTCAA
1 ACAAAGCTCAATATAGAGCTATGATATTCAA
2137775 CAATTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (32 bp):
ACAAAGCTCAATATAGAGCTATGATATTCAAT
Found at i:2139304 original size:29 final size:28
Alignment explanation
Indices: 2139251--2139305 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
2139241 TAAAAATTCA
* *
2139251 TAAAATAAAATATTGGAATTTAAAGGAC
1 TAAAATAAAAGATTGGAATTAAAAGGAC
2139279 TAAAATTAAAAGA-TGGAACTTAAAAGG
1 TAAAA-TAAAAGATTGGAA-TTAAAAGG
2139306 TGAAATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.25
Consensus pattern (28 bp):
TAAAATAAAAGATTGGAATTAAAAGGAC
Found at i:2139790 original size:70 final size:70
Alignment explanation
Indices: 2139672--2139815 Score: 263
Period size: 70 Copynumber: 2.1 Consensus size: 70
2139662 TTAACGTCGA
2139672 ATCTTCTTGAATCCAAACTGTTACCTCAGCAGGCAGACGTCTGACTTGTTTCCTTAATAGGTAGA
1 ATCTTCTTGAATCCAAACTGTTACCTCAGCAGGCAGACGTCTGACTTGTTTCCTTAATAGGTAGA
2139737 CTATC
66 CTATC
* *
2139742 ATCTTCTTGAATCCAAACTGTTACCTCAGCAGGCAGACGTCTGGCTTGTTTCCTTAGTAGGTAGA
1 ATCTTCTTGAATCCAAACTGTTACCTCAGCAGGCAGACGTCTGACTTGTTTCCTTAATAGGTAGA
2139807 CTATC
66 CTATC
2139812 -TCTT
1 ATCTT
2139816 GACGTTACTC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 4 0.06
70 68 0.94
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (70 bp):
ATCTTCTTGAATCCAAACTGTTACCTCAGCAGGCAGACGTCTGACTTGTTTCCTTAATAGGTAGA
CTATC
Found at i:2143454 original size:3 final size:3
Alignment explanation
Indices: 2143448--2143491 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2143438 GATGATGATG
2143448 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2143492 GGTTGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2144756 original size:13 final size:13
Alignment explanation
Indices: 2144738--2144829 Score: 50
Period size: 13 Copynumber: 6.9 Consensus size: 13
2144728 CGAAAGCAAA
2144738 AAAAAGAGAAAAT
1 AAAAAGAGAAAAT
2144751 AAAAAGA-AATGAA-
1 AAAAAGAGAA--AAT
*
2144764 ACAAGAGTAAGAAAAT
1 A-AAAAG--AGAAAAT
2144780 AAATAA-AG-AAAT
1 AAA-AAGAGAAAAT
* *
2144792 AGAAATAGAAAAT
1 AAAAAGAGAAAAT
*
2144805 AGAAAATAG-AAAT
1 A-AAAAGAGAAAAT
2144818 AAAAAGAGAAAA
1 AAAAAGAGAAAA
2144830 AATAGGGTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
11 2 0.03
12 16 0.26
13 23 0.37
14 12 0.19
15 4 0.06
16 3 0.05
17 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (13 bp):
AAAAAGAGAAAAT
Found at i:2144797 original size:6 final size:6
Alignment explanation
Indices: 2144786--2144828 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
2144776 AAATAAATAA
* *
2144786 AGAAAT AGAAAT AGAAAAT AGAAAAT AGAAAT AAAAAG AGAAA
1 AGAAAT AGAAAT AG-AAAT AG-AAAT AGAAAT AGAAAT AGAAA
2144829 AAATAGGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (6 bp):
AGAAAT
Found at i:2144806 original size:7 final size:7
Alignment explanation
Indices: 2144788--2144829 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
2144778 ATAAATAAAG
2144788 AAATAG-
1 AAATAGA
2144794 AAATAGA
1 AAATAGA
2144801 AAATAGA
1 AAATAGA
2144808 AAATAG-
1 AAATAGA
2144814 AAATA-A
1 AAATAGA
*
2144820 AAAGAGA
1 AAATAGA
2144827 AAA
1 AAA
2144830 AATAGGGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
6 15 0.47
7 17 0.53
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (7 bp):
AAATAGA
Found at i:2144830 original size:20 final size:20
Alignment explanation
Indices: 2144788--2144829 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2144778 ATAAATAAAG
*
2144788 AAATAGAAATAGAAAATAGA
1 AAATAGAAATAGAAAAGAGA
2144808 AAATAGAAATA-AAAAGAGA
1 AAATAGAAATAGAAAAGAGA
2144827 AAA
1 AAA
2144830 AATAGGGTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (20 bp):
AAATAGAAATAGAAAAGAGA
Found at i:2149811 original size:9 final size:8
Alignment explanation
Indices: 2149799--2149880 Score: 50
Period size: 8 Copynumber: 10.5 Consensus size: 8
2149789 AAAGACATAA
