Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 71 of 196
Found at i:20371816 original size:81 final size:81
Alignment explanation
Indices: 20371553--20371830 Score: 264
Period size: 81 Copynumber: 3.4 Consensus size: 81
20371543 GGTAAAATAA
* * * * * *
20371553 TCATTTTACCCTAT-AGGGGTATTTTGTTCATTTTACCCTTCGGGGGTATTTC-GATAATTTTAC
1 TCATTTTACCCT-TCGGGGGTATTTCGATCATTTTACCCTTAGAGGGTATTTCAG-TCATTTTAC
*
20371616 CCTTCGAGGGT-ATTTCAG
64 CCTTCGAGGGTAATTT-GG
* * * *
20371634 TCATTTTACCCTTCGGAGGTAATTT-GGTTATTTTACCCTTAGATGGTAATTT-AGTCATTTTA-
1 TCATTTTACCCTTCGGGGGT-ATTTCGATCATTTTACCCTTAGAGGGT-ATTTCAGTCATTTTAC
*
20371696 CCTGTCGAGGGTAATTCGAG
64 CCT-TCGAGGGTAATTTG-G
* * * * *
20371716 -CATTTTAACCTCCGAGGGTATTTCGATAATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTAGAGGGTATTTCAGTCATTTTACCC
*
20371780 TTCAAGGGTAATTTGG
66 TTCGAGGGTAATTTGG
* *
20371796 TCATTTTACCCTTTGGGGGTAATTCGATCATTTTA
1 TCATTTTACCCTTCGGGGGTATTTCGATCATTTTA
20371831 AAAACATTTC
Statistics
Matches: 160, Mismatches: 26, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
80 13 0.08
81 131 0.82
82 16 0.10
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTAGAGGGTATTTCAGTCATTTTACCC
TTCGAGGGTAATTTGG
Found at i:20378094 original size:14 final size:13
Alignment explanation
Indices: 20378075--20378104 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
20378065 TGGACTGTTA
20378075 TTTTATTTATTTAT
1 TTTTATTTATTT-T
20378089 TTTTATTTATTTT
1 TTTTATTTATTTT
20378102 TTT
1 TTT
20378105 CTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTATTTT
Found at i:20378543 original size:45 final size:44
Alignment explanation
Indices: 20378498--20378894 Score: 129
Period size: 42 Copynumber: 9.1 Consensus size: 44
20378488 GACGCAGGAG
20378498 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
* * * * * * *
20378542 GGCAAG----GCTTTGTTT-TCGATTGCTTCGCTGTTAA-CGCA-GGAA
1 GGCAAGATCTGCTATCTTTAACCA--GCTCCACTG-CAACCG-ATGG-A
20378584 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
* * * *** * *
20378628 GGCAAG-GCT-TTAT-TTTCAATCTA-CTTTGCTGTTAA-TGCA-GGAA
1 GGCAAGATCTGCTATCTTT-AA-CCAGCTCCACTG-CAACCG-ATGG-A
* *
20378671 GGCAAGATCTACTATCTTTAACCAGCTCCACTACAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
* * ** * * * * *
20378715 GGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAACAC-A-GGAA
1 GGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAAC-CGATGG-A
*
20378758 GGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
* * ** * * * * *
20378802 GGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAA-CGCA-GGAA
1 GGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAACCG-ATGG-A
* *
20378845 GGCAAGATCTGCTATCTTTAACCAGCTCCACTACAATCGATGGA
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
20378889 GGCAAG
1 GGCAAG
20378895 GCTTTGTTTT
Statistics
Matches: 240, Mismatches: 72, Indels: 82
0.61 0.18 0.21
Matches are distributed among these distances:
39 2 0.01
40 7 0.03
41 14 0.06
42 57 0.24
43 38 0.16
44 54 0.22
45 56 0.23
46 10 0.04
47 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (44 bp):
GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGA
Found at i:20378714 original size:87 final size:87
Alignment explanation
Indices: 20378469--20379084 Score: 991
Period size: 87 Copynumber: 7.1 Consensus size: 87
20378459 ACTTGTAATC
* ** * *
20378469 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20378534 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
20378556 TTCGAT-TGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
20378620 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * *
20378642 TTCAATCTACTTTGCTGTTAATGCAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20378707 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
*
20378729 TTCGATCTGCTTCGCTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20378794 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
20378816 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
20378881 TCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * * * * *
20378903 TTTGATCTGCTTCGCTGTCAATGCAGGAATGTAAGATCTACTATCTTTAACCAACTCCACTATAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20378968 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
20378990 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
20379055 CCGATAGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
20379077 TTCGATCT
1 TTCGATCT
20379085 TCACTGATCT
Statistics
Matches: 491, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
86 80 0.16
87 411 0.84
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:20378763 original size:43 final size:42
Alignment explanation
Indices: 20378714--20378850 Score: 100
Period size: 43 Copynumber: 3.2 Consensus size: 42
20378704 CAACCGATGG
20378714 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACACAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC-CAGGA
* * ** * * * * **
20378757 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACT-ACAACCGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAACC-A-GGA
20378801 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC-CAGGA
20378844 AGGCAAG
1 AGGCAAG
20378851 ATCTGCTATC
Statistics
Matches: 65, Mismatches: 20, Indels: 18
0.63 0.19 0.17
Matches are distributed among these distances:
42 16 0.25
43 20 0.31
44 13 0.20
45 16 0.25
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (42 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACCAGGA
Found at i:20388102 original size:25 final size:25
Alignment explanation
Indices: 20388068--20388121 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
20388058 ATCACACGGT
*
20388068 CGTGTCACACGCCCGTGTGCCAGGC
1 CGTGTCACACACCCGTGTGCCAGGC
* * *
20388093 CGTGTTACACACTCGTGTGCCTGGC
1 CGTGTCACACACCCGTGTGCCAGGC
20388118 CGTG
1 CGTG
20388122 AAACTCTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.31, T:0.22
Consensus pattern (25 bp):
CGTGTCACACACCCGTGTGCCAGGC
Found at i:20388971 original size:40 final size:40
Alignment explanation
Indices: 20388916--20389186 Score: 300
Period size: 40 Copynumber: 6.8 Consensus size: 40
20388906 CAAAGGTATC
* * *
20388916 GAAGTACAAAAAGGGGCACATATGTGCAAACAAGGATA-T
1 GAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACT
* * * * * *
20388955 CGAAGTACAATTAGGGGTACGTAGGTGCAAATAGGGGTTCT
1 -GAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACT
*
20388996 GAAGTAC-AATCAGGGGAACGTATGTGCAAACAAGGGTACT
1 GAAGTACAAAT-AGGGGCACGTATGTGCAAACAAGGGTACT
* *
20389036 GAAGTACAAATAGGGGCACATATGTGCAAA-ATGGGGTACT
1 GAAGTACAAATAGGGGCACGTATGTGCAAACA-AGGGTACT
*
20389076 GAAGTACAAATA-GGGCACGTATGTGCAAACATGGGTACT
1 GAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACT
* * * *
20389115 GAAGTAC-AATCAAGGGCACGTATGTGCAACCATGGGTACC
1 GAAGTACAAAT-AGGGGCACGTATGTGCAAACAAGGGTACT
* *
20389155 GAAGTACAAATAGGGGCATGCATGTGCAAACA
1 GAAGTACAAATAGGGGCACGTATGTGCAAACA
20389187 TTCAATAATT
Statistics
Matches: 197, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.02
39 34 0.17
40 153 0.78
41 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.19
Consensus pattern (40 bp):
GAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACT
Found at i:20389152 original size:119 final size:120
Alignment explanation
Indices: 20388910--20389186 Score: 353
Period size: 119 Copynumber: 2.3 Consensus size: 120
20388900 TGCATTCAAA
* * * *
20388910 GGTATCGAAGTACAAAAAGGGGCACATATGTGCAAACAAGGATATCGAAGTACAATTAGGGGTAC
1 GGTACCGAAGTACAAATAGGGGCACATATGTGCAAACAAGGATATCGAAGTACAAATAGGGGCAC
* * *
20388975 GTAGGTGCAAATAGGGGTTCTGAAGTACAATCAGGGGAACGTATGTGCAAACAAG
66 GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGAACGTATGTGCAAACAAG
* * *
20389030 GGTACTGAAGTACAAATAGGGGCACATATGTGCAAA-ATGGGGTA-CTGAAGTACAAATA-GGGC
1 GGTACCGAAGTACAAATAGGGGCACATATGTGCAAACA-AGGATATC-GAAGTACAAATAGGGGC
* * * * *
20389092 ACGTATGTGCAAACATGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAACCATG
64 ACGTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGAACGTATGTGCAAACAAG
***
20389149 GGTACCGAAGTACAAATAGGGGCATGCATGTGCAAACA
1 GGTACCGAAGTACAAATAGGGGCACATATGTGCAAACA
20389187 TTCAATAATT
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
119 86 0.64
120 49 0.36
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.19
Consensus pattern (120 bp):
GGTACCGAAGTACAAATAGGGGCACATATGTGCAAACAAGGATATCGAAGTACAAATAGGGGCAC
GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGAACGTATGTGCAAACAAG
