Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_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: 2490255
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1956897 original size:34 final size:32
Alignment explanation
Indices: 1956833--1956897 Score: 76
Period size: 34 Copynumber: 2.0 Consensus size: 32
1956823 CATTTAACAT
* * * *
1956833 AAAAAATAAATATAAAAATATAATATTTAATC
1 AAAAAATAAAAAAAAAAATATAAAAATTAATC
1956865 AAAAAATTAAAAAAAAATAATATAAAAATTAAT
1 AAAAAA-TAAAAAAAAA-AATATAAAAATTAAT
1956898 GAGGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 6 0.22
33 8 0.30
34 13 0.48
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAAATAAAAAAAAAAATATAAAAATTAATC
Found at i:1958964 original size:23 final size:23
Alignment explanation
Indices: 1958931--1958993 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1958921 ATTATTATAT
1958931 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1958954 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
1958977 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
1958994 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1962228 original size:21 final size:21
Alignment explanation
Indices: 1962186--1962228 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1962176 TTTATGGGCT
* * *
1962186 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
1962207 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
1962228 A
1 A
1962229 ACGAACCAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:1962803 original size:2 final size:2
Alignment explanation
Indices: 1962796--1962823 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1962786 AATCATTGAC
1962796 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
1962824 GAATATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1963891 original size:23 final size:23
Alignment explanation
Indices: 1963857--1963924 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
1963847 ATTATTATAT
1963857 GGCACTAC-GGTGCAATTCTACGC
1 GGCACT-CTGGTGCAATTCTACGC
* *
1963880 GGCACTCTGGTGTAATTCTACGT
1 GGCACTCTGGTGCAATTCTACGC
*
1963903 GGCACT-TCGGTGCAATTATACG
1 GGCACTCT-GGTGCAATTCTACG
1963925 AGCTGTAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.05
23 37 0.95
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGC
Found at i:1966455 original size:19 final size:19
Alignment explanation
Indices: 1966428--1966500 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 19
1966418 AGTTTGGGAT
*
1966428 TTGATTTTGGTTTGATTCG
1 TTGAATTTGGTTTGATTCG
* *
1966447 TTGAATTTGGATTTAAGTTTGGG
1 TTGAATTTGG-TTT--GATT-CG
*
1966470 ATTTGATTTTGGTTTGATTCG
1 --TTGAATTTGGTTTGATTCG
1966491 TTGAATTTGG
1 TTGAATTTGG
1966501 ATTTATAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 18 0.44
20 3 0.07
21 1 0.02
22 6 0.15
23 1 0.02
24 3 0.07
25 9 0.22
ACGTcount: A:0.16, C:0.03, G:0.27, T:0.53
Consensus pattern (19 bp):
TTGAATTTGGTTTGATTCG
Found at i:1966473 original size:44 final size:44
Alignment explanation
Indices: 1966410--1966505 Score: 192
Period size: 44 Copynumber: 2.2 Consensus size: 44
1966400 TTGTAATAAG
1966410 TGGATTTAAGTTTGGGATTTGATTTTGGTTTGATTCGTTGAATT
1 TGGATTTAAGTTTGGGATTTGATTTTGGTTTGATTCGTTGAATT
1966454 TGGATTTAAGTTTGGGATTTGATTTTGGTTTGATTCGTTGAATT
1 TGGATTTAAGTTTGGGATTTGATTTTGGTTTGATTCGTTGAATT
1966498 TGGATTTA
1 TGGATTTA
1966506 TAAGTATGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (44 bp):
TGGATTTAAGTTTGGGATTTGATTTTGGTTTGATTCGTTGAATT
Found at i:1980025 original size:25 final size:25
Alignment explanation
Indices: 1979997--1980121 Score: 71
Period size: 25 Copynumber: 5.5 Consensus size: 25
1979987 AGTTCATAAC
1979997 TAAATAAAAACATTAAGAAACAAAA
1 TAAATAAAAACATTAAGAAACAAAA
** *
1980022 TAAAT--AAA-A--AAG-TCCATAAT
1 TAAATAAAAACATTAAGAAACA-AAA
*
1980042 TAAATAAAAACATTAAGACACAAAA
1 TAAATAAAAACATTAAGAAACAAAA
* *
1980067 TAAAT--AAAGAGT--G---CATAAA
1 TAAATAAAAACATTAAGAAACA-AAA
*
1980086 T-AATAAAAACAATAAGAAACAAAA
1 TAAATAAAAACATTAAGAAACAAAA
1980110 TAAATAAAAACA
1 TAAATAAAAACA
1980122 AGTCTATTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 15 0.20
21 1 0.01
22 5 0.07
23 9 0.12
24 4 0.05
25 27 0.36
26 2 0.03
ACGTcount: A:0.68, C:0.09, G:0.06, T:0.18
Consensus pattern (25 bp):
TAAATAAAAACATTAAGAAACAAAA
Found at i:1980040 original size:45 final size:44
Alignment explanation
Indices: 1979908--1980119 Score: 247
Period size: 43 Copynumber: 4.9 Consensus size: 44
1979898 TTTAAACAAT
* * *
1979908 TAAATAAT-AAAACATTAAGAAACAAAATGAGTAAAAAAAG-CTA
1 TAAATAATAAAAACATTAAGAAACAAAATAAAT-AAAAAAGTCCA
* *
1979951 TATAATAAT-AAAACATTAAGAAACAAAA-AAAT-AGAAAGTTCA
1 TA-AATAATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCA
*
1979993 TAACTAAATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCA
1 TAAAT-AATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCA
* * * *
1980038 TAATTAAATAAAAACATTAAGACACAAAATAAAT-AAAGAGTGCA
1 TAAAT-AATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCA
*
1980082 TAAATAATAAAAACAATAAGAAACAAAATAAATAAAAA
1 TAAATAATAAAAACATTAAGAAACAAAATAAATAAAAA
1980120 CAAGTCTATT
Statistics
Matches: 146, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
41 7 0.05
42 6 0.04
43 49 0.34
44 44 0.30
45 40 0.27
ACGTcount: A:0.67, C:0.08, G:0.07, T:0.19
Consensus pattern (44 bp):
TAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCA
Found at i:1980096 original size:88 final size:85
Alignment explanation
Indices: 1979908--1980119 Score: 268
Period size: 88 Copynumber: 2.4 Consensus size: 85
1979898 TTTAAACAAT
* * *
1979908 TAAATAAT-AAAACATTAAGAAACAAAATGAGTAAAAAAAGCTATATAATAATAAAACATTAAGA
1 TAAATAATAAAAACATTAAGAAACAAAATAAAT-AAAAAAGCCATATAATAATAAAACATTAAGA
*
1979972 AACAAAAAAATAGAAAGTTCA
65 AACAAAAAAATAGAAAGTGCA
* *
1979993 TAACTAAATAAAAACATTAAGAAACAAAATAAATAAAAAAGTCCATA-ATTAAATAAAAACATTA
1 TAAAT-AATAAAAACATTAAGAAACAAAATAAATAAAAAAG-CCATATAAT-AAT-AAAACATTA
*
1980057 AGACACAAAATAAATA-AAGAGTGCA
62 AGAAACAAAA-AAATAGAA-AGTGCA
*
1980082 TAAATAATAAAAACAATAAGAAACAAAATAAATAAAAA
1 TAAATAATAAAAACATTAAGAAACAAAATAAATAAAAA
1980120 CAAGTCTATT
Statistics
Matches: 111, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
85 4 0.04
86 12 0.11
87 29 0.26
88 52 0.47
89 14 0.13
ACGTcount: A:0.67, C:0.08, G:0.07, T:0.19
Consensus pattern (85 bp):
TAAATAATAAAAACATTAAGAAACAAAATAAATAAAAAAGCCATATAATAATAAAACATTAAGAA
ACAAAAAAATAGAAAGTGCA
Found at i:1980522 original size:21 final size:21
Alignment explanation
Indices: 1980498--1980603 Score: 131
Period size: 21 Copynumber: 5.0 Consensus size: 21
1980488 AAACCCTACG
1980498 GTGGTGGCATCTGAAATGGTT
1 GTGGTGGCATCTGAAATGGTT
* * *
1980519 GTGGTGGCATCGGAAAGGGCT
1 GTGGTGGCATCTGAAATGGTT
** *
1980540 ACGGTGTCATCTGAAATGGTT
1 GTGGTGGCATCTGAAATGGTT
*
1980561 GTGGTGTCATCTGAAATGGTT
1 GTGGTGGCATCTGAAATGGTT
* *
1980582 GTGGTGGCATATGAAATAGTT
1 GTGGTGGCATCTGAAATGGTT
1980603 G
1 G
1980604 CGGAATATAA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.22, C:0.10, G:0.37, T:0.31
Consensus pattern (21 bp):
GTGGTGGCATCTGAAATGGTT
Found at i:1981363 original size:18 final size:18
Alignment explanation
Indices: 1981329--1981377 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
1981319 TATTTAGTGT
*
1981329 AAAAAAATCATTATATACTC
1 AAAAAAAT-ATTATATA-TA
1981349 AAAAAAATATT-TATATA
1 AAAAAAATATTATATATA
1981366 AAAAACAATATT
1 AAAAA-AATATT
1981378 GAAATTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 3 0.11
20 8 0.30
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAATATTATATATA
Found at i:1984094 original size:63 final size:63
Alignment explanation
Indices: 1983995--1984120 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
1983985 ATGCTTGGAA
1983995 AATGATTCTACATCATCCACAACATCATAATCAAGCTTTAATTCATTAAGATCCAACATCCCC
1 AATGATTCTACATCATCCACAACATCATAATCAAGCTTTAATTCATTAAGATCCAACATCCCC
1984058 AATGATTCTACATCATCCACAACATCATAATCAAGCTTTAATTCATTAAGATCCAACATCCCC
1 AATGATTCTACATCATCCACAACATCATAATCAAGCTTTAATTCATTAAGATCCAACATCCCC
1984121 TTCATCCATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (63 bp):
AATGATTCTACATCATCCACAACATCATAATCAAGCTTTAATTCATTAAGATCCAACATCCCC
Found at i:1985552 original size:18 final size:18
Alignment explanation
Indices: 1985525--1985559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1985515 GTATACAAAT
* *
1985525 TAAAATATAAATTAATAC
1 TAAAAAATAAATGAATAC
1985543 TAAAAAATAAATGAATA
1 TAAAAAATAAATGAATA
1985560 AAACATTCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAAATAAATGAATAC
Found at i:1987331 original size:53 final size:53
Alignment explanation
Indices: 1987273--1987377 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
1987263 ATATTATAAA
*
1987273 AAACTATATACCATATTACTTTAAAAATAGGATAAATTATATGTTTAGTACAT
1 AAACTATATACCATATTACTTTAAAAATAGGATAAATTACATGTTTAGTACAT
1987326 AAACTATATACCATATTACTTTAAAAATAGGATAAATTACATGTTTAGTACA
1 AAACTATATACCATATTACTTTAAAAATAGGATAAATTACATGTTTAGTACA
1987378 ATTTTGATAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (53 bp):
AAACTATATACCATATTACTTTAAAAATAGGATAAATTACATGTTTAGTACAT
Found at i:1988359 original size:20 final size:21
Alignment explanation
Indices: 1988310--1988367 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
1988300 GGAGGTAACA
*
1988310 AATTTGACAAAATTGGTTGGT
1 AATTTGACAAAATCGGTTGGT
*
1988331 -ATGTTGACAAAATCGGTT-TT
1 AAT-TTGACAAAATCGGTTGGT
1988351 AATTTGACAAAATCGGT
1 AATTTGACAAAATCGGT
1988368 AAAGAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (21 bp):
AATTTGACAAAATCGGTTGGT
Found at i:1988780 original size:187 final size:184
Alignment explanation
Indices: 1988334--1988828 Score: 593
Period size: 187 Copynumber: 2.6 Consensus size: 184
1988324 GGTTGGTATG
* * *
1988334 TTGACAAAATCGGTTTTAATTTGACAAAATCGGTAAAGAGCTACCGGAATTGTTGACATAATCGA
1 TTGACAAAATCGATTTCAATTTGACAAAATC-GTAAAGAGCTACCGGAATTGTTGAAAT-ATCGA
*
1988399 TACTTTTATAAGTATGTGTACCAAAGTATCGATACTGTAGGAATTTAAAAGAATTACAATAATAG
64 TACTTTTATAAGTATATGTACCAAAGTATCG-TACTGTAGGAA-TT----GAA--ACAATAATAG
**
1988464 CTGCTAAATAGTATCGATACCTTACGCACATGTATCGACACATGACAATATAACAGGTTGAAAT
121 CACCTAAATAGTATCGATACCTTACGCACATGTATCGACACATGACAATATAACAGGTTGAAAT
* * *
1988528 TTGATAAAA-CCAGTTTCAATTTGACAAAATCGATAAAGAGGTACCGGAATTGTTGACAATATCG