2149799 AAAAGATAG
1 AAAAGA-AG
2149808 AAAA-AAG
1 AAAAGAAG
*
2149815 AGAAAAAAG
1 A-AAAGAAG
2149824 AAAAG-AG
1 AAAAGAAG
*
2149831 AAGAG-AG
1 AAAAGAAG
2149838 -AAAGAGAG
1 AAAAGA-AG
2149846 AAAA-AAG
1 AAAAGAAG
*
2149853 AAAAAAAG
1 AAAAGAAG
*
2149861 AAAA-AGG
1 AAAAGAAG
2149868 AAAAAGAAG
1 -AAAAGAAG
2149877 AAAA
1 AAAA
2149881 TAGAAAGATC
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
6 3 0.05
7 19 0.32
8 25 0.42
9 13 0.22
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (8 bp):
AAAAGAAG
Found at i:2149825 original size:7 final size:7
Alignment explanation
Indices: 2149809--2149886 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 7
2149799 AAAAGATAGA
2149809 AAAAAGAG
1 AAAAA-AG
2149817 AAAAAAG
1 AAAAAAG
*
2149824 AAAAGAG
1 AAAAAAG
* *
2149831 AAGAGAG
1 AAAAAAG
*
2149838 AAAGAGAG
1 AAA-AAAG
2149846 AAAAAAG
1 AAAAAAG
2149853 AAAAAAAG
1 -AAAAAAG
*
2149861 AAAAAGG
1 AAAAAAG
2149868 AAAAAGAAG
1 -AAAA-AAG
*
2149877 AAAATAG
1 AAAAAAG
2149884 AAA
1 AAA
2149887 GATCCAACAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
7 30 0.51
8 27 0.46
9 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:2149857 original size:8 final size:8
Alignment explanation
Indices: 2149808--2149880 Score: 58
Period size: 9 Copynumber: 8.4 Consensus size: 8
2149798 AAAAAGATAG
2149808 AAAAAAGA
1 AAAAAAGA
2149816 GAAAAAAGA
1 -AAAAAAGA
2149825 AAAGAGAAGA
1 AAA-A-AAGA
*
2149835 GAGAAAGAGA
1 -A-AAAAAGA
2149845 GAAAAAAGA
1 -AAAAAAGA
2149854 AAAAAAG-
1 AAAAAAGA
*
2149861 AAAAAGGA
1 AAAAAAGA
2149869 AAAAGAAGA
1 AAAA-AAGA
2149878 AAA
1 AAA
2149881 TAGAAAGATC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
7 6 0.11
8 14 0.26
9 21 0.39
10 9 0.17
11 2 0.04
12 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:2149886 original size:38 final size:38
Alignment explanation
Indices: 2149800--2149886 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
2149790 AAGACATAAA
*
2149800 AAAGATAGAAAAAAGAGAAAAAAGAAAAGAGAAGAGAG
1 AAAGATAGAAAAAAGAGAAAAAAGAAAAGAAAAGAGAG
*
2149838 AAAGAGAGAAAAAAGA-AAAAAAGAAAAAGGAAAA-AGAAG
1 AAAGATAGAAAAAAGAGAAAAAAG-AAAA-GAAAAGAG-AG
2149877 AAA-ATAGAAA
1 AAAGATAGAAA
2149887 GATCCAACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
37 7 0.16
38 27 0.63
39 9 0.21
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (38 bp):
AAAGATAGAAAAAAGAGAAAAAAGAAAAGAAAAGAGAG
Found at i:2149887 original size:21 final size:21
Alignment explanation
Indices: 2149806--2149886 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 21
2149796 TAAAAAAGAT
*
2149806 AGAAAAAAGAGAAAAAAG-AAA
1 AGAAAAAA-AGAAAAAGGAAAA
* * *
2149827 AGAGAAGAGAGAAAGAGAGAAAAA
1 AGA-AAAAAAGAAA-A-AGGAAAA
2149851 AGAAAAAAAGAAAAAGGAAAA
1 AGAAAAAAAGAAAAAGGAAAA
2149872 AGAAGAAAATAGAAA
1 AGAA-AAAA-AGAAA
2149887 GATCCAACAC
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.38
22 9 0.19
23 14 0.30
24 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.01
Consensus pattern (21 bp):
AGAAAAAAAGAAAAAGGAAAA
Found at i:2151609 original size:79 final size:78
Alignment explanation
Indices: 2151513--2151792 Score: 413
Period size: 79 Copynumber: 3.6 Consensus size: 78
2151503 TCTTAAAACC
* * **
2151513 AGATTTTATCTCACTTGAGATAGTTTCACTTGAAACAGAAGATTTTGTCTTGCTTGAGATAGTTT
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTTTGTCTTGCTTGAGATAGTTT
2151578 CCCTAGAAACAGA
66 CCCTAGAAACAGA
* *
2151591 AGACTTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTTTATCTCGCTTGAGATAGTT
1 AGA-TTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTTTGTCTTGCTTGAGATAGTT
* *
2151656 TCCCTCGAAATAGA
65 TCCCTAGAAACAGA
*
2151670 AGATTTTTATCTCGCTTGAGATAGTTTCCCTCAGAAA-AAAAGATTTTGTCTTGCTTGAGATAG-
1 AGA-TTTTATCTCGCTTGAGATAGTTTCCCTCA-AAACAGAAGATTTTGTCTTGCTTGAGATAGT
2151733 TTCCCTCA-AAACAGA
64 TTCCCT-AGAAACAGA
*
2151748 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAATAGAAGATTT
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTT
2151793 CTCTTTGACC
Statistics
Matches: 183, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
76 3 0.02
77 37 0.20
78 18 0.10
79 122 0.67
80 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (78 bp):
AGATTTTATCTCGCTTGAGATAGTTTCCCTCAAAACAGAAGATTTTGTCTTGCTTGAGATAGTTT
CCCTAGAAACAGA
Found at i:2151617 original size:40 final size:40
Alignment explanation
Indices: 2151513--2151792 Score: 396
Period size: 39 Copynumber: 7.2 Consensus size: 40
2151503 TCTTAAAACC
* * *
2151513 AGATTTTATCTCACTTGAGATAGTTTCACT-TGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
* *
2151552 AGATTTTGTCTTGCTTGAGATAGTTTCCCT-AGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
2151591 AGACTTTTATCTCGCTTGAGATAGTTTCCCTCA-AAACAGA
1 AGA-TTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
*
2151631 AGATTTTATCTCGCTTGAGATAGTTTCCCTC-GAAATAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
*
2151670 AGATTTTTATCTCGCTTGAGATAGTTTCCCTCAGAAA-AAA
1 AGA-TTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
* *
2151710 AGATTTTGTCTTGCTTGAGATAG-TTCCCTCA-AAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
*
2151748 AGATTTTATCTCGCTTGAGATAGTTTCCCTCA-AAATAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
2151787 AGATTT
1 AGATTT
2151793 CTCTTTGACC
Statistics
Matches: 219, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
37 3 0.01
38 31 0.14
39 112 0.51
40 68 0.31
41 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (40 bp):
AGATTTTATCTCGCTTGAGATAGTTTCCCTCAGAAACAGA
Found at i:2155526 original size:42 final size:41
Alignment explanation
Indices: 2155447--2155532 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 41
2155437 GTATATTGAG
* *
2155447 ATCGAATTAATTCAAGTGGCTTTGGGGATGTGTATTTGCTTA
1 ATCGAATTAATTCAAATGGCTTTGGGGA-GTGCATTTGCTTA
2155489 ATCGAATTAATTCAAATGGCTTTGGTGGCA-TGCATTTGCTTA
1 ATCGAATTAATTCAAATGGCTTTGG-GG-AGTGCATTTGCTTA
2155531 AT
1 AT
2155533 TTGGTGACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 37 0.93
43 2 0.05
44 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.40
Consensus pattern (41 bp):
ATCGAATTAATTCAAATGGCTTTGGGGAGTGCATTTGCTTA
Found at i:2156706 original size:21 final size:21
Alignment explanation
Indices: 2156680--2156777 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
2156670 ATCAGTTCCC
2156680 AGAATCGCAACGCGATTATTA
1 AGAATCGCAACGCGATTATTA
* *
2156701 AGAATCGCAATGCGA-TAGTA
1 AGAATCGCAACGCGATTATTA
** *
2156721 CA-AATTCGCATTGCGATT-TTCC
1 -AGAA-TCGCAACGCGATTATT-A
* *
2156743 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATTA
2156764 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
2156778 ACATAATCGC
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
20 19 0.31
21 38 0.62
22 4 0.07
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATTA
Found at i:2156770 original size:20 final size:20
Alignment explanation
Indices: 2156745--2156986 Score: 159
Period size: 20 Copynumber: 12.5 Consensus size: 20
2156735 GATTTTCCAG
* *
2156745 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
*
2156765 AATCGCAACGCG-A-ACAT-
1 AATCGCAACGCGAATACGTA
*
2156782 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
2156801 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
* *
2156823 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2156843 AATCGCAACGAC-AATACGTA
1 AATCGCAACG-CGAATACGTA
*
2156863 AATCGCAATGCG-----G-A
1 AATCGCAACGCGAATACGTA
* *
2156877 AATCGCAATGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * *
2156897 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
2156917 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
2156937 AATCGCAATGTGAATACGTA
1 AATCGCAACGCGAATACGTA
*
2156957 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
2156977 AATCGCAACG
1 AATCGCAACG