Found at i:20392938 original size:18 final size:19
Alignment explanation
Indices: 20392908--20392944 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20392898 TTTTCACAAA
*
20392908 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
20392927 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
20392945 ACTTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:20396223 original size:18 final size:18
Alignment explanation
Indices: 20396200--20396234 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20396190 TAAGTTTAGA
20396200 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
* *
20396218 AAGCATGAAAGTAGTTT
1 AAGCATCAAAATAGTTT
20396235 GGCACATTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:20404312 original size:24 final size:25
Alignment explanation
Indices: 20404285--20404366 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 25
20404275 TTTGATTTCA
**
20404285 ATTTATTTTTGCAATTATTTAT-TT
1 ATTTATTTTTAAAATTATTTATATT
*
20404309 ATTTA-TTTTAAAATTTTTTATATT
1 ATTTATTTTTAAAATTATTTATATT
*
20404333 ATTTA-TTTT-AAATTGTTTTATTATT
1 ATTTATTTTTAAAATT-ATTTA-TATT
20404358 ATTTATTTT
1 ATTTATTTT
20404367 AAGTTTTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 18 0.35
24 21 0.41
25 9 0.18
26 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTATTTTTAAAATTATTTATATT
Found at i:20404351 original size:25 final size:23
Alignment explanation
Indices: 20404297--20404368 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 23
20404287 TTATTTTTGC
20404297 AATTATTTAT-TTATTTATTTTAA
1 AATT-TTTATATTATTTATTTTAA
20404320 AATTTTTTATATTATTTATTTTAA
1 AA-TTTTTATATTATTTATTTTAA
*
20404344 ATTGTTTTATTATTATTTATTTTAA
1 AAT-TTTTA-TATTATTTATTTTAA
20404369 GTTTTTCACA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
23 8 0.18
24 21 0.48
25 15 0.34
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
AATTTTTATATTATTTATTTTAA
Found at i:20404382 original size:25 final size:23
Alignment explanation
Indices: 20404307--20404443 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 23
20404297 AATTATTTAT
*
20404307 TTATTTATTTTAAAATTTTTTATA
1 TTATTTATTTT-AAATTTTTAATA
*
20404331 TTATTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAA-T-TTTTAATA
*
20404356 TTATTTATTTTAAGTTTTTCACATA
1 TTATTTATTTTAAATTTTT-A-ATA
** *
20404381 TTATGCATTTTAAACTATATTAGACTA
1 TTATTTATTTTAAA-T-TTTTA-A-TA
**
20404408 TTATCCATTTTAAA--TTTACATA
1 TTATTTATTTTAAATTTTTA-ATA
20404430 TTATTTATTTTAAA
1 TTATTTATTTTAAA
20404444 CCATATATAT
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
22 14 0.15
23 11 0.12
24 14 0.15
25 32 0.35
26 3 0.03
27 18 0.20
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (23 bp):
TTATTTATTTTAAATTTTTAATA
Found at i:20408145 original size:31 final size:31
Alignment explanation
Indices: 20408109--20408170 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
20408099 ATTCCTTTTC
*
20408109 ATTTCATTCACAAATAAAATATTCTTTTATT
1 ATTTCATTCACAAAGAAAATATTCTTTTATT
* *
20408140 ATTTCATTCATAACGAAAATATTCTTTTATT
1 ATTTCATTCACAAAGAAAATATTCTTTTATT
20408171 TCATTCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTTCATTCACAAAGAAAATATTCTTTTATT
Found at i:20408795 original size:16 final size:15
Alignment explanation
Indices: 20408774--20408861 Score: 76
Period size: 16 Copynumber: 5.9 Consensus size: 15
20408764 ACATTAGAGA
20408774 AAAAAAACAAAAAGAC
1 AAAAAAACAAAAA-AC
20408790 AAAAAAACAAAAAAC
1 AAAAAAACAAAAAAC
*
20408805 ---AAAA-AAAAGAC
1 AAAAAAACAAAAAAC
* *
20408816 AAAATAAACAAAGAAT
1 AAAA-AAACAAAAAAC
*
20408832 AAGAAAAACAAAGAAC
1 AA-AAAAACAAAAAAC
20408848 AAAAACAACAAAAA
1 AAAAA-AACAAAAA
20408862 CCTCTACCGA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
11 6 0.10
12 4 0.07
14 1 0.02
15 8 0.14
16 38 0.64
17 2 0.03
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:20408819 original size:7 final size:7
Alignment explanation
Indices: 20408775--20408810 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
20408765 CATTAGAGAA
20408775 AAAAAAC
1 AAAAAAC
20408782 AAAAAGAC
1 AAAAA-AC
20408790 AAAAAAAC
1 -AAAAAAC
20408798 AAAAAAC
1 AAAAAAC
20408805 AAAAAA
1 AAAAAA
20408811 AAGACAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 18 0.67
8 4 0.15
9 5 0.19
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:20408839 original size:20 final size:20
Alignment explanation
Indices: 20408790--20408827 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20408780 ACAAAAAGAC
20408790 AAAAAA-AC-AAA-AAACAA
1 AAAAAAGACAAAATAAACAA
20408807 AAAAAAGACAAAATAAACAA
1 AAAAAAGACAAAATAAACAA
20408827 A
1 A
20408828 GAATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 3 0.17
20 7 0.39
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAAAGACAAAATAAACAA
Found at i:20408862 original size:9 final size:8
Alignment explanation
Indices: 20408774--20408861 Score: 72
Period size: 9 Copynumber: 10.6 Consensus size: 8
20408764 ACATTAGAGA
20408774 AAAAAAAC
1 AAAAAAAC
*
20408782 AAAAAGAC
1 AAAAAAAC
20408790 AAAAAAAC
1 AAAAAAAC
*
20408798 AAAAAACAA
1 AAAAAA-AC
20408807 AAAAAAGAC
1 AAAAAA-AC
20408816 AAAATAAAC
1 AAAA-AAAC
*
20408825 AAAGAATA-
1 AAA-AAAAC
*
20408833 AGAAAAAC
1 AAAAAAAC
*
20408841 -AAAGAAC
1 AAAAAAAC
20408848 AAAAACAAC
1 AAAAA-AAC
20408857 AAAAA
1 AAAAA
20408862 CCTCTACCGA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
7 8 0.13
8 25 0.40
9 27 0.43
10 3 0.05
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:20410415 original size:142 final size:143
Alignment explanation
Indices: 20410214--20410574 Score: 508
Period size: 142 Copynumber: 2.5 Consensus size: 143
20410204 AATACGGCAA
* * *
20410214 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTTTCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * *
20410279 ACCGGAGCAGACTAAAGACAATAAATCTTATTTCCCTGGCATTGTAATTAAACAGATTAAAGCTA
66 AGCGGAGCAGACTAAAGACAACAAATCTTATTTCCCTAGCATTGTAATGAAACAGATTAAAGCTA
20410344 CAAATTATGGCGG
131 CAAATTATGGCGG
* * *
20410357 ATCTTATCTTCTTGAAGTT-CCGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * * * * * *
20410421 AGCGGAGTAGGCTGAAGACAACGAATCTTATTTCCCTAGCGTTGTAGTGGAACAGTTTAAAGCTA
66 AGCGGAGCAGACTAAAGACAACAAATCTTATTTCCCTAGCATTGTAATGAAACAGATTAAAGCTA
20410486 CAAATTATGGCGG
131 CAAATTATGGCGG
* * * *
20410499 ATCTTATTTTCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
*
20410564 AGTGGAGCAGA
66 AGCGGAGCAGA
20410575 TTGAAGTTAC
Statistics
Matches: 189, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
142 123 0.65
143 66 0.35
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (143 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGCGGAGCAGACTAAAGACAACAAATCTTATTTCCCTAGCATTGTAATGAAACAGATTAAAGCTA
CAAATTATGGCGG
Found at i:20410627 original size:143 final size:142
Alignment explanation
Indices: 20410214--20410633 Score: 407
Period size: 142 Copynumber: 2.9 Consensus size: 142
20410204 AATACGGCAA
* * * * *
20410214 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTTTCTCCCTAAAGTTGC
1 ATCTTATCTTCCTAAAGTT-CAGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGC
* * ** * * **** *
20410279 ACCGGAGCAGACTAAAGACAATAAATCTTATTTCCCTGGCA-TTGTAATTAAACAGATTAAAGCT
65 AGCGGAGCAGACTGAAGACAACCAATCTTATCTCCCTAG-AGTTGTAGCGGAACAGATCAAAGCT
20410343 ACAAATTATGGCGG
129 ACAAATTATGGCGG
* * *
20410357 ATCTTATCTTCTTGAAGTTCCGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGCA
1 ATCTTATCTTCCTAAAGTTCAGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGCA
* * * * * * * *
20410422 GCGGAGTAGGCTGAAGACAACGAATCTTATTTCCCTAGCGTTGTAGTGGAACAGTTTAAAGCTAC
66 GCGGAGCAGACTGAAGACAACCAATCTTATCTCCCTAGAGTTGTAGCGGAACAGATCAAAGCTAC
20410487 AAATTATGGCGG
131 AAATTATGGCGG
* * * *
20410499 ATCTTATTTTCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTAAAGTT-CAGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGC
* * ** * ** *
20410564 AGTGGAGCAGATTGAAG-TTACCAATTCTTATCT-CCTTGAAGTT-TCAGCGGAGTAGATCGAAG
65 AGCGGAGCAGACTGAAGACAACCAA-TCTTATCTCCCTAG-AGTTGT-AGCGGAACAGATCAAAG
20410626 CTACAAAT
127 CTACAAAT
20410634 CTCTTCTCCC
Statistics
Matches: 231, Mismatches: 41, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
142 131 0.57
143 100 0.43
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (142 bp):
ATCTTATCTTCCTAAAGTTCAGTGGAGCAGATTGAAACCACCAGCCTTATCTCCCTAAAGTTGCA
GCGGAGCAGACTGAAGACAACCAATCTTATCTCCCTAGAGTTGTAGCGGAACAGATCAAAGCTAC
AAATTATGGCGG
Found at i:20411623 original size:25 final size:23
Alignment explanation
Indices: 20411591--20411750 Score: 119
