Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 27
Found at i:2205126 original size:88 final size:90
Alignment explanation
Indices: 2204885--2205151 Score: 340
Period size: 88 Copynumber: 2.9 Consensus size: 90
2204875 CAAGTCAAAC
* *
2204885 AATTAAATAATAAAAATATTAAAAAACAAAATAAATAAAAAGTCAATAATTAAATAATAAAAACA
1 AATT-AATAATAAAAATATTAAGAAACAAAATAAATAAAAAGTTAATAATT--A-AATAAAAACA
* *
2204950 TTAAGAAATAAAATAAATAAAAAGTTCAT
62 TTAAGAAACAAAATAAATAAAAAGTCCAT
* * * * * *
2204979 AATTAAATAATAAAAAAATTAAGAAATAAAATAAATAAAAAGTTCATAAATAAAGAAAAATATTA
1 AATT-AATAATAAAAATATTAAGAAACAAAATAAATAAAAAGTTAATAATTAAATAAAAACATTA
* *
2205044 AGAAAGAAAATAAATAAGAAGTCCAT
65 AGAAACAAAATAAATAAAAAGTCCAT
*
2205070 AATT-A-AATAAAAATATTAAGAAACAAAATAAATAAAAAGTTTATAATTAAATAAAAACATTAA
1 AATTAATAATAAAAATATTAAGAAACAAAATAAATAAAAAGTTAATAATTAAATAAAAACATTAA
* *
2205133 AAAACAAAATAGATAAAAA
66 GAAACAAAATAAATAAAAA
2205152 CAAGTATATC
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
88 67 0.44
89 1 0.01
91 38 0.25
92 1 0.01
94 45 0.30
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (90 bp):
AATTAATAATAAAAATATTAAGAAACAAAATAAATAAAAAGTTAATAATTAAATAAAAACATTAA
GAAACAAAATAAATAAAAAGTCCAT
Found at i:2209518 original size:183 final size:183
Alignment explanation
Indices: 2208777--2209646 Score: 1198
Period size: 182 Copynumber: 4.8 Consensus size: 183
2208767 ATACAAATGA
* * * * * * *
2208777 AAAATGGATCGCTCCATAGCAATATTACAGGTACAAATATGACAAAATC-TGTC-CCAAAATGAC
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CATGTCTCAAAAATGAC
* * * *
2208840 AAAGCCAGTAAAACGCTACCAGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTT
65 AAAACCAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * **
2208905 TCTTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAATTTGTCGACACTTTATG
130 TCTGAATTTAAAAGAGAAAAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
*
2208959 AAAATGTATCGAT-CATTACCAATATAA-AGGGTAAAAATATGATAAAACA-GATCTCAAAAATG
1 AAAATGTATCGATCCA-TAACAATATAACA-GGTAAAAATATGATAAAACATG-TCTCAAAAATG
* * * *
2209021 ACAAAACC-GGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACAC
63 ACAAAACCAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
*
2209085 TTTCTGAATTTAAAAGAGAAAAAGTTATAACGCCTAAAAAGTGTCGACACTTTATG
128 TTTCTGAATTTAAAAGAGAAAAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * * *
2209141 AAAATGTATCGATCCTTACCAATATAACTGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACA
** * * * *
2209206 AAA-CATGTAAAA-ATTACCGGATATGTTAAAAGTGTCGATAGTTTAATATATGTATCGACATTT
66 AAACCA-GTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* *
2209269 TCTGAATTTAAAAGAGAAAAAGTTATTGCGCTTAAAAAGTGTCGACACTTTATG
130 TCTGAATTTAAAAGAGAAAAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* *
2209323 AAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACA
* * *
2209388 AAACCAGTAAAACGCTATCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
66 AAACCAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * **
2209453 CTGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
131 CTGAATTTAAAAGAGAAAAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * * *
2209506 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACATGTCCCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACA
*
2209571 AAACCAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2209636 CTGAAATTAAA
131 CTGAATTTAAA
2209647 CTAAAAAATG
Statistics
Matches: 615, Mismatches: 61, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
181 6 0.01
182 365 0.59
183 244 0.40
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.28
Consensus pattern (183 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACA
AAACCAGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAAAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
Found at i:2209789 original size:161 final size:163
Alignment explanation
Indices: 2209506--2209807 Score: 466
Period size: 161 Copynumber: 1.9 Consensus size: 163
2209496 ATACTTTAAA
* *
2209506 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACATGTCCCAAAATTGACA
1 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACATGTCCAAAAAATGAC-
* * *
2209571 AAACCAGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
65 AAACCAGGAAAAAGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
2209636 CTGAAATTAAACTAAAAAATGTTAGCACTTTATG
130 CTGAAATTAAACTAAAAAATGTTAGCACTTTATG
* * *
2209670 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC-TAGTCTAAAAAATGAC
1 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAT-GTCCAAAAAATGAC
* *
2209734 -AACC-GGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
65 AAACCAGGAAAAAGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
2209797 CTGAATTTAAA
130 CTGAAATTAAA
2209808 AGAGAATAAG
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
161 64 0.51
162 4 0.03
163 1 0.01
164 57 0.45
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (163 bp):
AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACATGTCCAAAAAATGACA
AACCAGGAAAAAGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
TGAAATTAAACTAAAAAATGTTAGCACTTTATG
Found at i:2209994 original size:181 final size:181
Alignment explanation
Indices: 2209661--2210143 Score: 706
Period size: 181 Copynumber: 2.7 Consensus size: 181
2209651 AAAATGTTAG
2209661 CACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACTA-GTCTA
1 CACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC-AGGTCT-
* * * *
2209725 AAAAATGAC--AACCGGAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTAT
64 AAAAATGACAAAACCGAAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
* * *
2209788 CGACACTTTCTGAATTTAAAAGAGAATAAGTTATAGCGCTTAAAAAGTGTCGA
129 CGACACTTTCTGAATTTAAAAGAGAAGAAGCTATAGCACTTAAAAAGTGTCGA
* * * *
2209841 CACTTTATTAAAATGTATCAATCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTAA
1 CACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTAA
* * *
2209906 AAATGACAAAAACGAAAAAAATTATCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTG
66 AAATGACAAAACCGAAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
2209971 ACACTTTCTGAATTTAAAAGAGAAGAAGCTATAGCACTTAAAAAGTGTCGA
131 ACACTTTCTGAATTTAAAAGAGAAGAAGCTATAGCACTTAAAAAGTGTCGA
* *
2210022 CACTTTATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATGATAAAATC-GGTCTC
1 CACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTA
* * * *
2210086 AAAATGACAAAACCGGTAAATAGA-TACCGGATATGTTGAAAGTGTTGATACTTTAATA
65 AAAATGACAAAACC-G-AAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTTAATA
2210144 AGTACGCTTA
Statistics
Matches: 271, Mismatches: 26, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
179 10 0.04
180 57 0.21
181 166 0.61
182 33 0.12
183 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (181 bp):
CACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTAA
AAATGACAAAACCGAAAAAAATTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
ACACTTTCTGAATTTAAAAGAGAAGAAGCTATAGCACTTAAAAAGTGTCGA
Found at i:2210561 original size:19 final size:18
Alignment explanation
Indices: 2210530--2210568 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
2210520 TAGTTAATAT
*
2210530 TTATAGGTAAAAATGATA
1 TTATAAGTAAAAATGATA
2210548 TTATAAGTAGAAAATGATA
1 TTATAAGTA-AAAATGATA
2210567 TT
1 TT
2210569 TTAGGTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (18 bp):
TTATAAGTAAAAATGATA
Found at i:2210860 original size:18 final size:18
Alignment explanation
Indices: 2210825--2210863 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2210815 TTGAAATGGT
2210825 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
2210843 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
2210861 AAT
1 AAT
2210864 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:2212573 original size:18 final size:18
Alignment explanation
Indices: 2212537--2212575 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2212527 GAAAAAATTT
* *
2212537 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATAGAG
*
2212555 GAAGAAGAAAATATAGAG
1 GAAGAAGAAAAGATAGAG
2212573 GAA
1 GAA
2212576 ATGAGGAGAA
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:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATAGAG
Found at i:2213310 original size:12 final size:12
Alignment explanation
Indices: 2213288--2213321 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2213278 TGTTGCATTT
2213288 TGTCAAAATTGGG
1 TGTC-AAATTGGG
*
2213301 TGTGAAATTGGG
1 TGTCAAATTGGG
2213313 TGTCAAATT
1 TGTCAAATT
2213322 TTGTGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (12 bp):
TGTCAAATTGGG
Found at i:2214958 original size:19 final size:19
Alignment explanation
Indices: 2214932--2214980 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
2214922 AAATGCATGG
2214932 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
2214950 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
2214969 ATAATTTTGTAT
1 TTAATTTTGTAT
2214981 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:2215666 original size:199 final size:199
Alignment explanation
Indices: 2215326--2216621 Score: 1996
Period size: 199 Copynumber: 6.5 Consensus size: 199
2215316 GTAAACTTAT
*
2215326 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
2215391 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTATAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
2215456 TCGACACAAATCAAACAAATGTCGATA-TTTTTGGTCCATAATGTATTT-AAGAACCAAGTGCAC
131 TCGACACAAATCGAACAAGTGTCGATACTTTTT-GTCCAGAATGTATTTCAA-AACCAAGTGCAC
2215519 -ATAAAA
194 TA-AAAA
* *
2215525 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
2215590 GGTAAATTAGAAATATAATCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2215655 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
2215720 AAAT
196 AAAA
* * *
2215724 GTGTCGATACATTTGTAACAAGTGTCAATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
2215789 GGTAAATTAGCAATATAACCAGTCTAAATATACCGGTTTTTGAGAAAACTGGTATA-AAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2215853 TCGACACAAATTC-AACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC-
131 TCGACACAAA-TCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACT
2215916 ATAAAA
195 A-AAAA
* * *
2215922 GTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAATATCGAAAAACATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
2215987 GGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
66 GGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGT
* * *
2216051 ATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCACT
130 ATCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACT
2216116 AAAAA
195 AAAAA
* * *
2216121 GTGTCGATACATATATAACAAGTGTCAATCCC-AAAACATCAAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
2216185 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
2216250 TAGACACATATCGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2216315 AAAA
196 AAAA
* * * *
2216319 GTGTCGATAGATTTGTAACAAGTGTCGATCCCAAAAATATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
2216384 GGTAAATTAGCAATATAACCGGTCTAAATGTACCGGTTTTTGAGAAAACCGATGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
2216449 TCGACACAAATCTAACAAGTTTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2216514 AAAA
196 AAAA
* * * *
2216518 GTGTCGATACATTTATAACAAGTGTCGCTCCCAAAAAAACCGAAAACCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* ** *
2216583 GGTAAATTAACAATATAATTGGTCTAAATATATCGGTTT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTT
2216622 AAATTGAAAA
Statistics
Matches: 1004, Mismatches: 82, Indels: 22
0.91 0.07 0.02
Matches are distributed among these distances:
197 2 0.00
198 357 0.36
199 636 0.63
200 9 0.01
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:2216058 original size:397 final size:396
Alignment explanation
Indices: 2215326--2216621 Score: 2028
Period size: 397 Copynumber: 3.3 Consensus size: 396
2215316 GTAAACTTAT
* *
2215326 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
2215391 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAT-AAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAAC-TG-GTATAAAAAAGT
* *
2215455 ATCGACACAAATCAAACAAATGTCGATATTTTTGGTCCATAATGTATTT-AAGAACCAAGTGCAC
129 ATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAA-AACCAAGTGCAC
* *
2215519 ATAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAAACTATAATTATAAT
193 ATAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAACTATAATTATAAT
* *
2215584 GTAATAGGTAAATTAGAAATATAATCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
258 GTAATAGGTAAATTA-ACATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
* *
2215649 AAAGTATCGACACAAATCGAACAAGTGTCGATACTTTTTGTTCAGAATGTATTTCAAAACCAAGT
322 AAAGTATCGACACAAATCTAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGT
*
2215714 GCACTAAAAT
387 GCACTAAAAA
* *
2215724 GTGTCGATACATTTGTAACAAGTGTCAATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
2215789 GGTAAATTAGCAATATAACCAGTCTAAATATACCGGTTTTTGAGAAAACTGGTATAAAAAAGTAT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACTGGTATAAAAAAGTAT
*
2215854 CGACACAAATTC-AACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAT
131 CGACACAAA-TCAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACAT
*
2215918 AAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAATATCGAAAAAC-ATAATTATAATG
195 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCG-AAAACTATAATTATAATG
* *
2215982 TAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
259 TAATAGGTAAATTA-ACATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
* *
2216047 AAGTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTG
323 AAGTATCGACACAAATCTAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTG
2216112 CACTAAAAA
388 CACTAAAAA
* *
2216121 GTGTCGATACATATATAACAAGTGTCAATCCC-AAAACATCAAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
2216185 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACTGGTATA-AAAAAGTA
* * * *
2216250 TAGACACATATCGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAACCAAGTGCAC-T
130 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACAT
* *
2216314 AAAAAGTGTCGATAGATTTGTAACAAGTGTCGATCCCAAAAATATCGAAAACTATAATTATAATG
195 -AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAACTATAATTATAATG
* * * * *
2216379 TAATAGGTAAATTAGCAATATAACCGGTCTAAATGTACCGGTTTTTGAGAAAACCGATGTACAAA
259 TAATAGGTAAATTAAC-ATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
* * *
2216444 AAGTATCGACACAAATCTAACAAGTTTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTG
323 AAGTATCGACACAAATCTAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTG
2216509 CACTAAAAA
388 CACTAAAAA
** * * *
2216518 GTGTCGATACATTTATAACAAGTGTCGCTCCCAAAAAAACCGAAAACCATAATTATAATATAATA
1 GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* ** *
2216583 GGTAAATTAACAATATAATTGGTCTAAATATATCGGTTT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTT
2216622 AAATTGAAAA
Statistics
Matches: 829, Mismatches: 59, Indels: 20
0.91 0.06 0.02
Matches are distributed among these distances:
396 95 0.11
397 554 0.67
398 180 0.22
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (396 bp):
GTGTCGATACATTTATAACAAGTGTCAATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACTGGTATAAAAAAGTAT
CGACACAAATCAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACATA
AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAACTATAATTATAATGTA
ATAGGTAAATTAACATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATCTAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCAC
TAAAAA
Found at i:2217947 original size:20 final size:20
Alignment explanation
Indices: 2217922--2217967 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2217912 CAAGTTGGAC
2217922 AGGATGTCACAATTACGACA
1 AGGATGTCACAATTACGACA
2217942 AGGATGTCACAATTACGACA
1 AGGATGTCACAATTACGACA
*
2217962 ATGATG
1 AGGATG
2217968 GAATACATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (20 bp):
AGGATGTCACAATTACGACA
Found at i:2220044 original size:199 final size:200
Alignment explanation
Indices: 2219575--2221223 Score: 2288
Period size: 199 Copynumber: 8.3 Consensus size: 200
2219565 ATAAAACAAA
* * * * *
2219575 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAATATCAAAAAATATAATTATATTGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
* * *
2219640 GTAAATTATTCATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
66 GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
** ** * *
2219705 CGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTAATTCAAAA-CAAGTGCAC-TA
131 CGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACATA
2219768 AAAAG
196 AAAAG
* * * *
2219773 TGTCGATGCATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
* * * * * * *
2219838 ATAAATTA-GCAATATAACCAGTCTAAATATACCGGTTTTTGAGAAAATAGGTGTACAAACAGTA
66 GTAAATTATTC-ATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
2219902 TCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCACAT
130 TCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAT
2219967 -AAAAG
195 AAAAAG
*
2219972 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
* * * *
2220037 GTAAATTATTCATATAAACGATCTAAATATACCGATTTTTGAGAAAACAAGTGTAAAAAAAGTAT
66 GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
* *
2220102 CGACACAAATCA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCA-TT
131 CGACACAAAT-AGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAT
2220165 AAAAAG
195 AAAAAG
* *
2220171 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
*** *
2220236 GTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAAC-TGGTGTACAAAAAGTA
66 GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAT-GTGTACAAAAAGTA
* *
2220300 TCGACACAAATAGAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAGAACCAAGTGCACAT
130 TCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACAT
2220365 -AAAAG
195 AAAAAG
*
2220370 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
* ** *
2220435 GTAAATTATTCATGTAAACAATCTAAATATACCGGTTTTTGAGAAAACATGTATACAAAAAGTAT
66 GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
* ** ** * *
2220500 CGACATAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTATATTTCAAAACCAAGTGCAC-TA
131 CGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACATA
2220564 AAAAG
196 AAAAG
* * *
2220569 TGTCGATACATATATAACAAGTCTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTAATA
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTAATA
* * *
2220633 GGTAAATTA-GCAATATAATCGGTCTAAATATATCGGTTTTTGAGAAAACATGTGTACAAAAAGT
65 GGTAAATTATTC-ATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGT
* *
2220697 ATTGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCACA
129 ATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACA
2220762 T-AAAAG
194 TAAAAAG
* ** *
2220768 TATCGATACATTTAAAACAAGTGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
*
2220833 GTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
66 GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
* * **
2220898 TGACACAAATATAACAAGTGTCGATACTTTTTCTCCAGAAT-TATTTCAAAACCAAGTGCAC-TA
131 CGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACATA
2220961 AAAAG
196 AAAAG
*
2220966 TGTCGATACATTTATAAA-AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 TGTCGATACATTTA-AAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATA
* * * * * * **
2221030 GGTAAATTA-ACAATATAATCGGTCTAAATGTACCGGCTTATGAGAAAACATGTATACATGAAGT
65 GGTAAATTATTC-ATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGT
* * * * * * *
2221094 ATCGACACAAATACATCAAGTTTCGATACATTTTTGTCCAGACTATATTTTAAAAACCAAGTGCA
129 ATCGACACAAATAGAACAAGTGTCGATAC-TTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGCA
*
2221159 CA-ACAAAG
192 CATAAAAAG
* * *
2221167 TTTCGATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
1 TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
2221224 CCAAATGTCT
Statistics
Matches: 1288, Mismatches: 139, Indels: 45
0.88 0.09 0.03
Matches are distributed among these distances:
197 3 0.00
198 321 0.25
199 876 0.68
200 16 0.01
201 72 0.06
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (200 bp):
TGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAG
GTAAATTATTCATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
CGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACATA
AAAAG
Found at i:2220312 original size:398 final size:398
Alignment explanation
Indices: 2219575--2221223 Score: 2617
Period size: 398 Copynumber: 4.1 Consensus size: 398
2219565 ATAAAACAAA
* * * *
2219575 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAATATCAAAAAATATAATTATATTGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
* *
2219640 GTAAATTATTCATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
66 GTAAATTATTCATGTAAACGATCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
* * *
2219705 CGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTAATTCAAAA-CAAGTGCACTAA
131 CGACACAAATCAAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCACTAA
*
2219769 AAAGTGTCGATGCATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
196 AAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
* * * * * *
2219834 ATAGATAAATTAGCAATATAACCAGTCTAAATATACCGGTTTTTGAGAAAATAGGTGTACAAACA
261 ATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
2219899 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
326 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
2219964 CATAAAAG
391 CATAAAAG
2219972 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
* * *
2220037 GTAAATTATTCATATAAACGATCTAAATATACCGATTTTTGAGAAAACAAGTGTAAAAAAAGTAT
66 GTAAATTATTCATGTAAACGATCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
** * *
2220102 CGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCATTAA
131 CGACACAAATCAAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCACTAA
*
2220167 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
196 AAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
2220232 ATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAAC-TGGTGTACAAAA
261 ATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAT-GTGTACAAAA
*
2220296 AGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAGAACCAAGTGC
325 AGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGC
2220361 ACATAAAAG
390 ACATAAAAG
2220370 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
* * *
2220435 GTAAATTATTCATGTAAACAATCTAAATATACCGGTTTTTGAGAAAACATGTATACAAAAAGTAT
66 GTAAATTATTCATGTAAACGATCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
* * * *
2220500 CGACATAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTATATTTCAAAACCAAGTGCACTAA
131 CGACACAAATCAAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCACTAA
* *
2220565 AAAGTGTCGATACATATATAACAAGTCTCGATCCCAAAAACATCGAAAACTATAATTATAATGTA
196 AAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
* * *
2220630 ATAGGTAAATTAGCAATATAATCGGTCTAAATATATCGGTTTTTGAGAAAACATGTGTACAAAAA
261 ATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
*
2220695 GTATTGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
326 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
2220760 CATAAAAG
391 CATAAAAG
* * *
2220768 TATCGATACATTTAAAACAAGTGTCGATCCTGAAAACATCAAAAAACATAATTATAATGTAATAG
1 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
* *
2220833 GTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTAT
66 GTAAATTATTCATGTAAACGATCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
*
2220898 TGACACAAAT-ATAACAAGTGTCGATACTTTTTCTCCAGAAT-TATTTCAAAACCAAGTGCACTA
131 CGACACAAATCA-AACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCACTA
* *
2220961 AAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
195 AAAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
* * * * * **
2221026 AATAGGTAAATTA-ACAATATAATCGGTCTAAATGTACCGGCTTATGAGAAAACATGTATACATG
260 AATAGGTAAATTAGA-AATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA
* * * * * * * *
2221090 AAGTATCGACACAAATACATCAAGTTTCGATACATTTTTGTCCAGACTATATTTTAAAAACCAAG
324 AAGTATCGACACAAATAGAACAAGTGTCGATAC-TTTTGGTCCAGAATGTA-TTTCAGAACCAAG
2221155 TGCACA-ACAAAG
387 TGCACATA-AAAG
* * * *
2221167 TTTCGATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
1 TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
2221224 CCAAATGTCT
Statistics
Matches: 1160, Mismatches: 84, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
397 334 0.29
398 753 0.65
399 73 0.06
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (398 bp):
TGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAG
GTAAATTATTCATGTAAACGATCTAAATATACCGGTTTTTGAGAAAACAAGTGTACAAAAAGTAT
CGACACAAATCAAACAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCACTAA
AAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
ATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
CATAAAAG
Found at i:2223886 original size:196 final size:197
Alignment explanation
Indices: 2223631--2224166 Score: 618
Period size: 198 Copynumber: 2.7 Consensus size: 197
2223621 TTTTCAAAAA
** ** * *
2223631 GTATCGACCCCAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCA
1 GTATCGA-CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * * *
2223696 GTATACATATACCGGTTAATTATAAAACAGGTCAACATAAAGTATCGACACTTTTTAAGTTTGTG
65 GTATAAATATACCGGTTTATGAGAAAATAGGTCAACATAAAGTATCGACACTTTTTAAGTTTGTG
* * * ***
2223761 TCGATA-TTTTTTTCCA-AAAGAAAGCACAAACAGGTTCACGCATAA-AGTGTCAATACATTTAA
130 TCGATACATTTTGTCCATAAAGAAAGCACAAACAGGTGCAAAAATAACA-TGTCAATACATTTAA
2223823 AATT
194 AATT
*
2223827 GTATCGACCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCG
1 GTATCGACC-CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
2223892 GTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAGCATAAAGTATCGACACTTGTGTAA-TTTG
65 GTATAAATATACCGG-TTTATGAGAAAATAGGTCAACATAAAGTATCGACACTT-TTTAAGTTTG
* * * ** *
2223956 TGTCGATACATTTTGTCCATAATGAATGCCCAATGAGGTGCAAAAATAACATGTCGATACATTTA
128 TGTCGATACATTTTGTCCATAAAGAAAGCACAAACAGGTGCAAAAATAACATGTCAATACATTTA
2224021 AAATT
193 AAATT
* * * *
2224026 GTATCGATCCCAAAAACATCGAAA-CGAAAATTACAATGTTATAGGTAAATTTACAATGTACCCG
1 GTATCGA-CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
2224090 GTATAAATATACCGATTTTATGAGAAAATAAGTCTAA-ATAATGTATCGACAC-CTTTATAGTTT
65 GTATAAATATACCG-GTTTATGAGAAAATAGGTC-AACATAAAGTATCGACACTTTTTA-AGTTT
2224153 GTGTCGATACATTT
127 GTGTCGATACATTT
2224167 AAATTTGCAA
Statistics
Matches: 288, Mismatches: 41, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
195 2 0.01
196 70 0.24
197 46 0.16
198 107 0.37
199 60 0.21
200 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (197 bp):
GTATCGACCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGG
TATAAATATACCGGTTTATGAGAAAATAGGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGT
CGATACATTTTGTCCATAAAGAAAGCACAAACAGGTGCAAAAATAACATGTCAATACATTTAAAA
TT
Found at i:2224269 original size:115 final size:115
Alignment explanation
Indices: 2224066--2224281 Score: 319
Period size: 115 Copynumber: 1.9 Consensus size: 115
2224056 TTACAATGTT
*
2224066 ATAGGTAAATTTACAATGTACCCGGTATAAATATACCGATTTTATGAGAAAATAAGTCTAAATAA
1 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAAGTCTAAATAA
* *
2224131 TGTATCGACACCTTTATAGTTTGTGTCGATACATTTAAATTTGCAATGCA
66 AGTATCGACACCTTTATAATTTGTGTCGATACATTTAAATTTGCAATGCA
* * * * *
2224181 ATAGGTAAATTTGCAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTC-AGAATA
1 ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAAGTCTA-AATA
*
2224245 AAGTATCGACA-CTTGTGTAATTTGTGTCGATACATTT
65 AAGTATCGACACCTT-TATAATTTGTGTCGATACATTT
2224282 TGTCTATAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
114 4 0.04
115 86 0.96
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (115 bp):
ATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGAAAATAAGTCTAAATAA
AGTATCGACACCTTTATAATTTGTGTCGATACATTTAAATTTGCAATGCA
Found at i:2224440 original size:313 final size:313
Alignment explanation
Indices: 2223862--2224475 Score: 1120
Period size: 313 Copynumber: 2.0 Consensus size: 313
2223852 CGATAATTAT
* *
2223862 AATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
1 AATGCAATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
* *
2223927 GCATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAATGA
66 GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGA
2223992 GGTGCAAAAATAACATGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAAAAT
131 GGTGCAAAAATAACATGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAAAAT
* *
2224057 TACAATGTTATAGGTAAATTTACAATGTACCCGGTATAAATATACCGATTTTATGAGAAAATAAG
196 TACAATGTTATAGGTAAATTTACAATGTACACGATATAAATATACCGATTTTATGAGAAAATAAG
2224122 TCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATACATTTAAATTTGC
261 TCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATACATTTAAATTTGC
*
2224175 AATGCAATAGGTAAATTTGCAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
1 AATGCAATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
*
2224240 GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCTATAATGAATGCCCAACGA
66 GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGA
* *
2224305 GGTGCAAGAATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAAAAT
131 GGTGCAAAAATAACATGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAAAAT
* *
2224370 TACAATGTTATAGGTAAATTTACAATGTACACGATATAAATATACCGGTTTTATGAGAAAATATG
196 TACAATGTTATAGGTAAATTTACAATGTACACGATATAAATATACCGATTTTATGAGAAAATAAG
2224435 TCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATAC
261 TCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATAC
2224476 TTTTTTCCAG
Statistics
Matches: 289, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
313 289 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (313 bp):
AATGCAATAGGTAAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
GAATAAAGTATCGACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGA
GGTGCAAAAATAACATGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAAAAT
TACAATGTTATAGGTAAATTTACAATGTACACGATATAAATATACCGATTTTATGAGAAAATAAG
TCTAAATAATGTATCGACACCTTTATAGTTTGTGTCGATACATTTAAATTTGC
Found at i:2226428 original size:6 final size:6
Alignment explanation
Indices: 2226417--2226442 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2226407 CTTCGGTATA
2226417 CCAATC CCAATC CCAATC CCAATC CC
1 CCAATC CCAATC CCAATC CCAATC CC
2226443 CATTGGCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.54, G:0.00, T:0.15
Consensus pattern (6 bp):
CCAATC
Found at i:2229236 original size:23 final size:23
Alignment explanation
Indices: 2229167--2229222 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
2229157 CAGTAAACTG
2229167 CTACAGTACAAGCATCAGAACAA
1 CTACAGTACAAGCATCAGAACAA
*
2229190 CTATAGTACAAGCATCAGAACAA
1 CTACAGTACAAGCATCAGAACAA
2229213 CTACAGTACA
1 CTACAGTACA
2229223 GTCATCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.16
Consensus pattern (23 bp):
CTACAGTACAAGCATCAGAACAA
Found at i:2249595 original size:24 final size:24
Alignment explanation
Indices: 2249530--2249602 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
2249520 ATTTAAAAAT
* *
2249530 AAAAAAATTATTATAAA-CAAA-TA
1 AAAAAAATTA-AATAAATGAAATTA
**
2249553 AAAATAAA-TAAATTTATGAAATTA
1 AAAA-AAATTAAATAAATGAAATTA
*
2249577 AAAAAAATTAAATAAATGAAGTTA
1 AAAAAAATTAAATAAATGAAATTA
2249601 AA
1 AA
2249603 CAATTACCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 3 0.08
23 12 0.31
24 24 0.62
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (24 bp):
AAAAAAATTAAATAAATGAAATTA
Found at i:2252686 original size:17 final size:18
Alignment explanation
Indices: 2252664--2252700 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2252654 ATGTGATAAG
2252664 TTCT-AATTTT-TTTTATT
1 TTCTAAATTTTGTTTT-TT
2252681 TTCTAAATTTTGTTTTTT
1 TTCTAAATTTTGTTTTTT
2252699 TT
1 TT
2252701 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (18 bp):
TTCTAAATTTTGTTTTTT
Found at i:2260137 original size:2 final size:2
Alignment explanation
Indices: 2260130--2260168 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2260120 AGCTTTAAGA
2260130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2260169 AAGTTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2261776 original size:15 final size:15
Alignment explanation
Indices: 2261752--2261789 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2261742 TATTTTTTTT
*
2261752 ATTAATATAACA-AA
1 ATTAAAATAACATAA
2261766 GATTAAAATAACATAA
1 -ATTAAAATAACATAA
2261782 ATTAAAAT
1 ATTAAAAT
2261790 TTTAATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (15 bp):
ATTAAAATAACATAA
Found at i:2267925 original size:12 final size:12
Alignment explanation
Indices: 2267910--2267934 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2267900 TATACATTCA
2267910 TTTAATTTAATT
1 TTTAATTTAATT
2267922 TTTAATTTAATT
1 TTTAATTTAATT
2267934 T
1 T
2267935 AATAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:2268024 original size:20 final size:20
Alignment explanation
Indices: 2267982--2268024 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2267972 AACATTTTTC
* *
2267982 TAAAAGTAAATATAAAATTA
1 TAAAAATAAATATAAAATAA
2268002 TAAAAATAAATATGAAAA-AA
1 TAAAAATAAATAT-AAAATAA
2268022 TAA
1 TAA
2268025 TTGAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAAATAAATATAAAATAA
Found at i:2268049 original size:28 final size:26
Alignment explanation
Indices: 2268018--2268079 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
2268008 TAAATATGAA
2268018 AAAATAATTGAAA-TTAATTTAAAGATAT
1 AAAATAATT-AAATTTAATTT-AA-ATAT
** *
2268046 AAAATTGTTAAATTTAATTTAATTAT
1 AAAATAATTAAATTTAATTTAAATAT
2268072 AAAATAAT
1 AAAATAAT
2268080 ATCATAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 9 0.32
27 5 0.18
28 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
AAAATAATTAAATTTAATTTAAATAT
Found at i:2268976 original size:2 final size:2
Alignment explanation
Indices: 2268969--2269000 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2268959 TAAAATTTTA
2268969 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
2269001 TATTGTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2269554 original size:40 final size:40
Alignment explanation
Indices: 2269502--2269578 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
2269492 TAAGTAAGAT
2269502 CCCCCCCCCCCGACCCCCGATGCTTTGAAAACCCATCCCC
1 CCCCCCCCCCCGACCCCCGATGCTTTGAAAACCCATCCCC
2269542 CCCCCCCCCCCGACCCCCGATGCTTTGAAAACCCATC
1 CCCCCCCCCCCGACCCCCGATGCTTTGAAAACCCATC
2269579 GCCATCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.18, C:0.58, G:0.10, T:0.13
Consensus pattern (40 bp):
CCCCCCCCCCCGACCCCCGATGCTTTGAAAACCCATCCCC
Found at i:2272426 original size:190 final size:190
Alignment explanation
Indices: 2272077--2272429 Score: 471
Period size: 190 Copynumber: 1.9 Consensus size: 190
2272067 AACAATATCT
* * *
2272077 TTTAATTTGAAATATTCAAAAGATACAACTCATTTTACCATTCAAATTTCAATATATATTATTTT
1 TTTAATTTGAAATATTCAAAAGATACAACTCATTTTACCATTCAAACTTAAACATATATTATTTT
* * * *
2272142 AATTTGAAATATACAAAATTATATAATTATCTTTGATATTCAAAGTTAAAAAGATAACAAATATC
66 AATTTAAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATATC
* *
2272207 TTTTTAAGTTGATATGTTCAAAGAGTAATTATCTTATTAATATTCAAATTAAATAATATA
131 TTTTTAAGTTGATATGTTAAAAAAGTAATTATCTTATTAATATTCAAATTAAATAATATA
* * * **
2272267 TTTAATTTGCAATACTT-AAAAGTTA-AACTCCTTTTATTATTCAAACTTAAACATATATTATTT
1 TTTAATTTGAAATA-TTCAAAAGATACAACTCATTTTACCATTCAAACTTAAACATATATTATTT
* **
2272330 TAATTTAAAATATGCAAAAATATATAATTATCTTTTAATATTCAAAATTAAAAAGATAACATTTA
65 TAATTTAAAATATACAAAAATATATAATTATC-TTTAATATTCAAAATTAAAAAGATAACAAATA
* *
2272395 CTTTTTTTAA-TTGACT-TTTTAAAAAAGTAATTATC
129 -TCTTTTTAAGTTGA-TATGTTAAAAAAGTAATTATC
2272430 CCACTAATTT
Statistics
Matches: 140, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
189 61 0.44
190 68 0.49
191 11 0.08
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.43
Consensus pattern (190 bp):
TTTAATTTGAAATATTCAAAAGATACAACTCATTTTACCATTCAAACTTAAACATATATTATTTT
AATTTAAAATATACAAAAATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATATC
TTTTTAAGTTGATATGTTAAAAAAGTAATTATCTTATTAATATTCAAATTAAATAATATA
Found at i:2274608 original size:23 final size:22
Alignment explanation
Indices: 2274571--2274625 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
2274561 TTTCTAAAAT
* *
2274571 TTATTCTAATTAAATATTACTATA
1 TTATT-TAAATAAATATTAAT-TA
*
2274595 TTATTTAAATAAATGTTAATTA
1 TTATTTAAATAAATATTAATTA
2274617 TTAATTTAA
1 TT-ATTTAA
2274626 TTGTAACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 18 0.67
24 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTTAAATAAATATTAATTA
Found at i:2276758 original size:23 final size:23
Alignment explanation
Indices: 2276724--2276780 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
2276714 GCAAGTTTTT
*
2276724 GAGGTTTCTGCATATCATATCAA
1 GAGGTTTATGCATATCATATCAA
*
2276747 GAGGTTTATGCATATCATGTCAA
1 GAGGTTTATGCATATCATATCAA
*
2276770 GGGGTTTATGC
1 GAGGTTTATGC
2276781 TGCCAACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (23 bp):
GAGGTTTATGCATATCATATCAA
