Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 53 of 250
Found at i:16971756 original size:41 final size:40
Alignment explanation
Indices: 16971703--16971872 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
16971693 AGTCCGACTC
*
16971703 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
16971742 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
16971782 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
16971827 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
16971866 TTTAGAC
1 -TTAGAC
16971873 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:16974983 original size:49 final size:50
Alignment explanation
Indices: 16974873--16975243 Score: 198
Period size: 46 Copynumber: 7.9 Consensus size: 50
16974863 GTATAATACC
* * *
16974873 GATGACATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATTAAGT--T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCACAAATT-CGTACT
* * *
16974920 GATGCCATATCCCAGACCTGGTCTTACACT-GACTATCA-AAATT-GATGC-
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCACAAATTCG-TACT
* *
16974968 GAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTACT
1 G-ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATTCGTACT
*
16975019 GATGCCATGTCCCAGACATGGTCTTACACTA---A-CAC--ATCTCGTAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAAT-TCGTA-CT
* * * *
16975065 GATG-CATGTCCCAGACAT-GTCTTATAATGGCT-T-AC--ATCTCGAAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAAT-TCGTA-CT
* * * *
16975111 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAA-T-GT-C-
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-AC-AAATTCGTACT
* * * *
16975157 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCA-TAA-T-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATTCGT-ACT
*
16975205 GGTG-CATGTCCCAGACAT-GTCTTACACTAGC-AT-ACAAAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAAT
16975244 AACCCGAATG
Statistics
Matches: 263, Mismatches: 30, Indels: 63
0.74 0.08 0.18
Matches are distributed among these distances:
44 11 0.04
45 27 0.10
46 68 0.26
47 60 0.23
48 22 0.08
49 34 0.13
50 38 0.14
51 2 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAAATTCGTACT
Found at i:16975104 original size:46 final size:47
Alignment explanation
Indices: 16974974--16975240 Score: 239
Period size: 46 Copynumber: 5.7 Consensus size: 47
16974964 ATGCGAATGC
*
16974974 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTA-CTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CTCGTAGCTGATG
* *
16975023 CCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAGTTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCTGATG
* * * *
16975069 CATGTCCCAGACAT-GTCTTATAATGGCTTACATCTCGAAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCTGATG
* * *
16975115 CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTC-AATG-TCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCGTA-GCT-GATG
* * * * *
16975161 CCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCTGGTG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACAT-CTCGTAGCTGATG
*
16975209 CATGTCCCAGACAT-GTCTTACACTAGCATACA
1 CATGTCCCAGACATGGTCTTACACTAGCTTACA
16975241 AATAACCCGA
Statistics
Matches: 181, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.05
45 22 0.12
46 73 0.40
47 29 0.16
48 19 0.10
49 2 0.01
50 27 0.15
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCTGATG
Found at i:16975211 original size:94 final size:92
Alignment explanation
Indices: 16974970--16975236 Score: 267
Period size: 94 Copynumber: 2.9 Consensus size: 92
16974960 ATTGATGCGA
* * * *
16974970 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TCGTACTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA-ATGT-G-GCTGATG-CATGTCCCAG
* *
16975034 ACATGGTCTTACACTAACACATCTCGTAGTTG
62 ACAT-GTCTTACACTAGCACATCTCGTAGTCG
* * * * ** *
16975066 ATG-CATGTCCCAGACAT-GTCTTATAATGGCTTACAT-CTCGAAGCTGATGCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCTGATGCATGTCCCAGACA
*
16975128 TGTCTTACACTAGCTC-TCGTC-TCAATGTCG
65 TGTCTTACACTAGCACATC-TCGT--A-GTCG
*
16975158 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCTGGTGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCTGATGCATGTCCCAGACAT
16975223 GTCTTACACTAGCA
66 GTCTTACACTAGCA
16975237 TACAAATAAC
Statistics
Matches: 139, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
89 3 0.02
90 15 0.11
91 14 0.10
92 13 0.09
93 14 0.10
94 62 0.45
95 15 0.11
96 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCACATCTCGTAGTCG
Found at i:16975227 original size:140 final size:141
Alignment explanation
Indices: 16974974--16975228 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 141
16974964 ATGCGAATGC
* *
16974974 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTACTGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATAATCGTACTGATGCCATGTCCCAGACATG
* *
16975039 GTCTTACACTAACACATCTCGTAGTTGATGCATGTCCCAGACATGTCTTATAATGGCTTACATCT
66 GTCTTACACTAACACATATCGTAGCTGATGCATGTCCCAGACATGTCTTATAATGGCTTACATCT
16975104 CGAAGCTGATG
131 CGAAGCTGATG
*
16975115 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTC-TCAAT-GT-C-GATGCCATGTCCCAGACA
1 CATGTCCCAAACATGGTCTTACACTAGCTCTC-ACAT-AATCGTACTGATGCCATGTCCCAGACA
** * * *
16975175 TGGTCTTACACTGGCTTTCATAAT-GTGGCTGGTGCATGTCCCAGACATGTCTTA
64 TGGTCTTACACTAAC--ACAT-ATCGTAGCTGATGCATGTCCCAGACATGTCTTA
16975229 CACTAGCATA
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
138 31 0.31
139 1 0.01
140 50 0.51
141 17 0.17
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (141 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCACATAATCGTACTGATGCCATGTCCCAGACATG
GTCTTACACTAACACATATCGTAGCTGATGCATGTCCCAGACATGTCTTATAATGGCTTACATCT
CGAAGCTGATG
Found at i:16979100 original size:12 final size:12
Alignment explanation
Indices: 16979083--16979107 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16979073 TGTTTTTCTT
16979083 ATTTTAATTATC
1 ATTTTAATTATC
16979095 ATTTTAATTATC
1 ATTTTAATTATC
16979107 A
1 A
16979108 ATTACCATAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:16980414 original size:31 final size:31
Alignment explanation
Indices: 16980376--16980435 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
16980366 TTCATATTTC
16980376 ATATTTCATAACACTGGGCCGAAGCCTTTTA
1 ATATTTCATAACACTGGGCCGAAGCCTTTTA
**
16980407 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
16980436 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTA
Found at i:16980675 original size:24 final size:24
Alignment explanation
Indices: 16980629--16980724 Score: 117
Period size: 24 Copynumber: 4.0 Consensus size: 24
16980619 TCTTGATCAT
*
16980629 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
16980654 ATAAATGGGGCA-AACGCCCTTTTA
1 ATAACTGGGGCATAA-GCCCTTTTA
16980678 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
16980701 ATAACTGGGGCATAAACCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16980725 CACTTCCTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
23 22 0.35
24 29 0.46
25 12 0.19
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16980704 original size:23 final size:23
Alignment explanation
Indices: 16980650--16980722 Score: 103
Period size: 23 Copynumber: 3.1 Consensus size: 23
16980640 CCTAGCCTCT
*
16980650 TTTAATAAATGGGGCA-AACGCCC
1 TTTAATAACTGGGGCATAA-GCCC
16980673 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
16980697 TTTAATAACTGGGGCATAAACCC
1 TTTAATAACTGGGGCATAAGCCC
16980720 TTT
1 TTT
16980723 TACACTTCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
23 25 0.54
24 19 0.41
25 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:16980798 original size:20 final size:20
Alignment explanation
Indices: 16980773--16980839 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
16980763 TTATGATTAC
16980773 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16980793 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
16980813 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
16980833 ACCATGT
1 ATCATGT
16980840 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16980804 original size:11 final size:11
Alignment explanation
Indices: 16980773--16980828 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
16980763 TTATGATTAC
16980773 ATCATGTGCAT
1 ATCATGTGCAT
*
16980784 ATCA--TACAT
1 ATCATGTGCAT
16980793 ATCATGTGCAT
1 ATCATGTGCAT
*
16980804 ATCA--TACAT
1 ATCATGTGCAT
*
16980813 GTCATGTGCAT
1 ATCATGTGCAT
16980824 ATCAT
1 ATCAT
16980829 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:16980904 original size:25 final size:25
Alignment explanation
Indices: 16980876--16980923 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16980866 GTACATAAAC
* * *
16980876 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTAATTTTTA
16980901 CCTAGGGGCAAAATGGTAATTTT
1 CCTAGGGGCAAAATGGTAATTTT
16980924 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTAATTTTTA
Found at i:16990989 original size:40 final size:40
Alignment explanation
Indices: 16990755--16990989 Score: 183
Period size: 40 Copynumber: 6.0 Consensus size: 40
16990745 TTCTCAGAGG
* * * * *
16990755 TACCATAGTACAATCAAGAGCACGTATATGCATTCAGAGG-
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAG-GGA
* * * * * *
16990795 TATCAAAGTACAAATAGGGGCATGTATGTACATTCAGGGG
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAGGGA
* * *
16990835 TACCGAAGTACAAACAGGGGCACATATGTGCATTCAAGGG-
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTC-AGGGA
** *** * *
16990875 TACCGGAGTACAAACAATAGCAC---TGTTCATTCAGGGG
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAGGGA
* *
16990912 TACCAAAGTACAAATAGGGGCACGTATGTGCATTCAGGGA
