Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005906.1 Hibiscus syriacus cultivar Beakdansim tig00013872_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: 93446
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2776 original size:19 final size:19
Alignment explanation
Indices: 2749--2792 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2739 AAATAGAGAT
* * *
2749 ATCAAAAATCAGAGCAGAG
1 ATCAGAAATCAGAACAGAA
2768 ATCAGAAATCAGAACAGAA
1 ATCAGAAATCAGAACAGAA
2787 ATCAGA
1 ATCAGA
2793 GAAAGCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (19 bp):
ATCAGAAATCAGAACAGAA
Found at i:4340 original size:13 final size:13
Alignment explanation
Indices: 4307--4348 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4297 AAAGGCTTGG
4307 TCAACGGCTC-AC
1 TCAACGGCTCGAC
*
4319 TCAGGCGGCTCGAC
1 TCA-ACGGCTCGAC
*
4333 TCAACGGCTCGGC
1 TCAACGGCTCGAC
4346 TCA
1 TCA
4349 GCTCAATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.12
13 17 0.68
14 5 0.20
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.17
Consensus pattern (13 bp):
TCAACGGCTCGAC
Found at i:6873 original size:2 final size:2
Alignment explanation
Indices: 6862--6890 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6852 TTAGGGATGG
6862 TA TA -A 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
6891 ATCATAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14581 original size:93 final size:93
Alignment explanation
Indices: 14422--14607 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
14412 CAAAGGAGTG
* *
14422 ATCCGTTTTATACTATTAATGTTTTAATAGATCGATTTTCTTTTTGAATTGCACTCAATAACTGT
1 ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
*
14487 AAAGTTTGAATTTGATCAATCAAGCATT
66 AAAGCTTGAATTTGATCAATCAAGCATT
*
14515 ATCCGTTTTATACTATTAATGTTTTAATATAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
1 ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
*
14580 AAAGCTTGAATTTTATCAATCAAGCATT
66 AAAGCTTGAATTTGATCAATCAAGCATT
14608 TTTTTAATTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (93 bp):
ATCCGTTTTATACTATTAATGTTTTAATAGAACGATTTTCTTTTTGAATTGCACTCAATAAATGT
AAAGCTTGAATTTGATCAATCAAGCATT
Found at i:15751 original size:186 final size:187
Alignment explanation
Indices: 15432--15823 Score: 641
Period size: 186 Copynumber: 2.1 Consensus size: 187
15422 ATAAAATTTT
15432 AAATATTAAATATA-TTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATA
* *
15496 ATTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTT
66 ATTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATT
* *
15561 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTATGAATTACA
131 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTATGAATTACA
*
15618 AAATATTAAATATATTTATATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATA
1 AAATATTAAATATATTTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATA
* *
15682 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAAT
66 ATTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAA-TTTATATAAAAT
* * *
15746 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTTAATTATA
130 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTATGAATTACA
*
15804 AAATATTTAAT-T-TTTATATA
1 AAATATTAAATATATTTATATA
15824 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
184 8 0.04
185 3 0.02
186 144 0.75
187 38 0.20
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (187 bp):
AAATATTAAATATATTTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATA
ATTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATT
TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTATGAATTACA
Found at i:15824 original size:40 final size:41
Alignment explanation
Indices: 15731--15825 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
15721 ATTAATTAAA
* * *
15731 AATTTTATATAAAATTTTTATTTTATAATTATATATTATTT
1 AATTTTATATAAAATGTTTATTTTATAATTATAAAATATTT
* * *
15772 AAATTAATTATAAACTGTTT-TTTT-TAATTATAAAATATTT
1 AATTTTA-TATAAAATGTTTATTTTATAATTATAAAATATTT
15812 AATTTTTATATAAA
1 AA-TTTTATATAAA
15826 TTAGAAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
40 22 0.50
41 12 0.27
42 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (41 bp):
AATTTTATATAAAATGTTTATTTTATAATTATAAAATATTT
Found at i:16217 original size:41 final size:40
Alignment explanation
Indices: 16140--16218 Score: 108
Period size: 39 Copynumber: 1.9 Consensus size: 40
16130 CCCGATTATT
*
16140 TTTTTATATATTTTATATATTATAATTAATTTTTTAATAA
1 TTTTTATATATTTTATATATTATAATTAATTATTTAATAA
16180 TTTTT-TATATTTT-TATATTATTAATATATATTATTTAAT
1 TTTTTATATATTTTATATATTA-TAAT-TA-ATTATTTAAT
16219 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 7 0.20
39 12 0.34
40 7 0.20
41 9 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTTATATATTTTATATATTATAATTAATTATTTAATAA
Found at i:16239 original size:41 final size:41
Alignment explanation
Indices: 16194--16316 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 41
16184 TTATATTTTT
16194 ATATTATTAATATATATTATTTAATTTTTAAAAATATAA-AA
1 ATATTATTAATATATATTATTTAATTTTT-AAAATATAATAA
* **
16235 ATATTA-TAAAATATATTAATTTAACAGTTT-AAATATAATAA
1 ATATTATTAATATATATT-ATTTAA-TTTTTAAAATATAATAA
16276 ATAATT-TTAATTATATTATTATTTTAATTATTTTAAAATAT
1 AT-ATTATTAA-TATA-TATTA-TTTAA-T-TTTTAAAATAT
16317 TATTATATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
40 18 0.28
41 16 0.25
42 9 0.14
43 4 0.06
44 9 0.14
45 3 0.05
46 6 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (41 bp):
ATATTATTAATATATATTATTTAATTTTTAAAATATAATAA
Found at i:16307 original size:9 final size:9
Alignment explanation
Indices: 16279--16311 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16269 ATAATAAATA
16279 ATTTTAATT
1 ATTTTAATT
*
16288 ATATT-ATT
1 ATTTTAATT
16296 ATTTTAATT
1 ATTTTAATT
16305 ATTTTAA
1 ATTTTAA
16312 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:18467 original size:24 final size:24
Alignment explanation
Indices: 18440--18511 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
18430 AAACGGAGAT
18440 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
18464 ATCAGATATCATAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
* *
18488 ATTAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
18512 GTATTGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:18545 original size:48 final size:48
Alignment explanation
Indices: 18438--18548 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
18428 GTAAACGGAG
* *
18438 ATATCAGAAATCAAAACAGAATTCAGATCAGATATCATAACAGAATCC
1 ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
* * * *
18486 ATATTAGAAATCAGAACAGAATTCAGGTAT-TG-TATCATAACAGAATTC
1 ATATCAAAAATCAGAACAGAATTCA-G-ATCAGATATCATAACAGAATCC
18534 A-AGTCAAAAATCAGA
1 ATA-TCAAAAATCAGA
18549 TAAAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 1 0.02
48 49 0.91
49 2 0.04
50 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (48 bp):
ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
Found at i:18546 original size:24 final size:24
Alignment explanation
Indices: 18441--18546 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 24
18431 AACGGAGATA
*
18441 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCATAACAGAATTCAAG
* *
18464 ATCAGATATCATAACAGAATCCATA-
1 -TCAGAAATCATAACAGAATTCA-AG
* * *
18489 TTAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCATAACAGAATTCAAG
*
18513 T-ATTG-TATCATAACAGAATTCAAG
1 TCA--GAAATCATAACAGAATTCAAG
*
18537 TCAAAAATCA
1 TCAGAAATCA
18547 GATAAAATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
23 1 0.02
24 58 0.94
25 2 0.03
26 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAAG
Found at i:20996 original size:10 final size:10
Alignment explanation
Indices: 20983--21012 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20973 CTGTCAAAGT
20983 TTTGGTCAAC
1 TTTGGTCAAC
20993 TTTGGTCAAC
1 TTTGGTCAAC
*
21003 ATTGGTCAAC
1 TTTGGTCAAC
21013 GGTCAACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (10 bp):
TTTGGTCAAC
Found at i:21052 original size:18 final size:18
Alignment explanation
Indices: 21025--21059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21015 TCAACGGTTC
21025 AACGGATCGGGTCGGGTA
1 AACGGATCGGGTCGGGTA
*
21043 AACGGGTCGGGTCGGGT
1 AACGGATCGGGTCGGGT
21060 TGGAACCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (18 bp):
AACGGATCGGGTCGGGTA
Found at i:23158 original size:24 final size:24
Alignment explanation
Indices: 23110--23177 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
23100 AAATGGAGAT
* * * *
23110 ATCAGAAATCAAAATAAAATTCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
23134 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
23158 ATCATAAATCAGAACAGAAT