Found at i:2279999 original size:144 final size:144
Alignment explanation
Indices: 2279585--2280002 Score: 604
Period size: 144 Copynumber: 2.9 Consensus size: 144
2279575 GTAGTGTTTC
* * * * *
2279585 AACATTTGCAGCCTCTTTTCGTTTTGCCTCGTTCCTTTTCTCTTGACCCTCAGCATTGTCTTCCA
1 AACATTTGCAGTCTCTTTTCGTCTTGCCTCATTCCTTTTCTCTCGATCCTCAGCATTGTCTTCCA
* * * * * *
2279650 TGTGCAGTTTCAGAACATTTGCAGTCCCGTTTCCTTTAGCCACTCGATGTTCGACATTCTCCCCC
66 TGTGCTGTTCCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATGTTCGACATTCTCTCCC
*
2279715 TTCTGCTGTTCCGA
131 TTCTGCCGTTCCGA
* * * *
2279729 ATCATTTGCAGTCTCTTTTCGTCCTGCCCCATTCCTTTTCTCTCGATCTTCAGCATTGTCTTCCA
1 AACATTTGCAGTCTCTTTTCGTCTTGCCTCATTCCTTTTCTCTCGATCCTCAGCATTGTCTTCCA
*
2279794 TGTGCTGTTCCAAAACATTTGCAGTCCCTTTCCCTTTAGCCGCTCGATGTTCGACATTCTCTCCC
66 TGTGCTGTTCCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATGTTCGACATTCTCTCCC
*
2279859 TTCTGCCGTTCTGA
131 TTCTGCCGTTCCGA
** *
2279873 AACATTTGCAGTCTCTTTTAATCTTGCCTCATTCCTCTTCTCTCGATCCTCAGCATTGTCTTCCA
1 AACATTTGCAGTCTCTTTTCGTCTTGCCTCATTCCTTTTCTCTCGATCCTCAGCATTGTCTTCCA
* * *
2279938 TGTGCTGTTCCAAAACATTTGCAG-CCGCTTTTCCTTTAGCTGCTCGATCTTCAACATTCTCTCC
66 TGTGCTGTTCCAAAACATTTGCAGTCC-CTTTTCCTTTAGCCGCTCGATGTTCGACATTCTCTCC
2280002 C
130 C
2280003 ATATGTCTTT
Statistics
Matches: 244, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
143 2 0.01
144 242 0.99
ACGTcount: A:0.15, C:0.33, G:0.14, T:0.39
Consensus pattern (144 bp):
AACATTTGCAGTCTCTTTTCGTCTTGCCTCATTCCTTTTCTCTCGATCCTCAGCATTGTCTTCCA
TGTGCTGTTCCAAAACATTTGCAGTCCCTTTTCCTTTAGCCGCTCGATGTTCGACATTCTCTCCC
TTCTGCCGTTCCGA
Found at i:2286882 original size:19 final size:19
Alignment explanation
Indices: 2286855--2286894 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2286845 ACTTTCATAG
2286855 AAGACCTTCTTTATGAATT
1 AAGACCTTCTTTATGAATT
* *
2286874 AAGATCTTCTTTATGAGTT
1 AAGACCTTCTTTATGAATT
2286893 AA
1 AA
2286895 CCTCAATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (19 bp):
AAGACCTTCTTTATGAATT
Found at i:2292137 original size:2 final size:2
Alignment explanation
Indices: 2292132--2292195 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
2292122 AAAAAAATCT
2292132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2292174 TA TA TA TA TT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
2292196 ATTGATTGTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2295195 original size:37 final size:35
Alignment explanation
Indices: 2295129--2295444 Score: 159
Period size: 34 Copynumber: 8.5 Consensus size: 35
2295119 CATATATATA
* *
2295129 ATATA-TATATAGTTTTGAAGACATATTTGAAACATTT
1 ATATATTATATAGTTTTTAAAACAT-TTTGAAA-A-TT
* *
2295166 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATATTATATAGTTTTTAAAACATTTTGAAAAT-T
* *
2295202 ATATAATATATAGTTTTTAAAACGTTTTTGAAAA-T
1 ATATATTATATAGTTTTTAAAAC-ATTTTGAAAATT
* *
2295237 ATATATTATATGGTTTTCAAAACATTTTGAAAA-T
1 ATATATTATATAGTTTTTAAAACATTTTGAAAATT
2295271 A-A-A-TATA-A-TTTTTAAAAAGAAACATTTTGAAAACATATAT
1 ATATATTATATAGTTTTT----A-AAACATTTTG--AA-A-AT-T
* *
2295311 ATATATTATATAGTTTTGAAATCATTTTGAAAACTT
1 ATATATTATATAGTTTTTAAAACATTTTGAAAA-TT
* * *
2295347 ATA-A-TATATAATTTTAAAAAAAAAACATTTTCGAAAACT
1 ATATATTATATAGTTTT-----TAAAACATTTT-GAAAATT
* * *
2295386 ATATAATTTTGAAAACGTTTTTTAAAATACTTTTGAAAA-T
1 ATAT-ATTAT--ATA-G-TTTTTAAAACA-TTTTGAAAATT
2295426 ATATATTATATAGTTTTTA
1 ATATATTATATAGTTTTTA
2295445 GAAAATATTT
Statistics
Matches: 218, Mismatches: 27, Indels: 70
0.69 0.09 0.22
Matches are distributed among these distances:
29 4 0.02
31 4 0.02
32 1 0.00
33 2 0.01
34 31 0.14
35 28 0.13
36 31 0.14
37 25 0.11
38 19 0.09
39 17 0.08
40 21 0.10
41 13 0.06
42 7 0.03
43 4 0.02
44 3 0.01
45 4 0.02
46 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (35 bp):
ATATATTATATAGTTTTTAAAACATTTTGAAAATT
Found at i:2295213 original size:36 final size:36
Alignment explanation
Indices: 2295128--2295279 Score: 166
Period size: 36 Copynumber: 4.2 Consensus size: 36
2295118 ACATATATAT
* * *
2295128 AATAT-ATATATAGTTTTGAAGACATATTTGAAACATT
1 AATATAATATATAGTTTTTAAAACAT-TTTGAAA-ATA
* * *
2295165 TATATATTATATAGTTTTTAAAACACTTTGAAAATA
1 AATATAATATATAGTTTTTAAAACATTTTGAAAATA
*
2295201 AATATAATATATAGTTTTTAAAACGTTTTTGAAAAT-
1 AATATAATATATAGTTTTTAAAAC-ATTTTGAAAATA
* * *
2295237 -ATATATTATATGGTTTTCAAAACATTTTGAAAATA
1 AATATAATATATAGTTTTTAAAACATTTTGAAAATA
2295272 AATATAAT
1 AATATAAT
2295280 TTTTAAAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
34 10 0.10
35 20 0.21
36 30 0.31
37 20 0.21
38 16 0.17
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (36 bp):
AATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:2295253 original size:71 final size:73
Alignment explanation
Indices: 2295128--2295279 Score: 211
Period size: 71 Copynumber: 2.1 Consensus size: 73
2295118 ACATATATAT
* *
2295128 AATAT-ATATATAGTTTTGAAGACATATTTGAAACATTTATATATTATATAGTTTTTAAAACACT
1 AATATAATATATAGTTTTGAAAACATATTTGAAACA-TTATATATTATATAGTTTTCAAAACACT
2295192 TTGAAAATA
65 TTGAAAATA
* * * * *
2295201 AATATAATATATAGTTTTTAAAACGTTTTTGAAA-A-TATATATTATATGGTTTTCAAAACATTT
1 AATATAATATATAGTTTTGAAAACATATTTGAAACATTATATATTATATAGTTTTCAAAACACTT
2295264 TGAAAATA
66 TGAAAATA
2295272 AATATAAT
1 AATATAAT
2295280 TTTTAAAAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
71 41 0.58
73 6 0.08
74 24 0.34
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (73 bp):
AATATAATATATAGTTTTGAAAACATATTTGAAACATTATATATTATATAGTTTTCAAAACACTT
TGAAAATA
Found at i:2295376 original size:79 final size:74
Alignment explanation
Indices: 2295235--2295390 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 74
2295225 GTTTTTGAAA
* * *
2295235 ATATATATTATATGGTTTTCAAAACATTTTGAAAATAAATATAATTTTTAAAAAGAAACATTTT-
1 ATATATATTATATAGTTTTCAAAACATTTTGAAAATAAATATAATTTTAAAAAAAAAACATTTTC
2295299 GAAAACATAT
66 GAAAAC-TAT
* *
2295309 ATATATATTATATAGTTTTGAAATCATTTTGAAAACTTATAATATATAATTTTAAAAAAAAAACA
1 ATATATATTATATAGTTTTCAAAACATTTTG-AAA---ATAA-ATATAATTTTAAAAAAAAAACA
2295374 TTTTCGAAAACTAT
61 TTTTCGAAAACTAT
2295388 ATA
1 ATA
2295391 ATTTTGAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
74 28 0.39
75 3 0.04
78 4 0.06
79 30 0.42
80 6 0.08
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (74 bp):
ATATATATTATATAGTTTTCAAAACATTTTGAAAATAAATATAATTTTAAAAAAAAAACATTTTC
GAAAACTAT
Found at i:2295493 original size:10 final size:10
Alignment explanation
Indices: 2295469--2295507 Score: 62
Period size: 11 Copynumber: 3.9 Consensus size: 10
2295459 ATTATTATCG
2295469 TTTTTATTTA
1 TTTTTATTTA
2295479 TTTTTTATTTA
1 -TTTTTATTTA
2295490 TTTTTA-TTA
1 TTTTTATTTA
2295499 TTTTTATTT
1 TTTTTATTT
2295508 TAATTGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.33
10 8 0.30
11 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:2295509 original size:20 final size:21
Alignment explanation
Indices: 2295469--2295507 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
2295459 ATTATTATCG
2295469 TTTTTATTTATTTTTTATTTA
1 TTTTTATTTATTTTTTATTTA
2295490 TTTTTA-TTA-TTTTTATTT
1 TTTTTATTTATTTTTTATTT
2295508 TAATTGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTATTTATTTTTTATTTA
Found at i:2296848 original size:3 final size:3
Alignment explanation
Indices: 2296840--2296889 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
2296830 ATTTCATTTT
2296840 TTA TTA TTA TT- TT- TTA TT- TT- TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
2296882 TTG TTA TT
1 TTA TTA TT
2296890 TTCTCCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 8 0.19
3 31 0.74
4 3 0.07
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:2296853 original size:13 final size:13
Alignment explanation
Indices: 2296840--2296883 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
2296830 ATTTCATTTT
2296840 TTATTA-TTATT-
1 TTATTATTTATTA
*
2296851 TT-TTATTTTTTA
1 TTATTATTTATTA
2296863 TTATTATTTATTA
1 TTATTATTTATTA
2296876 TTATTATT
1 TTATTATT
2296884 GTTATTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.11
11 6 0.21
12 2 0.07
13 17 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:2296858 original size:20 final size:20
Alignment explanation
Indices: 2296835--2296891 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
2296825 AACACATTTC
2296835 ATTTTTTATTATTATTTTTT
1 ATTTTTTATTATTATTTTTT
*
2296855 ATTTTTTATTATTATTTATT
1 ATTTTTTATTATTATTTTTT
* *
2296875 A-TTATTATTGTTATTTT
1 ATTTTTTATTATTATTTT
2296892 CTCCTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTTATTATTATTTTTT
Found at i:2296923 original size:19 final size:21
Alignment explanation
Indices: 2296882--2296923 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2296872 ATTATTATTA
2296882 TTGTTATTTTCTCCTTTTGAT
1 TTGTTATTTTCTCCTTTTGAT
*
2296903 TTGTTTTTTTC-CCTTTT-AT
1 TTGTTATTTTCTCCTTTTGAT
2296922 TT
1 TT
2296924 CTGATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.71
Consensus pattern (21 bp):
TTGTTATTTTCTCCTTTTGAT
Found at i:2302341 original size:165 final size:165
Alignment explanation
Indices: 2302098--2303099 Score: 1619
Period size: 165 Copynumber: 6.1 Consensus size: 165
2302088 ACCTGCCACC
*
2302098 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
*
2302163 GAAGGGTTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302228 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2302263 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
*
2302328 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAACTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302393 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2302428 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
2302493 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302558 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2302593 AAGACCTTTGAGTTCG-CTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
2302657 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302722 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
* *
2302757 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTT-AAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
*** * * * *
2302821 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
* * *
2302886 GCATAACTCAAGGCCAGAAGGGTTATCTGTGACCAA
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
* * * *
2302922 AAGACCTTTGAGATCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTT-AAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
* * * * * * *
2302986 GAAGGGTTATCTGCTAAAGACCTTTGAGTTCGATTATA-TCAACTT--AGAGGCAAATCAAGC-T
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG-GGC--AT-AACCTT
* * *
2303047 TACAGAATAGCTCAAGGCAAGAAGGGTTATCTG-T--CA
127 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2303083 AAGACCTTGTGAGTTCG
1 AAGACCTT-TGAGTTCG
2303100 GTTTCATTCA
Statistics
Matches: 794, Mismatches: 36, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
161 9 0.01
162 10 0.01
163 3 0.00
164 265 0.33
165 506 0.64
166 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (165 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:2302706 original size:329 final size:330
Alignment explanation
Indices: 2302098--2303099 Score: 1628
Period size: 329 Copynumber: 3.0 Consensus size: 330
2302088 ACCTGCCACC
*
2302098 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
*
2302163 GAAGGGTTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302228 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
2302293 CAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
196 CAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
2302358 CGATTACACTCAACTTCAAGGGCATAACCTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
261 CGATTACACTCAACTTCAAGGGCATAACCTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
2302423 TAGCA
326 TAGCA
2302428 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
2302493 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
2302558 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCG-CTACGCTCAGCTC
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
2302622 CAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
196 CAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
*
2302687 CGATTACACTCAGCTTCAAGGGCATAACCTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
261 CGATTACACTCAACTTCAAGGGCATAACCTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