1 TTGACAAAATCGA-TTTCAATTTGACAAAATCG-TAAAGAGCTACCGGAATTGTTGA-AATATCG
* *
1988592 ATACTTTTATAAGTATATGTACCAAAGTATCAGTCCTGTAGGAATTGAAAGAATAATAGCACCTA
63 ATACTTTTATAAGTATATGTACCAAAGTATC-GTACTGTAGGAATTGAAACAATAATAGCACCTA
* * *
1988657 TAA-AGTATTGATACCTTA-G-ACACTGGTATCGATACATGACAATATAACATGTTGAAAT
127 -AATAGTATCGATACCTTACGCACA-T-GTATCGACACATGACAATATAACAGGTTGAAAT
* * * * *
1988715 TTGACAAAATCGATTTCAATTTGACAAAACCAGTAAAGCGTTACCGTAATTATTGAAAGTATCGA
1 TTGACAAAATCGATTTCAATTTGACAAAATC-GTAAAGAGCTACCGGAATTGTTGAAA-TATCGA
* *
1988780 TACTTTTATAAGTATATGTACCATAGTATCGGTACTTTAGGAATTGAAA
64 TACTTTTATAAGTATATGTACCAAAGTATC-GTACTGTAGGAATTGAAA
1988829 ATAAATGAAA
Statistics
Matches: 266, Mismatches: 25, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
185 3 0.01
186 4 0.02
187 153 0.58
188 5 0.02
189 3 0.01
193 4 0.02
194 91 0.34
195 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (184 bp):
TTGACAAAATCGATTTCAATTTGACAAAATCGTAAAGAGCTACCGGAATTGTTGAAATATCGATA
CTTTTATAAGTATATGTACCAAAGTATCGTACTGTAGGAATTGAAACAATAATAGCACCTAAATA
GTATCGATACCTTACGCACATGTATCGACACATGACAATATAACAGGTTGAAAT
Found at i:1989317 original size:13 final size:13
Alignment explanation
Indices: 1989299--1989323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1989289 TGTATTTGAA
1989299 TTAATTTAATTTT
1 TTAATTTAATTTT
1989312 TTAATTTAATTT
1 TTAATTTAATTT
1989324 AATGCTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATTTAATTTT
Found at i:1990354 original size:21 final size:23
Alignment explanation
Indices: 1990327--1990379 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
1990317 AACAAAAAAA
1990327 TAGTATCGGTACCAC-CACTAAG
1 TAGTATCGGTACCACACACTAAG
*
1990349 -AGTATCGGTACTACTACACTAAG
1 TAGTATCGGTACCAC-ACACTAAG
1990372 TAGTATCG
1 TAGTATCG
1990380 ATACTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 13 0.48
23 7 0.26
24 7 0.26
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
TAGTATCGGTACCACACACTAAG
Found at i:1990384 original size:21 final size:22
Alignment explanation
Indices: 1990327--1990385 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
1990317 AACAAAAAAA
* *
1990327 TAGTATCGGTACCACCACTAAG
1 TAGTATCGATACTACCACTAAG
*
1990349 -AGTATCGGTACTACTACACTAAG
1 TAGTATCGATACTAC--CACTAAG
1990372 TAGTATCGATACTA
1 TAGTATCGATACTA
1990386 TATATAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
23 7 0.22
24 12 0.38
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (22 bp):
TAGTATCGATACTACCACTAAG
Found at i:1993227 original size:16 final size:15
Alignment explanation
Indices: 1993192--1993227 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1993182 AATGTCTTTT
1993192 AAAAATAATTTTAAG
1 AAAAATAATTTTAAG
*
1993207 AAAAATCATTTTAAG
1 AAAAATAATTTTAAG
1993222 ACAAAA
1 A-AAAA
1993228 ACTGGTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAATAATTTTAAG
Found at i:1993771 original size:15 final size:16
Alignment explanation
Indices: 1993740--1993774 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1993730 TTAAAGCTTA
1993740 TTTTATTCATACTTTT
1 TTTTATTCATACTTTT
1993756 TTTTATTCATACTTTT
1 TTTTATTCATACTTTT
1993772 TTT
1 TTT
1993775 CTCTTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTCATACTTTT
Found at i:1997430 original size:103 final size:103
Alignment explanation
Indices: 1997251--1997459 Score: 409
Period size: 103 Copynumber: 2.0 Consensus size: 103
1997241 CTATTCCTTA
*
1997251 CATAAACTACTATTTGTACCCAAGTTATTTTATAGAATAAATTACCCTAATCATTCAGTAGATTC
1 CATAAACTACTATTTGTACCCAAGTTATTTTATAGAATAAATTACCCTAATCATTCAATAGATTC
1997316 TATCACTATTGTTTTCCAAATCACAACAAACCTCTATT
66 TATCACTATTGTTTTCCAAATCACAACAAACCTCTATT
1997354 CATAAACTACTATTTGTACCCAAGTTATTTTATAGAATAAATTACCCTAATCATTCAATAGATTC
1 CATAAACTACTATTTGTACCCAAGTTATTTTATAGAATAAATTACCCTAATCATTCAATAGATTC
1997419 TATCACTATTGTTTTCCAAATCACAACAAACCTCTATT
66 TATCACTATTGTTTTCCAAATCACAACAAACCTCTATT
1997457 CAT
1 CAT
1997460 GTACATTATG
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (103 bp):
CATAAACTACTATTTGTACCCAAGTTATTTTATAGAATAAATTACCCTAATCATTCAATAGATTC
TATCACTATTGTTTTCCAAATCACAACAAACCTCTATT
Found at i:1998465 original size:26 final size:25
Alignment explanation
Indices: 1998426--1998475 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1998416 TAATTCTTTT
*
1998426 TTATTTTGCATATTTAAGTTTTTATG
1 TTATTTTGCATA-TTAAATTTTTATG
**
1998452 TTATTTTGTTTATTAAATTTTTAT
1 TTATTTTGCATATTAAATTTTTAT
1998476 TTTTTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (25 bp):
TTATTTTGCATATTAAATTTTTATG
Found at i:1998653 original size:47 final size:47
Alignment explanation
Indices: 1998583--1998712 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 47
1998573 CGTTTATTTG
1998583 ACATGTTTATATGTGACAAAATGATGATATGATAAAAAATTAATAT-
1 ACATGTTTATATGTGACAAAATGATGATATGATAAAAAATTAATATC
** * *
1998629 AGCATGTTTATGCGTGATAAAATGATGATATGAT-AAAAATTAATGTC
1 A-CATGTTTATATGTGACAAAATGATGATATGATAAAAAATTAATATC
* *
1998676 ACATGTTTATATGTGACGAAGTGATGATATGATAAAA
1 ACATGTTTATATGTGACAAAATGATGATATGATAAAA
1998713 TACTATGTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 39 0.54
47 33 0.46
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (47 bp):
ACATGTTTATATGTGACAAAATGATGATATGATAAAAAATTAATATC
Found at i:2000261 original size:34 final size:33
Alignment explanation
Indices: 2000183--2000266 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 33
2000173 TAAATCATCC
*
2000183 AATTTTAAAATTAAAAGAACTTAAAATTAATTA
1 AATTTTAAAATTAAAAGAAATTAAAATTAATTA
* * * *
2000216 AATTTTAAAAATTAGAATAAATTAAGATTTAATTT
1 AATTTT-AAAATTAAAAGAAATTAA-AATTAATTA
2000251 AATTTTAAAATTAAAA
1 AATTTTAAAATTAAAA
2000267 AACATAAACC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 6 0.14
34 24 0.56
35 13 0.30
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (33 bp):
AATTTTAAAATTAAAAGAAATTAAAATTAATTA
Found at i:2001187 original size:2 final size:2
Alignment explanation
Indices: 2001180--2001207 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2001170 ATTTATCATC
2001180 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2001208 ATGTAAAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2004920 original size:47 final size:47
Alignment explanation
Indices: 2004854--2005056 Score: 134
Period size: 47 Copynumber: 4.5 Consensus size: 47
2004844 ATATGACCTA
* ** *
2004854 CCCTAAAGAAGCAACGGAACAAATCCCCTTTTTTCAGATTTGATCTT
1 CCCTGAAGAAGCAGTGGAACAAATCCCCTTTTTTCAGATTTAATCTT
* * * * *
2004901 CCTTGAAGAAGTAGTGGAACAAGTCTGCC-----TCA-ATTCAATCTT
1 CCCTGAAGAAGCAGTGGAACAAATC-CCCTTTTTTCAGATTTAATCTT
* * ** * * * * *
2004943 CCCTGAAGAA-CAGTGAAATAAAT-CAATGTTTCCATATCTAATCTA
1 CCCTGAAGAAGCAGTGGAACAAATCCCCTTTTTTCAGATTTAATCTT
* * *
2004988 CCCTGAAGAAGCAGTGGAGCAGATCCCCTTTTTTCAGATTTGATCTT
1 CCCTGAAGAAGCAGTGGAACAAATCCCCTTTTTTCAGATTTAATCTT
* *
2005035 CCCTGAAGAAGTAGTGCAACAA
1 CCCTGAAGAAGCAGTGGAACAA
2005057 GTCTACCTCG
Statistics
Matches: 110, Mismatches: 37, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
41 9 0.08
42 17 0.15
43 3 0.03
44 2 0.02
45 17 0.15
46 9 0.08
47 51 0.46
48 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (47 bp):
CCCTGAAGAAGCAGTGGAACAAATCCCCTTTTTTCAGATTTAATCTT
Found at i:2005727 original size:18 final size:18
Alignment explanation
Indices: 2005700--2005760 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
2005690 TATCCCGAAG
* *
2005700 GACCACTATGTCCTGAAA
1 GACCACTATGTCCCGAGA
*
2005718 GACCATTATGTCCCGAGA
1 GACCACTATGTCCCGAGA
2005736 GACCACTATGTCCCGAGA
1 GACCACTATGTCCCGAGA
2005754 GACCACT
1 GACCACT
2005761 GATAATCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
GACCACTATGTCCCGAGA
Found at i:2005769 original size:20 final size:18
Alignment explanation
Indices: 2005690--2005760 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
2005680 ACTGAATATT
2005690 TATCCCGA-AGGACCACTA
1 TATCCCGAGA-GACCACTA
* * * *
2005708 TGTCCTGAAAGACCATTA
1 TATCCCGAGAGACCACTA
*
2005726 TGTCCCGAGAGACCACTA
1 TATCCCGAGAGACCACTA
*
2005744 TGTCCCGAGAGACCACT
1 TATCCCGAGAGACCACT
2005761 GATAATCCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 45 0.98
19 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TATCCCGAGAGACCACTA
Found at i:2006978 original size:34 final size:34
Alignment explanation
Indices: 2006939--2007006 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2006929 TTAAGAAAAA
2006939 TCGTTTTGATATTATTAACTAATTAAGATAAGCT
1 TCGTTTTGATATTATTAACTAATTAAGATAAGCT
2006973 TCGTTTTGATATTATTAACTAATTAAGATAAGCT
1 TCGTTTTGATATTATTAACTAATTAAGATAAGCT
2007007 AAGTATTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (34 bp):
TCGTTTTGATATTATTAACTAATTAAGATAAGCT
Found at i:2007679 original size:42 final size:43
Alignment explanation
Indices: 2007615--2007817 Score: 178
Period size: 42 Copynumber: 4.7 Consensus size: 43
2007605 TGAGAATAAA
* * * * *
2007615 AAACTCCGCAATAGGTCAAGATCTATAGTGGCATTTTT-TAAC
1 AAACACCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
* * ** *
2007657 AAACACCGCAAAAGGTTGAGATCTATAGCAGCGCTTTT-GAAA
1 AAACACCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
* *
2007699 AAAAACGCAGCAAAAGGTCGAGATCTATAGCGGTATTTTTGGAAC
1 AAACAC-C-GCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
** * ** *
2007744 AAATGCCACAAAATATC-AAATCTATAGCGGCATTTTTGGAAC
1 AAACACCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
** *
2007786 AAACGTCGCAAAAGGTCGAGATTTATAGCGGC
1 AAACACCGCAAAAGGTCGAGATCTATAGCGGC
2007818 CACAAAAGGT
Statistics
Matches: 126, Mismatches: 31, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
42 72 0.57
43 20 0.16
44 27 0.21
45 7 0.06
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (43 bp):
AAACACCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAAC
Found at i:2007838 original size:25 final size:26
Alignment explanation
Indices: 2007794--2007842 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
2007784 ACAAACGTCG
*
2007794 CAAAAGGTCGAGATTTATAGCGGCCA
1 CAAAAGGTCGAGATCTATAGCGGCCA
2007820 CAAAAGGTC-AGATCTATAGCGGC
1 CAAAAGGTCGAGATCTATAGCGGC
2007843 GTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
CAAAAGGTCGAGATCTATAGCGGCCA
Found at i:2009457 original size:21 final size:21
Alignment explanation