1 ATCAGAAATCAGAACAGAAT
23178 TCAGGTAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAG
Found at i:23192 original size:24 final size:24
Alignment explanation
Indices: 23127--23204 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
23117 ATCAAAATAA
* *
23127 AATTCAGATCAGATATCAGAACAG
1 AATTCAGATAATATATCAGAACAG
* * *
23151 AATCCAGATCATAAATCAGAACAG
1 AATTCAGATAATATATCAGAACAG
* * *
23175 AATTCAGGTAATGTATCAGAACAT
1 AATTCAGATAATATATCAGAACAG
23199 AATTCA
1 AATTCA
23205 AGTCGAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (24 bp):
AATTCAGATAATATATCAGAACAG
Found at i:26246 original size:22 final size:23
Alignment explanation
Indices: 26203--26246 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
26193 TCGGCTCGTC
* * *
26203 GATCGGAAGTTGGACGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
26226 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
26247 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.09, G:0.43, T:0.18
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:28021 original size:20 final size:20
Alignment explanation
Indices: 27984--28021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27974 CTGGAATTAA
* *
27984 ATGTTAGAATGTTGATTTTG
1 ATGTTAGAAGGTTAATTTTG
28004 ATGTTAGAAGGTTAATTT
1 ATGTTAGAAGGTTAATTT
28022 GAATCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAGGTTAATTTTG
Found at i:35328 original size:55 final size:54
Alignment explanation
Indices: 35268--35530 Score: 194
Period size: 55 Copynumber: 4.8 Consensus size: 54
35258 GAGGTAAGTG
* * * *
35268 AGACTTGAAAAATCTTCAGAAAACATGTATGCTCCCTATTCTTTCAGAGAGTAT
1 AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
35322 AAGACTTGATCAATCTTC-GATCAGCGGGT-TCGCTCCCTATT-TTTCAGGGTGCAT
1 -AGACTTGAACAATCTTCAGA-AAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
35376 GGAACTCGCACAATCTTCA-ACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGT
1 AG-ACTTGAACAATCTTCAGA-AAACGTGTCTGCTCCCTATTC-TTTCAGGGAGTAT
* *
35432 AAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
1 -AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * ** * *
35487 AGAAC-TCAAGAAATCTTTTGAAAACGGGTTTGCTCCCTATTCTT
1 AG-ACTTGAA-CAATCTTCAGAAAACGTGTCTGCTCCCTATTCTT
35531 CTGAGAAGTC
Statistics
Matches: 161, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
53 1 0.01
54 43 0.27
55 72 0.45
56 44 0.27
57 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (54 bp):
AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
Found at i:35439 original size:56 final size:55
Alignment explanation
Indices: 35297--35484 Score: 172
Period size: 56 Copynumber: 3.4 Consensus size: 55
35287 AAAACATGTA
* * * * * *
35297 TGCTCCCTATTCTTTCAGAGAGTATAAGACTTGATCAATCTTCGATC-AGCGGGT-TC
1 TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTC-AACAAAC--GTCTC
* * *
35353 -GCTCCCTATT-TTTCA-GG-GTGCATGGAACTCGCACAATCTTCAACAAACGTCTC
1 TGCTCCCTATTCTTTCAGGGAGTGTA-AG-ACTCGAACAATCTTCAACAAACGTCTC
* * *
35406 TGCTCTCTATTCTTTTCAGGGAGTGTAAGACTCGAACAATCTTCAGCAAACGTGTC
1 TGCTCCCTATTC-TTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
35462 TGCTCCCTATTCTTTCAGGGAGT
1 TGCTCCCTATTCTTTCAGGGAGT
35485 ATAGAACTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 19
0.75 0.11 0.13
Matches are distributed among these distances:
52 5 0.05
53 6 0.06
54 28 0.26
55 21 0.20
56 40 0.37
57 3 0.03
58 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
Found at i:35956 original size:37 final size:37
Alignment explanation
Indices: 35906--37255 Score: 976
Period size: 37 Copynumber: 36.2 Consensus size: 37
35896 CTTGCTGATG
* * *
35906 GATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
35943 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTCAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
35980 GAATTGCTTCACTCCTT-TCCGGTGAAGGTTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* * * * ** *
36017 GCCTTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G-ATT--TG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* *
36059 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
36096 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
36133 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
36170 GAATTGTTTCACTCCTT-TCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* ** * * ** *
36207 GCCCTGGGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
*
36249 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * * *
36286 AAGTTACTTCACTACTCTTCGGCGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * **
36323 GATTTGCTTCAATATTC-TCATGTGAAGTCTTTAAGACG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGC-TTAAGATT
* *
36361 GA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
36397 GA-TTGTTTCACTAATC-TCTAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
36433 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
36469 GGTTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
36506 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * * *
36548 GATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
36585 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
36622 GATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
36658 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
36695 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
36732 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
36769 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * *
36811 GATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
36848 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATA
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
36885 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
36921 GGTTTGCTTCACTTTTC-TCTAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
36957 GGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
36993 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
37029 GGTTTGCTTCACTATTCTCCAGTAAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
37065 GGTTTGCTTCACTA-CCTTCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTT-CGGTGAAGGCTTAAGATT
* * * *
37102 GA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
37138 GA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
37174 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* **
37210 GATCTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
37247 GACTTTGCT
1 GA-TTTGCT
37256 CTAATCTCAT
Statistics
Matches: 1047, Mismatches: 194, Indels: 143
0.76 0.14 0.10
Matches are distributed among these distances:
35 14 0.01
36 364 0.35
37 493 0.47
38 72 0.07
39 5 0.00
40 7 0.01
41 48 0.05
42 24 0.02
43 10 0.01
44 10 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (37 bp):
GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
Found at i:36158 original size:153 final size:152
Alignment explanation
Indices: 35875--37212 Score: 783
Period size: 153 Copynumber: 9.0 Consensus size: 152
35865 CCCGAAGGAT
* ** * * *
35875 TTAAGCATCATGCTCAAAAGACTTGCTGATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAA
1 TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
* * * *
35940 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTCAGATGGAATTGCTTCACTCCTT-TCCGGTG
66 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACT-ATTCTCAGGTG
* **
36004 AAGGTTTAAGATTGCCTTGAGGAC
130 AAGGCTTAAGATTGATTTG-GGAC
*
36028 TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAA
1 TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
36093 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
66 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
* *
36158 AGGCTTAAGATGGAATT--G--
131 AGGCTTAAGATTGATTTGGGAC
* * ** * *** *** * * *
36176 TT--TCACTCCT-TTCCGGTGAAGGCTT-AAGATTGCCCTG-GGGACTTAATCATCATGCTCGGA
1 TTAATCA-TCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCAC-TACTCTTC--GGT--GA
** * * ** * *
36236 AGGCTTGCTGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAAGATTAAGTTACTTCACTA
57 AGGCTT-AAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTA
* * ***
36300 CTCTTC-GGCGAAGGCTTAAGATTGATTTGCTTC
120 TTC-TCAGGTGAAGGCTTAAGATTGATTTGGGAC
* * * *** *
36333 AATATTC-TCATG-T--GAAGTCTTTAAGACGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAA
1 -TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* * * * *
36393 GATGGA-TTGTTTCACTAATCTCTA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGT
65 GATTGATTTGCTTCACTATTCTC-AGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGT
*
36456 GAAGGCTTAAGA-TGGTTT--G-C
129 GAAGGCTTAAGATTGATTTGGGAC
* * * **
36476 TTCA-C-T-ATTCTCAGGTGAAGGCTTAAGATTGCCCTGA-GGACTT-AATCA-T-CATGC-TC-
1 TTAATCATCATGCTC--G-GAAGGC------TTG--CTGATGGATTTGCTTCACTAC-T-CTTCG