2302752 TAGCA
326 TAGCA
* *
2302757 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAACTT-AAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
*** * * * *
2302821 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
* * * * *
2302886 GCATAACTCAAGGCCAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGATCGACTCCGCTCAGCT
131 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACCTTTGAGTTCGACTACGCTCAGCT
* * * * * *
2302951 CCAAGGCACATCATTTGCAGCATAGCTT-AAGTCAAGAAGGGTTATCTGCTAAAGACCTTTGAGT
195 CCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGT
* * * * *
2303015 TCGATTATA-TCAACTT--AGAGGCAAATCAAGC-TTACAGAATAGCTCAAGGCAAGAAGGGTTA
260 TCGATTACACTCAACTTCAAG-GGC--AT-AACCTTTACAGCATAACTCAAGGCTAGAAGGGTTA
2303076 TCTG-T--CA
321 TCTGTTAGCA
2303083 AAGACCTTGTGAGTTCG
1 AAGACCTT-TGAGTTCG
2303100 GTTTCATTCA
Statistics
Matches: 636, Mismatches: 29, Indels: 17
0.93 0.04 0.02
Matches are distributed among these distances:
326 12 0.02
327 11 0.02
328 102 0.16
329 291 0.46
330 220 0.35
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (330 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAAGTCGA
GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACCTTTACA
GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTC
CAAGGCACATCATTTGCAGAATAGCTTAAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTT
CGATTACACTCAACTTCAAGGGCATAACCTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
TAGCA
Found at i:2303412 original size:13 final size:13
Alignment explanation
Indices: 2303396--2303421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2303386 TGTCCTATTT
2303396 TTCGTTCCACGAA
1 TTCGTTCCACGAA
2303409 TTCGTTCCACGAA
1 TTCGTTCCACGAA
2303422 AAAGGACAAA
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:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
TTCGTTCCACGAA
Found at i:2303587 original size:31 final size:31
Alignment explanation
Indices: 2303552--2303659 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
2303542 ATTTATATAT
*
2303552 TATATAGTTTTTAAAACACTTTGAAAATAAA
1 TATATAGTTTTTAAAACATTTTGAAAATAAA
* *
2303583 TATATAGTTTTTAAAACGTTTTTGAAAATATA
1 TATATAGTTTTTAAAAC-ATTTTGAAAATAAA
* *
2303615 T-TATATGGTTTTCAAACATTTTGAAAATAAA
1 TATATA-GTTTTTAAAACATTTTGAAAATAAA
2303646 TATA-A-TTTTTAAAA
1 TATATAGTTTTTAAAA
2303660 AAAACATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
29 7 0.11
31 35 0.54
32 23 0.35
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
TATATAGTTTTTAAAACATTTTGAAAATAAA
Found at i:2303674 original size:15 final size:16
Alignment explanation
Indices: 2303628--2303674 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
2303618 TATGGTTTTC
2303628 AAACATTTTGAAAATA
1 AAACATTTTGAAAATA
* *
2303644 AATATAATTTTTAAAA-A
1 AA-A-CATTTTGAAAATA
2303661 AAACATTTTGAAAA
1 AAACATTTTGAAAA
2303675 CATATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 9 0.36
16 3 0.12
17 4 0.16
18 9 0.36
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (16 bp):
AAACATTTTGAAAATA
Found at i:2303683 original size:63 final size:62
Alignment explanation
Indices: 2303552--2303683 Score: 146
Period size: 63 Copynumber: 2.1 Consensus size: 62
2303542 ATTTATATAT
* * *
2303552 TATATA-GTTTTTAAAACACTTTGAAAATAAATATATAGTTTTTAAAACGTTTTTGAAAATA
1 TATATATGGTTTTAAAACACTTTGAAAATAAATATATAGTTTTTAAAACGATTTTGAAAACA
* *
2303613 TATTATATGGTTTTCAAACATTTTGAAAATAAATATA-A-TTTTTAAAAAAAAC-ATTTTGAAAA
1 TA-TATATGGTTTTAAAACACTTTGAAAATAAATATATAGTTTTT----AAAACGATTTTGAAAA
2303675 CA
61 CA
2303677 TATATAT
1 TATATAT
2303684 ATTATATAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
61 7 0.12
62 5 0.08
63 31 0.52
64 12 0.20
65 5 0.08
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (62 bp):
TATATATGGTTTTAAAACACTTTGAAAATAAATATATAGTTTTTAAAACGATTTTGAAAACA
Found at i:2303756 original size:75 final size:70
Alignment explanation
Indices: 2303610--2303757 Score: 199
Period size: 75 Copynumber: 2.0 Consensus size: 70
2303600 GTTTTTGAAA
* * *
2303610 ATATATTATATGGTTTTCAAACATTTTGAAAATAAATATAATTTTTAAAAAAAACATTTTGAAAA
1 ATATATTATATAGTTTTCAAACATTTTGAAAATAAATATAAATTTAAAAAAAAACATTTTGAAAA
2303675 CATAT
66 CATAT
*
2303680 ATATATTATATAGTTTTGAAATCATTTTGAAAACTTATAATATATAATTTAAAAAAAAACATTTT
1 ATATATTATATAGTTTTCAAA-CATTTTGAAAA--TA-AATATA-AATTTAAAAAAAAACATTTT
2303745 CGAAAAC-TAT
61 -GAAAACATAT
2303755 ATA
1 ATA
2303758 ATTTTGAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
70 19 0.28
71 11 0.16
73 2 0.03
74 6 0.09
75 24 0.35
76 6 0.09
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (70 bp):
ATATATTATATAGTTTTCAAACATTTTGAAAATAAATATAAATTTAAAAAAAAACATTTTGAAAA
CATAT
Found at i:2303850 original size:11 final size:11
Alignment explanation
Indices: 2303836--2303870 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2303826 ATTATTATCG
2303836 TTTTTATTTAT
1 TTTTTATTTAT
2303847 TTTTTATTTA-
1 TTTTTATTTAT
*
2303857 TTTTTATTAAT
1 TTTTTATTTAT
2303868 TTT
1 TTT
2303871 ATTTTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:2303860 original size:10 final size:10
Alignment explanation
Indices: 2303836--2303874 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
2303826 ATTATTATCG
2303836 TTTTTATTTA
1 TTTTTATTTA
2303846 TTTTTTATTTA
1 -TTTTTATTTA
2303857 TTTTTA-TTA
1 TTTTTATTTA
*
2303866 ATTTTATTT
1 TTTTTATTT
2303875 TAATTGTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 8 0.31
10 8 0.31
11 10 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:2305068 original size:1 final size:1
Alignment explanation
Indices: 2305062--2305179 Score: 200
Period size: 1 Copynumber: 118.0 Consensus size: 1
2305052 TATATTCGCA
*
2305062 TTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
***
2305127 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2305180 CTGATTTATT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 113 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:2310933 original size:21 final size:21
Alignment explanation
Indices: 2310908--2310947 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2310898 TAGCATTAAC
2310908 AAAATTATTATTTATGAAAGA
1 AAAATTATTATTTATGAAAGA
2310929 AAAATTATTATTTATGAAA
1 AAAATTATTATTTATGAAA
2310948 AATGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AAAATTATTATTTATGAAAGA
Found at i:2315719 original size:174 final size:174
Alignment explanation
Indices: 2315429--2315776 Score: 660
Period size: 174 Copynumber: 2.0 Consensus size: 174
2315419 AGTAGGTGCA
*
2315429 TTGCAAGTTCACCAGGGGATGCTATCTTTGTTATTGTACCTGCTACTTGGTTATCTTTAGAGGGA
1 TTGCAAGTTCACCAGGGGATGCTATCTTTGTTATTGTACCTGCTACTTGGTTATCTTTACAGGGA
2315494 ACATAACTGTACTGAACTAACTAACCTCTTCTTTCAGACGTGTAACATATGGGTTGTGTAGCGGT
66 ACATAACTGTACTGAACTAACTAACCTCTTCTTTCAGACGTGTAACATATGGGTTGTGTAGCGGT
*
2315559 GTTGTTATCTTCATTTCTGAGTAGGTGATAAGCTTCCTGACGGC
131 GTTGTTATCTTCATTTCTGAGTAAGTGATAAGCTTCCTGACGGC
2315603 TTGCAAGTTCACCAGGGGATGCTATCTTTGTTATTGTACCTGCTACTTGGTTATCTTTACAGGGA
1 TTGCAAGTTCACCAGGGGATGCTATCTTTGTTATTGTACCTGCTACTTGGTTATCTTTACAGGGA
*
2315668 ACATAACTGTACTGAACTAACTAACCTCTTCTTTCAGACGTGTAACATATGGGTTGTGTAGCTGT
66 ACATAACTGTACTGAACTAACTAACCTCTTCTTTCAGACGTGTAACATATGGGTTGTGTAGCGGT
*
2315733 GTTGTTATCTTCATTTCTGAGTAAGTGATAAGCTTCCTTACGGC
131 GTTGTTATCTTCATTTCTGAGTAAGTGATAAGCTTCCTGACGGC
2315777 CTGTTTCTAC
Statistics
Matches: 170, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (174 bp):
TTGCAAGTTCACCAGGGGATGCTATCTTTGTTATTGTACCTGCTACTTGGTTATCTTTACAGGGA
ACATAACTGTACTGAACTAACTAACCTCTTCTTTCAGACGTGTAACATATGGGTTGTGTAGCGGT
GTTGTTATCTTCATTTCTGAGTAAGTGATAAGCTTCCTGACGGC
Found at i:2316412 original size:31 final size:31
Alignment explanation
Indices: 2316371--2316429 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2316361 GATGACAGTA
*
2316371 GAGTGATCATTTTGTTACAAATCGATAATGT
1 GAGTGATCATTTTGTTACAAATAGATAATGT
* *
2316402 GAGTGGTCATTTTGTTATAAATAGATAA
1 GAGTGATCATTTTGTTACAAATAGATAA
2316430 CGAAACTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (31 bp):
GAGTGATCATTTTGTTACAAATAGATAATGT
Found at i:2321956 original size:21 final size:21
Alignment explanation
Indices: 2321932--2321971 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2321922 ATAAAAATAC
*
2321932 TTAAAATATTATTATTTTTAT
1 TTAAAATATTAATATTTTTAT
2321953 TTAAAATATTAATATTTTT
1 TTAAAATATTAATATTTTT
2321972 TAACATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAAAATATTAATATTTTTAT
Found at i:2335452 original size:24 final size:22
Alignment explanation
Indices: 2335411--2335489 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 22
2335401 GAATGCAATT
2335411 AGTGCATCGATGCA---TAAGG
1 AGTGCATCGATGCACTGTAAGG
2335430 AGTGCATCGATGCACATGTTAAGG
1 AGTGCATCGATGCAC-TG-TAAGG
*
2335454 -GATGCATCGATACACTGT-A-G
1 AG-TGCATCGATGCACTGTAAGG
*
2335474 AATGCATCGATGCACT
1 AGTGCATCGATGCACT
2335490 TCAAGGGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
19 14 0.28
20 14 0.28
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.34
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (22 bp):
AGTGCATCGATGCACTGTAAGG
Found at i:2336603 original size:5 final size:5
Alignment explanation
Indices: 2336595--2336622 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2336585 GTGTGATAGC
2336595 ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATG
2336623 TTCATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:2337529 original size:23 final size:23
Alignment explanation
Indices: 2337503--2337574 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
2337493 ATTGATGTGC
* *
2337503 AATTTGGTATCCAATTTTTTTGT
1 AATTAGGTATCTAATTTTTTTGT
**
2337526 AATTAAATATCTAATTTTTTAGTGT
1 AATTAGGTATCTAATTTTTT--TGT
*
2337551 AATTAGGTATTTAACTTTTTTTGT
1 AATTAGGTATCTAA-TTTTTTTGT
2337575 GCAATTAGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 16 0.41
24 3 0.08
25 14 0.36
26 6 0.15
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (23 bp):
AATTAGGTATCTAATTTTTTTGT
Found at i:2337569 original size:25 final size:25
Alignment explanation
Indices: 2337523--2337570 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
2337513 CCAATTTTTT
*
2337523 TGTAATTAAATATCTAATTTTTTAG
1 TGTAATTAAATATCTAACTTTTTAG
** *
2337548 TGTAATTAGGTATTTAACTTTTT
1 TGTAATTAAATATCTAACTTTTT
2337571 TTGTGCAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (25 bp):
TGTAATTAAATATCTAACTTTTTAG
Found at i:2339549 original size:168 final size:169
Alignment explanation
Indices: 2339271--2339608 Score: 669
Period size: 168 Copynumber: 2.0 Consensus size: 169
2339261 ATTGTTTTTA
2339271 AAAAATCACAACAAATATAGGAGCCAATGAAGCTTTTTATCAAACTTACCAATTTCAACCTGCAA
1 AAAAATCACAACAAATATAGGAGCCAATGAAGCTTTTTATCAAACTTACCAATTTCAACCTGCAA
2339336 CTCATTTCTTTAATTATTTTCCCTCAAAATCTACATAACCTCTATCTAACATGTATAACAAATAT
66 CTCATTTCTTTAATTATTTTCCCTCAAAATCTACATAACCTCTATCTAACATGTATAACAAATAT
2339401 GGGATACTTCCAACTG-CATTATTTTTCAAGGTTTATCC
131 GGGATACTTCCAACTGCCATTATTTTTCAAGGTTTATCC
2339439 AAAAATCACAACAAATATAGGAGCCAATGAAGCTTTTTATCAAACTTACCAATTTCAACCTGCAA
1 AAAAATCACAACAAATATAGGAGCCAATGAAGCTTTTTATCAAACTTACCAATTTCAACCTGCAA
2339504 CTCATTTCTTTAATTATTTTCCCTCAAAATCTACATAACCTCTATCTAACATGTATAACAAATAT
66 CTCATTTCTTTAATTATTTTCCCTCAAAATCTACATAACCTCTATCTAACATGTATAACAAATAT
2339569 GGGATACTTCCAACTGCCATTATTTTTCAAGGTTTATCC
131 GGGATACTTCCAACTGCCATTATTTTTCAAGGTTTATCC
2339608 A
1 A
2339609 CCCATTCGTT
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 146 0.86
169 23 0.14
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (169 bp):
AAAAATCACAACAAATATAGGAGCCAATGAAGCTTTTTATCAAACTTACCAATTTCAACCTGCAA
CTCATTTCTTTAATTATTTTCCCTCAAAATCTACATAACCTCTATCTAACATGTATAACAAATAT
GGGATACTTCCAACTGCCATTATTTTTCAAGGTTTATCC
Found at i:2345356 original size:13 final size:13
Alignment explanation
Indices: 2345338--2345364 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2345328 TATAAAAAGA
2345338 TAAAAAAAATATT
1 TAAAAAAAATATT
2345351 TAAAAAAAATATT
1 TAAAAAAAATATT
2345364 T
1 T
2345365 TTTAGCTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAAAAATATT
Found at i:2355326 original size:2 final size:2
Alignment explanation
Indices: 2355319--2355348 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2355309 TTGGCTAATA
2355319 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
2355349 CAATCTTTCG
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:2358198 original size:2 final size:2
Alignment explanation