Indices: 2009431--2009474 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2009421 CAACAATAAC
*
2009431 CATGAATCGAATACTCGAAAG
1 CATGAATCGAATACTCAAAAG
*
2009452 CATGAATCGAATGCTCAAAAG
1 CATGAATCGAATACTCAAAAG
2009473 CA
1 CA
2009475 ACTACGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (21 bp):
CATGAATCGAATACTCAAAAG
Found at i:2011414 original size:30 final size:30
Alignment explanation
Indices: 2011370--2011443 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 30
2011360 TATTACATGG
2011370 CATGTGTCTAAAGTTACGACGTGACACGTGTA
1 CATGTG-C-AAAGTTACGACGTGACACGTGTA
*
2011402 CATGTGCAAAGTTATGACGTGACACGTGTA
1 CATGTGCAAAGTTACGACGTGACACGTGTA
*
2011432 CATATGCAAAGT
1 CATGTGCAAAGT
2011444 GATGATGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 33 0.82
31 1 0.03
32 6 0.15
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (30 bp):
CATGTGCAAAGTTACGACGTGACACGTGTA
Found at i:2011454 original size:30 final size:30
Alignment explanation
Indices: 2011387--2011455 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
2011377 CTAAAGTTAC
* *
2011387 GACGTGACACGTGTACATGTGCAAAGTTAT
1 GACGTGACACGTGTACATATGCAAAGTGAT
2011417 GACGTGACACGTGTACATATGCAAAGTGAT
1 GACGTGACACGTGTACATATGCAAAGTGAT
*
2011447 GATGTGACA
1 GACGTGACA
2011456 TATGTCACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (30 bp):
GACGTGACACGTGTACATATGCAAAGTGAT
Found at i:2022981 original size:19 final size:19
Alignment explanation
Indices: 2022957--2023000 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2022947 GTGGCTGAAA
* *
2022957 ACCGGTTTG-ACCTGTTTCG
1 ACCGGTTCGAACCGGTTT-G
2022976 ACCGGTTCGAACCGGTTTG
1 ACCGGTTCGAACCGGTTTG
2022995 ACCGGT
1 ACCGGT
2023001 CTGATCCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.30
Consensus pattern (19 bp):
ACCGGTTCGAACCGGTTTG
Found at i:2023022 original size:13 final size:13
Alignment explanation
Indices: 2023004--2023038 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2022994 GACCGGTCTG
2023004 ATCCGTTTCCGAA
1 ATCCGTTTCCGAA
2023017 ATCCGTTTCCGAA
1 ATCCGTTTCCGAA
2023030 ATCCGTTTC
1 ATCCGTTTC
2023039 GTCAAATTCG
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:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (13 bp):
ATCCGTTTCCGAA
Found at i:2033796 original size:145 final size:145
Alignment explanation
Indices: 2033520--2033807 Score: 540
Period size: 145 Copynumber: 2.0 Consensus size: 145
2033510 CAAACCAACT
* *
2033520 CAAATTGGTGTTAGTGGTTTTATTCAAACCCACTCGGATTAGCCTGAAACTATTAACCCAAGATT
1 CAAAGTGGTGTTAGTGGTTTTATTCAAACCCACTCGGATTAGCCTGAAACTACTAACCCAAGATT
*
2033585 TGGGACATTATAGAATCTAACAACCTCAGTGATAAAAGAATTGTTGTTATTTCTTGAGGTCTCAA
66 TGGGACATTATAGAATCTAACAACCTCAGTGATAAAAGAATTGTTGTTATTTCTTGAGGTCCCAA
2033650 GTTCAAGCACTAACC
131 GTTCAAGCACTAACC
2033665 CAAAGTGGTGTTAGTGGTTTTATTCAAACCCACTCGGATTAGCCTGAAACTACTAACCCAAGATT
1 CAAAGTGGTGTTAGTGGTTTTATTCAAACCCACTCGGATTAGCCTGAAACTACTAACCCAAGATT
*
2033730 TGGGACATTATAGAATCTAACAACCTCAGTGATAAAAGAATTGTTGTTATTTCTTGAGTTCCCAA
66 TGGGACATTATAGAATCTAACAACCTCAGTGATAAAAGAATTGTTGTTATTTCTTGAGGTCCCAA
2033795 GTTCAAGCACTAA
131 GTTCAAGCACTAA
2033808 GAATACTAGG
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 139 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (145 bp):
CAAAGTGGTGTTAGTGGTTTTATTCAAACCCACTCGGATTAGCCTGAAACTACTAACCCAAGATT
TGGGACATTATAGAATCTAACAACCTCAGTGATAAAAGAATTGTTGTTATTTCTTGAGGTCCCAA
GTTCAAGCACTAACC
Found at i:2034876 original size:2 final size:2
Alignment explanation
Indices: 2034869--2034893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2034859 GCATTCTGTG
2034869 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 T
2034894 TTTTCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2039495 original size:93 final size:93
Alignment explanation
Indices: 2039324--2039497 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
2039314 GTTGATTAAT
* * *
2039324 GATTCTCTCCATAGATTTCACAAAAGAGCCTTTTTGCTCTAAAATAAAGCATTAGAGACCAAAAT
1 GATTCCCTCCACAGATTTCACAAAAGAGCCTTTTTGCTCTAAAATAAAACATTAGAGACCAAAAT
*
2039389 ACTCCCCAGAAAAAAAAATAAAGATTAC
66 ACTCCACAGAAAAAAAAATAAAGATTAC
* * * *
2039417 GATTCCCTCCACAGATTTCACAGAAGAGCCTTTTTGCTCTAAAATAAAACATTAGATATCAGAAT
1 GATTCCCTCCACAGATTTCACAAAAGAGCCTTTTTGCTCTAAAATAAAACATTAGAGACCAAAAT
* *
2039482 ACTCCATATAAAAAAA
66 ACTCCACAGAAAAAAA
2039498 CAAAGATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (93 bp):
GATTCCCTCCACAGATTTCACAAAAGAGCCTTTTTGCTCTAAAATAAAACATTAGAGACCAAAAT
ACTCCACAGAAAAAAAAATAAAGATTAC
Found at i:2045011 original size:27 final size:27
Alignment explanation
Indices: 2044947--2045015 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
2044937 TGAAAATGTT
* *
2044947 AGAAGTAAAAAGATATAGATAAAATAA
1 AGAAGTAAAAAGAAATAAATAAAATAA
*
2044974 AGACAGT-AAAATAAATAAATAAAATAA
1 AGA-AGTAAAAAGAAATAAATAAAATAA
2045001 GAGAA-TAAAAAGAAA
1 -AGAAGTAAAAAGAAA
2045016 ATAACAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 28 0.80
28 6 0.17
ACGTcount: A:0.70, C:0.01, G:0.13, T:0.16
Consensus pattern (27 bp):
AGAAGTAAAAAGAAATAAATAAAATAA
Found at i:2045207 original size:22 final size:22
Alignment explanation
Indices: 2045168--2045223 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
2045158 AAAATGTGTG
* *
2045168 GAATAAT-AATAATAGAATAATA
1 GAATAATAAAAAAT-GAATAAAA
2045190 -AATATATAAAAAATGAATAAAA
1 GAATA-ATAAAAAATGAATAAAA
2045212 GAATAATAAAAA
1 GAATAATAAAAA
2045224 GGAATATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 9 0.31
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (22 bp):
GAATAATAAAAAATGAATAAAA
Found at i:2046980 original size:105 final size:105
Alignment explanation
Indices: 2046637--2047423 Score: 1306
Period size: 105 Copynumber: 7.5 Consensus size: 105
2046627 TATCCTTCAT
* * * * **
2046637 CTTGTGTTGTCTGGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTAAAATTGGGAAAA
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
2046702 TGTTCGTTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTT-GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
2046743 CTTGCATTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
2046808 TGTTGTT-ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
2046847 CTTGTGTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
2046912 TGTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
2046952 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
* * *
2047017 TGTTGTTGAAAACCAGTGGTCCATTCGTCGTGAAGTTGAA
66 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
2047057 CTTGTGTTGTTTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
2047122 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
2047162 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
2047227 TGTTTGTTGACAACCAGCGGTCCCTCCGTCGTGAAGTTGAA
66 TG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
2047268 CTTGTGTTGTCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
2047333 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
2047373 CTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
1 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
2047424 CAACCAGCGG
Statistics
Matches: 638, Mismatches: 41, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
104 98 0.15
105 379 0.59
106 161 0.25
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
Found at i:2047479 original size:82 final size:82
Alignment explanation
Indices: 2047342--2047505 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
2047332 TTGTTGTTGA
* *
2047342 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGT
1 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTATGGAGTCCAATATCCTTCGCTGT
*
2047407 GAAGTTGAAATTGGCTC
66 GAAGTTAAAATTGGCTC
*
2047424 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTGTGGAGTCCAATATCCTTCGCTGT
1 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTATGGAGTCCAATATCCTTCGCTGT
2047489 GAAGTTAAAATTGGCTC
66 GAAGTTAAAATTGGCTC
2047506 TAAAATTGGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.30
Consensus pattern (82 bp):
CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTATGGAGTCCAATATCCTTCGCTGT
GAAGTTAAAATTGGCTC
Found at i:2047552 original size:187 final size:187
Alignment explanation
Indices: 2047237--2047610 Score: 631
Period size: 187 Copynumber: 2.0 Consensus size: 187
2047227 TGTTTGTTGA
* ** *
2047237 CAACCAGCGGTCCCTCCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTTGCTGT
1 CAACCAGCGGTCCCTCCGTCGTGAAGTTAAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGT
* * *
2047302 GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
66 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
*
2047367 GTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
131 GTTAAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
2047424 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTGTGGAGTCCAATATCCTTCGCTGT
1 CAACCAGCGGTCCCTCCGTCGTGAAGTTAAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGT
2047489 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
66 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
* * *
2047554 GTTAAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
131 GTTAAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
2047611 TGAAATTGGG
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
187 174 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (187 bp):
CAACCAGCGGTCCCTCCGTCGTGAAGTTAAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGT
GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
GTTAAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:2047606 original size:105 final size:105
Alignment explanation
Indices: 2047424--2047671 Score: 415
Period size: 105 Copynumber: 2.4 Consensus size: 105
2047414 AAATTGGCTC
** *
2047424 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTACGTTGTGTGGAGTCCAATATCCTTCGCTGT
1 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGT
2047489 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGA
66 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGA
*
2047529 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGT
1 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGT
* * *
2047594 GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGA
66 GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGA
* *
2047634 CAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGT
1 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGT
2047672 CTGAGTCATC
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 134 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGT
GAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTATTGA
Found at i:2048568 original size:44 final size:44
Alignment explanation
Indices: 2048504--2048587 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
2048494 ATTTTTGCTC
* *
2048504 TTTTTTTTATCTAGGGCGCCCTTTCGGGTTTTCACCCTAAATGT
1 TTTTTTTTATCTAGGACGCCCTTTCGAGTTTTCACCCTAAATGT
*
2048548 TTTTTTTTA-CTTAGGACGCCCTTTCGAGTTTTCATCCTAA
1 TTTTTTTTATC-TAGGACGCCCTTTCGAGTTTTCACCCTAA
2048588 GCGTAGTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (44 bp):
TTTTTTTTATCTAGGACGCCCTTTCGAGTTTTCACCCTAAATGT
Found at i:2059124 original size:8 final size:8
Alignment explanation
Indices: 2059113--2059157 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
2059103 GGAATATAAT
2059113 AATAATAG
1 AATAATAG
2059121 AATAATA-
1 AATAATAG
2059128 AATATATA-
1 AATA-ATAG
*
2059136 AAAAAT-G
1 AATAATAG
2059143 AATAATAG
1 AATAATAG
2059151 AATAATA
1 AATAATA
2059158 AAAAGGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 11 0.34
8 21 0.66
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (8 bp):
AATAATAG
Found at i:2059159 original size:22 final size:22
Alignment explanation
Indices: 2059120--2059182 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
2059110 AATAATAATA
*
2059120 GAATAATA-AATATATAAAAAAT
1 GAATAATAGAATA-ATAAAAAAG
2059142 GAATAATAGAATAAT-AAAAAG
1 GAATAATAGAATAATAAAAAAG
2059163 GAAT-ATAGAA-AATAGAAAAA
1 GAATAATAGAATAATA-AAAAA
2059183 AAAGTAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.16
21 14 0.38
22 10 0.27
23 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (22 bp):
GAATAATAGAATAATAAAAAAG
Found at i:2059182 original size:21 final size:21
Alignment explanation
Indices: 2059120--2059181 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
2059110 AATAATAATA
*
2059120 GAATAATA-AATATATAAAAAAT
1 GAATAATAGAATA-AT-AAAAAG
2059142 GAATAATAGAATAATAAAAAG
1 GAATAATAGAATAATAAAAAG
2059163 GAAT-ATAGAA-AATAGAAAA
1 GAATAATAGAATAATA-AAAA
2059182 AAAAGTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 4 0.11
20 10 0.27
21 9 0.24
22 10 0.27
23 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (21 bp):
GAATAATAGAATAATAAAAAG
Found at i:2064377 original size:22 final size:22
Alignment explanation
Indices: 2064352--2064393 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2064342 TAATTCATTT
2064352 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
2064374 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
2064394 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:2064716 original size:1 final size:1
Alignment explanation
Indices: 2064712--2064770 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
2064702 TATTTTTTTC
* *** * * *
2064712 AAAAAAAAAAAAAACAAAAAAAGGCAAAAAAAAACAAAAAACAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2064771 GCCAAAATTT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2064776 original size:20 final size:19
Alignment explanation
Indices: 2064716--2064777 Score: 83
Period size: 18 Copynumber: 3.2 Consensus size: 19
2064706 TTTTTCAAAA
2064716 AAAAAAAAAACAAAAAAAGGC
1 AAAAAAAAAAC-AAAAAA-GC
2064737 -AAAAAAAAACAAAAAA-C
1 AAAAAAAAAACAAAAAAGC
2064754 AAAAAAAAAACAAAAAAGCC
1 AAAAAAAAAACAAAAAAG-C
2064774 AAAA
1 AAAA
2064778 TTTCAAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.03
18 16 0.42
19 6 0.16
20 15 0.39
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAGC
Found at i:2064777 original size:27 final size:25
Alignment explanation
Indices: 2064712--2064770 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 25
2064702 TATTTTTTTC
2064712 AAAAAAAA-AAAAAACAAAAAAAGGCA
1 AAAAAAAACAAAAAACAAAAAAA-G-A
2064738 AAAAAAAACAAAAAACAAAAAAA-A
1 AAAAAAAACAAAAAACAAAAAAAGA
2064762 AACAAAAAA
1 AA-AAAAAA
2064771 GCCAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.10
25 6 0.19
26 8 0.26
27 14 0.45
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (25 bp):
AAAAAAAACAAAAAACAAAAAAAGA
Found at i:2069096 original size:11 final size:11
Alignment explanation
Indices: 2069082--2069126 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
2069072 TTGCAATTCA
2069082 TTTATCTT-TT
1 TTTATCTTATT
*
2069092 CTTTATCTTGTT
1 -TTTATCTTATT
*
2069104 TTAATCTTATT
1 TTTATCTTATT
2069115 TTTATCTTATT
1 TTTATCTTATT
2069126 T
1 T
2069127 CTAGCACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 28 0.93
12 2 0.07
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATCTTATT
Found at i:2069961 original size:122 final size:121
Alignment explanation
Indices: 2069735--2070028 Score: 417
Period size: 122 Copynumber: 2.4 Consensus size: 121
2069725 TAAAACTTGA
* **
2069735 TGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATATAGCCGCTTTCAGATAAATTATTTACT
1 TGTTGAAGACGACACCACTCATCCATGTTGAAGAG-TATAGCCGCTTTCAGATAAATTATTTACT
* *
2069800 GAAGATGATGTTGTTCTTTCTCGTTGAGGAAATCGAGTCAATCCGCAAATAATATGG
65 GAAGATGACGTTGTTCTTTCTCGTTGAGGAAATCGAGTCAATCCGAAAATAATATGG
* * * * *
2069857 TGTTGAAGGCGACACCACTCATCCATGTTGAAGAGTCTTGGTCGCTTTCAGATAAATTGTTTACT
1 TGTTGAAGACGACACCACTCATCCATGTTGAAGAGT-ATAGCCGCTTTCAGATAAATTATTTACT
* *
2069922 GAAGATGACGTTGTTCTTTCTCGTTGAGGACATTGAGTCAATCCGAAAATAATATGG
65 GAAGATGACGTTGTTCTTTCTCGTTGAGGAAATCGAGTCAATCCGAAAATAATATGG
* * * *
2069979 TGTTGAAGATGACACTATTCATCCATGTTGAAGAGTTCTAGCCGCTTTCA
1 TGTTGAAGACGACACCACTCATCCATGTTGAAGAG-TATAGCCGCTTTCA
2070029 TAAGGCGTTG
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
121 1 0.01
122 149 0.99
123 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (121 bp):
TGTTGAAGACGACACCACTCATCCATGTTGAAGAGTATAGCCGCTTTCAGATAAATTATTTACTG
AAGATGACGTTGTTCTTTCTCGTTGAGGAAATCGAGTCAATCCGAAAATAATATGG
Found at i:2070829 original size:66 final size:66
Alignment explanation
Indices: 2070751--2071006 Score: 243
Period size: 68 Copynumber: 3.8 Consensus size: 66
2070741 GTTTCGAGAG
2070751 AAAACTGTCTCAAGCGAGACAAAA-TTTGTTTTGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
1 AAAACTGTCTCAAGCGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
2070815 A
66 A
* * * * * *
2070816 ATAAACTTTCTCAAGCTAGACAAATACTTTGTTTGGAGAGAAACAATATAAAAGGTTTATGTTT-
1 A-AAACTGTCTCAAGCGAGACAAA-ACTTTGTTTTGAGAGAAACAATCTCAAAGGCTTATGTTTC
2070880 AAA
64 AAA
* * * *
2070883 GAGAAACTGTCTCAAGCGACATAAAA-TTTGTTTTTAG-GAAAACAATCTCAAGTGAGATCAATT
1 -A-AAACTGTCTCAAGCGAGACAAAACTTTGTTTTGAGAG-AAACAATCTCAA---AG-GC--TT
2070946 -TGTTTCAAGA
57 ATGTTTCAA-A
* ** *
2070956 AAAACTGTCTAAAATGAGACAAAACTTTGTTTTAAGAGAAACAATCTCAAA
1 AAAACTGTCTCAAGCGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAA
2071007 TGTGACAAAC
Statistics
Matches: 153, Mismatches: 23, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
65 2 0.01
66 39 0.25
67 5 0.03
68 52 0.34
69 3 0.02
71 23 0.15
72 27 0.18
73 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (66 bp):
AAAACTGTCTCAAGCGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
A
Found at i:2070960 original size:35 final size:35
Alignment explanation
Indices: 2070906--2071015 Score: 105
Period size: 35 Copynumber: 3.1 Consensus size: 35
2070896 AAGCGACATA
* * *
2070906 AAATTTGTTTTTAGGAAAACAATCTCAAGTGAGATC
1 AAATTTGTTTTAAGAAAAACAATCTCAAATGAGA-C
* ** *
2070942 -AATTTGTTTCAAGAAAAACTGTCTAAAATGAGAC
1 AAATTTGTTTTAAGAAAAACAATCTCAAATGAGAC
* *
2070976 AAAACTTTGTTTTAAGAGAAACAATCTCAAATGTGAC
1 -AAA-TTTGTTTTAAGAAAAACAATCTCAAATGAGAC
2071013 AAA
1 AAA
2071016 CAGTCTGCTC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
34 1 0.02
35 26 0.45
36 5 0.09
37 26 0.45
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.30
Consensus pattern (35 bp):
AAATTTGTTTTAAGAAAAACAATCTCAAATGAGAC
Found at i:2071008 original size:37 final size:36
Alignment explanation
Indices: 2070905--2071015 Score: 102
Period size: 37 Copynumber: 3.1 Consensus size: 36
2070895 CAAGCGACAT
* *
2070905 AAAATTTGTTTTTAG-GAAAACAATCTCAAGTGAGATC
1 AAAATTTGTTTTAAGAG-AAACAATCTCAAATGAGA-C
* * ** *
2070942 --AATTTGTTTCAAGAAAAACTGTCTAAAATGAGAC
1 AAAATTTGTTTTAAGAGAAACAATCTCAAATGAGAC
*
2070976 AAAACTTTGTTTTAAGAGAAACAATCTCAAATGTGAC
1 AAAA-TTTGTTTTAAGAGAAACAATCTCAAATGAGAC
2071013 AAA
1 AAA
2071016 CAGTCTGCTC
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
34 1 0.02
35 25 0.44
36 2 0.04
37 29 0.51
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (36 bp):
AAAATTTGTTTTAAGAGAAACAATCTCAAATGAGAC
Found at i:2072116 original size:6 final size:6
Alignment explanation
Indices: 2072103--2072181 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
2072093 CCGTTATTAT
*
2072103 TTAT-A TTATAA TTATAA TTATAA TTAT-A TTAATATA TTATTA TTAATAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TT-ATA-A TTATAA TT-ATAA
* * *
2072152 -TAT-- TTAAAA TAATAA TTTATAA TTAAAA TT
1 TTATAA TTATAA TTATAA -TTATAA TTATAA TT
2072182 TTATTTTACA
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
4 2 0.03
5 9 0.16
6 34 0.59
7 10 0.17
8 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:2072440 original size:26 final size:26
Alignment explanation
Indices: 2072375--2072488 Score: 160
Period size: 26 Copynumber: 4.5 Consensus size: 26
2072365 GGGTTTCCAG
*
2072375 AACAACCACCACCACTTGGACCACTC
1 AACAACCACCACCGCTTGGACCACTC
** *
2072401 -A-TGCCACCGCCGCTTGGACCACTC
1 AACAACCACCACCGCTTGGACCACTC
2072425 AACAACCACCACCGCTTGGACCACTC
1 AACAACCACCACCGCTTGGACCACTC
*
2072451 AACAACCACCGCCGCTTGGACCACTC
1 AACAACCACCACCGCTTGGACCACTC
*
2072477 AACAGCCACCAC
1 AACAACCACCAC
2072489 TGCTGCCAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
24 19 0.25
25 2 0.03
26 55 0.72
ACGTcount: A:0.29, C:0.46, G:0.13, T:0.11
Consensus pattern (26 bp):
AACAACCACCACCGCTTGGACCACTC
Found at i:2073992 original size:22 final size:23
Alignment explanation
Indices: 2073962--2074009 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
2073952 TATTATGTGT
*
2073962 TATGTTTTGTATATAAAAT-ATG