** * * ** * * *
36532 G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCA
53 GTGAAGGCTT-AAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCA
* *
36596 CTATTCTCAGGTGAAGGCTTAAGATGGATTTGCGTCAC
117 CTATTCTCAGGTGAAGGCTTAAGATTGATTTG-G-GAC
* * * * * *
36634 -TATTC-TC-CGGT--GAAGGCTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAA
1 TTAATCATCATGCTCGGAAGGCTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
36691 GATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
65 GATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
***
36756 AAGGCTTAAGATTGCCCTGAGGAC
130 AAGGCTTAAGATTGATTTG-GGAC
* *
36780 TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAA
1 TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
* *
36845 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGA
66 ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
* *
36910 AGGCTTAGGA-TGGTTT--G-C
131 AGGCTTAAGATTGATTTGGGAC
* ** * ** * * *
36928 TTCACTTTTC-T-CTAGTGAAGGCTT-AAGATGG-TTTGCTTCACTATTCTCCGTTGAAGGCTTA
1 TT-AATCATCATGCTCG-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
36989 GGA-TGGTTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-
64 AGATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAG
* *
37050 GTAAAGGCTTAAGA-TGGTTT--G-C
127 GTGAAGGCTTAAGATTGATTTGGGAC
* * * ** * * * * * *
37072 TTCA-C-TACCTTC-CGGTGAAGGCTT-AAGATTGA-TTACTTCACTATTCTCCAGTGAAAGCTT
1 TTAATCAT-CATGCTC-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTT
* * * *
37132 AAGATTGA-TTACTTCACTACTCTTCA-GTGAAGGGTTAAGATTGG--TTGCTTCACTATTCTCC
63 AAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGA-TGGATTTGCTTCACTATTCTCA
*
37193 GGTGAAGGCTTCAGATTGAT
126 GGTGAAGGCTTAAGATTGAT
37213 CTGCTTCACT
Statistics
Matches: 939, Mismatches: 162, Indels: 176
0.74 0.13 0.14
Matches are distributed among these distances:
140 2 0.00
141 4 0.00
142 2 0.00
143 3 0.00
144 140 0.15
145 50 0.05
146 51 0.05
147 150 0.16
148 44 0.05
149 23 0.02
150 12 0.01
151 18 0.02
152 85 0.09
153 328 0.35
154 15 0.02
157 1 0.00
158 9 0.01
160 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (152 bp):
TTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
ATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
AGGCTTAAGATTGATTTGGGAC
Found at i:36229 original size:190 final size:188
Alignment explanation
Indices: 35906--37138 Score: 1142
Period size: 190 Copynumber: 6.6 Consensus size: 188
35896 CTTGCTGATG
* * *
35906 GATTTGCTTCACTACTCTTC-GGTAAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * *
35970 GCTTCAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGTTTAAGATTGCCTTGAGGACTTAATCA
65 GCTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-
*
36035 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
129 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
*
36096 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * *
36161 CTTAAGATGGAATTGTTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCCTGGGGACTTAATCAT
66 CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-T
36226 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
130 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* * * * * * *
36286 AAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * ** **
36350 TCTTTAAGACGG-ATTGCTTCACTACTCTT-CGGTGAAGGCTTAAGA-TGGATTGTTTCAC-TAA
65 GC-TTAAGATGGAATTGCTTCACTCCT-TTCCGGTGAAGGCTTAAGATTGCCTTG-TGGACTTAA
** * * *
36411 TCTC-TAG-T--GAAGGCTT-AAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGAT
127 TCTCAT-GCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* *** *** * *
36469 GGTTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA-GGT--
** * * * ** **
36533 GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTT--GGTGAAGACTTAAAATTGATTTGCTTCA
61 GAAGGCTT-AAGATGGAATTGCTTCACT-C-CTTTCCGGTGAAGGCTTAAGATTGCCTTG-TGGA
* * ** * * * *
36596 C-TATTCTCA-GGT--GAAGGCTT-AAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGG
122 CTTAATCTCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
36656 AT
187 AT
*
36658 GGTTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * * *
36722 GCTTAAGATGGATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATC
65 GCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* *
36786 ATCATGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
129 -TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* *
36848 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * * * *
36913 CTTAGGATGG-TTTGCTTCACT--TTTCTCTAGTGAAGGCTTAAGA-TG-GTT-T-G-CTTCA-C
66 CTTAAGATGGAATTGCTTCACTCCTTTC-C-GGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* * * *
36969 T-ATTCTCCGTTGAAGGCTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGAT
129 TCATGCT-CG--GAAGGCTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* * *
37029 GGTTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTTGCTTCACTACCTTC-C-GGTGA
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTA--TTCTCAGGTGA
* * * * *
37090 AGGCTTAAGATTG-ATTACTTCACT-ATTCTCCAGTGAAAGCTTAAGATTG
63 AGGCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTG
37139 ATTACTTCAC
Statistics
Matches: 879, Mismatches: 120, Indels: 97
0.80 0.11 0.09
Matches are distributed among these distances:
180 52 0.06
181 43 0.05
182 42 0.05
183 44 0.05
184 90 0.10
185 22 0.03
186 4 0.00
187 16 0.02
188 42 0.05
189 176 0.20
190 336 0.38
191 12 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (188 bp):
GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATCTC
ATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
Found at i:36276 original size:116 final size:112
Alignment explanation
Indices: 36055--37211 Score: 479
Period size: 110 Copynumber: 10.4 Consensus size: 112
36045 AAGGCTTGCT
* * * * * ** * * *
36055 GATGGATTTGCTTCACTACTCTT-CGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGT
1 GATGGAATTGTTTCACTACT-TTCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCTCATGT
*
36119 GAAGGCTT-AAGATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAA
65 GAAGGCTTGAAGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
* * * *
36166 GATGGAATTGTTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCCTGGGGAC-TTAATCATCATG
1 GATGGAATTGTTTCACTACTTTCCGGTGAAGGCTTAAGATTG-ACTGGCGACAATAATC-TCATG
**
36230 CTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
64 -T--GAAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* ** * * * ** *
36282 GAT-TAAGTTACTTCACTACTCTT-CGGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATG
1 GATGGAA-TTGTTTCACTACT-TTCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCTCATG
* * *
36345 TGAAGTCTTTAAGACGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAA
64 TGAAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* * ** * * ** * * * *
36393 GATGG-ATTGTTTCACTAATCTCTAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTG
1 GATGGAATTGTTTCACTACTTTCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCTCATGTG
*
36457 AAGGCTT-AAGATGG-TTTGCTTCACTATTC-TCAGGTGAAGGCTTAA
66 AAGGCTTGAAGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
* *** *** * * * * ** * * * ** * *
36502 GATTGCCCTG-AGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCT
1 GATGGAATTGTTTCAC-TACT-TTC-CGGT--GAAGGCTT-AAGATTGACTGGCGACAATAATCT
* * * * *
36566 -TTGGTGAAGACTT-AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAA
60 CAT-GTGAAGGCTTGAAGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
* ** * ** * ** * *
36618 GATGGATTTGCGTCACTA-TTCTCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCTCCA-G
1 GATGGAATTGTTTCACTACTT-TCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCT-CATG
* *
36680 TGAAGGCTT-AAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAA
64 TGAAGGCTTGAAGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
* * * * *
36728 GATGGATTTGCTTCACTA-TTCTCAGGTGAAGGCTTAAGATTGCCCTGAG-GAC-TTAATCATCA
1 GATGGAATTGTTTCACTACTT-TCCGGTGAAGGCTTAAGATTG-ACTG-GCGACAATAATC-TCA
** *
36790 TGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAA
62 TG-T--GAAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* * * * * * * * ** * * **
36844 AATTGATTTGCTTCACTA-TTCTCAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGT
1 GATGGAATTGTTTCACTACTT-TCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCTCATGT
* ** *
36908 GAAGGCTT-AGGATGG-TTTGCTTCACTTTTC-TCTAGTGAAGGCTTAA
65 GAAGGCTTGAAGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAA
* * * * ** * ** * *
36954 GATGG-TTTGCTTCACTA-TTCTCCGTTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCTCCA-G
1 GATGGAATTGTTTCACTACTT-TCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCT-CATG