2156987 AGATTCTGAC
Statistics
Matches: 184, Mismatches: 23, Indels: 30
0.78 0.10 0.13
Matches are distributed among these distances:
14 12 0.07
15 1 0.01
17 14 0.08
18 2 0.01
19 4 0.02
20 128 0.70
21 21 0.11
22 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:2156912 original size:74 final size:75
Alignment explanation
Indices: 2156803--2156946 Score: 211
Period size: 74 Copynumber: 1.9 Consensus size: 75
2156793 GATTCTGACT
* *
2156803 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAATC
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG-CGAATACGTAAATC
2156867 GCAATGCGGAA
65 GCAATGCGGAA
* * * *
2156878 ATCGCAATGAGAATACGT-AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATACGTAAATCG
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAATCG
2156942 CAATG
66 CAATG
2156947 TGAATACGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
73 1 0.02
74 46 0.74
75 15 0.24
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (75 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAATCG
CAATGCGGAA
Found at i:2156932 original size:40 final size:40
Alignment explanation
Indices: 2156822--2156984 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
2156812 AGTATCCGTA
* * *
2156822 AAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGT
1 AAATCGCAATGTGTATCCGTAAATCGCAATG-CGAATACGT
* *
2156862 AAATCGCAA--TG----CGGAAATCGCAATGAGAATACGT
1 AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATACGT
2156896 AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATACGT
1 AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATACGT
* *
2156936 AAATCGCAATGTGAATACGTAAATCGCAATGCGAAT-CTGT
1 AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATAC-GT
2156976 AAATCGCAA
1 AAATCGCAA
2156985 CGAGATTCTG
Statistics
Matches: 107, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
34 28 0.26
36 2 0.02
38 1 0.01
39 1 0.01
40 75 0.70
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
AAATCGCAATGTGTATCCGTAAATCGCAATGCGAATACGT
Found at i:2160390 original size:19 final size:19
Alignment explanation
Indices: 2160368--2160519 Score: 118
Period size: 19 Copynumber: 8.7 Consensus size: 19
2160358 GCAACGAGAG
*
2160368 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
2160387 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
* * *
2160401 AATTGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
2160421 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2160440 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2160454 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2160473 AATCGCAA--CG--A-GGA
1 AATCGCAATGCGAAATGAA
2160487 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2160506 AATCGCAACGCGAA
1 AATCGCAATGCGAA
2160520 TTTAGTTTCG
Statistics
Matches: 104, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
14 31 0.30
15 2 0.02
16 5 0.05
17 6 0.06
18 2 0.02
19 47 0.45
20 11 0.11
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2160426 original size:53 final size:52
Alignment explanation
Indices: 2160368--2160480 Score: 154
Period size: 53 Copynumber: 2.2 Consensus size: 52
2160358 GCAACGAGAG
* * *
2160368 AATCGCAATGCAAAATGAAAATCGCAACGTGAAAATTGCAACGCGGAAATGAC
1 AATCGCAATGCAAAATGAAAATCGCAACGAGAAAATCGCAACGC-GAAATGAA
* * * *
2160421 TATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCAAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
2160473 AATCGCAA
1 AATCGCAA
2160481 CGAGGAAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 14 0.27
53 38 0.73
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCAAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
Found at i:2160461 original size:33 final size:33
Alignment explanation
Indices: 2160422--2160515 Score: 172
Period size: 33 Copynumber: 2.8 Consensus size: 33
2160412 GGAAATGACT
2160422 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGA-A