1 TATGGTTTGTATATAAAATGATG
* *
2073984 TATGGTTTGTATTTTAAATGATG
1 TATGGTTTGTATATAAAATGATG
2074007 TAT
1 TAT
2074010 ATGTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (23 bp):
TATGGTTTGTATATAAAATGATG
Found at i:2075168 original size:110 final size:110
Alignment explanation
Indices: 2074962--2075175 Score: 329
Period size: 110 Copynumber: 1.9 Consensus size: 110
2074952 TGAACCACGT
* *
2074962 TTTTATCACAAATTTATCACACTAAAATCATTTTTGAAGTGGGACCACCCCTTTCCCCTTCGGGT
1 TTTTATCACAAATTTATCACACTAAAATCATTTTCGAAGTGAGACCACCCCTTTCCCCTTCGGGT
** * *
2075027 AAAAGATTGTTTCGACAGCTTGGTGACTCTGCTAGGGACCACTTG
66 AAAAGATCATTTCGACAGCTTGGAGAATCTGCTAGGGACCACTTG
* *
2075072 TTTTATCACAAATTTATTACACTAAAATCATTTTCGAAGTGAGACCACCCCTTTCCCCTTCGTGT
1 TTTTATCACAAATTTATCACACTAAAATCATTTTCGAAGTGAGACCACCCCTTTCCCCTTCGGGT
* * *
2075137 AAAAGATCATTTCGACATCTTTGAGAATCTGCTGGGGAC
66 AAAAGATCATTTCGACAGCTTGGAGAATCTGCTAGGGAC
2075176 ATTTTTTAGA
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 93 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (110 bp):
TTTTATCACAAATTTATCACACTAAAATCATTTTCGAAGTGAGACCACCCCTTTCCCCTTCGGGT
AAAAGATCATTTCGACAGCTTGGAGAATCTGCTAGGGACCACTTG
Found at i:2085839 original size:53 final size:53
Alignment explanation
Indices: 2085704--2086004 Score: 390
Period size: 53 Copynumber: 5.7 Consensus size: 53
2085694 AAGGGTATGT
* * * **** * *
2085704 TCCCTCTTG-TTCATGGATTAAGAACTCAAACAATCTTCTAAAAATGGGTTTGC
1 TCCCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCTTACGGGTTCGC
* * * * * *
2085757 TCCCTATTGCTTCAGGGAGCAGAATTCGAATAATTTTCTGCTTACAGGTTCGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGC
*
2085810 TCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTTACGGGTTCGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGC
*
2085863 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACTTACGGGTTCGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGC
* * *
2085916 TCCATCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT-CCTACGGGTTCAC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGC
*
2085968 TCCCTCTTGCTTCATGGAGTAGAACTCGAACAATCTT
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
2086005 ATGGTGTGAT
Statistics
Matches: 220, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
52 46 0.21
53 167 0.76
54 7 0.03
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (53 bp):
TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGC
Found at i:2086559 original size:42 final size:42
Alignment explanation
Indices: 2086512--2086713 Score: 175
Period size: 42 Copynumber: 4.9 Consensus size: 42
2086502 AAATTACCCG
2086512 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
*
2086554 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG---A
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
*** * * * * * * ** ** *
2086593 TTTGCTTCACT-ACTCTTCGGT-G-AAGGCTTACAAATTACCCG
1 AAGGATTTAATCA-TCAT-GCTCGAAAGACTTACTGATGGCCCA
*
2086634 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
* *
2086676 AAGGATTTCATTATCATGCTCG-AAGACTTACTGATGGC
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
2086714 ACTTACTGAT
Statistics
Matches: 121, Mismatches: 31, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
38 11 0.09
39 9 0.07
40 4 0.03
41 25 0.21
42 72 0.60
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCA
Found at i:2086565 original size:122 final size:121
Alignment explanation
Indices: 2086345--2086800 Score: 578
Period size: 122 Copynumber: 3.7 Consensus size: 121
2086335 TCTGATGATA
* * * * * *
2086345 TGATGGTTTGCTCCAAC-ACTCTTCCGAGAAGGCTTA-AAATGACCCGGAGGACTT-ATCATC-T
1 TGATGGTTTGCTTC-ACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
** *** *
2086406 CGCTCGAAAGACTTACAAATAATCCGAAGGATTTCATCATCGTGCTCGAAAGACTTAC
65 -GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
2086464 TGATGAGTTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
1 TGATG-GTTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
*
2086529 GCTCGAAAGACTTACTGATGGCCCAAAGGATTTCATCATCATGCTCGAAAGACTTAC
65 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
2086586 TGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
1 TGATGG-TTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
*
2086651 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATTATCATGCTCGAAGACTTACTGATGGCAC
65 GCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTC---GA---A---A--G-AC
2086716 TTAC
118 TTAC
* *
2086720 TGATGGGTTTGCTTCACTACTCTTCTGTGAAGGCTTACAAATTACCCGAAAGATTTAATCATCAT
1 TGAT-GGTTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCAT
*
2086785 GCTTGAAAGACTTACT
65 GCTCGAAAGACTTACT
2086801 AATGACACTT
Statistics
Matches: 300, Mismatches: 18, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
119 7 0.02
120 25 0.08
121 16 0.05
122 163 0.54
123 1 0.00
125 2 0.01
128 1 0.00
131 1 0.00
133 1 0.00
134 81 0.27
135 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (121 bp):
TGATGGTTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATG
CTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
Found at i:2086719 original size:13 final size:13
Alignment explanation
Indices: 2086701--2086725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2086691 ATGCTCGAAG
2086701 ACTTACTGATGGC
1 ACTTACTGATGGC
2086714 ACTTACTGATGG
1 ACTTACTGATGG
2086726 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:2086819 original size:93 final size:93
Alignment explanation
Indices: 2086672--2086893 Score: 338
Period size: 93 Copynumber: 2.4 Consensus size: 93
2086662 TTACTGATGG
* * * * *
2086672 CCCGAAGGATTTCATTATCATGCTCG-AAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCA
1 CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTAATGACACTTACTGATGGGTTTGCTTCA
*
2086736 CTACTCTTCTGTGAAGGCTTACAAATTA
66 CTACTCTTCTATGAAGGCTTACAAATTA
*
2086764 CCCGAAAGATTTAATCATCATGCTTGAAAGACTTACTAATGACACTTACTGATGGGTTTGCTTCA
1 CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTAATGACACTTACTGATGGGTTTGCTTCA
*
2086829 CTACTCTTCTATGAAGGCTTATAAATTA
66 CTACTCTTCTATGAAGGCTTACAAATTA
* * *
2086857 CCTGAAAGACTTAATCATCATGCTCGAAAGCCTTACT
1 CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACT
2086894 GATGGCCTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 22 0.19
93 95 0.81
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (93 bp):
CCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTAATGACACTTACTGATGGGTTTGCTTCA
CTACTCTTCTATGAAGGCTTACAAATTA
Found at i:2099998 original size:11 final size:11
Alignment explanation
Indices: 2099979--2100021 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2099969 TTTCTTGAAG
*
2099979 AAAAGAAAAGA
1 AAAATAAAAGA
*
2099990 AAAATAAAATAA
1 AAAATAAAA-GA
*
2100002 AAAATATAAGA
1 AAAATAAAAGA
2100013 AAAATAAAA
1 AAAATAAAA
2100022 AGGAGGGTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (11 bp):
AAAATAAAAGA
Found at i:2101315 original size:115 final size:114
Alignment explanation
Indices: 2101118--2102052 Score: 1324
Period size: 115 Copynumber: 8.2 Consensus size: 114
2101108 TCTTAAAGAC
* *
2101118 AAGTGGAACAAGTCTGCCAC-CATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTAAG
1 AAGTGGAACAAGTCTGCC-CTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAG
* ** *
2101182 AGTAAGCGAAACAAGTCTCTCTTTCCCAAGATTTAATATTATCTTCAGAAT
65 AGTAAGCGAAAC-AGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* * * * *
2101233 AAGTGAAACAAGTATGCCCTGATTTAGTGGATCAAAATCCTCTAAGATTTGATATTCCCTTCAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
*
2101298 GTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
66 GTAAGCGAAACA-GTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
*
2101348 AAGTGGAACAAGTCTGCCCTGATTTAGTGGATCAAACTCCT-TCAAGATCTGATATTCCCTTCAG
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCT-AAGATCTGATATTCCCTTCAG
* *
2101412 AGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAAT
65 AGTAAGCGAAACA-GTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* ** *
2101463 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATATGATATTCTATTTAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
2101528 GTAAGCGGAATA-AGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
66 GTAAGC-GAA-ACAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* *
2101578 AAGTGGAACAAGTCTACCCTGATTCATTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
*
2101643 GTAAGCGAAACAGATCTCTCTTTCCCAAGATTTGATATTCCCTTAAGAGT
66 GTAAGCGAAACAG-TCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* ** *
2101693 AAGTGGAACAAGTCTTCCCCCATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTTAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
* * **
2101758 GTAAACGAAACAGGTCT-TTTTTTTCAAGATTTGATATTCCCTTCAGAGT
66 GTAAGCGAAACA-GTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* * *
2101807 AAGTGGAACAAGTCTACCCTGATTTATTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
* * * *
2101872 GTAAGCAAAACAGATATCTTTTTCCCAAGATTTGATATTCCCTTTAGAGT
66 GTAAGCGAAACAG-TCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
* ** *
2101922 AAGTGGAACAAGTCTTCCCCCATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTTAGA
1 AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
* ** *
2101987 GTAAACGAAACAGGTCT-T-TTTTTCAAGATTTGATATTCTCTTCAGAGT
66 GTAAGCGAAACA-GTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
2102035 AAGTGGAACAAGTCTGCC
1 AAGTGGAACAAGTCTGCC
2102053 TCAATTCAAT
Statistics
Matches: 741, Mismatches: 67, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
113 45 0.06
114 108 0.15
115 581 0.78
116 6 0.01
117 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (114 bp):
AAGTGGAACAAGTCTGCCCTGATTCAGTGGATCAAACTCCTCTAAGATCTGATATTCCCTTCAGA
GTAAGCGAAACAGTCTCTCTTTCCCAAGATTTGATATTCCCTTCAGAGT
Found at i:2102350 original size:14 final size:14
Alignment explanation
Indices: 2102319--2102362 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
2102309 CGTCATTATT
2102319 TATATTATTA-TAA
1 TATATTATTATTAA
2102332 TTATAATTA-TATTAA
1 -TAT-ATTATTATTAA
2102347 TATATTATTATTAA
1 TATATTATTATTAA
2102361 TA
1 TA
2102363 ATATCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.15
14 16 0.59
15 7 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTATTATTAA
Found at i:2102651 original size:26 final size:26
Alignment explanation
Indices: 2102587--2102700 Score: 151
Period size: 26 Copynumber: 4.5 Consensus size: 26
2102577 GGGTTTCCGG
* *
2102587 AACAACCACCACCACTTGGACCACTC
1 AACAGCCACCACCGCTTGGACCACTC
* *
2102613 -A-TGCCACCGCCGCTTGGACCACTC
1 AACAGCCACCACCGCTTGGACCACTC
*
2102637 AACAGCCACCACCGCTTGGAACACTC
1 AACAGCCACCACCGCTTGGACCACTC
* *
2102663 AACAACCACTACCGCTTGGACCACTC
1 AACAGCCACCACCGCTTGGACCACTC
2102689 AACAGCCACCAC
1 AACAGCCACCAC
2102701 TGCTGCCAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
24 19 0.26
25 2 0.03
26 53 0.72
ACGTcount: A:0.30, C:0.45, G:0.13, T:0.12
Consensus pattern (26 bp):
AACAGCCACCACCGCTTGGACCACTC
Found at i:2106815 original size:7 final size:7
Alignment explanation
Indices: 2106713--2106824 Score: 134
Period size: 7 Copynumber: 15.6 Consensus size: 7
2106703 CTCCTTTTAA
2106713 TTTTCTTT
1 TTTTC-TT
*
2106721 TTTTCTA
1 TTTTCTT
*
2106728 TTTTCTC
1 TTTTCTT
*
2106735 TTTTCTC
1 TTTTCTT
*
2106742 TTTTCTC
1 TTTTCTT
*
2106749 TTTTCTC
1 TTTTCTT
*
2106756 TTTTCTC
1 TTTTCTT
2106763 TTTTCTT
1 TTTTCTT
2106770 TTTTCTT
1 TTTTCTT
*
2106777 TTTTCTC
1 TTTTCTT
2106784 TTTTCTT
1 TTTTCTT
2106791 TTTTCTT
1 TTTTCTT
2106798 TTTTCTTT
1 TTTTC-TT
2106806 TTTTCTTT
1 TTTTC-TT
2106814 TTTTCTT
1 TTTTCTT
2106821 TTTT
1 TTTT
2106825 TAGCAAAAGA
Statistics
Matches: 98, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
7 78 0.80
8 20 0.20
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTCTT
Found at i:2109805 original size:14 final size:14
Alignment explanation
Indices: 2109758--2109809 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
2109748 ATACTGTAAA
* *
2109758 AAAATGCAAATATA
1 AAAATGCAAAAATG
* *
2109772 AAAATGTAAAAGTG
1 AAAATGCAAAAATG
**
2109786 CGAATGCAAAAATG
1 AAAATGCAAAAATG
2109800 AAAATGCAAA
1 AAAATGCAAA
2109810 TACAATGAAG
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.60, C:0.08, G:0.15, T:0.17
Consensus pattern (14 bp):
AAAATGCAAAAATG
Found at i:2140627 original size:11 final size:10
Alignment explanation
Indices: 2140601--2140625 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2140591 TCTATTAATC
2140601 TTTTTCTTTT
1 TTTTTCTTTT
2140611 TTTTTCTTTT
1 TTTTTCTTTT
2140621 TTTTT
1 TTTTT
2140626 TCAAACATCC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:2140778 original size:29 final size:29
Alignment explanation
Indices: 2140727--2140831 Score: 138
Period size: 29 Copynumber: 3.5 Consensus size: 29
2140717 GTTTTTTCTG
* *
2140727 CTGTTCGAACCAAACTACACTATTTTTTTTGCA
1 CTGTTCGAACCAAA-T---CTATTTTTTCTACA
*
2140760 CTGTTCAAACCAAATCTATTTTTTCTACA
1 CTGTTCGAACCAAATCTATTTTTTCTACA
2140789 CTGTTCGAACCAAATCTATTTTTTCTACA
1 CTGTTCGAACCAAATCTATTTTTTCTACA
*
2140818 CAGTTCGAACCAAA
1 CTGTTCGAACCAAA
2140832 CTACATTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
29 53 0.79
32 1 0.01
33 13 0.19
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (29 bp):
CTGTTCGAACCAAATCTATTTTTTCTACA
Found at i:2143926 original size:23 final size:23
Alignment explanation
Indices: 2143866--2143930 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
2143856 AAATTATTAT
*
2143866 ATGGCACTACGGTACAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
* *
2143889 ACGGCACTCCGGTGCAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
* *
2143912 ATGGCACTTCTGTGCAATT
1 ATGGCACTACGGTGCAATT
2143931 ATACGAGCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (23 bp):
ATGGCACTACGGTGCAATTCTAC
Found at i:2150998 original size:23 final size:23
Alignment explanation
Indices: 2150947--2151011 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
2150937 AAATTATTAT
*
2150947 ATGGCACTACGGTACAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
** *
2150970 GCGGCACTCCGGTGCAATTCTAC
1 ATGGCACTACGGTGCAATTCTAC
* *
2150993 ATGGCACTTCTGTGCAATT
1 ATGGCACTACGGTGCAATT
2151012 ATACGAGCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (23 bp):
ATGGCACTACGGTGCAATTCTAC
Found at i:2159396 original size:64 final size:64
Alignment explanation
Indices: 2159285--2159443 Score: 155
Period size: 64 Copynumber: 2.5 Consensus size: 64
2159275 CTTGACGGGT
* * * * *
2159285 GCATCGATGCACTATC-TATGCATCGATACA-TAAAT-CCTATTCAATGTTTGCA-TTTAAGGGG
1 GCATCGATGCACTA-CATGTGCATCGATACACT-GATGGC-ATTCAATGTTTGCATTTTAAAGGA
2159346 GA
63 GA
* * * **
2159348 TGCTTCGATGCACTACTTGTGCATCGATACACTGATGGCATTCGATGTTTTTATTTTAAAGGAGA
1 -GCATCGATGCACTACATGTGCATCGATACACTGATGGCATTCAATGTTTGCATTTTAAAGGAGA
*
2159413 GCATCGATGCACTTCATGTGCATCGATACAC
1 GCATCGATGCACTACATGTGCATCGATACAC
2159444 CTTGAACAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 67 0.85
65 11 0.14
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
GCATCGATGCACTACATGTGCATCGATACACTGATGGCATTCAATGTTTGCATTTTAAAGGAGA
Found at i:2163456 original size:64 final size:64
Alignment explanation
Indices: 2163388--2163508 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
2163378 CATAAATCCT
* * *
2163388 ATTCGATGTTTGCA-TTTAAGGGGGGTGCATCGATGCAATACTTGTGCATCGATACACTGATAGC
1 ATTCGATGTTTGCATTTTAA-AGGAGTGCATCGATGCAATACATGTGCATCGATACACTGATAGC
** * *
2163452 ATTCGATGTTTTTATTTTAAAGGAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTGCATTTTAAAGGAGTGCATCGATGCAATACATGTGCATCGATACAC
2163509 CTTGAACAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 44 0.90
65 5 0.10
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (64 bp):
ATTCGATGTTTGCATTTTAAAGGAGTGCATCGATGCAATACATGTGCATCGATACACTGATAGC
Found at i:2165839 original size:57 final size:57
Alignment explanation
Indices: 2165689--2165877 Score: 220
Period size: 57 Copynumber: 3.3 Consensus size: 57
2165679 GACTATGGTC
* *
2165689 CTCGTTATGTTTCTACAT-GAGATTAATTCCCCCGTTCTGTTTTTGTATGAGATTATAT
1 CTCGTTATGATTCTGCATAGA-ATTAATT-CCCCGTTCTGTTTTTGTATGAGATTATAT
* * * * *
2165747 CATCGTTATAATTATGCATATAATTAATTCCCCGTTCTATTTCTGTATGAGATTATAT
1 C-TCGTTATGATTCTGCATAGAATTAATTCCCCGTTCTGTTTTTGTATGAGATTATAT
* *
2165805 CTCGTTTTGATTCTGCATGGAATTAA-TCCTCCGTTCTGTTTTTGTATGAGATTATATT
1 CTCGTTATGATTCTGCATAGAATTAATTCC-CCGTTCTGTTTTTGTATGAGATTATA-T
* *
2165863 CTCGTTCTGCTTCTG
1 CTCGTTATGATTCTG
2165878 TTTGGGATCT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
56 3 0.03
57 44 0.40
58 43 0.39
59 20 0.18
60 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (57 bp):
CTCGTTATGATTCTGCATAGAATTAATTCCCCGTTCTGTTTTTGTATGAGATTATAT
Found at i:2165869 original size:29 final size:29
Alignment explanation
Indices: 2165689--2165878 Score: 99
Period size: 29 Copynumber: 6.6 Consensus size: 29
2165679 GACTATGGTC
* **
2165689 CTCGTTATGTTTCTACATGAGATTA-ATT
1 CTCGTTCTGTTTCTGTATGAGATTATATT
* *
2165717 CCCCCGTTCTGTTTTTGTATGAGATTATA-T
1 --CTCGTTCTGTTTCTGTATGAGATTATATT
* ** *
2165747 CATCGTTATAATTATGCATAT-A-ATTA-ATT
1 C-TCGTTCTGTTTCTG--TATGAGATTATATT
* *
2165776 CCCCGTTCTATTTCTGTATGAGATTATA-T
1 -CTCGTTCTGTTTCTGTATGAGATTATATT
* * * *
2165805 CTCGTTTTGATTCTGCATG-GAATTA-ATC
1 CTCGTTCTGTTTCTGTATGAG-ATTATATT
*
2165833 CTCCGTTCTGTTTTTGTATGAGATTATATT
1 CT-CGTTCTGTTTCTGTATGAGATTATATT
*
2165863 CTCGTTCTGCTTCTGT
1 CTCGTTCTGTTTCTGT
2165879 TTGGGATCTT
Statistics
Matches: 119, Mismatches: 27, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
27 5 0.04
28 23 0.19
29 58 0.49
30 29 0.24
31 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (29 bp):
CTCGTTCTGTTTCTGTATGAGATTATATT
Found at i:2169064 original size:3 final size:3
Alignment explanation
Indices: 2169056--2169081 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2169046 TAAAATGTAA
2169056 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2169082 AATTGTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2169892 original size:29 final size:29
Alignment explanation
Indices: 2169859--2169972 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 29
2169849 GGAACTATGC
2169859 TCCCTGTTATGTTTCTGCATGAGATTAAT
1 TCCCTGTTATGTTTCTGCATGAGATTAAT
*
2169888 TCCCTGTTATGTTTCTGTATGAGATT-AT
1 TCCCTGTTATGTTTCTGCATGAGATTAAT
* *
2169916 ATCCCCGTTATGATTT-TGCATGGGATTAAT
1 -TCCCTGTTATG-TTTCTGCATGAGATTAAT
*
2169946 TCCTCAT-TT-TGTTTCTGTATGAGATTA
1 TCC-C-TGTTATGTTTCTGCATGAGATTA
2169973 TATCTCCTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.07
29 59 0.82
30 8 0.11
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (29 bp):
TCCCTGTTATGTTTCTGCATGAGATTAAT
Found at i:2169908 original size:59 final size:59
Alignment explanation
Indices: 2169808--2170024 Score: 173
Period size: 58 Copynumber: 3.7 Consensus size: 59
2169798 ATTCCCGTCT
* * * * * *
2169808 TGATTTTGCATGAGACTGT-GTTCCTCGTTCTGATTCTGTATGGA-ACTATGCTCCCTGTTA
1 TGATTTTGCATGAGA-T-TAATTCCTCATTTTGTTTCTGTATGGAGACTAT-ATCCCCGTTA
*
2169868 TG-TTTCTGCATGAGATTAATTCC-C-TGTTATGTTTCTGTAT-GAGATTATATCCCCGTTA
1 TGATTT-TGCATGAGATTAATTCCTCAT-TT-TGTTTCTGTATGGAGACTATATCCCCGTTA
* * * * *
2169926 TGATTTTGCATGGGATTAATTCCTCATTTTGTTTCTGTAT-GAGATTATATCTCCTTTC
1 TGATTTTGCATGAGATTAATTCCTCATTTTGTTTCTGTATGGAGACTATATCCCCGTTA
* * *
2169984 TGATTGTGCATGAGATT-ATT-CTCCTTTTGTTTTTTGTATGG
1 TGATTTTGCATGAGATTAATTCCTCATTTTG-TTTCTGTATGG
2170025 GATAATATCC
Statistics
Matches: 133, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
56 8 0.06
57 12 0.09
58 73 0.55
59 28 0.21
60 12 0.09
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (59 bp):
TGATTTTGCATGAGATTAATTCCTCATTTTGTTTCTGTATGGAGACTATATCCCCGTTA
Found at i:2169936 original size:58 final size:56
Alignment explanation
Indices: 2169859--2170034 Score: 194
Period size: 58 Copynumber: 3.1 Consensus size: 56
2169849 GGAACTATGC
*
2169859 TCCCTGTTATG-TTTCTGCATGAGATTAATTCCCTGTTATGTTTCTGTATGAGATTATA
1 TCCCCGTTATGATTT-TGCATGAGATTAATTCCCT-TT-TGTTTCTGTATGAGATTATA
*
2169917 TCCCCGTTATGATTTTGCATGGGATTAATTCCTCATTTTGTTTCTGTATGAGATTATA
1 TCCCCGTTATGATTTTGCATGAGATTAATTCC-C-TTTTGTTTCTGTATGAGATTATA
* * * * * * *
2169975 TCTCCTTTCTGATTGTGCATGAGATT-ATTCTCCTTTTGTTTTTTGTATGGGATAATA
1 TCCCCGTTATGATTTTGCATGAGATTAATTC-CCTTTTG-TTTCTGTATGAGATTATA
2170032 TCC
1 TCC
2170035 ATGTTCTGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.05
57 22 0.22
58 68 0.67
59 6 0.06
60 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (56 bp):