* * * *
37015 TGAAGGCTT-AAGATGG-TTTGCTTCACTATTCTCCAGTAAAGGCTTAA
64 TGAAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* * * ** ** * *
37062 GATGG-TTTGCTTCACTACCTTCCGGTGAAGGCTTAAGATTGA-TTACTTCACTATTCTCCA-GT
1 GATGGAATTGTTTCACTACTTTCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCT-CATGT
* * * * *
37124 GAAAGCTT-AAGATTGA-TTACTTCACTACTCTTCAGTGAAGGGTTAA
65 GAAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
* *
37170 GATTGG--TTGCTTCACTA-TTCTCCGGTGAAGGCTTCAGATTGA
1 GA-TGGAATTGTTTCACTACTT-TCCGGTGAAGGCTTAAGATTGA
37212 TCTGCTTCAC
Statistics
Matches: 855, Mismatches: 143, Indels: 99
0.78 0.13 0.09
Matches are distributed among these distances:
107 1 0.00
108 185 0.22
109 79 0.09
110 186 0.22
111 90 0.11
112 41 0.05
113 3 0.00
114 13 0.02
115 68 0.08
116 181 0.21
117 8 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (112 bp):
GATGGAATTGTTTCACTACTTTCCGGTGAAGGCTTAAGATTGACTGGCGACAATAATCTCATGTG
AAGGCTTGAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAA
Found at i:36548 original size:299 final size:298
Alignment explanation
Indices: 36055--37245 Score: 1167
Period size: 299 Copynumber: 4.0 Consensus size: 298
36045 AAGGCTTGCT
* * *
36055 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTG
1 GATGG-TTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
* * *
36120 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACT-A
* *
36185 TT-TCCGGTGAAGGCTTAAGATTGCCCTGGGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
128 TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
* * * *
36249 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTCGGCGAAGG
193 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGG
* *
36314 CTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGTCTTTAA
258 CTTAAGATTGATTTGCTTCACTATTCTC-TGTGAAGGC-TTAA
* * * * *
36357 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCTCTA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTC-AGGTG
* *
36420 AAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
36485 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
130 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
* * * *
36550 TTTGCTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
195 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTC-GGTGAAGGC
* * * *
36614 TTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAG
259 TTAAGATTGATTTGCTTCACTATTCT-CTGTGAAGGCTTAA
* * *
36655 GATGGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGA
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
*** *** *
36720 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAA
66 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGTTTGCTTCAC-TAT
* * * *
36784 TCATCATGCTCGGAAGGC------TTG--CTGATGGA-TT-TTCTTCACTACTCTTCGGTGAAGG
129 TC-TCA-GGT--GAAGGCTTAAGATTGCCCTGA-GGACTTAATCATCA-T--GC-TC-G-GAAGG
*** * *
36839 CTT-AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGA-TAGATTTGCTTCACTATT
183 CTTGCTGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAAGATTA-ATTTGCTTCACTATT
* * * *
36901 CTCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTAGTGAAGGCTTAA
246 CTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCT-GTGAAGGCTTAA
* * *
36954 GATGGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGG-TTTGCTTCACTATTCTCCA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTG
*
37017 AAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGATGGTTTGCTTCACTAC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGTTTGCTTCACTA-
** * * * **
37080 CTTC-C-GGTGAAGGCTTAAGA-T----TGATTACTTCA-C-T-ATTCTCCAGTGAAAGCTT-AA
128 -TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCT
* * * * ** *
37134 GATTGA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT-GGTTGCTTCACTATTCTCCGGTG
189 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTG
* * ** *
37197 AAGGCTTCAGATTGATCTGCTTCACTCCTCTTCGGTGAAGGCTTAA
254 AAGGCTTAAGATTGATTTGCTTCACTATTC-TCTGTGAAGGCTTAA
37243 GAT
1 GAT
37246 TGACTTTGCT
Statistics
Matches: 751, Mismatches: 97, Indels: 95
0.80 0.10 0.10
Matches are distributed among these distances:
288 30 0.04
289 55 0.07
290 24 0.03
292 7 0.01
293 1 0.00
294 4 0.01
295 11 0.01
296 14 0.02
297 35 0.05
298 86 0.11
299 288 0.38
300 137 0.18
301 47 0.06
302 6 0.01
304 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (298 bp):
GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC
TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGGCTT
AAGATTGATTTGCTTCACTATTCTCTGTGAAGGCTTAA
Found at i:36837 original size:263 final size:261
Alignment explanation
Indices: 36292--37245 Score: 1249
Period size: 263 Copynumber: 3.7 Consensus size: 261
36282 GATTAAGTTA
* * * * *
36292 CTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGTCTTTAA
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGC-TTAA
* * * * * *
36357 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATCTCTAGTGAA
65 GATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
*
36422 GGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
36487 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATT
195 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATT
36552 TG
260 TG
* *
36554 CTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* * *
36619 ATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
36684 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTC
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACTATTC
36749 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
194 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
*
36814 TTT
259 TTG
36817 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* * * * *
36882 ATAGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTCTCTAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
* * * *
36947 GGCTTAAGA-TGGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
* ** * * * **
37011 CCA-GTGAAGGCTTAAGA-TG--GT-TTG-CTTCA-C-T-ATTCTCCAGTAAAGGCTT-AAGATG
195 -CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATG
37066 G-TTTG
256 GATTTG
* * *
37071 CTTCACTAC-CTTCCGGTGAAGGCTTAAGATTGA-TTACTTCACTATTCTCCA-GTGAAAGCTTA
1 CTTCACTACTCTT-CGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTA
* * * * * *
37133 AGATTGATTACTTCACTACTCTTCAGTGAAGGGTTAAGATTGG-TTGCTTCACTATTCTCCGGTG
64 AGATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGA-TGGTTTGCTTCACTATTCTCCAGTG
* * **
37197 AAGGCTTCAGATTGATCTGCTTCACTCCTCTTC-GGTGAAGGCTTAAGAT
128 AAGGCTTAAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGAT
37246 TGACTTTGCT
Statistics
Matches: 624, Mismatches: 57, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
252 54 0.09
253 68 0.11
254 37 0.06
255 7 0.01
256 11 0.02
257 1 0.00
258 1 0.00
260 2 0.00
261 39 0.06
262 189 0.30
263 215 0.34
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (261 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
ATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAAG
GCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTC
AGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTT
G
Found at i:37209 original size:72 final size:72
Alignment explanation
Indices: 36062--37247 Score: 807
Period size: 72 Copynumber: 16.0 Consensus size: 72
36052 GCTGATGGAT
* * * * *
36062 TTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGCT
36126 TAAGA-TGG
64 TAAGATTGG
* * * *
36134 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCCT-TTCCGGTGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGG-ATTGCTTCACTACTCTT-CAGTGAAGG
36198 CTTAAGATTGCCCTG
62 CTTAAGATTG----G
** * * ** *
36213 GGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
*
36275 GGCTTAAGATTAAG
60 GGCTTAAGATT-GG
* * * * * * * *
36289 TTACTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTC-TCATGTGAAGTCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC-
*
36353 TTAAGA-CGG
63 TTAAGATTGG
* * * *
36362 ATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATC-TCTAGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCT
*
36426 TAAGATTGAT
64 TAAGATTG-G
** * *
36436 TTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC-TCAGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCA-GTGAAGGCTT
36500 AAGATTGCCCTG
65 AAGATTG----G
** * * ** **
36512 AGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTTGGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
* * *
36574 GACTTAAAATTGAT
60 GGCTTAAGATTG-G
* * * * *
36588 TTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCAGTGAAGGCTT
*
36653 AGGA-TGG
65 AAGATTGG
* * *
36660 TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC
36724 TTAAGA-TGG
63 TTAAGATTGG