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAGGGA
** *
16990952 TATTAAAGTACTAACAGGCGCACGTATGTGCATTCAGG
1 TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAGG
16990990 CAATAATTGT
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
36 4 0.03
37 25 0.16
39 2 0.01
40 121 0.78
41 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (40 bp):
TACCAAAGTACAAACAGGCGCACGTATGTGCATTCAGGGA
Found at i:16992028 original size:15 final size:16
Alignment explanation
Indices: 16992003--16992036 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16991993 AATACGACTC
*
16992003 TAATGTAATTATATAA
1 TAATGTAATTAAATAA
16992019 TAAT-TAATTAAATAA
1 TAATGTAATTAAATAA
16992034 TAA
1 TAA
16992037 AACATGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATGTAATTAAATAA
Found at i:16993306 original size:25 final size:26
Alignment explanation
Indices: 16993262--16993335 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
16993252 CCCCCTTTAT
*
16993262 TAAACATAAACAAATTAAAATTAAAGAC
1 TAAAAATAAA-AAATTAAAATTAAA-AC
* * *
16993290 -AAAGAT-AAAAATGAAAAATAAAAC
1 TAAAAATAAAAAATTAAAATTAAAAC
16993314 TAAAAATAAAAAATTAAAATTA
1 TAAAAATAAAAAATTAAAATTA
16993336 TTCAGAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 2 0.05
25 17 0.45
26 14 0.37
27 5 0.13
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.20
Consensus pattern (26 bp):
TAAAAATAAAAAATTAAAATTAAAAC
Found at i:16993317 original size:19 final size:20
Alignment explanation
Indices: 16993295--16993332 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16993285 AAGACAAAGA
*
16993295 TAAAAATGAAAAA-TAAAAC
1 TAAAAATAAAAAATTAAAAC
16993314 TAAAAATAAAAAATTAAAA
1 TAAAAATAAAAAATTAAAA
16993333 TTATTCAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAAATTAAAAC
Found at i:16997144 original size:47 final size:47
Alignment explanation
Indices: 16997086--16997215 Score: 170
Period size: 47 Copynumber: 2.8 Consensus size: 47
16997076 GTGCGAATAA
* * *
16997086 TACCTTGATTTGGCTATGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * *
16997133 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * *
16997180 TACCTTAAGTTGGCTACGGACCATGGTATAAGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
16997216 TATCGATTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:16997858 original size:17 final size:19
Alignment explanation
Indices: 16997836--16997883 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
16997826 GTTATTTGAT
16997836 ATATGAG-TT-TAATATTC
1 ATATGAGCTTATAATATTC
16997853 ATATGAGCTTACTAATATTC
1 ATATGAGCTTA-TAATATTC
16997873 ATATGAGCTTA
1 ATATGAGCTTA
16997884 CTAAGCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
20 19 0.68
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (19 bp):
ATATGAGCTTATAATATTC
Found at i:16997868 original size:20 final size:20
Alignment explanation
Indices: 16997845--16997887 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16997835 TATATGAGTT
16997845 TAATATTCATATGAGCTTAC
1 TAATATTCATATGAGCTTAC
16997865 TAATATTCATATGAGCTTAC
1 TAATATTCATATGAGCTTAC
16997885 TAA
1 TAA
16997888 GCTTTATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
TAATATTCATATGAGCTTAC
Found at i:17002126 original size:39 final size:39
Alignment explanation
Indices: 17002083--17002203 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
17002073 AATTATGTTA
*
17002083 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
17002122 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
17002161 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
17002200 CCAG
1 CCAG
17002204 TGTCTTGCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:17003405 original size:23 final size:26
Alignment explanation
Indices: 17003369--17003422 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
17003359 TATGTCTTAT
* *
17003369 AATATATATTACACCT-TA-ATATAA
1 AATATATATCACACATATATATATAA
17003393 AATA-ATATCACACATATATATATAA
1 AATATATATCACACATATATATATAA
17003418 AATAT
1 AATAT
17003423 TATAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 9 0.36
24 6 0.24
25 10 0.40
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATATATCACACATATATATATAA
Found at i:17008763 original size:39 final size:39
Alignment explanation
Indices: 17008719--17008800 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
17008709 AATTATGTTA
*
17008719 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
* *
17008758 CCAGCACGAAGCCTGCGAGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
17008797 CCAG
1 CCAG
17008801 TGTCTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
Found at i:17014734 original size:42 final size:42
Alignment explanation
Indices: 17014645--17014737 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
17014635 CTTGGTACAT
* * *
17014645 GGGCGTCTGAGGTTATTTCAAAGGGTTCACAACCTAGCACAC
1 GGGCGTGTGAGGTTATTTCAAAAGGTACACAACCTAGCACAC
* **
17014687 AGGCGTGTGAGGTTATTTCAAAAGGTACACTTCCT-GACACAC
1 GGGCGTGTGAGGTTATTTCAAAAGGTACACAACCTAG-CACAC
17014729 GGGCGTGTG
1 GGGCGTGTG
17014738 GTTTGGCCGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.98
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (42 bp):
GGGCGTGTGAGGTTATTTCAAAAGGTACACAACCTAGCACAC
Found at i:17014985 original size:15 final size:15
Alignment explanation
Indices: 17014953--17014981 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17014943 ATTTTTAGTG
17014953 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
17014968 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
17014982 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:17017283 original size:186 final size:186
Alignment explanation
Indices: 17016962--17017333 Score: 638
Period size: 186 Copynumber: 2.0 Consensus size: 186
17016952 CCCGAGCTGC
* *
17016962 CTTCTTTGATATGATGGATGAATGGTTTGGGGATTATCTGAGAAATTGCCCCAATATACTAAGAC
1 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTGAGAAATTGCCCCAATATACTAAGAC
*
17017027 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACCGGTGAGAATCGAT
66 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGAT
*
17017092 AAAGCCCCTGTAGATAAGCTTAGAAAGTATGGGGCTGAGGAATTCAGAGCTAAAGT
131 AAAGCCCCTGTAGATAAGCTTAGAAAGAATGGGGCTGAGGAATTCAGAGCTAAAGT
*
17017148 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTGAGAAATTGCCCTAATATACTAAGAC
1 CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTGAGAAATTGCCCCAATATACTAAGAC
* * *
17017213 CTCCCCCGCCCTCTAACCAACTTGATGAGGATATGCCACGAGGTATGGCATAGGTGAGAATC-AG
66 CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGA-
* *
17017277 TAAAGCCCCTGTAGATAAGCTTAGAAAGAATGGGGTTGAGGAATTCATAGCTAAAGT
130 TAAAGCCCCTGTAGATAAGCTTAGAAAGAATGGGGCTGAGGAATTCAGAGCTAAAGT
17017334 TGATGATGAT
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
185 1 0.01
186 174 0.99
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (186 bp):
CTTCTTTGATATGATGGATGAATGGTTTAGGGATTACCTGAGAAATTGCCCCAATATACTAAGAC
CTCCCCCGCCCCCTAACCAACCTGATGAGGATATGCCACGAGGTATGGCACAGGTGAGAATCGAT
AAAGCCCCTGTAGATAAGCTTAGAAAGAATGGGGCTGAGGAATTCAGAGCTAAAGT
Found at i:17025020 original size:29 final size:29
Alignment explanation
Indices: 17024988--17025047 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
17024978 ATCTCAGAAG
*
17024988 AATAATAATAACAGAACATAAAGAAACCA
1 AATAATAATAACAAAACATAAAGAAACCA
17025017 AATAATAATAACAAAACATAAAGAAACCA
1 AATAATAATAACAAAACATAAAGAAACCA
17025046 AA
1 AA
17025048 AAATCCCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.68, C:0.13, G:0.05, T:0.13
Consensus pattern (29 bp):
AATAATAATAACAAAACATAAAGAAACCA
Found at i:17026664 original size:37 final size:37
Alignment explanation
Indices: 17026614--17026692 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17026604 TTATTACGAA
* * *
17026614 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17026651 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17026688 GTCTT
1 GTCTT
17026693 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17026988 original size:49 final size:49
Alignment explanation
Indices: 17026811--17027320 Score: 793
Period size: 49 Copynumber: 10.6 Consensus size: 49
17026801 CCCTTCGGGA
* * * * *
17026811 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17026858 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17026905 CTTATCAC--ATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17026952 CTTATCACATATGTATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17027001 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17027048 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17027097 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17027146 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17027195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17027244 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17027293 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
17027321 ATGGGTTTAA
Statistics
Matches: 430, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 133 0.31
49 296 0.69
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17031353 original size:40 final size:40
Alignment explanation
Indices: 17031321--17031619 Score: 400
Period size: 40 Copynumber: 7.5 Consensus size: 40
17031311 CCAGCATGAT
* * * * *
17031321 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
17031361 TGCTCTTCGGGGTTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
17031401 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
17031441 TGCTCTTCGAGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
17031481 CGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
17031521 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
17031561 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