2160455 ATCGCAATGCGAAATGAAAATCGCAACGAGGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGGAA
2160488 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2160516 CGAATTTAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 58 0.97
34 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGGAA
Found at i:2160550 original size:19 final size:19
Alignment explanation
Indices: 2160515--2160577 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
2160505 AAATCGCAAC
*
2160515 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
2160534 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
2160553 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
2160572 GCGATT
1 GCGATT
2160578 CTCTCGTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2160735 original size:14 final size:14
Alignment explanation
Indices: 2160716--2160752 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2160706 CATCAATTAA
2160716 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2160730 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2160744 ACAAATCAA
1 ACAAATCAA
2160753 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2162146 original size:21 final size:21
Alignment explanation
Indices: 2162117--2162197 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
2162107 GAATGGTGGG
*
2162117 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTCAACGATGAT
* * * **
2162138 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTCAACGATGAT
* * *
2162159 AGGGGACTC-TCGAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAT
2162180 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
2162198 AGGACTGGAC
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
20 3 0.07
21 34 0.83
22 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAT
Found at i:2162179 original size:42 final size:42
Alignment explanation
Indices: 2162102--2162195 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
2162092 GTGAATCGGG
* *
2162102 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTCAACGATGATAGGGGC
* *
2162144 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACCTCTTCAACG-ATGATAGGGGC
*
2162186 CTCTTCAACG
1 CTCTTGAACG
2162196 ATAGGACTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 37 0.82
43 4 0.09
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTCAACGATGATAGGGGC
Found at i:2162208 original size:42 final size:42
Alignment explanation
Indices: 2162133--2162220 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
2162123 CTCTTCAACG
* * * * *
2162133 ATGATAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGA
1 ATGATAGGGGCCTCTTCAACGATAGGACGGGACTCTCGAGGA
* * *
2162175 ATGATAGGGGCCTCTTCAACGATAGGACTGGACTCTTGAGGG
1 ATGATAGGGGCCTCTTCAACGATAGGACGGGACTCTCGAGGA
2162217 ATGA
1 ATGA
2162221 CAGGCGAGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (42 bp):
ATGATAGGGGCCTCTTCAACGATAGGACGGGACTCTCGAGGA
Found at i:2164193 original size:20 final size:20
Alignment explanation
Indices: 2164168--2164290 Score: 115
Period size: 20 Copynumber: 6.2 Consensus size: 20
2164158 TTTTGGTTGA
*
2164168 AATGAAAATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
* * * *
2164188 AATGAAAATCGCAATGCGAA
1 AATGACAATCGCAACGAGAG
* *
2164208 AATGACTATCGCAATGAGAG
1 AATGACAATCGCAACGAGAG
*
2164228 AATGACTATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
* *
2164248 AATGACTATCTCAATGCG-GA-
1 AATGACAATCGCAA--CGAGAG
*
2164268 AATGACTATCGCAACGAGAG
1 AATGACAATCGCAACGAGAG
2164288 AAT
1 AAT
2164291 CGCAACGCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 81 0.91
21 2 0.02
22 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (20 bp):
AATGACAATCGCAACGAGAG
Found at i:2164239 original size:60 final size:60
Alignment explanation
Indices: 2164175--2164290 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