* *** *** * *
36733 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGA-TGGATTGCTTCAC-TACTCTTCA-G-T--G
**
36797 AAGGCTTGCTGA-TGG
58 AAGGCTT-AAGATTGG
* * * * * *
36812 ATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGG
* *
36876 CTTAAGATAGAT
62 CTTAAGATTG-G
* * **
36888 TTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTC-TCTAGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCTT
36952 AAGA-TGG
65 AAGATTGG
* * * * *
36959 TTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAAGGCTT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTT
37024 AAGA-TGG
65 AAGATTGG
* * * *
37031 TTTGCTTCACTATTCTCCAGTAAAGGCTTAAGATGGTTTGCTTCACTAC-CTTCCGGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTT-CAGTGAAGGCT
*
37095 TAAGATTGA
64 TAAGATTGG
* * * * * *
37104 TTACTTCACTATTCTCCAGTGAAAGCTTAAGATTGATTACTTCACTACTCTTCAGTGAAGGGTTA
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
37169 AGATTGG
66 AGATTGG
* * * *
37176 TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTGCTTCACTCCTCTTCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGAT-TGCTTCACTACTCTTCAGTGAAGGCTT
37241 AAGATTG
65 AAGATTG
37248 ACTTTGCTCT
Statistics
Matches: 896, Mismatches: 156, Indels: 121
0.76 0.13 0.10
Matches are distributed among these distances:
71 2 0.00
72 233 0.26
73 223 0.25
74 219 0.24
75 48 0.05
76 4 0.00
77 14 0.02
78 33 0.04
79 106 0.12
80 10 0.01
81 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (72 bp):
TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
AGATTGG
Found at i:38489 original size:2 final size:2
Alignment explanation
Indices: 38478--38524 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
38468 TTGTATACAC
38478 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38519 AT AT AT
1 AT AT AT
38525 TTGGGTATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:40901 original size:21 final size:21
Alignment explanation
Indices: 40877--40948 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
40867 CCATGCAAAG
*
40877 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
40898 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
40919 TGGTCTTCATGTC-CTAGGTGAA
1 TGGTCTTCATGTCTTTA--TGAA
40941 TGGTCTTC
1 TGGTCTTC
40949 TCGTCCTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 2 0.04
21 33 0.70
22 12 0.26
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:48451 original size:185 final size:186
Alignment explanation
Indices: 48133--48523 Score: 653
Period size: 185 Copynumber: 2.1 Consensus size: 186
48123 ATAAAATTTT
*
48133 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
48198 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTT
*
48263 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTATGAATTACA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
*
48319 AAATATTAAATATATTATATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
48383 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAATT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAA-TTTATATAAAATT
* *
48447 TTTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTTGAATTATA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
* *
48504 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
48524 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
184 10 0.05
185 132 0.68
186 51 0.26
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
Found at i:48910 original size:36 final size:38
Alignment explanation
Indices: 48840--48911 Score: 89
Period size: 36 Copynumber: 1.9 Consensus size: 38
48830 CCCGATTATT
*
48840 TTTTTATATATTTTATATTATAATTAATTTTTTAATAA
1 TTTTTATATATTTTATATTATAATTAATTATTTAATAA
48878 TTTTT-TAT-TTTTATA-T-TAATATATATTATTTAAT
1 TTTTTATATATTTTATATTATAAT-TA-ATTATTTAAT
48912 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
34 4 0.13
35 3 0.10
36 16 0.52
37 3 0.10
38 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (38 bp):
TTTTTATATATTTTATATTATAATTAATTATTTAATAA
Found at i:48999 original size:9 final size:9
Alignment explanation
Indices: 48971--49003 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
48961 ATAATAAATA
48971 ATTTTAATT
1 ATTTTAATT
*
48980 ATATT-ATT
1 ATTTTAATT
48988 ATTTTAATT
1 ATTTTAATT
48997 ATTTTAA
1 ATTTTAA
49004 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:51159 original size:24 final size:24
Alignment explanation
Indices: 51132--51203 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
51122 AAACGGAGAT
*
51132 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
51156 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
51180 ATTAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
51204 GTATTGTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:51161 original size:12 final size:12
Alignment explanation
Indices: 51134--51203 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
51124 ACGGAGATAT
* *
51134 CAGAAATCAAAA
1 CAGAATTCAGAA
*
51146 CAGAATTCAGAT
1 CAGAATTCAGAA
51158 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
51170 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
51182 TAGAAATCAGAA
1 CAGAATTCAGAA
51194 CAGAATTCAG
1 CAGAATTCAG
51204 GTATTGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:51214 original size:24 final size:24
Alignment explanation
Indices: 51139--51226 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
51129 GATATCAGAA
* *
51139 ATCAAAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATTAGAT
* *
51163 ATCAGAACAGAATCCAGATTAGAA
1 ATCAGAACAGAATTCAGATTAGAT
51187 ATCAGAACAGAATTCAGGTATT-G-T
1 ATCAGAACAGAATTCA-G-ATTAGAT
*
51211 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
51227 AGTCAAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 50 0.91
25 2 0.04
26 3 0.05
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATTAGAT
Found at i:55783 original size:24 final size:24
Alignment explanation
Indices: 55756--55827 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
55746 AAATGGAGAT
* *
55756 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
55780 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
55804 ATCATAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
55828 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:55827 original size:12 final size:12
Alignment explanation
Indices: 55771--55827 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
55761 AAATCAAAAT
*
55771 AGAATTCAGATC
1 AGAATTCAGAAC
55783 AG-ATATCAGAAC
1 AGAAT-TCAGAAC
* *
55795 AGAATCCAGATC
1 AGAATTCAGAAC
* *
55807 ATAAATCAGAAC
1 AGAATTCAGAAC
55819 AGAATTCAG
1 AGAATTCAG
55828 GTAATGTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:55838 original size:24 final size:24
Alignment explanation
Indices: 55771--55850 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
55761 AAATCAAAAT
* *
55771 AGAATTCAGATCAGATATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* * *
55795 AGAATCCAGATCATAAATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* *
55819 AGAATTCAGGTAATGTATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
*
55843 ATAATTCA
1 AGAATTCA
55851 AGTCGAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
AGAATTCAGATAATATATCAGAAC
Found at i:58053 original size:22 final size:23
Alignment explanation
Indices: 58010--58053 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
58000 TCGGCTCGTC
* * *
58010 GATCGGAAGTTGGATGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
58033 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
58054 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.43, T:0.20
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:58761 original size:21 final size:21
Alignment explanation
Indices: 58737--58808 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
58727 AGCAATAAAG
*
58737 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
58758 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
58779 TGGTCTTCATGTC-CTAGGTGAA
1 TGGTCTTCATGTCTTTA--TGAA
58801 TGGTCTTC
1 TGGTCTTC
58809 TCGTCCTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 2 0.04
21 33 0.70
22 12 0.26
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:66312 original size:185 final size:186
Alignment explanation
Indices: 65994--66384 Score: 653
Period size: 185 Copynumber: 2.1 Consensus size: 186
65984 ATAAAATTTT
*
65994 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
66059 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTTT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTT
*
66124 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTATGAATTACA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
*
66180 AAATATTAAATATATTATATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