17031601 TGCTCTTCGGGATTTAGCC
1 TGCTCTTCGGGACTTAGCC
17031620 TGAACATTTC
Statistics
Matches: 227, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:17031619 original size:120 final size:120
Alignment explanation
Indices: 17031321--17031619 Score: 456
Period size: 120 Copynumber: 2.5 Consensus size: 120
17031311 CCAGCATGAT
* * * * * * * *
17031321 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
*
17031386 TATTACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
17031441 TGCTCTTC-GAGACTTAACCCGGATACATCACTAGCACGAACGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGA-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGAT
*
17031505 ATATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
65 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
17031561 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC
17031620 TGAACATTTC
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
119 1 0.01
120 157 0.98
121 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:17032912 original size:36 final size:37
Alignment explanation
Indices: 17032840--17032917 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
17032830 TTATTACGAA
* * *
17032840 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17032877 GTCTTACCC-GACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17032913 GTCTT
1 GTCTT
17032918 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17033209 original size:49 final size:49
Alignment explanation
Indices: 17033034--17033496 Score: 758
Period size: 49 Copynumber: 9.6 Consensus size: 49
17033024 CCCTTCGGGA
* * * * *
17033034 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17033081 CCTGTCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17033128 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17033175 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17033224 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17033273 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17033322 CTTATCACGTATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17033371 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17033420 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
17033469 CTTATCACATGTATATACACTTTCACAT
1 CTTATCACATGTATATACACTTTCACAT
17033497 ATGGGTTTAA
Statistics
Matches: 392, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 92 0.23
49 299 0.76
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17037680 original size:18 final size:17
Alignment explanation
Indices: 17037653--17037690 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
17037643 ATGGAATTTG
17037653 AAATAAAATAGAAACAA
1 AAATAAAATAGAAACAA
*
17037670 AAATAAAAATAGAAATAA
1 AAAT-AAAATAGAAACAA
17037688 AAA
1 AAA
17037691 AAAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (17 bp):
AAATAAAATAGAAACAA
Found at i:17040994 original size:20 final size:20
Alignment explanation
Indices: 17040969--17041008 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17040959 GGTAATATAG
17040969 AATTACATCTAAAGAATGCA
1 AATTACATCTAAAGAATGCA
17040989 AATTACATCTAAAGAATGCA
1 AATTACATCTAAAGAATGCA
17041009 TATTTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AATTACATCTAAAGAATGCA
Found at i:17044591 original size:308 final size:308
Alignment explanation
Indices: 17044033--17044656 Score: 1214
Period size: 308 Copynumber: 2.0 Consensus size: 308
17044023 ATGTCAAGAA
17044033 AGTTGAAACTTTTATGGTGGTTTAGGCATCATGCCGTGAATCTAAGTGTTAGAATTAGAGGTTAT
1 AGTTGAAACTTTTATGGTGGTTTAGGCATCATGCCGTGAATCTAAGTGTTAGAATTAGAGGTTAT
17044098 TTTCATGTTGTATGGAATAAAAGGGGGATGATAGTATGGAATGAAGATTTTTGAATAAGTAGTTT
66 TTTCATGTTGTATGGAATAAAAGGGGGATGATAGTATGGAATGAAGATTTTTGAATAAGTAGTTT
17044163 AGTAGCACCTTGTACATTCGATTATATTGAGTCTAATTGGAATGTTAATTTCTTTCTCTATGATT
131 AGTAGCACCTTGTACATTCGATTATATTGAGTCTAATTGGAATGTTAATTTCTTTCTCTATGATT
17044228 ATTTCCTTGTATGTTAAATGGTTCTTTGATAGGGCCGAATGAATTATGAAGGTCATAATAAGAAT
196 ATTTCCTTGTATGTTAAATGGTTCTTTGATAGGGCCGAATGAATTATGAAGGTCATAATAAGAAT
17044293 GTATGAAGTTTAAGGTGCGAATTTTAGTCTTAGTGATATGGATAATTC
261 GTATGAAGTTTAAGGTGCGAATTTTAGTCTTAGTGATATGGATAATTC
17044341 AGTTGAAACTTTTATGGTGGTTTAGGCATCATGCCGTGAATCTAAGTGTTAGAATTAGAGGTTAT
1 AGTTGAAACTTTTATGGTGGTTTAGGCATCATGCCGTGAATCTAAGTGTTAGAATTAGAGGTTAT
17044406 TTTCATGTTGTATGGAATAAAAGGGGGATGATAGTATGGAATGAAGA-TTTTGAATAAGTAGTTT
66 TTTCATGTTGTATGGAATAAAAGGGGGATGATAGTATGGAATGAAGATTTTTGAATAAGTAGTTT
17044470 AGTAGCACCTTGTACATTCGATTATATTGAGTCTAATTGGAATGTTAATTTCTTTCTCTATGATT
131 AGTAGCACCTTGTACATTCGATTATATTGAGTCTAATTGGAATGTTAATTTCTTTCTCTATGATT
17044535 ATTTTCCTTGTATGTTAAATGGTTCTTTGATAGGGCCGAATGAATTATGAAGGTCATAATAAGAA
196 A-TTTCCTTGTATGTTAAATGGTTCTTTGATAGGGCCGAATGAATTATGAAGGTCATAATAAGAA
*
17044600 TGTATGAAGTTTAAGGTGCGAATTTTAGTCTTGGTGATATGGATAATTC
260 TGTATGAAGTTTAAGGTGCGAATTTTAGTCTTAGTGATATGGATAATTC
*
17044649 GGTTGAAA
1 AGTTGAAA
17044657 TATCGAGTAT
Statistics
Matches: 313, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
307 83 0.27
308 230 0.73
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (308 bp):
AGTTGAAACTTTTATGGTGGTTTAGGCATCATGCCGTGAATCTAAGTGTTAGAATTAGAGGTTAT
TTTCATGTTGTATGGAATAAAAGGGGGATGATAGTATGGAATGAAGATTTTTGAATAAGTAGTTT
AGTAGCACCTTGTACATTCGATTATATTGAGTCTAATTGGAATGTTAATTTCTTTCTCTATGATT
ATTTCCTTGTATGTTAAATGGTTCTTTGATAGGGCCGAATGAATTATGAAGGTCATAATAAGAAT
GTATGAAGTTTAAGGTGCGAATTTTAGTCTTAGTGATATGGATAATTC
Found at i:17045463 original size:24 final size:24
Alignment explanation
Indices: 17045431--17045490 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
17045421 AAATCCAATA
* * *
17045431 CACTATGTGTGCG-GTTTACTATGG
1 CACTATGTGTGCGAGTGTAATA-AG
*
17045455 CACTATGTGTACGAGTGTAATAAG
1 CACTATGTGTGCGAGTGTAATAAG
17045479 CACTATGTGTGC
1 CACTATGTGTGC
17045491 AAATTCGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (24 bp):
CACTATGTGTGCGAGTGTAATAAG
Found at i:17047790 original size:13 final size:13
Alignment explanation
Indices: 17047766--17047806 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
17047756 GCCCGACAGA
*
17047766 GACATGCCCGTGT
1 GACACGCCCGTGT
*
17047779 GACACGCTCGTGT
1 GACACGCCCGTGT
17047792 GACACGCCCGTGT
1 GACACGCCCGTGT
17047805 GA
1 GA
17047807 AGTGCTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:17056740 original size:13 final size:14
Alignment explanation
Indices: 17056717--17056745 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17056707 TGGAAAATGG
17056717 ATTAGAAAATATTT
1 ATTAGAAAATATTT
17056731 ATTA-AAAATATTT
1 ATTAGAAAATATTT
17056744 AT
1 AT
17056746 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:17057418 original size:13 final size:13
Alignment explanation
Indices: 17057400--17057424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17057390 TATATATATA
17057400 AAAGAAACAAAAG
1 AAAGAAACAAAAG
17057413 AAAGAAACAAAA
1 AAAGAAACAAAA
17057425 AGAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:17057453 original size:23 final size:23
Alignment explanation
Indices: 17057399--17057441 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
17057389 TTATATATAT
17057399 AAAAGAA-ACAAAAGAAAGAAACA
1 AAAAGAATA-AAAAGAAAGAAACA
17057422 AAAAGAATAAAAAG-AAGAAA
1 AAAAGAATAAAAAGAAAGAAA
17057442 AGAAACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.79, C:0.05, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAGAATAAAAAGAAAGAAACA
Found at i:17058016 original size:51 final size:51
Alignment explanation
Indices: 17057919--17058040 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
17057909 AGAACTAAAT
* * * * *
17057919 TATCTGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGATGAAACCAGAACAACAAAGTAATA
* *
17057970 TATCCGGATGAAATAT-AGAGTTCTTGATGAAGCCAGAACAACAAAGTAATA
1 TATCCGGATGAAATATGA-AGCTCTTGATGAAACCAGAACAACAAAGTAATA
17058021 -ATTCCGGAT-AAAGTATGAAG
1 TA-TCCGGATGAAA-TATGAAG
17058041 AAAATTTGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
50 5 0.08
51 54 0.90
52 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (51 bp):
TATCCGGATGAAATATGAAGCTCTTGATGAAACCAGAACAACAAAGTAATA
Found at i:17058550 original size:17 final size:18
Alignment explanation
Indices: 17058525--17058573 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
17058515 TTGAAAAGTG
17058525 AATTGAATTATATTGAAT
1 AATTGAATTATATTGAAT
*
17058543 TA-TGAATTA-ATGTGAAT
1 AATTGAATTATAT-TGAAT
*
17058560 AATTGAAATATATT
1 AATTGAATTATATT
17058574 TGTTGAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 8 0.32
19 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (18 bp):
AATTGAATTATATTGAAT
Found at i:17058795 original size:23 final size:22
Alignment explanation
Indices: 17058765--17058830 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
17058755 GCTTTACCGA
17058765 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGT-TT
* ** *
17058788 TCAGGCACCTCGTGTGTCCTTT
1 TCAGGCACTTTATGTGTCGTTT
*
17058810 T-AGGCAGTTTATGTGTCGTTT
1 TCAGGCACTTTATGTGTCGTTT
17058831 ACTGATCAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 15 0.44
22 3 0.09
23 16 0.47
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTTT
Found at i:17062727 original size:28 final size:27
Alignment explanation
Indices: 17062686--17062785 Score: 92
Period size: 28 Copynumber: 3.6 Consensus size: 27
17062676 AGGAAGCGTC
* *
17062686 CTGGTGGCTATGCCACAAATTATTTGAT
1 CTGGTGGCTCTGCCACAAA-TATCTGAT
* *
17062714 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * * *
17062741 CTAGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCT-GAT
* *
17062769 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
17062786 TTATCTGTCC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 26 0.46
28 31 0.54