Period size: 24 Copynumber: 6.5 Consensus size: 23
20411581 TTTGATTTCA
20411591 ATTTATTTTTGAAATTTATTTAT-TT
1 ATTTA-TTTT-AAATTT-TTTATATT
20411616 ATTTATTTTAAAATTTTTTATATT
1 ATTTATTTT-AAATTTTTTATATT
20411640 ATTTATTTTAAATTGTTTTATTATT
1 ATTTATTTTAAATT-TTTTA-TATT
20411665 ATTTATTTT-AATTTTTTCCCATATT
1 ATTTATTTTAAATTTTTT---ATATT
** *
20411690 ATGCATTTTAAATTATATTAAACTATT
1 ATTTATTTTAAATT-T-TT-TA-TATT
* * **
20411717 ATCTGTTTTAAA-TTTACATATT
1 ATTTATTTTAAATTTTTTATATT
20411739 ATTTATTTTAAA
1 ATTTATTTTAAA
20411751 CCATATATAT
Statistics
Matches: 113, Mismatches: 11, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
22 14 0.12
23 15 0.13
24 31 0.27
25 30 0.27
26 7 0.06
27 14 0.12
28 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (23 bp):
ATTTATTTTAAATTTTTTATATT
Found at i:20411698 original size:50 final size:50
Alignment explanation
Indices: 20411605--20411703 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
20411595 ATTTTTGAAA
**
20411605 TTTATTTATTTATTTATTTTAAAATTTTTTATATTATTTATTTTAAATTGT
1 TTTATTTATTTATTTATTTT-AAATTTTTTATATTATGCATTTTAAATTGT
20411656 TTTA-TTA-TTATTTATTTT-AATTTTTTCCCATATTATGCATTTTAAATT
1 TTTATTTATTTATTTATTTTAAATTTTTT---ATATTATGCATTTTAAATT
20411704 ATATTAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
47 8 0.19
49 11 0.26
50 20 0.47
51 4 0.09
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (50 bp):
TTTATTTATTTATTTATTTTAAATTTTTTATATTATGCATTTTAAATTGT
Found at i:20411975 original size:21 final size:20
Alignment explanation
Indices: 20411946--20411998 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
20411936 CTTTGTATGT
* *
20411946 TATTTTTTATTTTTAATTGC
1 TATTATTTATTTTGAATTGC
*
20411966 ATATTATTTACTTTGAATTGC
1 -TATTATTTATTTTGAATTGC
20411987 T-TTATATTATTT
1 TATTAT-TTATTT
20411999 ACCTCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 17 0.63
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (20 bp):
TATTATTTATTTTGAATTGC
Found at i:20412008 original size:24 final size:25
Alignment explanation
Indices: 20411966--20412024 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
20411956 TTTTAATTGC
* ** *
20411966 ATATTATTTACTTTGAATTG-CTTT
1 ATATTATTTACCTCAAATTGTCTAT
20411990 ATATTATTTACCTCAAATTGTTCTAT
1 ATATTATTTACCTCAAATTG-TCTAT
20412016 ATATTATTT
1 ATATTATTT
20412025 TGTTTTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (25 bp):
ATATTATTTACCTCAAATTGTCTAT
Found at i:20416239 original size:7 final size:7
Alignment explanation
Indices: 20416227--20416251 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20416217 TGTGTTTAAT
20416227 TTTAGGG
1 TTTAGGG
20416234 TTTAGGG
1 TTTAGGG
20416241 TTTAGGG
1 TTTAGGG
20416248 TTTA
1 TTTA
20416252 CTAAAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:20432613 original size:37 final size:38
Alignment explanation
Indices: 20432571--20432656 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 38
20432561 AAATTGTAAT
20432571 AAAACTAG-TTGTAATAAAAATTTGTGTCTTTGTGTCG
1 AAAACTAGATTGTAATAAAAATTTGTGTCTTTGTGTCG
20432608 AAAACTAGTTTTAAAATTGTAATAAAAATTTGTGTCTTTGTGTCG
1 AAAACTAG-------ATTGTAATAAAAATTTGTGTCTTTGTGTCG
20432653 AAAA
1 AAAA
20432657 TTGAAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
37 8 0.20
45 33 0.80
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (38 bp):
AAAACTAGATTGTAATAAAAATTTGTGTCTTTGTGTCG
Found at i:20433015 original size:13 final size:13
Alignment explanation
Indices: 20432997--20433022 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20432987 ACCTTTTCAA
20432997 ATCTCAAAATACG
1 ATCTCAAAATACG
20433010 ATCTCAAAATACG
1 ATCTCAAAATACG
20433023 TAGTTTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
ATCTCAAAATACG
Found at i:20433487 original size:3 final size:3
Alignment explanation
Indices: 20433479--20433704 Score: 131
Period size: 3 Copynumber: 76.0 Consensus size: 3
20433469 ACATAGAAAT
* * * * *
20433479 ATA ATA ATA ATA ATA CTA A-A TTA ATG GTA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
20433526 ATA GA-A ATA ATA TTA ATA ACA A-A ATA AAA ATA GTA ATA ACA ATTA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * * * *
20433571 ATA ATA ATT CTA ATA ATG ATG TTA ATA GTA ATA A-A ATA AAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
20433617 ACTA ATG ATA ATA ATG CTA ATA ATA ATA GTA AGA ATA ATA TTA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
20433663 TTA ATA TTA ATA ATA AT- ATCA ATA ATA CTA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
20433705 GTGTAATATT
Statistics
Matches: 164, Mismatches: 49, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
2 10 0.06
3 147 0.90
4 7 0.04
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20433717 original size:6 final size:6
Alignment explanation
Indices: 20433652--20433717 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
20433642 ATAGTAAGAA
* * * * * *
20433652 TAATAT TAATAT TAATAT TAATAA TAATAT CAATAA TACTAC TAATAA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
20433700 TAATAGT GTAATAT TAAT
1 TAATA-T -TAATAT TAAT
20433718 TAATTAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
6 42 0.88
7 1 0.02
8 5 0.10
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (6 bp):
TAATAT
Found at i:20434369 original size:9 final size:9
Alignment explanation
Indices: 20434357--20434386 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
20434347 TCGAAATAAT
20434357 AAAAATATA
1 AAAAATATA
20434366 AAAAATATA
1 AAAAATATA
*
20434375 AAAAAAATA
1 AAAAATATA
20434384 AAA
1 AAA
20434387 CGAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAATATA
Found at i:20434626 original size:36 final size:36
Alignment explanation
Indices: 20434585--20434657 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
20434575 AGTGGGTGGA
*
20434585 GTTGGTACGGCGCTGCAGGCGGTCAGGGCTAGGTGC
1 GTTGGTACGGCGCTGCAGGCGGTCAAGGCTAGGTGC
*
20434621 GTTGGTACGGCGCTGCAGGCGGTTAAGGCTAGGTGC
1 GTTGGTACGGCGCTGCAGGCGGTCAAGGCTAGGTGC
20434657 G
1 G
20434658 GCGGCCGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.12, C:0.21, G:0.47, T:0.21
Consensus pattern (36 bp):
GTTGGTACGGCGCTGCAGGCGGTCAAGGCTAGGTGC
Found at i:20435338 original size:44 final size:44
Alignment explanation
Indices: 20435290--20435861 Score: 325
Period size: 44 Copynumber: 12.7 Consensus size: 44
20435280 TTTAATCCAT
* **
20435290 TCCACTGCAAGTTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
* * * *
20435334 TCCACAGCAACTTAAGGGAGATAAGATTGGTATCTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATC-TGC
** * *
20435378 TCCACTGCAACTTCAAAGAGATAAGG-TTGGGTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GGTAGCTTCAATCTGC
* * * * *
20435423 TCTACTGCAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCTGAC
1 TCCACTGCAACTTCAGGGAGAT-AG----GAT-TGGTAGCTTCAATCTG-C
* * ** * * *
20435474 -CTACTGCAACTTCAGAGGTG-TAGGATTCATCA-TTTTAATCCGC
1 TCCACTGCAACTTCAG-GGAGATAGGATTGGT-AGCTTCAATCTGC
** *
20435517 TCCACTGCAACTTCAGGGAGATAGGATTAATAGCTT-AATCTAC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
* * * * *
20435560 TCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
* * * * *
20435604 TCCACTTCAACTTCAGAGAGATAAGG-TTGGGTATCTTCAATTTGT
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GGTAGCTTCAATCTGC
* * * * * * *
20435649 TCCACTGCCACTTCAGTGAGATAAGACTTGTTATGGTAGATTTAATCCGA
1 TCCACTGCAACTTCAGGGAGAT-AG----GAT-TGGTAGCTTCAATCTGC
* * ** * * * *
20435699 TCTACTGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGC
1 TCCACTGCAACTTCAG-GGAGATAGGATTGGTAGCTTCAATCTGC
* **
20435743 TCCACTGTAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
** * *
20435787 TCCACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
* * * *
20435831 TCTACTGAAACTTTAGAGAGATAAGG-TTGGT
1 TCCACTGCAACTTCAGGGAGAT-AGGATTGGT
20435862 TATCTTCCAT
Statistics
Matches: 411, Mismatches: 89, Indels: 56
0.74 0.16 0.10
Matches are distributed among these distances:
43 43 0.10
44 221 0.54
45 79 0.19
46 1 0.00
49 6 0.01
50 54 0.13
51 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAGGATTGGTAGCTTCAATCTGC
Found at i:20435482 original size:183 final size:181
Alignment explanation
Indices: 20435293--20435628 Score: 408
Period size: 183 Copynumber: 1.8 Consensus size: 181
20435283 AATCCATTCC
* *
20435293 ACTGCAAGTTCAG-GGAGATAGGATTAAT-AGCTTCAATCTGCTCCACAGCAACTTAAGGGAGAT
1 ACTGCAACTTCAGAGGAG-TAGGATTAATCA-CTTCAATCCGCTCCACAGCAACTTAAGGGAGAT
** * * * * **
20435356 AAGATTGGTATCTTCAA-CTTGCTCCACTGCAACTTCAAAGAGATAAGGTTGGGTATCTTCAGTC