66244 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAATT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAA-TTTATATAAAATT
* *
66308 TTTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTTGAATTATA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
* *
66365 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
66385 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
184 10 0.05
185 132 0.68
186 51 0.26
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
Found at i:66799 original size:41 final size:41
Alignment explanation
Indices: 66752--66874 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 41
66742 TTTTATTTTT
66752 ATATTATTAATATATATTATTTAATTTTTAAAAATATAA-AA
1 ATATTATTAATATATATTATTTAATTTTT-AAAATATAATAA
* **
66793 ATATTA-TAAAATATATTAATTTAACAGTTT-AAATATAATAA
1 ATATTATTAATATATATT-ATTTAA-TTTTTAAAATATAATAA
66834 ATAATT-TTAATTATATTATTATTTTAATTATTTTAAAATAT
1 AT-ATTATTAA-TATA-TATTA-TTTAA-T-TTTTAAAATAT
66875 TATTATATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
40 18 0.28
41 16 0.25
42 9 0.14
43 4 0.06
44 9 0.14
45 3 0.05
46 6 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (41 bp):
ATATTATTAATATATATTATTTAATTTTTAAAATATAATAA
Found at i:66865 original size:9 final size:9
Alignment explanation
Indices: 66837--66869 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
66827 ATAATAAATA
66837 ATTTTAATT
1 ATTTTAATT
*
66846 ATATT-ATT
1 ATTTTAATT
66854 ATTTTAATT
1 ATTTTAATT
66863 ATTTTAA
1 ATTTTAA
66870 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:69016 original size:24 final size:24
Alignment explanation
Indices: 68989--69060 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
68979 AAACGGAGAT
*
68989 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
69013 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
69037 ATTAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
69061 GTATTGTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:69018 original size:12 final size:12
Alignment explanation
Indices: 68991--69060 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
68981 ACGGAGATAT
* *
68991 CAGAAATCAAAA
1 CAGAATTCAGAA
*
69003 CAGAATTCAGAT
1 CAGAATTCAGAA
69015 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
69027 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
69039 TAGAAATCAGAA
1 CAGAATTCAGAA
69051 CAGAATTCAG
1 CAGAATTCAG
69061 GTATTGTATC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:69071 original size:24 final size:24
Alignment explanation
Indices: 68996--69083 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
68986 GATATCAGAA
* *
68996 ATCAAAACAGAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATTAGAT
* *
69020 ATCAGAACAGAATCCAGATTAGAA
1 ATCAGAACAGAATTCAGATTAGAT
69044 ATCAGAACAGAATTCAGGTATT-G-T
1 ATCAGAACAGAATTCA-G-ATTAGAT
*
69068 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
69084 AGTCAAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 50 0.91
25 2 0.04
26 3 0.05
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATTAGAT
Found at i:71541 original size:10 final size:10
Alignment explanation
Indices: 71526--71555 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
71516 CGGTCAAAGT
71526 TTTGGTCAAC
1 TTTGGTCAAC
71536 TTTGGTCAAC
1 TTTGGTCAAC
*
71546 ATTGGTCAAC
1 TTTGGTCAAC
71556 GGTCAACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (10 bp):
TTTGGTCAAC
Found at i:73652 original size:24 final size:24
Alignment explanation
Indices: 73625--73696 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
73615 AAATGGAGAT
* *
73625 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
73649 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
73673 ATCATAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
73697 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:73696 original size:12 final size:12
Alignment explanation
Indices: 73640--73696 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
73630 AAATCAAAAT
*
73640 AGAATTCAGATC
1 AGAATTCAGAAC
73652 AG-ATATCAGAAC
1 AGAAT-TCAGAAC
* *
73664 AGAATCCAGATC
1 AGAATTCAGAAC
* *
73676 ATAAATCAGAAC
1 AGAATTCAGAAC
73688 AGAATTCAG
1 AGAATTCAG
73697 GTAATGTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:73707 original size:24 final size:24
Alignment explanation
Indices: 73640--73719 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
73630 AAATCAAAAT
* *
73640 AGAATTCAGATCAGATATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* * *
73664 AGAATCCAGATCATAAATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* *
73688 AGAATTCAGGTAATGTATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
*
73712 ATAATTCA
1 AGAATTCA
73720 AGTCGAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
AGAATTCAGATAATATATCAGAAC
Found at i:75922 original size:22 final size:23
Alignment explanation
Indices: 75879--75922 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
75869 TCGGCTCGTC
* * *
75879 GATCGGAAGTTGGATGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
75902 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
75923 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.43, T:0.20
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:77696 original size:20 final size:20
Alignment explanation
Indices: 77659--77696 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
77649 CTGGAATTAA
* *
77659 ATGTTAGAATGTTGATTTTG
1 ATGTTAGAAGGTTAATTTTG
77679 ATGTTAGAAGGTTAATTT
1 ATGTTAGAAGGTTAATTT
77697 GAATCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAGGTTAATTTTG
Found at i:84991 original size:55 final size:54
Alignment explanation
Indices: 84931--85193 Score: 194
Period size: 55 Copynumber: 4.8 Consensus size: 54
84921 GAGGTAAGTG
* * * *
84931 AGACTTGAAAAATCTTCAGAAAACATGTATGCTCCCTATTCTTTCAGAGAGTAT
1 AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
84985 AAGACTTGATCAATCTTC-GATCAGCGGGT-TCGCTCCCTATT-TTTCAGGGTGCAT
1 -AGACTTGAACAATCTTCAGA-AAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
85039 GGAACTCGCACAATCTTCA-ACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGT
1 AG-ACTTGAACAATCTTCAGA-AAACGTGTCTGCTCCCTATTC-TTTCAGGGAGTAT
* *
85095 AAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
1 -AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * ** * *
85150 AGAAC-TCAAGAAATCTTTTGAAAACGGGTTTGCTCCCTATTCTT
1 AG-ACTTGAA-CAATCTTCAGAAAACGTGTCTGCTCCCTATTCTT
85194 CTGAGAAGTC
Statistics
Matches: 161, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
53 1 0.01
54 43 0.27
55 72 0.45
56 44 0.27
57 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (54 bp):
AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
Found at i:85102 original size:56 final size:55
Alignment explanation
Indices: 84960--85147 Score: 172
Period size: 56 Copynumber: 3.4 Consensus size: 55
84950 AAAACATGTA
* * * * * *
84960 TGCTCCCTATTCTTTCAGAGAGTATAAGACTTGATCAATCTTCGATC-AGCGGGT-TC
1 TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTC-AACAAAC--GTCTC
* * *
85016 -GCTCCCTATT-TTTCA-GG-GTGCATGGAACTCGCACAATCTTCAACAAACGTCTC
1 TGCTCCCTATTCTTTCAGGGAGTGTA-AG-ACTCGAACAATCTTCAACAAACGTCTC
* * *
85069 TGCTCTCTATTCTTTTCAGGGAGTGTAAGACTCGAACAATCTTCAGCAAACGTGTC
1 TGCTCCCTATTC-TTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
85125 TGCTCCCTATTCTTTCAGGGAGT
1 TGCTCCCTATTCTTTCAGGGAGT
85148 ATAGAACTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 19
0.75 0.11 0.13
Matches are distributed among these distances:
52 5 0.05
53 6 0.06
54 28 0.26
55 21 0.20
56 40 0.37
57 3 0.03
58 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
Found at i:85618 original size:37 final size:37
Alignment explanation
Indices: 85568--86916 Score: 958
Period size: 37 Copynumber: 36.2 Consensus size: 37
85558 CTTGCTGATG
* * *
85568 GATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
85605 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTCAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
85642 GAATTGCTTCACTCCTT-TCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* * * * ** *
85679 GCCTTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G-ATT--TG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * *
85721 GATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
85758 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
85795 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
85832 GAATTGTTTCACTCCTT-TCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* ** * * ** *
85869 GCCCTGGGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* *
85911 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * * *
85948 AAGTTACTTCACTACTCTTCGGCGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * **
85985 GATTTGCTTCAATATTC-TCATGTGAAGTCTTTAAGACG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGC-TTAAGATT
* *
86023 GA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
86059 GA-TTGTTTCACTAATC-TCTAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
86095 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
86131 GGTTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
86168 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * * *
86210 GATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
86247 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
86284 GATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
86320 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
86357 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
86394 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
86431 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * *
86473 GATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
86510 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATA
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
86547 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
86583 GGTTTGCTTCACTTTTC-TCTAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
86619 GGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
86655 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
86691 GGTTTGCTTCACTATTCTCCAGTAAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
86727 GGTTTGCTTCACTA-CCTTCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTT-CGGTGAAGGCTTAAGATT
* * * *
86764 GA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
86800 GA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
86836 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
86872 GATCTGCTTCACT-CTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
86908 GACTTTGCT
1 GA-TTTGCT
86917 CTAATCTCAT
Statistics
Matches: 1045, Mismatches: 195, Indels: 144
0.76 0.14 0.10
Matches are distributed among these distances:
35 14 0.01
36 386 0.37
37 474 0.45
38 66 0.06
39 5 0.00
40 7 0.01
41 49 0.05
42 24 0.02
43 10 0.01
44 10 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (37 bp):
GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
Found at i:85824 original size:153 final size:150
Alignment explanation
Indices: 85558--86874 Score: 814
Period size: 153 Copynumber: 8.8 Consensus size: 150
85548 GCTCAAAAGA
* *
85558 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * * **
85623 CAGGTGAAGGCTTCAGATGGAATTGCTTCACTCCTT-TCCA-GTGAAGGCTTAAGATTGCCTTGA
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACT-ATTCT-CAGGTGAAGGCTTAAGATTGATTTG-
*
85686 GGACTTAATCATCATGCTCGGAAGG
128 GGACTTATTC-TCATGCT-GGAAGG
* *
85711 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* **
85776 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTT
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTG-ATT-TGG
* ** * *
85841 CACTCCTT-TC-CGGT-GAAGG
129 GACTTATTCTCATGCTGGAAGG
** * *** *** * * * ** *
85860 CTT-AAGATTGCCCTG-GGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCAC
1 CTTGCTGATGGATTTGCTTCAC-TACTCTTC--GGT--GAAGGCTT-AAGATTGATTTGCTTCAC
* ** * * * *
85923 TACTCTTCA-GTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTG
60 TATTC-TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG
*** * *
85986 ATTTGCTTCAATATTCTCATG-T-GAAGT
123 ATTTGGGAC-TTATTCTCATGCTGGAAGG
*** * * * *
86013 CTTTAAGACGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * *
86076 CTA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-TGGTTTGCT
66 C-AGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG--
** *
86139 TCAC-TATTCTCA-GGT-GAAGG
128 GGACTTATTCTCATGCTGGAAGG
* ** ** *
86159 CTTAAGATTGCCCTGA-GGACTT-AATCA-T-CATGC-TC-G-GAAGGCTTGCTGATGGATTTGC
1 C------TTG--CTGATGGATTTGCTTCACTAC-T-CTTCGGTGAAGGCTT-AAGATTGATTTGC
* ** * * *
86217 TTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA
55 TTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA
* * * *
86282 TGGATTTGCGTCAC-TATTCTC-CGGT-GAAGG
120 TTGATTTG-G-GACTTATTCTCATGCTGGAAGG
* * *
86312 CTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTC
1 CTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTC
***
86374 TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTGAG
65 TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG-G
*
86439 GACTTAATCATCATGCTCGGAAGG
129 GACTTATTC-TCATGCT-GGAAGG
* *
86463 CTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * * * *
86528 CAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-TGGTTTGCTT
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG--G
*
86592 CACTT-TTCTC-TAG-T-GAAGG
129 GACTTATTCTCAT-GCTGGAAGG
** * * * * *
86611 CTT-AAGATGG-TTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* *
86673 CCA-GTGAAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTT--
66 -CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGG
* * * *
86732 G-CTTCACTAC-CTTCCGGTGAAGG
129 GACTT-A-TTCTCATGCTG-GAAGG
** * * * * * * * *
86755 CTT-AAGATTGA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATTGA-TTACTTCACTACTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-
* * *
86817 TCA-GTGAAGGGTTAAGATTGG--TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGAT
65 TCAGGTGAAGGCTTAAGA-TGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGAT
86875 CTGCTTCACT
Statistics
Matches: 932, Mismatches: 160, Indels: 152
0.75 0.13 0.12
Matches are distributed among these distances:
139 3 0.00
141 1 0.00
142 3 0.00
143 1 0.00
144 133 0.14
145 51 0.05
146 57 0.06
147 144 0.15
148 38 0.04
149 18 0.02
150 13 0.01
151 25 0.03
152 96 0.10
153 326 0.35
154 22 0.02
155 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (150 bp):
CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGGGA
CTTATTCTCATGCTGGAAGG
Found at i:85891 original size:190 final size:188
Alignment explanation
Indices: 85568--86800 Score: 1124
Period size: 190 Copynumber: 6.6 Consensus size: 188
85558 CTTGCTGATG
* * *
85568 GATTTGCTTCACTACTCTTC-GGTAAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * *
85632 GCTTCAGATGGAATTGCTTCACTCCTTTCCAGTGAAGGCTTAAGATTGCCTTGAGGACTTAATCA
65 GCTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-
* *
85697 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
129 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
*
85758 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * *
85823 CTTAAGATGGAATTGTTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCCTGGGGACTTAATCAT
66 CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-T
*
85888 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATT
130 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* * * * * * *
85948 AAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * ** **
86012 TCTTTAAGACGG-ATTGCTTCACTACTCTT-CGGTGAAGGCTTAAGA-TGGATTGTTTCAC-TAA
65 GC-TTAAGATGGAATTGCTTCACTCCT-TTCCGGTGAAGGCTTAAGATTGCCTTG-TGGACTTAA
** * * *
86073 TCTC-TAG-T--GAAGGCTT-AAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGAT
127 TCTCAT-GCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* *** *** * *
86131 GGTTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA-GGT--
** * * * ** **
86195 GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTT--GGTGAAGACTTAAAATTGATTTGCTTCA
61 GAAGGCTT-AAGATGGAATTGCTTCACT-C-CTTTCCGGTGAAGGCTTAAGATTGCCTTG-TGGA
* * ** * * * *
86258 C-TATTCTCA-GGT--GAAGGCTT-AAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGG
122 CTTAATCTCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
86318 AT
187 AT
*
86320 GGTTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * * *
86384 GCTTAAGATGGATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATC
65 GCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* *
86448 ATCATGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
129 -TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* *
86510 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * * * *
86575 CTTAGGATGG-TTTGCTTCACT--TTTCTCTAGTGAAGGCTTAAGA-TG-GTT-T-G-CTTCA-C
66 CTTAAGATGGAATTGCTTCACTCCTTTC-C-GGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* * * *
86631 T-ATTCTCCGTTGAAGGCTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGAT
129 TCATGCT-CG--GAAGGCTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* * *
86691 GGTTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTTGCTTCACTACCTTC-C-GGTGA
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTA--TTCTCAGGTGA
* * * * *
86752 AGGCTTAAGATTG-ATTACTTCACT-ATTCTCCAGTGAAAGCTTAAGATTG