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:17062750 original size:27 final size:26
Alignment explanation
Indices: 17062686--17062798 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
17062676 AGGAAGCGTC
* * *
17062686 CTGGTGGCTATGCCACAAATTATTTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
17062714 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
17062741 CTAGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
17062769 CTGGTGACTCTGTCACATTATCTGTC
1 CTGGTGGCTCTGCCACATTATCTGTT
17062795 CTGG
1 CTGG
17062799 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 31 0.43
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:17066611 original size:38 final size:38
Alignment explanation
Indices: 17066569--17066644 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
17066559 CCGCCTAGGT
*
17066569 CAGTGTCGAAAATACGGAGTTTTCTAGGATTGGCAGGA
1 CAGTGTCGAAAATACAGAGTTTTCTAGGATTGGCAGGA
*
17066607 CAGTGTCGGAAATACAGAGTTTTCTAGGATTGGCAGGA
1 CAGTGTCGAAAATACAGAGTTTTCTAGGATTGGCAGGA
17066645 TACTACAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (38 bp):
CAGTGTCGAAAATACAGAGTTTTCTAGGATTGGCAGGA
Found at i:17070608 original size:27 final size:26
Alignment explanation
Indices: 17070550--17070662 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
17070540 AGGAAGCGTC
* * *
17070550 CTGGTGGTTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
17070578 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
17070605 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
17070633 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
17070659 CTGG
1 CTGG
17070663 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 31 0.41
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:17070635 original size:55 final size:54
Alignment explanation
Indices: 17070550--17070662 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
17070540 AGGAAGCGTC
* *
17070550 CTGGTGGTTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
17070605 CTGGTGGCTCTGCCAC-GATTATCTATATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
17070659 CTGG
1 CTGG
17070663 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:17073017 original size:20 final size:20
Alignment explanation
Indices: 17072958--17073024 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
17072948 ATTTTGATAA
* *
17072958 ACATGGTATGTATGATATGA
1 ACATGATATGTATGATATGC
*
17072978 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17072998 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17073018 ACGTGAT
1 ACATGAT
17073025 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17073143 original size:45 final size:47
Alignment explanation
Indices: 17073074--17073198 Score: 218
Period size: 45 Copynumber: 2.7 Consensus size: 47
17073064 GAGGAAGTGA
17073074 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
17073121 AAAA-GGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
17073166 AAAAGGGCTTTTGCCCCAGTTATTAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATTAAAG-GGCT
17073199 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
45 37 0.50
46 15 0.20
47 18 0.24
48 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:17073198 original size:24 final size:23
Alignment explanation
Indices: 17073075--17073198 Score: 205
Period size: 23 Copynumber: 5.3 Consensus size: 23
17073065 AGGAAGTGAA
17073075 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17073098 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17073121 AAAAGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
17073143 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
17073166 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
17073190 AAAGAGGCT
1 AAAG-GGCT
17073199 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.22
23 48 0.51
24 26 0.27
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:17078578 original size:13 final size:14
Alignment explanation
Indices: 17078557--17078585 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17078547 TGAAAAATGG
17078557 ATTAGAAAATATTT
1 ATTAGAAAATATTT
17078571 ATTA-AAAATATTT
1 ATTAGAAAATATTT
17078584 AT
1 AT
17078586 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:17079277 original size:23 final size:23
Alignment explanation
Indices: 17079251--17079296 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17079241 TATAAGAAAC
17079251 AAAAGAAAGAAACAAAAAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
* * *
17079274 AAAAGAAGGAAAGAAATAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
17079297 GCAGGGGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (23 bp):
AAAAGAAAGAAACAAAAAGAATA
Found at i:17079827 original size:51 final size:51
Alignment explanation
Indices: 17079763--17079884 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
17079753 AGAACTAAGT
* * * *
17079763 TATCCTGATGAAATATGAAGCTCTTGTTGAAACTAGAGC-ACTAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGATGAAACCAGAACAAC-AAAGTAATA
* * *
17079814 TATCCGGATGAAATATAAAGTTCTTGATGAAGCCAGAACAACAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTGATGAAACCAGAACAACAAAGTAATA
17079865 -ATTCCGGAT-AAAGTATGAAG
1 TA-TCCGGATGAAA-TATGAAG
17079885 AAAATTTGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
50 4 0.07
51 54 0.90
52 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (51 bp):
TATCCGGATGAAATATGAAGCTCTTGATGAAACCAGAACAACAAAGTAATA
Found at i:17080651 original size:23 final size:22
Alignment explanation
Indices: 17080621--17080703 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 22
17080611 GCTATACCGA
* *
17080621 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCG-ATT
* *
17080644 TCAGGCACCTCATGTGTTGA-A
1 TCAGGCACCTCATGTGTCGATT
*
17080665 TCAGGCACCTCGTGTGTC-ATT
1 TCAGGCACCTCATGTGTCGATT
* * *
17080686 TTAGGCACTTTATGTGTC
1 TCAGGCACCTCATGTGTC
17080704 ATATACTGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 30 0.62
22 1 0.02
23 16 0.33
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (22 bp):
TCAGGCACCTCATGTGTCGATT
Found at i:17086124 original size:21 final size:21
Alignment explanation
Indices: 17086099--17086141 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
17086089 ATGTTTACTT
*
17086099 ATTATATAATTATAT-TATTAA
1 ATTAT-TAAATATATATATTAA
17086120 ATTATTAAATATATATATTAA
1 ATTATTAAATATATATATTAA
17086141 A
1 A
17086142 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATTAAATATATATATTAA
Found at i:17086262 original size:13 final size:13
Alignment explanation
Indices: 17086244--17086268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17086234 TATATATATA
17086244 AAAGAAACAAAAG
1 AAAGAAACAAAAG
17086257 AAAGAAACAAAA
1 AAAGAAACAAAA
17086269 AGAATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:17086272 original size:23 final size:23
Alignment explanation
Indices: 17086243--17086297 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
17086233 TTATATATAT
17086243 AAAAGAA-ACAAAAGAAAGAAACA
1 AAAAGAATA-AAAAGAAAGAAACA
* *
17086266 AAAAGAATAAAAAGAAGGAAAGA
1 AAAAGAATAAAAAGAAAGAAACA
*
17086289 AACAGAATA
1 AAAAGAATA
17086298 GCAGGGGACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAGAATAAAAAGAAAGAAACA
Found at i:17087167 original size:15 final size:15
Alignment explanation
Indices: 17087149--17087198 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
17087139 TTTATTGAGT
17087149 TTATATTGATTGAAA
1 TTATATTGATTGAAA
*
17087164 TTAT-TCTGATTGAAT
1 TTATAT-TGATTGAAA
*
17087179 TTAAATTGATTG-AA
1 TTATATTGATTGAAA
17087193 TTATAT
1 TTATAT
17087199 AATATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:17090189 original size:40 final size:40
Alignment explanation
Indices: 17090105--17090288 Score: 135
Period size: 40 Copynumber: 4.6 Consensus size: 40
17090095 TTGAATGCTG
* *
17090105 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * * *
17090144 ATCCGGACTACGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** *
17090185 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
** * ** *
17090225 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
**
17090265 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
17090289 GAATGAGTTA
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 105 0.88
41 12 0.10
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:17090309 original size:39 final size:38
Alignment explanation
Indices: 17090186--17090335 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
17090176 GTTATTAATT
* ** * *
17090186 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
17090226 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
17090265 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
17090305 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
17090336 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:17093402 original size:20 final size:20
Alignment explanation
Indices: 17093377--17093439 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
17093367 ATTTTGATAA
*
17093377 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
*
17093397 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
17093417 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17093437 ACA
1 ACA
17093440 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17093572 original size:23 final size:24
Alignment explanation
Indices: 17093493--17093636 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
17093483 GAGGAAGTGC
17093493 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17093517 AAAAGGGCTTATGCCCTAGTCATT
1 AAAAGGGCTTATGCCCCAGTTATT
17093541 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17093565 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