64 AAGATTAATAGCTT-AATC-TACTCCACTACAACTTCAAAGAGATAAGATT-GGTATCTTCAACC
* * *
20435420 TGCTCTACTGCAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCTGACCT
126 TGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTGTGGTAGATTTAATCTGACCT
* * * * * * *
20435476 ACTGCAACTTCAGAGGTGTAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGAGGAGTAGGATTAATCACTTCAATCCGCTCCACAGCAACTTAAGGGAGATAA
*
20435541 GATTAATAGCTTAATCTACTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTC
66 GATTAATAGCTTAATCTACTCCACTACAACTTCAAAGAGATAAGATTGGTATCTTCAACCTGCTC
*
20435606 CACTTCAACTTCAGAGAGATAAG
131 CACTGCAACTTCAGAGAGATAAG
20435629 GTTGGGTATC
Statistics
Matches: 128, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
181 35 0.27
182 29 0.23
183 60 0.47
184 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (181 bp):
ACTGCAACTTCAGAGGAGTAGGATTAATCACTTCAATCCGCTCCACAGCAACTTAAGGGAGATAA
GATTAATAGCTTAATCTACTCCACTACAACTTCAAAGAGATAAGATTGGTATCTTCAACCTGCTC
CACTGCAACTTCAGAGAGATAAGACTTGTTGTGGTAGATTTAATCTGACCT
Found at i:20435571 original size:43 final size:44
Alignment explanation
Indices: 20435516--20435628 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 44
20435506 TTTTAATCCG
* * *
20435516 CTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTT-AATCTA
1 CTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTCAACCTA
* ** * *
20435559 CTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
1 CTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTCAACCTA
* *
20435603 CTCCACTTCAACTTCAGAGAGATAAG
1 CTCCACTACAACTTCAGGGAGATAAG
20435629 GTTGGGTATC
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 31 0.53
44 27 0.47
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGATTAATAGCTTCAACCTA
Found at i:20435691 original size:226 final size:227
Alignment explanation
Indices: 20435191--20435873 Score: 1012
Period size: 227 Copynumber: 3.0 Consensus size: 227
20435181 CTAACTACAG
* * ** *
20435191 TCTGCTCCACTACAACTTTAGGGAGATAAGACTCATTATAGTAGATTTAATCTGACCTACTGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAA
* * ** *
20435256 CTTCAGAGGTTTAGGATTCATTGTTTTAATCCATTCCACTGCAAGTTCAGGGAGATAGGATTAAT
66 CTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT
*
20435321 AGCTTCAATCTGCTCCAC-AGCAACTT-AAGGGAGATAAGATTGGTATCTTCAACTTGCTCCACT
131 AGCTTCAATCTGCTCCACTA-CAACTTCAA-GGAGATAAGATTGGTATCTTCAACCTGCTCCACT
* *
20435384 GCAACTTCAAAGAGATAAGGTTGGGTATCTTCAG
194 GCAACTTCAGAGAGATAAGGTTGGGTATCTTCAA
* * *
20435418 TCTGCTCTACTGCAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCTGACCTACTGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAA
* *
20435483 CTTCAGAGGTGTAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT
66 CTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT
* *
20435548 AGCTT-AATCTACTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTTC
131 AGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
20435612 AACTTCAGAGAGATAAGGTTGGGTATCTTCAA
196 AACTTCAGAGAGATAAGGTTGGGTATCTTCAA
* * * * * *
20435644 TTTGTTCCACTGCCACTTCAGTGAGATAAGACTTGTTATGGTAGATTTAATCCGATCTACTGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAA
*
20435709 CTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAAT
66 CTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT
* * * * *
20435774 AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTGCTCTACTGA
131 AGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
* * *
20435839 AACTTTAGAGAGATAAGGTTGGTTATCTTCCA
196 AACTTCAGAGAGATAAGGTTGGGTATCTTCAA
20435871 TCT
1 TCT
20435874 TGATCTGATC
Statistics
Matches: 413, Mismatches: 40, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
226 204 0.49
227 209 0.51
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (227 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAA
CTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAAT
AGCTTCAATCTGCTCCACTACAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
AACTTCAGAGAGATAAGGTTGGGTATCTTCAA
Found at i:20436355 original size:24 final size:24
Alignment explanation
Indices: 20436323--20436380 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
20436313 TGGATTGCCC
20436323 CCACTGTAATCTTCAAGGCTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
20436347 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
20436371 CCACTGTAAT
1 CCACTGTAAT
20436381 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGCTCAAT
Found at i:20437308 original size:17 final size:17
Alignment explanation
Indices: 20437265--20437316 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
20437255 CACCTTAGCC
20437265 TCATCATTTTTCTTTTT
1 TCATCATTTTTCTTTTT
* **
20437282 TCTTTTTTTTTCTTTTT
1 TCATCATTTTTCTTTTT
*
20437299 TCATCATTTTTATTTTT
1 TCATCATTTTTCTTTTT
20437316 T
1 T
20437317 TAGATATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (17 bp):
TCATCATTTTTCTTTTT
Found at i:20442579 original size:17 final size:18
Alignment explanation
Indices: 20442549--20442582 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20442539 AAGTGAGTAA
20442549 ATAAAAAAATAATATATG
1 ATAAAAAAATAATATATG
*
20442567 ATAAAACAA-AATATAT
1 ATAAAAAAATAATATAT
20442583 TTAAACTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAAAAAAATAATATATG
Found at i:20442623 original size:3 final size:3
Alignment explanation
Indices: 20442615--20442847 Score: 161
Period size: 3 Copynumber: 78.0 Consensus size: 3
20442605 ACATAGAAAT
* * * *
20442615 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA ATG GTA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
20442662 ATA ATA ATA GA-A ATA ACA TTA ATA ATA AAA ATA ATA ATA GTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
20442707 ACA ATTA ATA ATA ATT CTA ATA ATG ATG TTA ATA GTA ATA A-A ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
20442752 AGA ATA A-A ACTA ATG GTA ATA ATG TTA ATA ATA GTA AGA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
20442797 ATA TTA ATA ATA AT- TTCA ACA ATA CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
20442842 ATA ATA
1 ATA ATA
20442848 GTGTAATATT
Statistics
Matches: 171, Mismatches: 50, Indels: 18
0.72 0.21 0.08
Matches are distributed among these distances:
2 7 0.04
3 159 0.93
4 5 0.03
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20443558 original size:17 final size:18
Alignment explanation
Indices: 20443532--20443568 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
20443522 TTAGTATTTC
*
20443532 AAAATAATAAAAATATAA
1 AAAATAATAAAAAAATAA
20443550 AAAAT-ATAAAAAAATAA
1 AAAATAATAAAAAAATAA
20443567 AA
1 AA
20443569 CGAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAATAAAAAAATAA
Found at i:20444195 original size:33 final size:33
Alignment explanation
Indices: 20444113--20444202 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
20444103 AGAGTACATT
* * *
20444113 GTCAGTCCAACCAAACACACCAGATGGTCACACGA
1 GTCAATCCAACC-AACACACCA-ATGCTCACAAGA
** *
20444148 GTCAATCCCTCCAACACACCAATGCTCATAAGA
1 GTCAATCCAACCAACACACCAATGCTCACAAGA
20444181 G-CTAATCCAACCAACACACCAA
1 GTC-AATCCAACCAACACACCAA
20444203 ACAGAGTGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 1 0.02
33 27 0.59
34 9 0.20
35 9 0.20
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (33 bp):
GTCAATCCAACCAACACACCAATGCTCACAAGA
Found at i:20444398 original size:18 final size:19
Alignment explanation
Indices: 20444359--20444400 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20444349 AATCCGAGTA
*
20444359 ATCAAATTAAATATTATAT
1 ATCAAATTAAATATAATAT
20444378 ATCAAATTAACAT-TAAT-T
1 ATCAAATTAA-ATATAATAT
20444396 ATCAA
1 ATCAA
20444401 CAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 13 0.62
20 2 0.10
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCAAATTAAATATAATAT
Found at i:20451769 original size:61 final size:61
Alignment explanation
Indices: 20451704--20451989 Score: 281
Period size: 61 Copynumber: 4.7 Consensus size: 61
20451694 GATAGAAAAA
* * * *
20451704 CCTTTTTGGTGAGTACTAGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACATGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGATAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * * * * *
20451765 CCTTTATGGTGTGTATTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGATAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
20451826 CCTTTATAGTGAGTACT-GAATGTAAAGGATAACTTTTGTGGCAAAACTTTGGACAAGAAAG
1 CCTTTATGGTGAGTACTAG-ATATAAAGGATAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* ** * * *