Indices: 2358191--2358228 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2358181 AAGAATGCAA
2358191 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
2358229 CATGTTTTAT
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:2361564 original size:64 final size:64
Alignment explanation
Indices: 2361489--2361713 Score: 199
Period size: 64 Copynumber: 3.5 Consensus size: 64
2361479 TTGTTTGAAT
* * * **
2361489 GTGCACCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
2361552 C-
63 CG
* * *
2361553 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* ** * * * **
2361617 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCTCAGCAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* * *
2361681 ATGCACCGATGCATCA-GTAGTGCATTGATGCAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
2361714 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
63 3 0.02
64 123 0.92
65 7 0.05
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:2362521 original size:31 final size:31
Alignment explanation
Indices: 2362370--2362525 Score: 262
Period size: 31 Copynumber: 5.0 Consensus size: 31
2362360 AGGGTCGAGG
*
2362370 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2362401 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2362432 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2362463 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2362494 GTTTACCTA-GATTCTTCGGGATC-TATGGACT
1 GTTTACCTATG-TTCTTCGGGA-CATATGGACT
2362525 G
1 G
2362526 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
30 1 0.01
31 118 0.98
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2365398 original size:229 final size:227
Alignment explanation
Indices: 2364988--2365436 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
2364978 GTAAATTATC
* * *
2364988 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
2365053 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
2365118 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
2365183 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
2365216 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2365281 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
2365346 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
2365411 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
2365437 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:2365525 original size:20 final size:20
Alignment explanation
Indices: 2365502--2365551 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2365492 CGATATACCA
2365502 GGTAAAATTATGATAAAACC
1 GGTAAAATTATGATAAAACC
*
2365522 GGTAACAA-AATGATAAAACC
1 GGTAA-AATTATGATAAAACC
2365542 GGTAAAATTA
1 GGTAAAATTA
2365552 AAAGTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
GGTAAAATTATGATAAAACC
Found at i:2365692 original size:20 final size:19
Alignment explanation
Indices: 2365669--2365715 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2365659 CGATATAACA
*
2365669 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
2365689 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
2365709 GGTAAAA
1 GGTAAAA
2365716 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:2368073 original size:33 final size:33
Alignment explanation
Indices: 2368031--2368096 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2368021 AAATAGATGG
*
2368031 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
2368064 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2368097 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2369955 original size:19 final size:19
Alignment explanation
Indices: 2369892--2369954 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
2369882 AATGTCGAGT
*
2369892 TAATTTTGTATAAGATTTA
1 TAATTTTGTATACGATTTA
2369911 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
2369930 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
2369949 T-ATTTT
1 TAATTTT
2369955 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
18 5 0.12
19 38 0.88
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:2370848 original size:198 final size:198
Alignment explanation
Indices: 2370037--2371255 Score: 2215
Period size: 198 Copynumber: 6.1 Consensus size: 198
2370027 TTAAGGGTCA
*
2370037 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370102 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2370167 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370232 ATG
196 ATG
2370235 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370299 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2370364 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370429 ATG
196 ATG
* *** *
2370432 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
2370497 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
2370562 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
2370627 TAATG
194 TAATG
* *
2370632 TGTCGACACTATTATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370697 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
* *
2370762 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370827 ATG
196 ATG
2370830 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370895 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2370960 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2371025 ATG
196 ATG
* *** *
2371028 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
2371093 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
65 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
2371158 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
130 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
2371223 AATG
195 AATG
*
2371227 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
2371256 CTAATTTAAA
Statistics
Matches: 986, Mismatches: 31, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
197 196 0.20
198 398 0.40
199 233 0.24
200 159 0.16
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (198 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATG
Found at i:2370888 original size:397 final size:396
Alignment explanation
Indices: 2370037--2371255 Score: 2233
Period size: 397 Copynumber: 3.1 Consensus size: 396
2370027 TTAAGGGTCA
*
2370037 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370102 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2370167 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370232 ATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTTTTACAAGGTGCA
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCA
2370296 TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
261 TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
* *
2370361 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
326 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
2370426 ATAATG
391 ATAATG
* *** *
2370432 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGCATC
*
2370497 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
2370562 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
129 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
2370627 TAATGTGTCGACACTATTATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTG
194 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTG
*
2370692 AATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
259 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
2370757 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
324 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
2370822 AAATAATG
389 AAATAATG
2370830 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
2370895 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2370960 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
* ***
2371025 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-TTTACAAGGTGC
* *
2371090 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
260 ATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
2371155 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTA
325 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTA
2371220 AATAATG
390 AATAATG
*
2371227 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
2371256 CTAATTTAAA
Statistics
Matches: 793, Mismatches: 27, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
395 47 0.06
396 191 0.24
397 342 0.43
398 213 0.27
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (396 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCA
TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
ATAATG
Found at i:2371180 original size:595 final size:595
Alignment explanation
Indices: 2370037--2371255 Score: 2359
Period size: 595 Copynumber: 2.0 Consensus size: 595
2370027 TTAAGGGTCA
* *
2370037 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
2370102 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2370167 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370232 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTTTTACAAGGTGCAT
196 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTTTTACAAGGTGCAT
2370297 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
261 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
2370362 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
326 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
2370427 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
391 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
2370492 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
456 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
2370557 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
521 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
2370622 CTAAATAATG
586 CTAAATAATG
*
2370632 TGTCGACACTATTATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
2370697 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
66 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2370762 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
131 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
2370827 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCA
196 ATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTTTTACAAGGTGCA
2370892 TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
260 TCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
2370957 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
325 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
2371022 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGG
390 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGG
2371087 TGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
455 TGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
* *
2371151 TATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
520 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAG
2371216 TCTAAATAATG
585 TCTAAATAATG
*
2371227 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
2371256 CTAATTTAAA
Statistics
Matches: 615, Mismatches: 8, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
595 360 0.59
596 255 0.41
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (595 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGAATCA
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATTTTTACAAGGTGCAT
CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
CTAAATAATG
Found at i:2372741 original size:18 final size:18
Alignment explanation
Indices: 2372718--2372779 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
2372708 ATCGGTCGCA
* * *
2372718 GAAGATGAAGCTGACGAT
1 GAAGATGACGATGATGAT
2372736 GAAGATGACGATGATGAT
1 GAAGATGACGATGATGAT
*
2372754 GATGATGACGATGATGAT
1 GAAGATGACGATGATGAT
2372772 GAAGATGA
1 GAAGATGA
2372780 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (18 bp):
GAAGATGACGATGATGAT
Found at i:2372742 original size:6 final size:6
Alignment explanation
Indices: 2372718--2372779 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
2372708 ATCGGTCGCA
* * * * * *
2372718 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
2372766 GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA
2372780 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2372753 original size:3 final size:3
Alignment explanation
Indices: 2372733--2372783 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
2372723 TGAAGCTGAC
* * * *