17093588 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
17093613 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17093637 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 29 0.27
24 50 0.46
25 21 0.19
26 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17098112 original size:27 final size:27
Alignment explanation
Indices: 17098080--17098510 Score: 124
Period size: 27 Copynumber: 15.9 Consensus size: 27
17098070 TTAGTTTACC
* *
17098080 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** * *
17098107 TAATTACTGTTTTACCCCCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* *
17098134 AAATTACTAAAATACCACT-GGTTTGTA
1 AAATTACTAAAATACC-CTCGATTTATA
*
17098161 AAATTACTAAAATACCCTCAACTTGTA-A
1 AAATTACTAAAATACCCTCGA-TT-TATA
* *
17098189 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** *
17098216 AAACTACTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* *** * *
17098243 GAATTACTATTTTACCCTTGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* *** * *
17098270 AAATTACCATTTTACCCTCGA-TTCTG
1 AAATTACTAAAATACCCTCGATTTATA
* * ***
17098296 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACTAAAATACCCTCGAT-TTATA
* * * * *
17098323 GAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTATA
* * * * *
17098350 AAATTACCAAAGTACCACT-GGTTTGTG
1 AAATTACTAAAATACC-CTCGATTTATA
** ** *
17098377 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
17098404 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
17098431 AAGTTAC-AGAAATACCCTTGACTTTCTAA
1 AAATTACTA-AAATACCCTCGA-TTTAT-A
* * * *
17098460 AAATTA-TGGAAATACCATTGATTTACA
1 AAATTACT-AAAATACCCTCGATTTATA
* *
17098487 AAATTACAAAAATACCCTTGATTT
1 AAATTACTAAAATACCCTCGATTT
17098511 GTAGATTTAC
Statistics
Matches: 299, Mismatches: 86, Indels: 38
0.71 0.20 0.09
Matches are distributed among these distances:
25 2 0.01
26 21 0.07
27 228 0.76
28 30 0.10
29 18 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:17098273 original size:109 final size:109
Alignment explanation
Indices: 17098080--17098276 Score: 288
Period size: 109 Copynumber: 1.8 Consensus size: 109
17098070 TTAGTTTACC
* *
17098080 AAATTACCAAAGTACCCTCGATTTATATAATTACTGTTTTACCCCCGATTTACAAAATTACTAAA
1 AAATTACCAAAGTACCCTCGATTTATAAAACTACTGTTTTACCCCCGATTTACAAAATTACTAAA
* **
17098145 ATACCACTGGTTTGTAAAATTACTAAAATACCCTCAACTTGTAA
66 ATACCACTGATTTACAAAATTACTAAAATACCCTCAACTTGTAA
* * **
17098189 AAATTACCAAAGTACCCTCGATTTATAAAACTACTGTTTTACCCTCGATTTACAGAATTACTATT
1 AAATTACCAAAGTACCCTCGATTTATAAAACTACTGTTTTACCCCCGATTTACAAAATTACTAAA
*
17098254 TTACC-CTTGATTTACAAAATTAC
66 ATACCAC-TGATTTACAAAATTAC
17098277 CATTTTACCC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 1 0.01
109 76 0.99
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (109 bp):
AAATTACCAAAGTACCCTCGATTTATAAAACTACTGTTTTACCCCCGATTTACAAAATTACTAAA
ATACCACTGATTTACAAAATTACTAAAATACCCTCAACTTGTAA
Found at i:17098443 original size:54 final size:53
Alignment explanation
Indices: 17098344--17098524 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 53
17098334 ACACCCCTAG
* ** *
17098344 TTTGTAAAATTACCAAAGTACCACTGGTTTGTGAAATTACCGAAATACCCTTAA
1 TTTGTAAAATTACCAAAGTACCACTGATTT-ACAAATTACAGAAATACCCTTAA
* *
17098398 TTTGTAAAATTACCAAAGTACCCCTGATTTACAAAGTTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAGTACCACTGATTTACAAA-TTACAGAAATACCCTT-AA
* ** * * *
17098453 TTTCTAAAAATTATGGAAA-TACCATTGATTTACAAAATTACAAAAATACCCTTGA
1 TTTGT-AAAATTA-CCAAAGTACCACTGATTTAC-AAATTACAGAAATACCCTTAA
* *
17098508 TTTGTAGATTTACCAAA
1 TTTGTAAAATTACCAAA
17098525 ACACCATTGT
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
53 6 0.06
54 48 0.47
55 9 0.09
56 34 0.33
57 6 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAGTACCACTGATTTACAAATTACAGAAATACCCTTAA
Found at i:17098602 original size:27 final size:27
Alignment explanation
Indices: 17098572--17098623 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
17098562 TAGGTAAAAA
17098572 GACCGTAA-AGCCCTTGTAGGGTAAAGT
1 GACCGTAATA-CCCTTGTAGGGTAAAGT
*
17098599 GACCGTAATACCCTTGTATGGTAAA
1 GACCGTAATACCCTTGTAGGGTAAA
17098624 ATGATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
GACCGTAATACCCTTGTAGGGTAAAGT
Found at i:17099351 original size:20 final size:20
Alignment explanation
Indices: 17099326--17099412 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
17099316 GATATGATAT
*
17099326 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
17099346 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
17099366 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
17099386 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
17099406 ACATGAT
1 ACATGAT
17099413 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:17099581 original size:25 final size:26
Alignment explanation
Indices: 17099458--17099619 Score: 233
Period size: 26 Copynumber: 6.3 Consensus size: 26
17099448 GATGAAGTGC
*
17099458 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17099484 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17099510 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17099536 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
17099562 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17099587 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
17099610 AAAAGAGGCT
1 AAAAG-GGCT
17099620 AGGCCTCTAG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
23 5 0.04
24 7 0.06
25 30 0.24
26 82 0.66
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17099817 original size:43 final size:42
Alignment explanation
Indices: 17099751--17099840 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 42
17099741 TAGTCTCCTC
* ** *
17099751 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATATG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATAT-TG
*
17099794 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
17099836 AAATG
1 AAATG
17099841 AGCCTATGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:17099902 original size:31 final size:31
Alignment explanation
Indices: 17099867--17099943 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
17099857 CGTTTATAGT
17099867 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
* *
17099898 AAAGGCTTTAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
*
17099929 AAAGGCTTCGGCCCA
1 AAAGGCTTCAGCCCA
17099944 ATAACCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:17100922 original size:40 final size:41
Alignment explanation
Indices: 17100869--17100960 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 41
17100859 TCTTGGTATC
*
17100869 GCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAATTT
1 GCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCCAATCT
* *
17100909 GCACACTTAGTGCCATTTATAGCCGAAGCTATTTCTAATCT
1 GCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAATCT
17100950 -CACACTTAGTG
1 GCACACTTAGTG
17100961 TCGTACATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (41 bp):
GCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAATCT
Found at i:17103069 original size:13 final size:12
Alignment explanation
Indices: 17103040--17103078 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
17103030 TGCCGATTTC
17103040 TTCTTCCTCTCTTT
1 TTCTTCCT-T-TTT
17103054 TTCTTCCATTTTT
1 TTCTTCC-TTTTT
17103067 TTCTTCCTTTTT
1 TTCTTCCTTTTT
17103079 GCTTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 8 0.33
15 1 0.04
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCTTCCTTTTT
Found at i:17103999 original size:21 final size:20
Alignment explanation
Indices: 17103970--17104008 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17103960 GCACTTCGGT
17103970 AATTAGGCCTCAATAGGCTAA
1 AATTAGGCCT-AATAGGCTAA
* *
17103991 AATTGGGCCTAATGGGCT
1 AATTAGGCCTAATAGGCT
17104009 TACGGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (20 bp):
AATTAGGCCTAATAGGCTAA
Found at i:17111295 original size:20 final size:21
Alignment explanation
Indices: 17111270--17111308 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17111260 TCTTTGAAAC
17111270 AGGGCA-CACGCCCATGTGGA
1 AGGGCAGCACGCCCATGTGGA
*
17111290 AGGGCAGCACGCCCGTGTG
1 AGGGCAGCACGCCCATGTG
17111309 AAATTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAGCACGCCCATGTGGA
Found at i:17113957 original size:29 final size:29
Alignment explanation
Indices: 17113891--17113977 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
17113881 GTGAGCATGA
17113891 ATAT-AATGTGATTTGGGCCTAATG-GCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
* *
17113918 ATATAAATGTGATTTAGGCCTAAAGAGCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
*
17113947 ATATAAATGTGATGTGGGCCTAATGAGCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
17113976 AT
1 AT
17113978 GTGAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 4 0.08
28 18 0.34
29 31 0.58
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGAGCC
Found at i:17115238 original size:16 final size:16
Alignment explanation
Indices: 17115217--17115251 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17115207 ATGTATCGGC
17115217 AAAAGCAGAAATGCCG
1 AAAAGCAGAAATGCCG
*
17115233 AAAAGCTGAAATGCCG
1 AAAAGCAGAAATGCCG
17115249 AAA
1 AAA
17115252 TGCCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCAGAAATGCCG
Found at i:17115532 original size:28 final size:29
Alignment explanation
Indices: 17115478--17115591 Score: 101
Period size: 28 Copynumber: 4.0 Consensus size: 29
17115468 GTGAGCATGA
* * *
17115478 ATATGAATGTGAC-TGGACCTAACGGGCT
1 ATATGAATGTGACTTGGGCCTAATGGGCC
* *
17115506 ATAT-AATGTGACTTGGGGCTAATGGGCG
1 ATATGAATGTGACTTGGGCCTAATGGGCC
* * *
17115534 ATAT-ACAGGTGATTTAGGCCTAATGGGCC