20451887 CCTTTGTGACGAGTACTAGATAT-AATGATAACTTTTGTGGCAAAACTCTAGACAAGAAAA
1 CCTTTATGGTGAGTACTAGATATAAAGGATAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
20451947 CCTTTGTGGTGAGTA-TTGAATGTAAAGGAAAACTTTTGTGGCA
1 CCTTTATGGTGAGTACTAG-ATATAAAGGATAACCTTTGTGGCA
20451990 GCTTCTGTTT
Statistics
Matches: 186, Mismatches: 35, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
59 2 0.01
60 49 0.26
61 134 0.72
62 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (61 bp):
CCTTTATGGTGAGTACTAGATATAAAGGATAACCTTTGTGGCAAAACTCTAGACAAGAAAG
Found at i:20451855 original size:122 final size:122
Alignment explanation
Indices: 20451638--20451989 Score: 384
Period size: 122 Copynumber: 2.9 Consensus size: 122
20451628 TCAGGAGAAG
* * * * * * * * *
20451638 GAAAGCCTTTGTGGCAAGTACTAAATGTAAATGACATCCTTTGTGGGAAAAATTTGGATAGAAAA
1 GAAAGCCTTTATGACGAGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAA
* * * * * *
20451703 ACCTTTTTGGTGAGTACT-AGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACAT
66 ACCTTTATGGTGAGTACTGA-ATGTAAAGGATAACTTTTGTGGCAAAACTCTAGACAA
** * *
20451760 GAAAGCCTTTATGGTGTGTATTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAA
1 GAAAGCCTTTATGACGAGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAA
* * * *
20451825 GCCTTTATAGTGAGTACTGAATGTAAAGGATAACTTTTGTGGCAAAACTTTGGACAA
66 ACCTTTATGGTGAGTACTGAATGTAAAGGATAACTTTTGTGGCAAAACTCTAGACAA
* * * * * * *
20451882 GAAAGCCTTTGTGACGAGTACTAGATAT-AATGATAACTTTTGTGGCAAAACTCTAGACAAGAAA
1 GAAAGCCTTTATGACGAGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAA
* * *
20451946 ACCTTTGTGGTGAGTATTGAATGTAAAGGAAAACTTTTGTGGCA
66 ACCTTTATGGTGAGTACTGAATGTAAAGGATAACTTTTGTGGCA
20451990 GCTTCTGTTT
Statistics
Matches: 192, Mismatches: 37, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
121 71 0.37
122 120 0.62
123 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (122 bp):
GAAAGCCTTTATGACGAGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAGGAAA
ACCTTTATGGTGAGTACTGAATGTAAAGGATAACTTTTGTGGCAAAACTCTAGACAA
Found at i:20452067 original size:29 final size:29
Alignment explanation
Indices: 20452002--20452067 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
20451992 TTCTGTTTAA
20452002 GAAGA-CCTTTGTGGTAAATCTCTTAAAG
1 GAAGAGCCTTTGTGGTAAATCTCTTAAAG
* *
20452030 GAAGTGCCTTTGTGGT-GATCTCTGTCAAAG
1 GAAGAGCCTTTGTGGTAAATCTCT-T-AAAG
20452060 GAA-AGCCT
1 GAAGAGCCT
20452068 CTATGGTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 10 0.31
29 15 0.47
30 7 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (29 bp):
GAAGAGCCTTTGTGGTAAATCTCTTAAAG
Found at i:20452227 original size:20 final size:20
Alignment explanation
Indices: 20452199--20452240 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
20452189 GCCCCGGCTC
20452199 ATAAAAAAA-ATAAACCCAAA
1 ATAAAAAAACA-AAACCCAAA
* *
20452219 ATAATAAAACAAAATCCAAA
1 ATAAAAAAACAAAACCCAAA
20452239 AT
1 AT
20452241 TATATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (20 bp):
ATAAAAAAACAAAACCCAAA
Found at i:20452357 original size:19 final size:19
Alignment explanation
Indices: 20452333--20452424 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
20452323 AATTTTCAAG
20452333 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20452352 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20452371 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20452390 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20452409 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20452425 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20452375 original size:38 final size:38
Alignment explanation
Indices: 20452333--20452447 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
20452323 AATTTTCAAG
20452333 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
20452371 GATATGCAACCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
20452409 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
20452448 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 49 0.70
41 8 0.11
42 13 0.19
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:20452675 original size:23 final size:23
Alignment explanation
Indices: 20452631--20452675 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20452621 TCTTATTTTG
* *
20452631 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20452654 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20452676 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20458192 original size:25 final size:23
Alignment explanation
Indices: 20458150--20458210 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
20458140 TTCAAAATAT
20458150 AAAAAAAAGA-AGAAAAAACAAG
1 AAAAAAAAGAGAGAAAAAACAAG
*
20458172 AAAAAAAAGAGAGAGAGAAAAGAAG
1 AAAAAAAAGAGAGA-A-AAAACAAG
*
20458197 AAAGAAAATGAGAG
1 AAA-AAAAAGAGAG
20458211 GCCAAGGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 10 0.30
23 3 0.09
24 1 0.03
25 10 0.30
26 9 0.27
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (23 bp):
AAAAAAAAGAGAGAAAAAACAAG
Found at i:20459849 original size:44 final size:44
Alignment explanation
Indices: 20459450--20460032 Score: 196
Period size: 44 Copynumber: 13.3 Consensus size: 44
20459440 AGACACCAAC
* *
20459450 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* * **** * * ** * * *
20459494 CTTGTCTTCCTGCACCGACAACGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGC-AGAT
*
20459538 CTTGCCTCCCTGGGTTGCAGC-AGAGC-GGTTAAAAATAGCAAAT
1 CTTGCCTCCCTGGGTTGCAGCGA-AGCAGGTTAAAAATAGCAGAT
* ***** * ** * * * *
20459581 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* *
20459625 CTTGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATTA-CAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAA-TAGCAGAT
* *** * * ** * * * *
20459669 CTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* * *
20459713 CTTTCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* **** * ** ** * * *
20459757 CTTGCCTTCCTGCACCGACATCGAAGCATATCGAAGATACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* *
20459801 CTTGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* **** * * ** * * * *
20459845 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* *
20459889 CTTGTCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* * **** * ** * * * *
20459933 CTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
*
20459977 CTTGCCTCCCTGGGTTGCAGCGAAGTAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
*
20460021 CTTGCCTTCCTG
1 CTTGCCTCCCTG
20460033 CACCGACAGT
Statistics
Matches: 344, Mismatches: 176, Indels: 38
0.62 0.32 0.07
Matches are distributed among these distances:
42 8 0.02
43 99 0.29
44 150 0.44
45 87 0.25
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
Found at i:20460095 original size:88 final size:88
Alignment explanation
Indices: 20459401--20460065 Score: 1037
Period size: 88 Copynumber: 7.6 Consensus size: 88
20459391 GTGAAGATAA
* * *
20459401 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20459466 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
20459489 CAGATCTTGTCTTCCTGCACCGACAACGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20459554 GCAGCAGAGC-GGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
20459576 CAAATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20459641 GCAGCGGAGCAAGTTAAAAATTA-
66 GCAGCGGAGCAGGTTAAAAA-TAG
* * *
20459664 CAGATCTTGCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAGCCTTTCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20459729 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
20459752 CAGATCTTGCCTTCCTGCACCGACATCGAAGCATATCGAAGATACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20459817 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
20459840 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGTCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
20459905 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
20459928 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
20459993 GCAGCGAAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
20460016 CAGATCTTGCCTTCCTGCACCGACAGTGAAGTAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
20460066 CTATCTCCCT
Statistics
Matches: 526, Mismatches: 48, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
87 83 0.16
88 441 0.84
89 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:20460114 original size:44 final size:44
Alignment explanation