2372733 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2372781 GAT
1 GAT
2372784 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2372780 original size:12 final size:12
Alignment explanation
Indices: 2372721--2372783 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
2372711 GGTCGCAGAA
* *
2372721 GATGAAGCTGAC
1 GATGAAGATGAT
*
2372733 GATGAAGATGAC
1 GATGAAGATGAT
*
2372745 GATGATGATGAT
1 GATGAAGATGAT
*
2372757 GATGACGATGAT
1 GATGAAGATGAT
2372769 GATGAAGATGAT
1 GATGAAGATGAT
2372781 GAT
1 GAT
2372784 CCAAACAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:2374587 original size:183 final size:184
Alignment explanation
Indices: 2374151--2374821 Score: 1281
Period size: 184 Copynumber: 3.7 Consensus size: 184
2374141 CTTTCAACAT
**
2374151 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2374216 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
2374281 AATGTGTCGATACGATTTCAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2374335 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2374400 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
2374464 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
2374518 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2374583 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
2374648 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
2374702 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
2374767 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
2374822 CCATTTAAAA
Statistics
Matches: 480, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
183 181 0.38
184 299 0.62
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:2377411 original size:23 final size:23
Alignment explanation
Indices: 2377380--2377442 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2377370 ATAGGTAAAC
*
2377380 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* * **
2377403 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2377426 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2377443 ATGGTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2377450 original size:23 final size:23
Alignment explanation
Indices: 2377380--2377452 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
2377370 ATAGGTAAAC
* * **
2377380 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
* *
2377403 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2377426 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2377449 ATAT
1 ATAT
2377453 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 40 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2377839 original size:23 final size:23
Alignment explanation
Indices: 2377808--2377870 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2377798 ATAGGTAAAC
*
2377808 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2377831 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2377854 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2377871 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2377878 original size:23 final size:23
Alignment explanation
Indices: 2377808--2377880 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2377798 ATAGGTAAAC
* * **
2377808 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2377831 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2377854 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2377877 ATAT
1 ATAT
2377881 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2378163 original size:430 final size:431
Alignment explanation
Indices: 2377281--2378580 Score: 2563
Period size: 430 Copynumber: 3.0 Consensus size: 431
2377271 AATTCGCAGT
2377281 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2377346 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
2377411 TAATATGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2377476 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2377540 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2377604 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
2377669 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2377710 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCC-TTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2377774 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2377839 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2377904 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2377969 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2378034 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
2378099 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2378140 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2378205 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2378270 TAATAGGTATCGTTTATAT-ATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2378334 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2378399 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2378464 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
2378529 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2378570 ACACTGTTAAA
1 ACACTGTTAAA
2378581 GTATCGATCC
Statistics
Matches: 867, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
428 150 0.17
429 146 0.17
430 480 0.55
431 91 0.10
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:2378295 original size:22 final size:23
Alignment explanation
Indices: 2378239--2378300 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
2378229 ATAGGTAAAC
*
2378239 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2378262 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2378285 ATAT-ATGTAATAGGTA
1 ATATAATGTAATAGGTA
2378301 ATGGTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2378308 original size:22 final size:22
Alignment explanation
Indices: 2378239--2378315 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
2378229 ATAGGTAAAC
* **
2378239 ATATGATGTAATAGGTAGCCCTT
1 ATAT-ATGTAATAGGTATCGGTT
*
2378262 ATATAATGTAATAGGTATCGTTT
1 ATAT-ATGTAATAGGTATCGGTT
2378285 ATATATGTAATAGGTAAT-GGTT
1 ATATATGTAATAGGT-ATCGGTT
2378307 ATAT-TGTAA
1 ATATATGTAA
2378316 AGTGTCTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.10
22 18 0.38
23 25 0.52
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTATCGGTT
Found at i:2386297 original size:15 final size:15
Alignment explanation
Indices: 2386273--2386305 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2386263 TGGCATATCC
*
2386273 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
2386288 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
2386303 AAA
1 AAA
2386306 AAATTACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.15, G:0.24, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:2387365 original size:21 final size:21
Alignment explanation
Indices: 2387341--2387382 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2387331 ATTAACAGAA
2387341 CTCTGAATGAACGTGCAACTT
1 CTCTGAATGAACGTGCAACTT
*
2387362 CTCTGAATGAATGTGCAACTT
1 CTCTGAATGAACGTGCAACTT
2387383 ACCAAATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (21 bp):
CTCTGAATGAACGTGCAACTT
Found at i:2392968 original size:21 final size:21
Alignment explanation
Indices: 2392944--2393039 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
2392934 ATTCTGACTA
* *
2392944 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTACCTAAT
* *
2392965 TCGCGTTGCGA-TTACGTAA-
1 TCGCATTGCGATTTACCTAAT
*
2392984 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCTAAT
*
2393005 TCGCATTGCGATTTACGTAA-
1 TCGCATTGCGATTTACCTAAT
*
2393025 TCGCATAGCGATTTA
1 TCGCATTGCGATTTA
2393040 GTAAATCACA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.16
20 25 0.40
21 28 0.44
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTAAT
Found at i:2393000 original size:41 final size:41
Alignment explanation
Indices: 2392943--2393038 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 41
2392933 GATTCTGACT
* *
2392943 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGA-TTACGTA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTA
*
2392983 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTA
*
2393024 ATCGCATAGCGATTT
1 ATCGCATTGCGATTT
2393039 AGTAAATCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 30 0.59
41 21 0.41
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTA
Found at i:2393046 original size:20 final size:20
Alignment explanation
Indices: 2392943--2393046 Score: 79
Period size: 20 Copynumber: 5.2 Consensus size: 20
2392933 GATTCTGACT
***
2392943 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTAGTAA
*
2392963 ATTCGCGTTGCGA-TTACGT-A
1 A-TCGCATTGCGATTTA-GTAA
**
2392983 ATCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGA-TTTAGTAA
*
2393004 TTCGCATTGCGATTTACGT-A
1 ATCGCATTGCGATTTA-GTAA
*
2393024 ATCGCATAGCGATTTAGTAA
1 ATCGCATTGCGATTTAGTAA
2393044 ATC
1 ATC
2393047 ACAACGAGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
19 12 0.18
20 28 0.43
21 25 0.38
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATTTAGTAA
Found at i:2393928 original size:24 final size:24
Alignment explanation
Indices: 2393901--2393954 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2393891 GTATTCGAAA
2393901 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
2393925 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
2393949 TTTGAT
1 TTTGAT
2393955 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2396511 original size:19 final size:19
Alignment explanation
Indices: 2396489--2396586 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
2396479 AAAAATGACT
2396489 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2396508 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
2396522 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2396541 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
2396555 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2396574 ATCGCAATGCGAA
1 ATCGCAATGCGAA
2396587 TTTAGTTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2396526 original size:33 final size:33
Alignment explanation
Indices: 2396489--2396580 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
2396479 AAAAATGACT
2396489 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2396522 ATCGCAATACGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2396555 ATCGCAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2396581 TGCGAATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2396764 original size:14 final size:14
Alignment explanation
Indices: 2396745--2396781 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2396735 CATCAATTAA
2396745 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2396759 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2396773 ACAAATCAA
1 ACAAATCAA
2396782 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:2398195 original size:21 final size:21
Alignment explanation
Indices: 2398129--2398195 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2398119 GTGAATCGGG
*
2398129 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2398149 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2398171 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2398192 CTCT
1 CTCT
2398196 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2398687 original size:19 final size:19
Alignment explanation
Indices: 2398647--2398792 Score: 158
Period size: 19 Copynumber: 7.8 Consensus size: 19
2398637 TCTGGAACTT
*
2398647 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
2398668 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
2398687 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
2398707 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
2398726 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATG
2398745 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
2398759 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
2398778 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2398793 TTATAGTTTC
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
14 9 0.08
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 62 0.58
20 18 0.17
21 11 0.10
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:2398716 original size:39 final size:38
Alignment explanation
Indices: 2398647--2398792 Score: 149
Period size: 39 Copynumber: 3.9 Consensus size: 38