1 ATATGA-ATGTGACTTGGGCCTAATGGGCC
* *
17115563 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
17115591 A
1 A
17115592 GATACAGGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
27 8 0.11
28 35 0.50
29 26 0.37
30 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGACTTGGGCCTAATGGGCC
Found at i:17117973 original size:46 final size:45
Alignment explanation
Indices: 17117912--17118038 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 45
17117902 ACATCTCGTA
17117912 GTCGATGCATGTCCCAGACATGTCTTACACT-GC-CTTACGTCTCAAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTC-AG
* * *
17117958 GTCGAAGCATGTCCCAGATATGTCTTACACTAGCACTCGTCTCAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAG
*
17118003 GTCGATTCCATGTCCCAGACATGGTCTTACACTAGC
1 GTCGA-TGCATGTCCCAGACAT-GTCTTACACTAGC
17118039 TCTCAAAATG
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
45 6 0.08
46 48 0.68
47 16 0.23
48 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAG
Found at i:17123560 original size:68 final size:68
Alignment explanation
Indices: 17123411--17123568 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
17123401 CTAGCCGATT
* * * *
17123411 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
17123476 TTTA
65 TATA
* * *
17123480 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
17123542 CTATATA
63 C-ATATA
17123549 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
17123569 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:17131543 original size:21 final size:22
Alignment explanation
Indices: 17131510--17131553 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17131500 ATAAGATAAT
*
17131510 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
17131532 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
17131553 A
1 A
17131554 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:17131704 original size:12 final size:11
Alignment explanation
Indices: 17131676--17131921 Score: 68
Period size: 10 Copynumber: 23.1 Consensus size: 11
17131666 TTAATATGAA
*
17131676 AATAATAATGT
1 AATAATAATAT
17131687 GAATAATAATAT
1 -AATAATAATAT
*
17131699 ACATAAAAATAT
1 A-ATAATAATAT
*
17131711 ATATAAT-AGAT
1 A-ATAATAATAT
17131722 AATAATAATAT
1 AATAATAATAT
17131733 GAAATAAT-ATATT
1 --AATAATAATA-T
** *
17131746 GTTAA-AATGT
1 AATAATAATAT
17131756 AA-AATAATAT
1 AATAATAATAT
17131766 -A-AA-AATAT
1 AATAATAATAT
17131774 AAT-ATAATA-
1 AATAATAATAT
*
17131783 AATAATAA-GT
1 AATAATAATAT
* *
17131793 ACTGAT-ATAT
1 AATAATAATAT
**
17131803 GTTAA-AATAT
1 AATAATAATAT
*
17131813 -ATATTAATAT
1 AATAATAATAT
*
17131823 GAAATAGA-AAAAT
1 --AATA-ATAATAT
17131836 -ATGAAGTAATAT
1 AAT-AA-TAATAT
*
17131848 AAT-ATAATAA
1 AATAATAATAT
17131858 AAT-ATAAGTA-
1 AATAATAA-TAT
17131868 AATAATAATAT
1 AATAATAATAT
17131879 -ATAAT-ATAT
1 AATAATAATAT
17131888 AATACAT-ATAT
1 AATA-ATAATAT
* *
17131899 ATATATTAAAAT
1 A-ATAATAATAT
17131911 AA-AATAATAT
1 AATAATAATAT
17131921 A
1 A
17131922 TATACAATTT
Statistics
Matches: 175, Mismatches: 29, Indels: 62
0.66 0.11 0.23
Matches are distributed among these distances:
8 5 0.03
9 17 0.10
10 69 0.39
11 30 0.17
12 38 0.22
13 16 0.09
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:17131718 original size:9 final size:8
Alignment explanation
Indices: 17131689--17131891 Score: 65
Period size: 7 Copynumber: 25.1 Consensus size: 8
17131679 AATAATGTGA
17131689 ATAATAAT
1 ATAATAAT
17131697 ATACATAA-
1 ATA-ATAAT
17131705 A-AATATAT
1 ATAATA-AT
17131713 ATAATAGAT
1 ATAATA-AT
17131722 AATAATAAT
1 -ATAATAAT
17131731 ATGAAATAAT
1 AT--AATAAT
* **
17131741 ATATTGTT
1 ATAATAAT
* *
17131749 AAAAT-GT
1 ATAATAAT
*
17131756 AAAATAAT
1 ATAATAAT
17131764 ATAA-AA-
1 ATAATAAT
17131770 AT-ATAAT
1 ATAATAAT
17131777 ATAATAA-
1 ATAATAAT
17131784 ATAATAAGT
1 ATAATAA-T
*
17131793 ACTGATATAT
1 A-TAATA-AT
*
17131803 GTTAA-AAT
1 -ATAATAAT
17131811 ATATATTAAT
1 ATA-A-TAAT
*
17131821 ATGA-AAT
1 ATAATAAT
* *
17131828 AGAAAAAT
1 ATAATAAT
17131836 ATGAAGTAAT
1 AT-AA-TAAT
17131846 ATAAT-AT
1 ATAATAAT
17131853 AATAA-AAT
1 -ATAATAAT
17131861 ATAAGTAA-
1 ATAA-TAAT
17131869 ATAATAAT
1 ATAATAAT
17131877 AT-ATAAT
1 ATAATAAT
17131884 AT-ATAAT
1 ATAATAAT
17131891 A
1 A
17131892 CATATATATA
Statistics
Matches: 150, Mismatches: 18, Indels: 55
0.67 0.08 0.25
Matches are distributed among these distances:
5 1 0.01
6 7 0.05
7 48 0.32
8 41 0.27
9 21 0.14
10 31 0.21
11 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (8 bp):
ATAATAAT
Found at i:17131777 original size:13 final size:14
Alignment explanation
Indices: 17131755--17131921 Score: 52
Period size: 14 Copynumber: 11.9 Consensus size: 14
17131745 TGTTAAAATG
17131755 TAAA-ATAATATAA
1 TAAATATAATATAA
17131768 -AAATATAATATAA
1 TAAATATAATATAA
*
17131781 TAAATAATAAGTACTGA
1 TAAAT-ATAA-TA-TAA
** *
17131798 T--ATATGTTAAAA
1 TAAATATAATATAA
*
17131810 TATATATTAATATGAAA
1 TAAATA-TAATAT--AA
17131827 TAGAA-A-AATATGAA
1 TA-AATATAATAT-AA
17131841 GT-AATATAATATAA
1 -TAAATATAATATAA
*
17131855 TAAA-AT-ATA-AG
1 TAAATATAATATAA
17131866 TAAATAATAATAT-A
1 TAAAT-ATAATATAA
*
17131880 TAATATATAATACATA
1 TAA-ATATAATATA-A
* * *
17131896 TATATATATTAAAA
1 TAAATATAATATAA
17131910 TAAA-ATAATATA
1 TAAATATAATATA
17131922 TATACAATTT
Statistics
Matches: 113, Mismatches: 19, Indels: 44
0.64 0.11 0.25
Matches are distributed among these distances:
11 5 0.04
12 8 0.07
13 24 0.21
14 32 0.28
15 30 0.27
16 5 0.04
17 8 0.07
18 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (14 bp):
TAAATATAATATAA
Found at i:17131845 original size:25 final size:24
Alignment explanation
Indices: 17131805--17131925 Score: 92
Period size: 25 Copynumber: 5.0 Consensus size: 24
17131795 TGATATATGT
*
17131805 TAAAATATATATTAATATGAA-ATAGA
1 TAAAATATA-AGTAATAT-AATATA-A
17131831 -AAAATATGAAGTAATATAATATAA
1 TAAAATAT-AAGTAATATAATATAA
17131855 TAAAATATAAGTAA-ATAATAATATA
1 TAAAATATAAGTAATATAAT-ATA-A
* *
17131880 TAATATATAA-TACATATATATATAT
1 TAAAATATAAGTA-ATATA-ATATAA
*
17131905 TAAAATA-AAATAATAT-ATATA
1 TAAAATATAAGTAATATAATATA
17131926 CAATTTAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.06
23 5 0.06
24 20 0.24
25 43 0.52
26 7 0.09
27 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAAATATAAGTAATATAATATAA
Found at i:17131852 original size:5 final size:5
Alignment explanation
Indices: 17131842--17131925 Score: 50
Period size: 5 Copynumber: 16.4 Consensus size: 5
17131832 AAATATGAAG
*
17131842 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA T-ATA -ATATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TA-ATA
* * *
17131887 TAATA CATATA TATATA TTAAAA TAAAA TAATA T-ATA TA
1 TAATA TA-ATA TA-ATA -TAATA TAATA TAATA TAATA TA
17131926 CAATTTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
4 8 0.12
5 38 0.59
6 16 0.25
7 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:17131874 original size:18 final size:17
Alignment explanation
Indices: 17131843--17131917 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 17
17131833 AATATGAAGT
17131843 AATATAAT--ATAATAA
1 AATATAATAAATAATAA
17131858 AATATAAGTAAATAATAA
1 AATATAA-TAAATAATAA
* *
17131876 TATATAATATATAAT-A
1 AATATAATAAATAATAA
* * *
17131892 CATAT-ATATATATTAA
1 AATATAATAAATAATAA
*
17131908 AATAAAATAA
1 AATATAATAA
17131918 TATATATACA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
15 15 0.31
16 10 0.21
17 10 0.21
18 13 0.27
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (17 bp):
AATATAATAAATAATAA
Found at i:17131882 original size:7 final size:7
Alignment explanation
Indices: 17131844--17131903 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
17131834 ATATGAAGTA
17131844 ATATAAT
1 ATATAAT
*
17131851 ATAATAAA
1 AT-ATAAT
17131859 ATATAA-
1 ATATAAT
*
17131865 GTA-AAT
1 ATATAAT
17131871 A-ATAAT
1 ATATAAT
17131877 ATATAAT
1 ATATAAT
17131884 ATATAAT
1 ATATAAT
*
17131891 ACATATAT
1 ATATA-AT
17131899 ATATA
1 ATATA
17131904 TTAAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
5 3 0.07
6 6 0.14
7 22 0.51
8 12 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (7 bp):
ATATAAT
Found at i:17131898 original size:20 final size:20
Alignment explanation
Indices: 17131875--17131927 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 20
17131865 GTAAATAATA
17131875 ATATATAATATATAATACAT
1 ATATATAATATATAATACAT
17131895 ATATAT-ATAT-TAA-A-AT
1 ATATATAATATATAATACAT
*
17131911 A-AAATAATATAT-ATACA
1 ATATATAATATATAATACA
17131928 ATTTAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
15 3 0.11
16 8 0.29
17 3 0.11
18 4 0.14
19 4 0.14
20 6 0.21
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATAATATATAATACAT
Found at i:17131922 original size:26 final size:25
Alignment explanation
Indices: 17131842--17131955 Score: 73
Period size: 25 Copynumber: 4.6 Consensus size: 25
17131832 AAATATGAAG
*
17131842 TAATATA-ATATAA-TAAAATATAAG
1 TAATATATATATAATTAAAATA-AAA
* *
17131866 TAA-ATA-ATA-ATATATAATATATAA
1 TAATATATATATA-AT-TAAAATAAAA
17131890 TACATATATATAT-ATTAAAATAAAA
1 TA-ATATATATATAATTAAAATAAAA
*
17131915 TAATATATATACAATTTAAAAT-AAA
1 TAATATATATATAA-TTAAAATAAAA
*
17131940 TAAGT-TATAAATAATT
1 TAA-TATATATATAATT
17131956 TTAAAAGGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
22 1 0.01
23 7 0.10
24 17 0.24
25 31 0.43
26 13 0.18
27 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TAATATATATATAATTAAAATAAAA
Found at i:17131955 original size:25 final size:27
Alignment explanation
Indices: 17131904--17131961 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
17131894 TATATATATA
*
17131904 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
17131930 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