Indices: 20460065--20460186 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
20460055 TGACCCCAGC
20460065 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTAT-AAGT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAA-T
* * * *
20460109 CCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
* *
20460153 CCTATCTCCCT-GAGCAATAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAGTAGTGGAATAGGTTGAA
20460187 AATAGCAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.96
45 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
Found at i:20460799 original size:45 final size:45
Alignment explanation
Indices: 20460535--20461019 Score: 280
Period size: 44 Copynumber: 11.1 Consensus size: 45
20460525 GCAATTTAAA
* * *
20460535 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * ** * * * *
20460580 AGATTAAAG-TCAATAA-TCCTATCTCCCTGAAGTCGCAATAGAGC
1 AGACTCAAGAT-AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
20460624 GGA-TTAA-A-ATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGC
1 AGACTCAAGATAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * *
20460667 A-AATC--GCAT--CTACTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGACTCAAG-ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
20460708 AGACT-AAG-TAAGCAAGCCTTATC-CTCCTGAAGTTGTAGT-GAGGC
1 AGACTCAAGAT-AGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GC
* * *
20460752 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * ** ** * *
20460797 AGATTAAAGCCAATAA-TCCTATCTCCCTGAAGTTGCAGTGGAGT
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
20460841 GGA-TTAA-A-ATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGC
1 AGACTCAAGATAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* **
20460884 AGA-TC--G-TATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * *
20460925 AGACCCAAGAAAGCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * *
20460970 AGACTCAAGAAATCAAGTCTTATCCCCCTGAAATTTCAGTGGGGC
1 AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
20461015 AGACT
1 AGACT
20461020 AAATAAACAA
Statistics
Matches: 341, Mismatches: 67, Indels: 64
0.72 0.14 0.14
Matches are distributed among these distances:
40 42 0.12
41 19 0.06
42 10 0.03
43 23 0.07
44 122 0.36
45 121 0.35
46 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
AGACTCAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:20460862 original size:133 final size:127
Alignment explanation
Indices: 20460683--20460980 Score: 291
Period size: 133 Copynumber: 2.3 Consensus size: 127
20460673 CATCTACTCT
* *
20460683 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGCCTTATC-CTCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGCCTTATCTCT-CTGAAGTTGCAGA
20460747 GAGGCAGA-CTGAAGAT-GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
64 GA-GCAGATC-G--GATCGG---ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
20460810 TAATCC
122 TAATCC
** * * *
20460816 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AATCACAGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG-CCTTATCTCTCTGAAGTTGCAGA
* * *** * * *
20460880 GAGCAGATCGTATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAG-AAAGCGAGTC
64 GAGCAGATCGGATCGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA--TAATC
*
20460944 T
127 C
20460945 TATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAA
20460981 ATCAAGTCTT
Statistics
Matches: 137, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
127 2 0.01
128 34 0.25
129 30 0.22
130 4 0.03
131 8 0.06
132 8 0.06
133 49 0.36
134 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGCCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGGATCGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCC
Found at i:20460910 original size:217 final size:218
Alignment explanation
Indices: 20460535--20461069 Score: 720
Period size: 217 Copynumber: 2.5 Consensus size: 218
20460525 GCAATTTAAA
*
20460535 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCCT
* * * *
20460600 ATCTCCCTGAAGTCGCAATAGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
20460665 GCAAATCGCATCTACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAGCCTTA
131 GCAAATCGCATCGACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
*
20460729 TC-CTCCTGAAGTTGTAGT-GAGGC
196 TCTC-CCTGAAGTTGCAGTGGA-GC
*
20460752 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCCT
20460817 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * ** * *
20460882 GCAGATCGTATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAGTCTTA
131 GCAAATCGCATCGACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
20460947 TCTCCCTGAAGTTGCAGTGGAGC
196 TCTCCCTGAAGTTGCAGTGGAGC
* *** * * * * * * * *
20460970 AGACTCAAGAAATCAAGTCTTATCCCCCTGAAATTTCAGTGGGGCAGACTAAATAAACAA-ATTC
1 AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AGACAATAATC
* * *
20461034 C-ATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATC
64 CTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATC
20461070 TCTCTGAAAT
Statistics
Matches: 282, Mismatches: 31, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
217 166 0.59
218 102 0.36
219 10 0.04
220 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (218 bp):
AGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCCT
ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAAATCGCATCGACTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
TCTCCCTGAAGTTGCAGTGGAGC
Found at i:20460912 original size:40 final size:44
Alignment explanation
Indices: 20460896--20461018 Score: 165
Period size: 45 Copynumber: 2.8 Consensus size: 44
20460886 ATCGTATCGG
20460896 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCC-AGAAAGCGA
* * *
20460941 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-CCAGAAAGCGA
* * * *
20460986 GTCTTATCCCCCTGAAATTTCAGTGGGGCAGAC
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
20461019 TAAATAAACA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAGAAAGCGA
Found at i:20461594 original size:19 final size:19
Alignment explanation
Indices: 20461570--20461722 Score: 234
Period size: 19 Copynumber: 7.8 Consensus size: 19
20461560 AATCTTCAAG
20461570 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
20461589 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
20461608 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
20461627 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
20461646 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
20461665 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
20461684 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
20461706 GATCTTGTAATCTTAGA
1 GAT-ATGTAATCTTAGA
20461723 GATTTAATTT
Statistics
Matches: 123, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
19 103 0.84
20 3 0.02
22 9 0.07
23 8 0.07
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:20461950 original size:23 final size:23
Alignment explanation
Indices: 20461906--20461950 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20461896 TCTTATTTTG
* *
20461906 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20461929 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20461951 CAAATCTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20465479 original size:27 final size:27
Alignment explanation
Indices: 20465443--20465498 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
20465433 TAAGCTGAAC
* * *
20465443 AAACACATATGTGAACTCAGTTTGCCA
1 AAACACATATGCGAACACAGTTCGCCA
20465470 AAACACATATGCGAACACAGTTCGCCA
1 AAACACATATGCGAACACAGTTCGCCA
20465497 AA
1 AA
20465499 CATAACTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (27 bp):
AAACACATATGCGAACACAGTTCGCCA
Found at i:20466862 original size:14 final size:14
Alignment explanation
Indices: 20466843--20466872 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
20466833 AGCATTTATC
20466843 AAAAAAATTAT-AT
1 AAAAAAATTATAAT
20466856 AAAAAAATTATAAT
1 AAAAAAATTATAAT
20466870 AAA
1 AAA
20466873 CCATTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAAATTATAAT
Found at i:20473011 original size:43 final size:43
Alignment explanation
Indices: 20472955--20473268 Score: 448
Period size: 43 Copynumber: 7.3 Consensus size: 43
20472945 TTTTATAACT
* *
20472955 AAACGTCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
20472998 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
20473041 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTGTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