2398637 TCTGGAACTT
* **
2398647 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAAC--GAGAAATGAAAATCGCAACGCGAAATG
2398687 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAATG
1 AAAATCGCAACGAGA-AATGAAAATCGCAACGCGAAATG
* *
2398726 AAAATCGCAACGCGAAATAAAAATCGCAA--CG--A-G
1 AAAATCGCAACGAGAAATGAAAATCGCAACGCGAAATG
* * * *
2398759 AGAATCGCAATGCGAAATTAAAATCGCAACGCGA
1 AAAATCGCAACGAGAAATGAAAATCGCAACGCGA
2398793 TTATAGTTTC
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
33 27 0.29
34 1 0.01
35 2 0.02
36 2 0.02
38 16 0.17
39 35 0.37
40 11 0.12
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (38 bp):
AAAATCGCAACGAGAAATGAAAATCGCAACGCGAAATG
Found at i:2398739 original size:58 final size:59
Alignment explanation
Indices: 2398647--2398763 Score: 182
Period size: 58 Copynumber: 2.0 Consensus size: 59
2398637 TCTGGAACTT
* ** *
2398647 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCG-AAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGAATG
2398707 AAAATCGCAACGCG-AAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGAAT
1 AAAATCGCAACGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGAAT
2398764 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 40 0.75
60 13 0.25
ACGTcount: A:0.49, C:0.19, G:0.21, T:0.12
Consensus pattern (59 bp):
AAAATCGCAACGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGAATG
Found at i:2398840 original size:33 final size:33
Alignment explanation
Indices: 2398799--2398882 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
2398789 GCGATTATAG
* *
2398799 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTTA
1 TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
* * *
2398832 TTTTGCGTTGCGATTCTCTCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
2398865 TTTCGCGTTGCGATTTTC
1 TTTCGCGTTGCGATTTTC
2398883 CTTCTCTCGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.07, C:0.19, G:0.24, T:0.50
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
Found at i:2398873 original size:19 final size:19
Alignment explanation
Indices: 2398818--2398907 Score: 82
Period size: 19 Copynumber: 4.9 Consensus size: 19
2398808 GCGATTTTGT
* *
2398818 CGTTGCGATTTTTATTTTG
1 CGTTGCGATTTTCATTTCG
*
2398837 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
2398851 CGTTGCGATTTTCGTTTCG
1 CGTTGCGATTTTCATTTCG
* *
2398870 CGTTGCGATTTTCCTTCTCT
1 CGTTGCGATTTTCATT-TCG
2398890 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
2398908 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 9 0.16
16 3 0.05
17 2 0.03
19 27 0.47
20 17 0.29
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.50
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2398895 original size:20 final size:20
Alignment explanation
Indices: 2398845--2398902 Score: 91
Period size: 19 Copynumber: 3.0 Consensus size: 20
2398835 TGCGTTGCGA
*
2398845 TTCTCTCGTTGCGATTTTCG
1 TTCTCTCGTTGCGATTTTCC
*
2398865 TT-TCGCGTTGCGATTTTCC
1 TTCTCTCGTTGCGATTTTCC
2398884 TTCTCTCGTTGCGATTTTC
1 TTCTCTCGTTGCGATTTTC
2398903 ATTTCAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.05, C:0.26, G:0.19, T:0.50
Consensus pattern (20 bp):
TTCTCTCGTTGCGATTTTCC
Found at i:2399107 original size:94 final size:94
Alignment explanation
Indices: 2398998--2399373 Score: 584
Period size: 94 Copynumber: 4.1 Consensus size: 94
2398988 ATGGATTGTA
* * *
2398998 TTAC-TTCAACTAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2399062 TTAGCAGAATTGACAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
2399091 TTACTTTCAACCAAAAGACAAAAAAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2399156 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2399185 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2399250 TTAACAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2399279 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
2399339 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
2399369 TTACT
1 TTACT
2399374 AAGCAATCTA
Statistics
Matches: 264, Mismatches: 16, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
90 40 0.15
93 23 0.09
94 201 0.76
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:2401093 original size:20 final size:19
Alignment explanation
Indices: 2401068--2401187 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 19
2401058 TTTTGGTTGA
2401068 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACG-GAG
*
2401088 AATGAAAATTGCAATGCGGA-
1 AATGAAAATCGCAA--CGGAG
**
2401108 AATGACTATCGCAAC-GAG
1 AATGAAAATCGCAACGGAG
2401126 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACG-GAG
2401141 AATGAAAATCGCAAC-GAG
1 AATGAAAATCGCAACGGAG
2401159 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACG-GAG
2401174 AATGAAAATCGCAA
1 AATGAAAATCGCAA
2401188 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 33
0.68 0.04 0.28
Matches are distributed among these distances:
14 17 0.22
16 8 0.10
17 8 0.10
18 1 0.01
19 17 0.22
20 24 0.30
21 2 0.03
22 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.12
Consensus pattern (19 bp):
AATGAAAATCGCAACGGAG
Found at i:2401134 original size:14 final size:14
Alignment explanation
Indices: 2401115--2401170 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
2401105 GGAAATGACT
2401115 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
2401129 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
2401148 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
2401162 ATCGCAACG
1 ATCGCAACG
2401171 CGAAATGAAA
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:2401152 original size:33 final size:33
Alignment explanation
Indices: 2401106--2401187 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
2401096 TTGCAATGCG
**
2401106 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2401139 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2401172 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2401188 TGCGATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2401210 original size:19 final size:19
Alignment explanation
Indices: 2401188--2401366 Score: 206
Period size: 19 Copynumber: 9.5 Consensus size: 19
2401178 AAAATCGCAA
**
2401188 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
2401207 TGCGA--TT-ATCTCG--T
1 TGCGATTTTCATTTCGCGT
2401221 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
2401240 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
2401259 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
2401278 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
2401297 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
2401318 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
**
2401338 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCA-TTTCGCGT
2401358 TGCGATTTT
1 TGCGATTTT
2401367 AAGTTTAGAA
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
14 6 0.04
16 6 0.04
17 7 0.05
19 74 0.52
20 32 0.23
21 17 0.12
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:2404111 original size:57 final size:57
Alignment explanation
Indices: 2404023--2404139 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
2404013 CCCCCCCAGG
2404023 AAGCTAACAAATGTTTCAATATCTTTCGTAATCTTTAAATTGCTTTAAAGGAAGCGA
1 AAGCTAACAAATGTTTCAATATCTTTCGTAATCTTTAAATTGCTTTAAAGGAAGCGA
2404080 AAGCTAACAAATGTTTCAATATCTTTCGTAATCTTTAAATTGCTTTAAAGGAAGCGA
1 AAGCTAACAAATGTTTCAATATCTTTCGTAATCTTTAAATTGCTTTAAAGGAAGCGA
2404137 AAG
1 AAG
2404140 GGCTTTACTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (57 bp):
AAGCTAACAAATGTTTCAATATCTTTCGTAATCTTTAAATTGCTTTAAAGGAAGCGA
Found at i:2411810 original size:3 final size:3
Alignment explanation
Indices: 2411804--2411856 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
2411794 ATTTGGTTTT
* *
2411804 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA ATA TTA TTAA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
2411849 TTA -TA TTA
1 TTA TTA TTA
2411857 CAGGCCCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2414818 original size:17 final size:17
Alignment explanation
Indices: 2414791--2414829 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2414781 AATTTACAAT
2414791 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
2414807 TAATTATAAATAATATC
1 TAATTATAAATAATATC
2414824 TAATTA
1 TAATTA
2414830 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:2420794 original size:37 final size:37
Alignment explanation
Indices: 2420701--2420800 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
2420691 ACACTTTTTC
2420701 GTTCTACTAGGATTCAAACTCCTAAAAATATGATAGA
1 GTTCTACTAGGATTCAAACTCCTAAAAATATGATAGA
* * *
2420738 ATTTTGCTAGGATTCAAACTCCTAAAAATATGATAGA
1 GTTCTACTAGGATTCAAACTCCTAAAAATATGATAGA
** *
2420775 GTTCTACTATTATTTAAACTCCTAAA
1 GTTCTACTAGGATTCAAACTCCTAAA
2420801 GATAGGATCC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (37 bp):
GTTCTACTAGGATTCAAACTCCTAAAAATATGATAGA
Found at i:2421333 original size:6 final size:7
Alignment explanation
Indices: 2421296--2421343 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 7
2421286 ATTTTCCTAT
2421296 TATTATA
1 TATTATA
2421303 TATATATA
1 TAT-TATA
2421311 TATATATA
1 TAT-TATA
2421319 TATTATA
1 TATTATA
*
2421326 TTATTATT
1 -TATTATA
*
2421334 TTTTATA
1 TATTATA
2421341 TAT
1 TAT
2421344 GTTTACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:2421504 original size:19 final size:17
Alignment explanation
Indices: 2421465--2421521 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
2421455 ATATTATATG
2421465 TATATTTA-T-TTTTCAT
1 TATATTTAGTATTTT-AT
*
2421481 T-TATTTATTATTATTAT
1 TATATTTAGTATT-TTAT
2421498 TAATATTTAGTATTTTAT
1 T-ATATTTAGTATTTTAT
2421516 TATATT
1 TATATT
2421522 ATACATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.17
16 2 0.06
17 10 0.29
18 7 0.20
19 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATATTTAGTATTTTAT
Found at i:2421546 original size:9 final size:10
Alignment explanation
Indices: 2421530--2421571 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
2421520 TTATACATAA
2421530 TATTTTATAT
1 TATTTTATAT
2421540 T-TTTTATAT
1 TATTTTATAT
*
2421549 ATATTTTTTAT
1 -TATTTTATAT
2421560 TATTTTAT-T
1 TATTTTATAT
2421569 TAT
1 TAT
2421572 ACTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 12 0.43
10 9 0.32
11 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTATAT
Found at i:2421553 original size:13 final size:13
Alignment explanation
Indices: 2421535--2421572 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2421525 CATAATATTT
2421535 TATATTTTTTATA
1 TATATTTTTTATA
2421548 TATATTTTTTAT-
1 TATATTTTTTATA
2421560 TAT-TTTATTTATA
1 TATATTT-TTTATA
2421573 CTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 8 0.35
13 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TATATTTTTTATA
Found at i:2421562 original size:25 final size:25
Alignment explanation
Indices: 2421533--2421585 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
2421523 TACATAATAT
2421533 TTTA-TATTTT-TTATATA-TATTT-
1 TTTATTATTTTATT-TATACTATTTA
2421555 TTTATTATTTTATTTATACTATTTA
1 TTTATTATTTTATTTATACTATTTA
2421580 TTTATT
1 TTTATT
2421586 TTCATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.15
23 10 0.37
24 7 0.26
25 6 0.22
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTATTATTTTATTTATACTATTTA
Found at i:2421578 original size:44 final size:43
Alignment explanation
Indices: 2421510--2421599 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
2421500 ATATTTAGTA
2421510 TTTTATTATATTATACATAATATTTTATATT-TTTT-ATATATATT
1 TTTTATTATATTATACATAATA-TTTAT-TTATTTTCAT-TATATT
* ** *
2421554 TTTTATTATTTTATTTATACTATTTATTTATTTTCATTATATT
1 TTTTATTATATTATACATAATATTTATTTATTTTCATTATATT
2421597 TTT
1 TTT
2421600 AGTTTCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.05
43 18 0.45
44 20 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (43 bp):
TTTTATTATATTATACATAATATTTATTTATTTTCATTATATT
Found at i:2421715 original size:20 final size:19
Alignment explanation
Indices: 2421688--2421743 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
2421678 TTTTATCTTC
2421688 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
2421707 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
2421727 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
2421744 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Done.