17131956 TTAAAA
1 TTAAAA
17131962 GGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:17133924 original size:206 final size:206
Alignment explanation
Indices: 17133565--17134148 Score: 929
Period size: 206 Copynumber: 2.8 Consensus size: 206
17133555 AAGTCTGCTT
* * * *
17133565 CTTCAATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * * * * * * *
17133630 GCGAAAACCAAATCAGCTATG-TCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCTAAATTAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
* * * *
17133694 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTTCGTCGAATAT
130 TGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAAATAT
* *
17133759 GGAGGCGTCAAA
195 GGAGACGCCAAA
17133771 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
17133836 GTGAAAGCTAAATTAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCTAAATTAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* *
17133901 GGATCTACTTCAGTATAATCATCTGAAGGTTAGATTTGCTATGTGTCTGCCCTCCATCAAATATG
131 GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAAATATG
17133966 GAGACGCCAAA
196 GAGACGCCAAA
17133977 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
*
17134042 GTGAAAGCTAAATTAGCTATGATTTCGATTTGTTCCTTGTAAATACAAGGATGCCAAATCATCTT
66 GTGAAAGCTAAATTAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* **
17134107 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCT-CTATG
131 GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATG
17134149 CTGCGGTCAT
Statistics
Matches: 351, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
205 5 0.01
206 345 0.98
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
GTGAAAGCTAAATTAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAAATATG
GAGACGCCAAA
Found at i:17135048 original size:15 final size:15
Alignment explanation
Indices: 17135028--17135076 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
17135018 TTCTCTCTCT
* *
17135028 TTTTTTTGTTTTTTG
1 TTTTTTTCTTTTCTG
17135043 TTTTTTTCTTTTCTG
1 TTTTTTTCTTTTCTG
*
17135058 TTTGTTT-TTTTCT-
1 TTTTTTTCTTTTCTG
17135071 TTTTTT
1 TTTTTT
17135077 GATTTTCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 19 0.63
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTTTTCTG
Found at i:17138422 original size:104 final size:104
Alignment explanation
Indices: 17138300--17138523 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
17138290 AATGGATATC
17138300 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17138365 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
17138404 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17138469 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
17138508 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
17138524 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:17138885 original size:29 final size:29
Alignment explanation
Indices: 17138852--17138915 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17138842 TAATCCACCA
17138852 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17138881 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17138911 CCCAA
1 CCCAA
17138916 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17138889 original size:30 final size:30
Alignment explanation
Indices: 17138859--17138915 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17138849 CCACCCAACT
17138859 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17138888 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17138916 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17143449 original size:26 final size:26
Alignment explanation
Indices: 17143419--17143469 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
17143409 ACCAATGAAC
*
17143419 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
17143445 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
17143470 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:17143509 original size:103 final size:104
Alignment explanation
Indices: 17143325--17143547 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
17143315 AATGGATATC
17143325 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17143390 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
17143429 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
17143493 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
17143532 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
17143548 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:17143909 original size:29 final size:29
Alignment explanation
Indices: 17143876--17143939 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17143866 TAATCCACCA
17143876 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17143905 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17143935 CCCAA
1 CCCAA
17143940 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17143913 original size:30 final size:30
Alignment explanation
Indices: 17143883--17143939 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17143873 CCACCCAACT
17143883 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17143912 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17143940 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17150785 original size:27 final size:27
Alignment explanation
Indices: 17150755--17150884 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
17150745 ATTACCAAAG
* * *
17150755 TACCATTGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
17150782 TACCCTCGATTTACAGAATTA-TGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
* *
17150808 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
17150835 TACCCTTGATTTACACAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
* *
17150862 TACCCTCGATTTACAAAATTACT
1 TACCCTTGATTTACAGAATTACT
17150885 AAAATACCCT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 23 0.26
27 67 0.74
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTGTTT
Found at i:17150836 original size:53 final size:54
Alignment explanation
Indices: 17150755--17150910 Score: 188
Period size: 54 Copynumber: 2.9 Consensus size: 54
17150745 ATTACCAAAG
* ** *
17150755 TACCATTGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTA-TGTTT
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTT
* *
17150808 TACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTACACAATTACTGTTT
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTT
* * * *** *
17150862 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTAC
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTAC
17150911 CAAAATACCC
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 43 0.49
54 45 0.51
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACTGTTT
Found at i:17150892 original size:27 final size:27
Alignment explanation
Indices: 17150862--17151108 Score: 214
Period size: 27 Copynumber: 9.2 Consensus size: 27
17150852 ATTACTGTTT
* *
17150862 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
17150889 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
17150916 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
17150943 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
17150969 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
17150996 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
17151023 TACTCCTAG-TTTGTAAAATTACCAAAA
1 TAC-CCTCGATTTATAAAATTACCAAAA
* * * *
17151050 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* * * *
17151077 TACCCTCAATTTGTAAAATTACTAGAA
1 TACCCTCGATTTATAAAATTACCAAAA
17151104 TACCC
1 TACCC
17151109 CTAATTTACA
Statistics
Matches: 183, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 25 0.14
27 155 0.85
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:17150920 original size:54 final size:53
Alignment explanation
Indices: 17150862--17151136 Score: 248
Period size: 54 Copynumber: 5.1 Consensus size: 53
17150852 ATTACTGTTT
** * * *
17150862 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCT-AGTTTATAAAATTACCAAAA
** * * *
17150916 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTATAAAATTACCAAAA
* * * * *
17150969 TACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCT-AGTTTATAAAATTACCAAAA
* * * * *
17151023 TACTCCTAG-TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TAC-CCTCGATTTGTAAAATTACCAAAATACC-CTAGTTTATAAAATTACCAAAA
* * * * * *
17151077 TACCCTCAATTTGTAAAATTACTAGAATACCCCTAATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATA-CCCTAGTTTATAAAATTACCA-AAA
17151131 TACCCT
1 TACCCT
17151137 TGACTTTCTA
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
53 47 0.26
54 123 0.69
55 8 0.04
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (53 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTATAAAATTACCAAAA
Found at i:17151132 original size:81 final size:80
Alignment explanation
Indices: 17150870--17151136 Score: 313
Period size: 81 Copynumber: 3.3 Consensus size: 80
17150860 TTTACCCTCG
** * * **
17150870 ATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAAT
1 ATTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
17150935 TACCAAAATA-CCCTA
65 TACCAAAATACCCCTA
* * * *
17150950 GTCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
*
17151015 TACCAAAATACTCCTA
65 TACCAAAATACCCCTA
* ** * *
17151031 GTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAAT
* *
17151096 TACTAGAATACCCCTA
65 TACCAAAATACCCCTA
*
17151112 ATTTACAAAGTTAC-AGAAATACCCT
1 ATTTACAAAATTACTA-AAATACCCT
17151137 TGACTTTCTA
Statistics
Matches: 160, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 66 0.41
81 93 0.58
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
ATTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