20473084 AAACGCCGCTGAAGACCATGACCTTTAACAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
20473127 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
20473170 AAATGCCGCTGAAGACTATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
20473213 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
20473256 AAACGCCGCTAAA
1 AAACGCCGCTAAA
20473269 AGTACAATTC
Statistics
Matches: 238, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 238 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:20475036 original size:15 final size:15
Alignment explanation
Indices: 20475016--20475045 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20475006 TTCCTGCAAT
20475016 TTTAAAACAATAAAA
1 TTTAAAACAATAAAA
*
20475031 TTTAAAAGAATAAAA
1 TTTAAAACAATAAAA
20475046 AAACAAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
TTTAAAACAATAAAA
Found at i:20476339 original size:24 final size:24
Alignment explanation
Indices: 20476307--20476366 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
20476297 CGTTGAAGGC
20476307 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
20476331 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
20476355 AG-AATAGATAAC
1 AGAAATAGATAAC
20476367 GGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:20477770 original size:38 final size:38
Alignment explanation
Indices: 20477722--20477797 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
20477712 CGTTTTTTAT
* *
20477722 AAAAACGCCGCTAAATGTTTTGTTATATAAAATGACTA
1 AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTA
20477760 AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTA
1 AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTA
20477798 TTTTTTAAAG
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:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (38 bp):
AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTA
Found at i:20477778 original size:114 final size:114
Alignment explanation
Indices: 20477656--20477869 Score: 401
Period size: 114 Copynumber: 1.9 Consensus size: 114
20477646 AAAAATGTCA
* *
20477656 CTAAATGTTTTGCTATATAAAATGATTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTA
1 CTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCATTTTTTA
*
20477721 TAAAAACGCCGCTAAATGTTTTGTTATATAAAATGACTAAAAAAAGCCG
66 TAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAAAAAAAGCCG
20477770 CTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCATTTTTTA
1 CTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCATTTTTTA
20477835 TAAAAACGCCGCTAAATGTTTTGCTATATAAAATG
66 TAAAAACGCCGCTAAATGTTTTGCTATATAAAATG
20477870 GCTATTTTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (114 bp):
CTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCATTTTTTA
TAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAAAAAAAGCCG
Found at i:20477834 original size:190 final size:191
Alignment explanation
Indices: 20477617--20478031 Score: 577
Period size: 190 Copynumber: 2.2 Consensus size: 191
20477607 TATTTTTTTA
* * * *
20477617 TAAAATTATTTTTTTGTGGCGTTTTTTATAAAAATGTCACTAAATGTTTTGCTATATAAAATGAT
1 TAAAATTA-TTTTTTGTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGAC
***
20477682 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATG-TTTTGTT
65 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT-AATGCTTACCTT
* *
20477746 ATATAAAATGACTA-AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAG
129 ATACAAAATGACTATAAAAAAGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAG
* *
20477808 TAAAATTATTTTTTGTGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCT
1 TAAAATTATTTTTTGTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACT
* *
20477873 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTT
66 ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAATGCTTACCTTAT
* **** *** *
20477938 GCGGCGTTTTTATAAAAACGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAG
131 ACAAAATGACTATAAAAAAGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAG
20477999 T-AAATTA-TTTTTGTGGCATTTTTTTATAAAAAC
1 TAAAATTATTTTTTGTGGCA-TTTTTTATAAAAAC
20478032 ACCGCTATTG
Statistics
Matches: 199, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
189 14 0.07
190 130 0.65
191 55 0.28
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (191 bp):
TAAAATTATTTTTTGTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACT
ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAATGCTTACCTTAT
ACAAAATGACTATAAAAAAGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAG
Found at i:20477846 original size:76 final size:76
Alignment explanation
Indices: 20477760--20477924 Score: 303
Period size: 76 Copynumber: 2.2 Consensus size: 76
20477750 AAAATGACTA
*
20477760 AAAAAAGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTG
1 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTG
20477825 GCATTTTTTAT
66 GCATTTTTTAT
*
20477836 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATTTTTTGTG
1 AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTG
*
20477901 GCGTTTTTTAT
66 GCATTTTTTAT
20477912 AAAAACGCCGCTA
1 AAAAACGCCGCTA
20477925 TTGCTTACCT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 86 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (76 bp):
AAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTG
GCATTTTTTAT
Found at i:20478087 original size:230 final size:234
Alignment explanation
Indices: 20477818--20478255 Score: 758
Period size: 230 Copynumber: 1.9 Consensus size: 234
20477808 TAAAATTATT
* *
20477818 TTTTGTGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
1 TTTTGCGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
20477883 GTAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCGGCG-TT
66 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCACTATTGCTTACCTTTTGCGGCGTTT
*
20477946 TTTATAAAAACGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGT-AAATTA-TTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
20478009 TTGTGGCATTTTTTTATAAAAACACCGCTATTGCTTACC
196 TTGTGGCATTTTTTTATAAAAACACCGCTATTGCTTACC
* *
20478048 TTTTGCGGCGTTTTTTATGAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
20478113 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCACTATTGCTTACCTTTTGCGGCGTTT
66 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCACTATTGCTTACCTTTTGCGGCGTTT
* **
20478178 TTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGTTATTTTTTAAAGTAAAATTATTTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
*
20478243 TTGTGGCGTTTTT
196 TTGTGGCATTTTT
20478256 ATAAAACGCT
Statistics
Matches: 194, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
230 82 0.42
231 39 0.20
232 52 0.27
233 6 0.03
234 15 0.08
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.45
Consensus pattern (234 bp):
TTTTGCGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCACTATTGCTTACCTTTTGCGGCGTTT
TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
TTGTGGCATTTTTTTATAAAAACACCGCTATTGCTTACC
Found at i:20478182 original size:117 final size:117
Alignment explanation
Indices: 20477818--20478255 Score: 749
Period size: 117 Copynumber: 3.8 Consensus size: 117
20477808 TAAAATTATT
* * *
20477818 TTTTGTGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
20477883 GTAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTTACC
*
20477934 TTTTGCGGCG-TTTTTATAAAAACGCCGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
* *
20477998 GT-AAATTA-TTTTTGTGGCATTTTTTTATAAAAACACCGCTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTTACC
*
20478048 TTTTGCGGCGTTTTTTATGAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
20478113 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCACTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTTACC
* **
20478165 TTTTGCGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGTTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
20478230 GTAAAATTATTTTTTGTGGCGTTTTT
66 GTAAAATTATTTTTTGTGGCGTTTTT
20478256 ATAAAACGCT
Statistics
Matches: 303, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
113 10 0.03
114 45 0.15
115 108 0.36
116 14 0.05
117 126 0.42
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.45
Consensus pattern (117 bp):
TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTTACC
Found at i:20478278 original size:74 final size:69
Alignment explanation
Indices: 20478165--20478323 Score: 196
Period size: 68 Copynumber: 2.2 Consensus size: 69