TCCCCGTTATGATTTTGCATGAGATTAATTCCCTTTTGTTTCTGTATGAGATTATA
Found at i:2169996 original size:29 final size:29
Alignment explanation
Indices: 2169865--2170010 Score: 113
Period size: 29 Copynumber: 5.1 Consensus size: 29
2169855 ATGCTCCCTG
*
2169865 TTATGTTTCTGCATGAGATTA-AT-TCCCT
1 TTATGATTCTGCATGAGATTATATCT-CCT
* * * *
2169893 GTTATGTTTCTGTATGAGATTATATCCCCG
1 -TTATGATTCTGCATGAGATTATATCTCCT
* *
2169923 TTATGATTTTGCATGGGATTA-AT-TCCT
1 TTATGATTCTGCATGAGATTATATCTCCT
* * *
2169950 CATTTTGTTTCTGTATGAGATTATATCTCCT
1 --TTATGATTCTGCATGAGATTATATCTCCT
* *
2169981 TTCTGATTGTGCATGAGATTAT-TCTCCT
1 TTATGATTCTGCATGAGATTATATCTCCT
2170009 TT
1 TT
2170011 TGTTTTTTGT
Statistics
Matches: 93, Mismatches: 18, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.02
28 10 0.11
29 71 0.76
30 6 0.06
31 4 0.04
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (29 bp):
TTATGATTCTGCATGAGATTATATCTCCT
Found at i:2174765 original size:31 final size:31
Alignment explanation
Indices: 2174729--2174787 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2174719 CCCATTTTGA
2174729 TGCCTCATTGTTTGACAAATGCAATGTGCGG
1 TGCCTCATTGTTTGACAAATGCAATGTGCGG
* *
2174760 TGCCTCCTTGTTTGACAAATGCCATGTG
1 TGCCTCATTGTTTGACAAATGCAATGTG
2174788 AAGGCATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (31 bp):
TGCCTCATTGTTTGACAAATGCAATGTGCGG
Found at i:2178057 original size:15 final size:15
Alignment explanation
Indices: 2178037--2178068 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2178027 ATAATCTTTC
*
2178037 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
2178052 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
2178067 TT
1 TT
2178069 CGATCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:2179296 original size:30 final size:31
Alignment explanation
Indices: 2179236--2179296 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
2179226 TTCCCCATTT
*
2179236 CGGTTCCTCATTGTTTGACAAATGCAATGTG
1 CGGTGCCTCATTGTTTGACAAATGCAATGTG
* *
2179267 CGGTGCCTCCTTGTTTGA-AAATGCCATGTG
1 CGGTGCCTCATTGTTTGACAAATGCAATGTG
2179297 AAGGCATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (31 bp):
CGGTGCCTCATTGTTTGACAAATGCAATGTG
Found at i:2179322 original size:31 final size:31
Alignment explanation
Indices: 2179287--2179345 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
2179277 TTGTTTGAAA
2179287 ATGCCATGTGAAGGCATGACTTTCAACAATT
1 ATGCCATGTGAAGGCATGACTTTCAACAATT
2179318 ATGCCATGTGAAGGCATGACTTTCAACA
1 ATGCCATGTGAAGGCATGACTTTCAACA
2179346 GGTCCAACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (31 bp):
ATGCCATGTGAAGGCATGACTTTCAACAATT
Found at i:2189612 original size:21 final size:20
Alignment explanation
Indices: 2189572--2189622 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
2189562 GTGAACTTGG
** *
2189572 TATCGATACCCCTCCTACAA
1 TATCGATACCCAACCCACAA
2189592 TTATCGATACCCAACCCACAA
1 -TATCGATACCCAACCCACAA
*
2189613 TATTGATACC
1 TATCGATACC
2189623 TAGTGTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.33, C:0.35, G:0.06, T:0.25
Consensus pattern (20 bp):
TATCGATACCCAACCCACAA
Found at i:2195445 original size:34 final size:34
Alignment explanation
Indices: 2195386--2195452 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
2195376 TTCTTGAGAG
2195386 TTGTTTTCTCATTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCATTTTTATC-AGAGAGAAGTTGTCA
*
2195420 TTGTTTTCTCCTTGTTTGATC-GAGAGAAGTTGT
1 TTGTTTTCTCATT-TTT-ATCAGAGAGAAGTTGT
2195453 AATTCATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 19 0.66
35 7 0.24
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCATTTTTATCAGAGAGAAGTTGTCA
Found at i:2199440 original size:21 final size:21
Alignment explanation
Indices: 2199414--2199458 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2199404 GATTTCTGGG
* *
2199414 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2199435 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2199456 CAA
1 CAA
2199459 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2204455 original size:21 final size:21
Alignment explanation
Indices: 2204429--2204473 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2204419 GATTTCTGGG
* *
2204429 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2204450 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2204471 CAA
1 CAA
2204474 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2206340 original size:23 final size:23
Alignment explanation
Indices: 2206296--2206340 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2206286 ATCATTATAT
*
2206296 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
2206319 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2206341 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2214321 original size:14 final size:13
Alignment explanation
Indices: 2214304--2214348 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
2214294 GAACACAAAT
2214304 GAACGATCATAAAC
1 GAACGAT-ATAAAC
2214318 GAACGGATATAAAC
1 GAAC-GATATAAAC
2214332 GAAC-ATAATAAAC
1 GAACGAT-ATAAAC
2214345 GAAC
1 GAAC
2214349 ACAAGCGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.07
13 10 0.34
14 14 0.48
15 3 0.10
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (13 bp):
GAACGATATAAAC
Found at i:2214476 original size:21 final size:22
Alignment explanation
Indices: 2214452--2214492 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2214442 TAGAATTATA
2214452 TTTTATTTAATTGT-TTTAAGC
1 TTTTATTTAATTGTATTTAAGC
* *
2214473 TTTTTTTTATTTGTATTTAA
1 TTTTATTTAATTGTATTTAA
2214493 AATTGATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTTATTTAATTGTATTTAAGC
Found at i:2214612 original size:10 final size:10
Alignment explanation
Indices: 2214599--2214637 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
2214589 TGAACGCACG
*
2214599 TAAACGAACA
1 TAAATGAACA
*
2214609 TAAATGAACG
1 TAAATGAACA
2214619 TAAATGAACA
1 TAAATGAACA
2214629 TAAATGAAC
1 TAAATGAAC
2214638 GAACATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (10 bp):
TAAATGAACA
Found at i:2214613 original size:24 final size:23
Alignment explanation
Indices: 2214581--2214639 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 23
2214571 GATTAGGCTA
2214581 AACATAAATGAACGCACGTAAACG
1 AACATAAATGAACG-ACGTAAACG
*
2214605 AACATAAATG-A--ACGTAAATG
1 AACATAAATGAACGACGTAAACG
2214625 AACATAAATGAACGA
1 AACATAAATGAACGA
2214640 ACATATTACC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 18 0.58
21 1 0.03
23 2 0.06
24 10 0.32
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (23 bp):
AACATAAATGAACGACGTAAACG
Found at i:2226793 original size:22 final size:19
Alignment explanation
Indices: 2226765--2226810 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
2226755 AACTTCATTC
2226765 TTTTCTTTTGATCTTCCTCTT
1 TTTTCTTTTGAT-TTCC-CTT
*
2226786 TCTTTCTTTTTATTTCCCTT
1 T-TTTCTTTTGATTTCCCTT
2226806 TTTTC
1 TTTTC
2226811 ATTTCGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 5 0.22
22 10 0.43
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTTTTGATTTCCCTT
Found at i:2227352 original size:3 final size:3
Alignment explanation
Indices: 2227334--2227369 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
2227324 GGCTGCAAAA
2227334 AAT ATAT AATT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A
2227370 TTTTTAGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2227840 original size:131 final size:131
Alignment explanation
Indices: 2227554--2228043 Score: 543
Period size: 131 Copynumber: 3.7 Consensus size: 131
2227544 GTTTTGATTG
* * * *
2227554 TCTAAGGGTGACACGACTCATACGTGATAAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGC
1 TCTAAAGGTGACACGACTCCTACGTGATAAGGAGATCTGGTCAATGGATGACACGGTTCATACGC
* * * **
2227619 GATGAAGACGGCTA-ACCATCTTTAGAAATGATGATAACACGGTTCCTACACGATGAGGACGGCT
66 GATGAGGATGGC-AGACCATCTTTAG---GGATGATAACACGGTTCCTACGTGATGAGGACGGCT
2227683 GGTTA
127 GGTTA
* * * * * *
2227688 TCTAGAGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAATGGATGATACGGTTTATACGT
1 TCTAAAGGTGACACGACTCCTACGTGATAAGGAGATCTGGTCAATGGATGACACGGTTCATACGC
* * * *
2227753 GTTGAGGATAGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGAATGGCTGGTT
66 GATGAGGATGGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
2227818 A
131 A
* ** * * *
2227819 TCTAAAGGTGACACGACTCCTACGTGATAAAGAGATCTGGTCGGTGGATGACATGGTTCCTACGT
1 TCTAAAGGTGACACGACTCCTACGTGATAAGGAGATCTGGTCAATGGATGACACGGTTCATACGC
* * * * * *
2227884 GATGAGGATGGTAGATCATATTTAGGGATGATAACACGATTCTTACGTGATGAGGACGGATGGTT
66 GATGAGGATGGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
2227949 A
131 A
* * * * * * * * **
2227950 TCTAAGGGT-ATTACGGCTCCTATGTGATGAGGAGGTCTAGTCGATGGATGACGTGGTTCATACG
1 TCTAAAGGTGA-CACGACTCCTACGTGATAAGGAGATCTGGTCAATGGATGACACGGTTCATACG
*
2228014 CGATGAGGATGGTAGACCATCTTTAGGGAT
65 CGATGAGGATGGCAGACCATCTTTAGGGAT
2228044 AATGGTTTCA
Statistics
Matches: 301, Mismatches: 53, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
130 1 0.00
131 225 0.75
133 1 0.00
134 74 0.25
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (131 bp):
TCTAAAGGTGACACGACTCCTACGTGATAAGGAGATCTGGTCAATGGATGACACGGTTCATACGC
GATGAGGATGGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
A
Found at i:2228033 original size:262 final size:263
Alignment explanation
Indices: 2227554--2228043 Score: 646
Period size: 262 Copynumber: 1.9 Consensus size: 263
2227544 GTTTTGATTG
* *
2227554 TCTAAGGGTGACACGACTCATACGTGATAAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGC
1 TCTAAAGGTGACACGACTCATACGTGATAAAGAGATCTGGTCAGTGGATGACACGGTTCCTACGC
* * * *
2227619 GATGAAGACGGCTAACCATCTTTAGAAATGATGATAACACGGTTCCTACACGATGAGGACGGCTG
66 GATGAAGACGGCTAACCATATTTAG--AGGATGATAACACGATTCCTACACGATGAGGACGGATG
* * *
2227684 GTTATCTAGAGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCAATGGATGATACGGTTTAT
129 GTTATCTAGAGGTGACACGACTCCTACGTGATGAGGAGGTCTAGTCAATGGATGACACGGTTCAT
* *
2227749 ACGTGTTGAGGATAGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGAATGGCT
194 ACGCGATGAGGATAGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGAATGGCT
2227814 GGTTA
259 GGTTA
* * * *
2227819 TCTAAAGGTGACACGACTCCTACGTGATAAAGAGATCTGGTCGGTGGATGACATGGTTCCTACGT