ACCAAAATACCCCTA
Found at i:17151310 original size:28 final size:27
Alignment explanation
Indices: 17151252--17151340 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
17151242 ACCCCTATTA
* *
17151252 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
17151279 GGTAAAGAGACCGTAAAGCCCCCTGTAG
1 GGTAAAGAGACCGTAAAG-CCCCTGTAG
* * *
17151307 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
17151334 GGTAAAG
1 GGTAAAG
17151341 TGACGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.55
28 24 0.44
29 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:17151340 original size:27 final size:27
Alignment explanation
Indices: 17151264--17151344 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 27
17151254 TAAAAAGACT
* *
17151264 GTAAAGCCCCTGTAGGGTAAAGAGACC
1 GTAAACCCCCTGTAGGGTAAAGTGACC
17151291 GTAAAGCCCCCTGTAGGGTAAAGTGACC
1 GTAAA-CCCCCTGTAGGGTAAAGTGACC
* *
17151319 GTAATA-CCCTTGTATGGTAAAGTGAC
1 GTAA-ACCCCCTGTAGGGTAAAGTGAC
17151345 GAATATGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.48
28 24 0.50
29 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
GTAAACCCCCTGTAGGGTAAAGTGACC
Found at i:17152176 original size:26 final size:26
Alignment explanation
Indices: 17152147--17152296 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
17152137 GAGGAAGTGC
*
17152147 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
17152173 AAAAGGGATTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17152199 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
17152225 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17152251 AAAAGGGATTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17152277 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
17152297 ATTAAAGAGG
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
25 10 0.09
26 97 0.91
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:17152230 original size:52 final size:52
Alignment explanation
Indices: 17152147--17152296 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
17152137 GAGGAAGTGC
* *
17152147 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGATTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
* *
17152199 AAAATGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
17152251 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
17152297 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 9 0.10
52 82 0.90
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17152280 original size:78 final size:77
Alignment explanation
Indices: 17152147--17152296 Score: 246
Period size: 78 Copynumber: 1.9 Consensus size: 77
17152137 GAGGAAGTGC
** *
17152147 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGATTATGCCCCAGTTTATTGAAAATGGCTTATG
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTT-TG
17152212 CCCCAGTTTACCG
65 CCCCAGTTTACCG
**
17152225 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGC
1 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGC
17152290 CCCAGTT
66 CCCAGTT
17152297 ATTAAAGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 10 0.15
78 57 0.85
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (77 bp):
AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTGC
CCCAGTTTACCG
Found at i:17152488 original size:42 final size:42
Alignment explanation
Indices: 17152441--17152532 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
17152431 TAGTCTCCCC
* ** *
17152441 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
17152483 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
17152525 AAATGGGC
1 AAATGGGC
17152533 CTATGGGACA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:17152594 original size:31 final size:31
Alignment explanation
Indices: 17152556--17152634 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
17152546 TGTTTACAGT
17152556 AAAGGCTTCGGCCCAGTGAAATGATTCATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTCATGA
* * *
17152587 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTCATGA
17152618 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
17152635 AATCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTCATGA
Found at i:17157538 original size:21 final size:22
Alignment explanation
Indices: 17157505--17157548 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17157495 ATAAGATAAT
*
17157505 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
17157527 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
17157548 A
1 A
17157549 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:17157720 original size:16 final size:15
Alignment explanation
Indices: 17157684--17157738 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
17157674 AATAATGTGA
17157684 ATAATAATATACATG
1 ATAATAATATACATG
*
17157699 AAAATATATATA-ATAG
1 ATAATA-ATATACAT-G
*
17157715 ATAATAATA-ATATG
1 ATAATAATATACATG
17157729 A-AATAATATA
1 ATAATAATATA
17157739 TTGTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 12 0.35
16 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
ATAATAATATACATG
Found at i:17157766 original size:8 final size:8
Alignment explanation
Indices: 17157753--17157945 Score: 76
Period size: 8 Copynumber: 25.1 Consensus size: 8
17157743 TAAAATGTAA
17157753 AATAATAT
1 AATAATAT
17157761 AATAATAT
1 AATAATAT
*
17157769 AAAAATAT
1 AATAATAT
17157777 -ATAA-AT
1 AATAATAT
* *
17157783 ATTATGTGAT
1 AATA-AT-AT
17157793 AA-AA-AT
1 AATAATAT
17157799 -ATAATAT
1 AATAATAT
17157806 AATAA-AT
1 AATAATAT
*
17157813 AATAA-GT
1 AATAATAT
*
17157820 AATGATAT
1 AATAATAT
** *
17157828 -ATGTTAA
1 AATAATAT
17157835 AAT-ATAT
1 AATAATAT
*
17157842 ATTAATAT
1 AATAATAT
* *
17157850 GATAATAG
1 AATAATAT
*
17157858 AAAAATAT
1 AATAATAT
17157866 GAAGTAATAT
1 -AA-TAATAT
17157876 AAT-ATAAT
1 AATAAT-AT
17157884 AA-AATAT
1 AATAATAT
17157891 AAATAA-AT
1 -AATAATAT
17157899 AATAATAT
1 AATAATAT
17157907 AA-AATAT
1 AATAATAT
*
17157914 -ATAATAC
1 AATAATAT
17157921 AGAT-ATATT
1 A-ATAATA-T
*
17157930 AA-AATAA
1 AATAATAT
17157937 AATAATAT
1 AATAATAT
17157945 A
1 A
17157946 TATACAATTT
Statistics
Matches: 137, Mismatches: 25, Indels: 46
0.66 0.12 0.22
Matches are distributed among these distances:
5 1 0.01
6 7 0.05
7 48 0.35
8 63 0.46
9 10 0.07
10 8 0.06
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:17157880 original size:5 final size:5
Alignment explanation
Indices: 17157870--17157949 Score: 53
Period size: 5 Copynumber: 16.4 Consensus size: 5
17157860 AAATATGAAG
* *
17157870 TAATA TAATA TAATA AAATA TAA-A TAAATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAATA T-AAT-A TAATA TAATA TAATA TAATA
* * *
17157920 CAGATA T-AT- TAAAA TAAAA TAATA T-ATA TA
1 TA-ATA TAATA TAATA TAATA TAATA TAATA TA
17157950 CAATTTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
3 1 0.02
4 12 0.20
5 38 0.64
6 6 0.10
7 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (5 bp):
TAATA
Found at i:17157903 original size:89 final size:89
Alignment explanation
Indices: 17157706--17157905 Score: 210
Period size: 89 Copynumber: 2.2 Consensus size: 89
17157696 ATGAAAATAT
* * *
17157706 ATATAATAGATAATAATAATATGAAATAATATATTGTTAAAATGTAAAATAATATAATAATATAA
1 ATATAAT--ATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAATAGAA
* * *
17157771 AAATATATAAATATTATGTGATAAAA
64 AAATATATAAATATAATATAATAAAA
* * * * *
17157797 ATATAATATAATAAATAATAAGTAATGATATA-TGTTAAAATATATATTAATATGATAATAGAAA
1 ATATAATATAAT-AATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAATAGAAA
17157861 AATATGA-AGTAATATAATATAAT-AAA
65 AATAT-ATA--AATATAATATAATAAAA
17157887 ATATAA-ATAAATAATAATA
1 ATATAATAT-AATAATAATA
17157906 TAAAATATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
89 47 0.51
90 29 0.31
91 17 0.18
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (89 bp):
ATATAATATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAATAATAGAAAA
ATATATAAATATAATATAATAAAA
Found at i:17161058 original size:39 final size:40
Alignment explanation
Indices: 17161013--17161123 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
17161003 CGGGGTTTAG
* * *
17161013 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
17161052 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
17161092 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
17161124 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:17161083 original size:40 final size:40
Alignment explanation
Indices: 17161036--17161179 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
17161026 CTCGCACAAG
* * * * *
17161036 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
17161076 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
17161116 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
17161157 GCCTTCGGGACTTAGCCC-GATAT
1 GCCTTCGGGACTTAGCCCGGATAT
17161180 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 63 0.69
41 22 0.24
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:17169081 original size:40 final size:40
Alignment explanation
Indices: 17168999--17169178 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
17168989 AATCAAGCAT
* ** * *
17168999 CTTCGGG-TTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
17169036 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
17169076 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
17169116 CTTC-GGATCTTAGTCCAGATGTAGTCACTAAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACT-AGCACAAATGC
17169157 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
17169179 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
37 7 0.06
38 3 0.03
39 18 0.15
40 62 0.53
41 25 0.21
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Done.