63 AGGCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTG
86801 ATTACTTCAC
Statistics
Matches: 876, Mismatches: 123, Indels: 97
0.80 0.11 0.09
Matches are distributed among these distances:
180 52 0.06
181 43 0.05
182 42 0.05
183 44 0.05
184 89 0.10
185 22 0.03
186 4 0.00
187 16 0.02
188 42 0.05
189 176 0.20
190 334 0.38
191 12 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (188 bp):
GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATCTC
ATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
Found at i:86210 original size:299 final size:298
Alignment explanation
Indices: 85717--86906 Score: 1158
Period size: 299 Copynumber: 4.0 Consensus size: 298
85707 AAGGCTTGCT
* * * *
85717 GATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTG
1 GATGG-TTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
* * *
85782 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACT-A
* *
85847 TT-TCCGGTGAAGGCTTAAGATTGCCCTGGGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
128 TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
* * * *
85911 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTCGGCGAAGG
193 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGG
* *
85976 CTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGTCTTTAA
258 CTTAAGATTGATTTGCTTCACTATTCTC-TGTGAAGGC-TTAA
* * * * *
86019 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCTCTA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTC-AGGTG
* *
86082 AAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
86147 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
130 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
** * * *
86212 TTTGCTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
195 TTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTC-GGTGAAGGC
* * * *
86276 TTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAG
259 TTAAGATTGATTTGCTTCACTATTCT-CTGTGAAGGCTTAA
* * *
86317 GATGGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGA
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
*** *** *
86382 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAA
66 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGTTTGCTTCAC-TAT
* * * *
86446 TCATCATGCTCGGAAGGC------TTG--CTGATGGA-TT-TTCTTCACTACTCTTCGGTGAAGG
129 TC-TCA-GGT--GAAGGCTTAAGATTGCCCTGA-GGACTTAATCATCA-T--GC-TC-G-GAAGG
*** * *
86501 CTT-AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGA-TAGATTTGCTTCACTATT
183 CTTGCTGATGGATTTGCTTCACTACTCTTCA-GTGAAGGCTTAAGATTA-ATTTGCTTCACTATT
* * * *
86563 CTCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTAGTGAAGGCTTAA
246 CTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCT-GTGAAGGCTTAA
* * *
86616 GATGGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGG-TTTGCTTCACTATTCTCCA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTG
*
86679 AAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGATGGTTTGCTTCACTAC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGTTTGCTTCACTA-
** * * * **
86742 CTTC-C-GGTGAAGGCTTAAGA-T----TGATTACTTCA-C-T-ATTCTCCAGTGAAAGCTT-AA
128 -TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCT
* * * ** *
86796 GATTGA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT-GGTTGCTTCACTATTCTCCGGTG
189 GATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTG
* * * *
86859 AAGGCTTCAGATTGATCTGCTTCACT-CTCTTCGGTGAAGGCTTAA
254 AAGGCTTAAGATTGATTTGCTTCACTATTC-TCTGTGAAGGCTTAA
86904 GAT
1 GAT
86907 TGACTTTGCT
Statistics
Matches: 749, Mismatches: 98, Indels: 96
0.79 0.10 0.10
Matches are distributed among these distances:
288 47 0.06
289 40 0.05
290 23 0.03
292 7 0.01
293 1 0.00
294 4 0.01
295 11 0.01
296 14 0.02
297 35 0.05
298 86 0.11
299 287 0.38
300 136 0.18
301 46 0.06
302 6 0.01
304 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (298 bp):
GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC
TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
TTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGGCTT
AAGATTGATTTGCTTCACTATTCTCTGTGAAGGCTTAA
Found at i:86871 original size:72 final size:72
Alignment explanation
Indices: 85724--86908 Score: 807
Period size: 72 Copynumber: 16.0 Consensus size: 72
85714 GCTGATGGAT
* * * * * *
85724 TTGCTTCACTACTCTTCGGTAAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGCT
85788 TAAGA-TGG
64 TAAGATTGG
* * * *
85796 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCCT-TTCCGGTGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGG-ATTGCTTCACTACTCTT-CAGTGAAGG
85860 CTTAAGATTGCCCTG
62 CTTAAGATTG----G
** * * **
85875 GGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCAGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
*
85937 GGCTTAAGATTAAG
60 GGCTTAAGATT-GG
* * * * * * * *
85951 TTACTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTC-TCATGTGAAGTCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC-
*
86015 TTAAGA-CGG
63 TTAAGATTGG
* * * *
86024 ATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATC-TCTAGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCT
*
86088 TAAGATTGAT
64 TAAGATTG-G
** * *
86098 TTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC-TCAGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCA-GTGAAGGCTT
86162 AAGATTGCCCTG
65 AAGATTG----G
** * * ** **
86174 AGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTTGGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
* * *
86236 GACTTAAAATTGAT
60 GGCTTAAGATTG-G
* * * * *
86250 TTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCAGTGAAGGCTT
*
86315 AGGA-TGG
65 AAGATTGG
* * *
86322 TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC
86386 TTAAGA-TGG
63 TTAAGATTGG
* *** *** * *
86395 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGA-TGGATTGCTTCAC-TACTCTTCA-G-T--G
**
86459 AAGGCTTGCTGA-TGG
58 AAGGCTT-AAGATTGG
* * * * * *
86474 ATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGG
* *
86538 CTTAAGATAGAT
62 CTTAAGATTG-G
* * **
86550 TTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTC-TCTAGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCTT
86614 AAGA-TGG
65 AAGATTGG
* * * * *
86621 TTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAAGGCTT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTT
86686 AAGA-TGG
65 AAGATTGG
* * * *
86693 TTTGCTTCACTATTCTCCAGTAAAGGCTTAAGATGGTTTGCTTCACTAC-CTTCCGGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTT-CAGTGAAGGCT
*
86757 TAAGATTGA
64 TAAGATTGG
* * * * * *
86766 TTACTTCACTATTCTCCAGTGAAAGCTTAAGATTGATTACTTCACTACTCTTCAGTGAAGGGTTA
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
86831 AGATTGG
66 AGATTGG
* * *
86838 TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTGCTTCACT-CTCTTCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGAT-TGCTTCACTACTCTTCAGTGAAGGCTT
86902 AAGATTG
65 AAGATTG
86909 ACTTTGCTCT
Statistics
Matches: 895, Mismatches: 156, Indels: 122
0.76 0.13 0.10
Matches are distributed among these distances:
71 2 0.00
72 255 0.28
73 202 0.23
74 218 0.24
75 48 0.05
76 4 0.00
77 14 0.02
78 33 0.04
79 105 0.12
80 10 0.01
81 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (72 bp):
TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
AGATTGG
Found at i:88148 original size:2 final size:2
Alignment explanation
Indices: 88137--88176 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
88127 TTGTATACAC
88137 AT AT -T AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88177 TTGGGTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:90475 original size:21 final size:20
Alignment explanation
Indices: 90433--90500 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
90423 CCATGCAAAG
*
90433 TGGTCTTTATGTCTTA-GAA
1 TGGTCTTCATGTCTTATGAA
90452 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTC-TTATGAA
* *
90473 TGGTCTTCATGTCCTGTGAA
1 TGGTCTTCATGTCTTATGAA
90493 TGGTCTTC
1 TGGTCTTC
90501 TCGTCCTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.27
20 16 0.36
21 16 0.36
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (20 bp):
TGGTCTTCATGTCTTATGAA
Found at i:90494 original size:20 final size:21
Alignment explanation
Indices: 90433--90500 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
90423 CCATGCAAAG
*
90433 TGGTCTTTATGTCT-TA-GAA
1 TGGTCTTCATGTCTCTATGAA
*
90452 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTCTATGAA
*
90473 TGGTCTTCATGTC-CTGTGAA
1 TGGTCTTCATGTCTCTATGAA
90493 TGGTCTTC
1 TGGTCTTC
90501 TCGTCCTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.30
20 15 0.34
21 16 0.36
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (21 bp):
TGGTCTTCATGTCTCTATGAA
Done.