1 TCTAAAGGTGACACGACTCATACGTGATAAAGAGATCTGGTCAGTGGATGACACGGTTCCTACGC
* * * * **
2227884 GATGAGGATGG-TAGATCATATTTAG-GGATGATAACACGATTCTTACGTGATGAGGACGGATGG
66 GATGAAGACGGCTA-ACCATATTTAGAGGATGATAACACGATTCCTACACGATGAGGACGGATGG
* * * * **
2227947 TTATCTA-AGG-GTATTACGGCTCCTATGTGATGAGGAGGTCTAGTCGATGGATGACGTGGTTCA
130 TTATCTAGAGGTG-A-CACGACTCCTACGTGATGAGGAGGTCTAGTCAATGGATGACACGGTTCA
* *
2228010 TACGCGATGAGGATGGTAGACCATCTTTAGGGAT
193 TACGCGATGAGGATAGCAGACCATCTTTAGGGAT
2228044 AATGGTTTCA
Statistics
Matches: 193, Mismatches: 29, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
260 1 0.01
261 4 0.02
262 109 0.56
264 2 0.01
265 77 0.40
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (263 bp):
TCTAAAGGTGACACGACTCATACGTGATAAAGAGATCTGGTCAGTGGATGACACGGTTCCTACGC
GATGAAGACGGCTAACCATATTTAGAGGATGATAACACGATTCCTACACGATGAGGACGGATGGT
TATCTAGAGGTGACACGACTCCTACGTGATGAGGAGGTCTAGTCAATGGATGACACGGTTCATAC
GCGATGAGGATAGCAGACCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGAATGGCTGG
TTA
Found at i:2228155 original size:21 final size:20
Alignment explanation
Indices: 2228122--2228161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2228112 GTTTCAAGAG
2228122 AAATTGTCTCAAGAGAAACA
1 AAATTGTCTCAAGAGAAACA
* *
2228142 AAATTCGTTTCAAGGGAAAC
1 AAATT-GTCTCAAGAGAAAC
2228162 GATCTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (20 bp):
AAATTGTCTCAAGAGAAACA
Found at i:2228168 original size:36 final size:34
Alignment explanation
Indices: 2228128--2228235 Score: 82
Period size: 36 Copynumber: 3.2 Consensus size: 34
2228118 AGAGAAATTG
2228128 TCTCAAGAGAAACAAAATTCGTTTCAAGGGAAACGA
1 TCTCAAGAG--ACAAAATTCGTTTCAAGGGAAACGA
**** *
2228164 TCTCAA-AG--ATGGGT-GTTTCAAGAGAAACTG-
1 TCTCAAGAGACAAAATTCGTTTCAAGGGAAAC-GA
*
2228194 TCTCAAGGGAGGCAAAATTCGTTTCAAGGGAAACGA
1 TCTCAA--GAGACAAAATTCGTTTCAAGGGAAACGA
2228230 TCTCAA
1 TCTCAA
2228236 AGATGGGTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
30 19 0.35
31 3 0.06
33 2 0.04
35 5 0.09
36 25 0.46
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (34 bp):
TCTCAAGAGACAAAATTCGTTTCAAGGGAAACGA
Found at i:2228182 original size:30 final size:30
Alignment explanation
Indices: 2228148--2228249 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
2228138 AACAAAATTC
2228148 GTTTCAAGGGAAACGATCTCAAAGATGGGT
1 GTTTCAAGGGAAACGATCTCAAAGATGGGT
* * *
2228178 GTTTCAAGAGAAACTG-TCTCAAGGGA-GGCAAAATT
1 GTTTCAAGGGAAAC-GATCTCAA-AGATGG-----GT
2228213 CGTTTCAAGGGAAACGATCTCAAAGATGGGT
1 -GTTTCAAGGGAAACGATCTCAAAGATGGGT
*
2228244 GCTTCA
1 GTTTCA
2228250 TAAGAAATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
30 26 0.47
31 4 0.07
35 4 0.07
36 21 0.38
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (30 bp):
GTTTCAAGGGAAACGATCTCAAAGATGGGT
Found at i:2228200 original size:66 final size:66
Alignment explanation
Indices: 2228048--2228435 Score: 403
Period size: 66 Copynumber: 5.9 Consensus size: 66
2228038 AGGGATAATG
* * * *
2228048 GTTTCAAGAGAAACCGACTCAAGAGATAC-AAACTTGTTTCAAGGGAAACAGA-CTCAAAGAT-G
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACA-ATCTCAAAGATGG
2228110 GT
65 GT
* * * *
2228112 GTTTCAAGAGAAATTGTCTCAAGAGAAACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGGG
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATGGG
2228177 T
66 T
* * * *
2228178 GTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGGG
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATGGG
2228243 T
66 T
* * * * * *
2228244 GCTTCATA-AGAAATTGTCTCAA-AGTAGAAAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTT
1 GTTTCA-AGAGAAACTGTCTCAAGAG-AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATG
*
2228307 AGT
64 GGT
* * * * * * * **
2228310 GTTTCATGAGAATCTATCTTAATG-GAGACAAAATTTGTTTCTAGGGAAATAATCTCAAAGGTTA
1 GTTTCAAGAGAAACTGTCTCAA-GAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATGG
2228374 GT
65 GT
* * *
2228376 GTTTCATGAGAAACTGTCTTAAG-GTAGACAAAATTTATTTCAAGGGAAACAATCTCAAAG
1 GTTTCAAGAGAAACTGTCTCAAGAG-AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAG
2228436 TTTGTCTCAA
Statistics
Matches: 278, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
64 26 0.09
65 30 0.11
66 220 0.79
67 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (66 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATGGG
T
Found at i:2228941 original size:16 final size:16
Alignment explanation
Indices: 2228914--2228944 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2228904 TGTATATATG
2228914 TGTTGATGTATGTTTA
1 TGTTGATGTATGTTTA
2228930 TGTTGATGTATGTTT
1 TGTTGATGTATGTTT
2228945 TCTTGGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (16 bp):
TGTTGATGTATGTTTA
Found at i:2229986 original size:2 final size:2
Alignment explanation
Indices: 2229979--2230005 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2229969 AGCTTTATTG
2229979 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 T
2230006 TCTGGGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2235387 original size:23 final size:22
Alignment explanation
Indices: 2235339--2235381 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2235329 ACTTCCTTCT
2235339 TTTCTTTTGATCTTCCTTTTTC
1 TTTCTTTTGATCTTCCTTTTTC
*
2235361 TTTCTTTTTAT-TTCCCTTTTT
1 TTTCTTTTGATCTT-CCTTTTT
2235382 TGTTTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTGATCTTCCTTTTTC
Found at i:2236206 original size:149 final size:149
Alignment explanation
Indices: 2235936--2236233 Score: 551
Period size: 149 Copynumber: 2.0 Consensus size: 149
2235926 AATAATAATA
* *
2235936 ATAATAATAATATTTTTTAGACCCGGATAAAAATGGGTGTCTACATTTTCAATCTCATATATGTC
1 ATAATAATAATATTTTTTAGACCCGGACAAAAATGGGTGTCTACATTCTCAATCTCATATATGTC
* *
2236001 TTGTTCTTATTCCTGCAATCACGGATTTAAATTACAGTCGCATTCGTATTTTTTTATTGTGTCTT
66 TTGTTCTTATTCCTGCAATCACGGATTTAAATTACAGTCGCAGTCGCATTTTTTTATTGTGTCTT
2236066 GTTTAACAGAAATGTATAT
131 GTTTAACAGAAATGTATAT
2236085 ATAATAATAATATTTTTTAGACCCGGACAAAAATGGGTGTCTACATTCTCAATCTCATATATGTC
1 ATAATAATAATATTTTTTAGACCCGGACAAAAATGGGTGTCTACATTCTCAATCTCATATATGTC
2236150 TTGTTCTTATTCCTGCAATCACGGATTTAAATTACAGTCGCAGTCGCATTTTTTTATTGTGTCTT
66 TTGTTCTTATTCCTGCAATCACGGATTTAAATTACAGTCGCAGTCGCATTTTTTTATTGTGTCTT
*
2236215 GTTTAACATAAATGTATAT
131 GTTTAACAGAAATGTATAT
2236234 CTAACGGATG
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 144 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (149 bp):
ATAATAATAATATTTTTTAGACCCGGACAAAAATGGGTGTCTACATTCTCAATCTCATATATGTC
TTGTTCTTATTCCTGCAATCACGGATTTAAATTACAGTCGCAGTCGCATTTTTTTATTGTGTCTT
GTTTAACAGAAATGTATAT
Found at i:2238604 original size:19 final size:19
Alignment explanation
Indices: 2238554--2238612 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
2238544 ATTTTAGATG
**
2238554 ATATATGTATATCATATAT
1 ATATATGTATAAAATATAT
* *
2238573 ATAAAAGAATATAAAATATAT
1 ATATATG--TATAAAATATAT
*
2238594 ATATATGTATACAATATAT
1 ATATATGTATAAAATATAT
2238613 GATTATATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
ATATATGTATAAAATATAT
Found at i:2238612 original size:21 final size:21
Alignment explanation
Indices: 2238554--2238621 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 21
2238544 ATTTTAGATG
2238554 ATATATGTATATC-ATATATAT
1 ATATATGTATA-CAATATATAT
* * * *
2238575 A-A-AAGAATATAAAATATAT
1 ATATATGTATACAATATATAT
2238594 ATATATGTATACAATATATGATT
1 ATATATGTATACAATATAT-A-T
2238617 ATATA
1 ATATA
2238622 AAACCGTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 12 0.35
22 1 0.03
23 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (21 bp):
ATATATGTATACAATATATAT
Found at i:2245792 original size:12 final size:11
Alignment explanation
Indices: 2245766--2245812 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
2245756 TTAGGTGCTG
*
2245766 AAAACAAGGTAA
1 AAAACAAGAT-A
*
2245778 AAAACAAGATT
1 AAAACAAGATA
2245789 AAAACAAGATA
1 AAAACAAGATA
2245800 AAGAA-AAGATA
1 AA-AACAAGATA
2245811 AA
1 AA
2245813 GGAATTGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.70, C:0.06, G:0.13, T:0.11
Consensus pattern (11 bp):
AAAACAAGATA
Found at i:2245796 original size:23 final size:22
Alignment explanation
Indices: 2245766--2245809 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
2245756 TTAGGTGCTG
*
2245766 AAAACAAGGTAAAAAACAAGATT
1 AAAACAAGATAAAAAA-AAGATT
*
2245789 AAAACAAGATAAAGAAAAGAT
1 AAAACAAGATAAAAAAAAGAT
2245810 AAAGGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.68, C:0.07, G:0.14, T:0.11
Consensus pattern (22 bp):
AAAACAAGATAAAAAAAAGATT
Found at i:2252318 original size:55 final size:55
Alignment explanation
Indices: 2252184--2252318 Score: 155
Period size: 55 Copynumber: 2.5 Consensus size: 55
2252174 CGGAATGGCT
*
2252184 ACTGGAAACTTTATTCAGGCCCCATAAAAATTAAACAAATATCAGAGTTCAGGAC
1 ACTGGAAACTTTATTCAGGCCCCATAAAAATTAAACAAATATCAGAATTCAGGAC
* * * * * * * * *
2252239 ACTAGCAACTTAATTCAGACCCCATATAAATTAAACAGATGT-ACGAATTCGGGCC
1 ACTGGAAACTTTATTCAGGCCCCATAAAAATTAAACAAATATCA-GAATTCAGGAC
*
2252294 ACTGGAAACTTTATTCAGGTCCCAT
1 ACTGGAAACTTTATTCAGGCCCCAT
2252319 TTAAGGCAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 1 0.02
55 63 0.98
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (55 bp):
ACTGGAAACTTTATTCAGGCCCCATAAAAATTAAACAAATATCAGAATTCAGGAC
Found at i:2255080 original size:20 final size:20
Alignment explanation
Indices: 2255055--2255104 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2255045 GAGCTTGGGG
2255055 GTATCGATACTAGAGGAACA
1 GTATCGATACTAGAGGAACA
2255075 GTATCGATACTAGAGGAACA
1 GTATCGATACTAGAGGAACA
2255095 GTATCGATAC
1 GTATCGATAC
2255105 CATAAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (20 bp):
GTATCGATACTAGAGGAACA
Found at i:2256361 original size:21 final size:21
Alignment explanation
Indices: 2256330--2256395 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
2256320 AGTCGATGGT
* *
2256330 TCTACGAGGTCCTTTGAGACA
1 TCTACGTGGTCCTTTGGGACA
* *
2256351 TCTATGTGGTCTTTTGGGACAA
1 TCTACGTGGTCCTTTGGGAC-A
*
2256373 TTCTACGTGGTTCTTTGGGACA
1 -TCTACGTGGTCCTTTGGGACA
2256395 T
1 T
2256396 TTCTACACGG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 17 0.47
22 2 0.06
23 17 0.47
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (21 bp):
TCTACGTGGTCCTTTGGGACA
Done.