2164165 TGAAATGAAA
*
2164175 ATCGCAACGAGAGAATGAAAATCGCAATGCGAAAATGACTATCGCAATGAGAGAATGACT
1 ATCGCAACGAGAGAATGAAAATCGCAATGCGAAAATGACTATCGCAACGAGAGAATGACT
** * *
2164235 ATCGCAACGAGAGAATGACTATCTCAATGCGGAAATGACTATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAATGAAAATCGCAATGCGAAAATGACTATCGCAACGAGAGAAT
2164291 CGCAACGCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (60 bp):
ATCGCAACGAGAGAATGAAAATCGCAATGCGAAAATGACTATCGCAACGAGAGAATGACT
Found at i:2164252 original size:40 final size:40
Alignment explanation
Indices: 2164175--2164290 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
2164165 TGAAATGAAA
* ** * * *
2164175 ATCGCAACGAGAGAATGAAAATCGCAATGCGAAAATGACT
1 ATCGCAATGAGAGAATGACTATCGCAACGAGAGAATGACT
2164215 ATCGCAATGAGAGAATGACTATCGCAACGAGAGAATGACT
1 ATCGCAATGAGAGAATGACTATCGCAACGAGAGAATGACT
* *
2164255 ATCTCAATGCG-GAAATGACTATCGCAACGAGAGAAT
1 ATCGCAATGAGAG-AATGACTATCGCAACGAGAGAAT
2164291 CGCAACGCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 66 0.99
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.17
Consensus pattern (40 bp):
ATCGCAATGAGAGAATGACTATCGCAACGAGAGAATGACT
Found at i:2164294 original size:14 final size:14
Alignment explanation
Indices: 2164275--2164330 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2164265 GGAAATGACT
2164275 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2164289 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2164308 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2164322 ATCGCAACG
1 ATCGCAACG
2164331 CGAAATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:2164312 original size:33 final size:33
Alignment explanation
Indices: 2164266--2164349 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
2164256 TCTCAATGCG
**
2164266 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2164299 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2164332 GAAATTAAAATCACAACG
1 GAAATGAAAATCGCAACG
2164350 CGAAATGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2164402 original size:14 final size:14
Alignment explanation
Indices: 2164383--2164439 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2164373 TTTGGTTTCG
2164383 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
2164397 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
2164416 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
2164430 CGTTGCGATT
1 CGTTGCGATT
2164440 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:2164415 original size:33 final size:33
Alignment explanation
Indices: 2164367--2164447 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2164357 AAAATCGCAA
**
2164367 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
2164400 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
2164433 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
2164448 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:2164450 original size:21 final size:21
Alignment explanation
Indices: 2164424--2164487 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
2164414 CGCGTTGCGA
2164424 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
2164445 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
2164466 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
2164486 TT
1 TT
2164488 TCATGTTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2164500 original size:20 final size:19
Alignment explanation
Indices: 2164431--2164502 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
2164421 CGATTCTCTC
2164431 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
**
2164451 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
2164472 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
*
2164492 GTTGGGATTTT
1 GTTGCGATTTT
2164503 AAGTTTAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.51
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Done.