20478155 ATTGCTTACC
* *
20478165 TTTTGCGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATG-GTTATTTTTTAA
1 TTTTGTGGCG-TTTTTATAAAAACGCCACTAAATGTTTTGC----T---ATGCGCTATTTTTTAA
20478229 AGTAAAATTATT
58 AGTAAAATTATT
**
20478241 TTTTGTGGCGTTTTTAT-AAAACGCTGCTAAATGTTTTGCTATGCGCTATTTTTTAAAGTAAAAT
1 TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATGCGCTATTTTTTAAAGTAAAAT
20478305 TATT
66 TATT
20478309 TTTTGTGGCGTTTTT
1 TTTTGTGGCGTTTTT
20478324 CTTGAAAACG
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
67 3 0.04
68 38 0.49
70 1 0.01
74 20 0.26
75 7 0.09
76 9 0.12
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (69 bp):
TTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATGCGCTATTTTTTAAAGTAAAAT
TATT
Found at i:20478813 original size:16 final size:17
Alignment explanation
Indices: 20478783--20478816 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
20478773 ATCCGTATCA
20478783 ATTTATTATATTTTTTT
1 ATTTATTATATTTTTTT
20478800 ATTTATTA-ATTTTTTT
1 ATTTATTATATTTTTTT
20478816 A
1 A
20478817 AATCTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTATTATATTTTTTT
Found at i:20479458 original size:7 final size:7
Alignment explanation
Indices: 20479415--20479469 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
20479405 AACTCTAAAT
20479415 CCTTAAC
1 CCTTAAC
*
20479422 TCTTAA-
1 CCTTAAC
20479428 CCTCTAAC
1 CCT-TAAC
20479436 CCTTAA-
1 CCTTAAC
20479442 CCTCTAAC
1 CCT-TAAC
20479450 CCTTAAC
1 CCTTAAC
* *
20479457 CCATAAA
1 CCTTAAC
20479464 CCTTAA
1 CCTTAA
20479470 ATCACAGCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
6 5 0.13
7 28 0.72
8 6 0.15
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTTAAC
Found at i:20479469 original size:14 final size:14
Alignment explanation
Indices: 20479418--20479457 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
20479408 TCTAAATCCT
*
20479418 TAACTCTTAACCTC
1 TAACCCTTAACCTC
20479432 TAACCCTTAACCTC
1 TAACCCTTAACCTC
20479446 TAACCCTTAACC
1 TAACCCTTAACC
20479458 CATAAACCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACCCTTAACCTC
Found at i:20479510 original size:14 final size:15
Alignment explanation
Indices: 20479491--20479521 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20479481 TAAATCAAAG
20479491 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
20479505 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
20479520 TC
1 TC
20479522 TATAAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:20479943 original size:41 final size:41
Alignment explanation
Indices: 20479898--20480055 Score: 210
Period size: 41 Copynumber: 3.9 Consensus size: 41
20479888 AAATATTTTT
* ** *
20479898 GCGGCGCTTTTTTAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
20479939 GCGGCGC-TTTTTAAAAACTCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
20479979 GCGGCGCTTTTTCAAAAACGTCGCTAAAGATATGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
*
20480020 GCGGCGTTTTTTTTAAAAACGCCGCTAAAGATCTGA
1 GCGGCG-CTTTTTTAAAAACGCCGCTAAAGATCTGA
20480056 AAGGTAGAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
40 34 0.34
41 41 0.41
42 25 0.25
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:20479962 original size:40 final size:40
Alignment explanation
Indices: 20479898--20480055 Score: 185
Period size: 40 Copynumber: 3.9 Consensus size: 40
20479888 AAATATTTTT
** *
20479898 GCGGCGCTTTTTTAAAAA-TGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGC-TTTTTAAAAACT-CCGCTAAAGATCTGAGCATTA
*
20479939 GCGGCGCTTTTTAAAAACTCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTAAAAACTCCGCTAAAGATCTGAGCATTA
*
20479979 GCGGCGCTTTTTCAAAAACGT-CGCTAAAGATATGAGCATTA
1 GCGGCGCTTTTT-AAAAAC-TCCGCTAAAGATCTGAGCATTA
* *
20480020 GCGGCGTTTTTTTTAAAAACGCCGCTAAAGATCTGA
1 GCGGCG--CTTTTTAAAAACTCCGCTAAAGATCTGA
20480056 AAGGTAGAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
40 39 0.38
41 38 0.37
42 20 0.20
43 5 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (40 bp):
GCGGCGCTTTTTAAAAACTCCGCTAAAGATCTGAGCATTA
Found at i:20483159 original size:407 final size:407
Alignment explanation
Indices: 20482396--20483218 Score: 1567
Period size: 407 Copynumber: 2.0 Consensus size: 407
20482386 GATACATAAA
*
20482396 TAAA-TTATATTAATACTTCTTGGCCTTCACTTTTTATAAAATAAATATATTATAATAATTTTAT
1 TAAATTTA-ATTAATACTTCTTGGCCTTAACTTTTTATAAAATAAATATATTATAATAATTTTAT
20482460 AACATGTAAACTGTTTTTGCAATAAACTTTTAGCTATAACTTTAAAAAAATTAGGATTTAAATAA
65 AACATGTAAACTGTTTTTGCAATAAACTTTTAGCTATAACTTTAAAAAAATTAGGATTTAAATAA
20482525 TATAACTCTTTATTATAATTTTATAAAATACATATAAGTTATTTTATAATATATATTTTTAAAAT
130 TATAACTCTTTATTATAATTTTATAAAATACATATAAGTTATTTTATAATATATATTTTTAAAAT
20482590 TTATAATATAAAATTTTTTGGCTACAACCATCCTAAACACTCATACGTGTTTATATTTATAATAT
195 TTATAATATAAAATTTTTTGGCTACAACCATCCTAAACACTCATACGTGTTTATATTTATAATAT
**
20482655 AAAAAATTAGGGAGGGATCCACTTACACAGTATAAAAAATAAAGTAGTTTTGTGCACACCTGTAA
260 AAAAAATTAGGGAGGGATCCACTTACACAGTATAAAAAATAAAGTAGTTTTGCACACACCTGTAA
20482720 CTATTTATATGATTAATATTTTAACGATCCAACCATTATATTTCATGGTCTATTCATGTATATCA
325 CTATTTATATGATTAATATTTTAACGATCCAACCATTATATTTCATGGTCTATTCATGTATATCA
20482785 TGCATGTCAAATTTGATG
390 TGCATGTCAAATTTGATG
*
20482803 TAAATTTAATTAATACTTCTTGGCCTTAACTTTTTATAAAATAAATATTTTATAATAATTTTATA
1 TAAATTTAATTAATACTTCTTGGCCTTAACTTTTTATAAAATAAATATATTATAATAATTTTATA
20482868 ACATGTAAACTGTTTTTGCAATAAACTTTTAGCTATAACTTTAAAAAAATTAGGATTTAAATAAT
66 ACATGTAAACTGTTTTTGCAATAAACTTTTAGCTATAACTTTAAAAAAATTAGGATTTAAATAAT
* *
20482933 ATGACTCTTTATTATAATTTTATAAAATACATATAAGTTATTTTATAATATATATTTTTAAGATT
131 ATAACTCTTTATTATAATTTTATAAAATACATATAAGTTATTTTATAATATATATTTTTAAAATT
*
20482998 TATAATATAAAATTTTTTGGCTACAACCATCCTAAATACTCATACGTGTTTATATTTATAATATA
196 TATAATATAAAATTTTTTGGCTACAACCATCCTAAACACTCATACGTGTTTATATTTATAATATA
20483063 AAAAATTAGGGAGGGATCCACTTACACAGTATAAAAAATAAAGTAGTTTTGCACACACCTGTAAC
261 AAAAATTAGGGAGGGATCCACTTACACAGTATAAAAAATAAAGTAGTTTTGCACACACCTGTAAC
20483128 TATTTATATGATTAATATTTTAACGATCCAACCATTATATTTCATGGTCTATTCATGTATATCAT
326 TATTTATATGATTAATATTTTAACGATCCAACCATTATATTTCATGGTCTATTCATGTATATCAT
20483193 GCATGTCAAATTTGATG
391 GCATGTCAAATTTGATG
20483210 TAAATTTAA
1 TAAATTTAA
20483219 AACTTTAATT
Statistics
Matches: 408, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
407 405 0.99
408 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (407 bp):
TAAATTTAATTAATACTTCTTGGCCTTAACTTTTTATAAAATAAATATATTATAATAATTTTATA
ACATGTAAACTGTTTTTGCAATAAACTTTTAGCTATAACTTTAAAAAAATTAGGATTTAAATAAT
ATAACTCTTTATTATAATTTTATAAAATACATATAAGTTATTTTATAATATATATTTTTAAAATT
TATAATATAAAATTTTTTGGCTACAACCATCCTAAACACTCATACGTGTTTATATTTATAATATA
AAAAATTAGGGAGGGATCCACTTACACAGTATAAAAAATAAAGTAGTTTTGCACACACCTGTAAC
TATTTATATGATTAATATTTTAACGATCCAACCATTATATTTCATGGTCTATTCATGTATATCAT
GCATGTCAAATTTGATG
Found at i:20491963 original size:4 final size:4
Alignment explanation
Indices: 20491954--20492009 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
20491944 CAAACCAACT
20491954 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
20492002 CATA CATA
1 CATA CATA
20492010 TATAATGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:20494519 original size:20 final size:21
Alignment explanation
Indices: 20494494--20494535 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20494484 GATTCTTTTT
* *
20494494 ATAAAAT-ATTATATTTTTAA
1 ATAAAATAATCATATTTATAA
20494514 ATAAAATAATCATATTTATAA
1 ATAAAATAATCATATTTATAA
20494535 A
1 A
20494536 ATTTTAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAAATAATCATATTTATAA
Found at i:20494823 original size:12 final size:12
Alignment explanation
Indices: 20494806--20494832 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20494796 AATCATTCGC
20494806 TAAAATAAATAA
1 TAAAATAAATAA
20494818 TAAAATAAATAA
1 TAAAATAAATAA
20494830 TAA
1 TAA
20494833 TTAATTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:20496180 original size:15 final size:15
Alignment explanation
Indices: 20496156--20496189 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20496146 ATATTTTAAA
*
20496156 AAAAGGGAATAAAAT
1 AAAAGCGAATAAAAT
*
20496171 AAAAGCGAATAACAT
1 AAAAGCGAATAAAAT
20496186 AAAA
1 AAAA
20496190 TTAGTACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.12
Consensus pattern (15 bp):
AAAAGCGAATAAAAT
Found at i:20496457 original size:15 final size:15
Alignment explanation
Indices: 20496437--20496466 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20496427 AAGTTAATTA
20496437 TATATATATATACAC
1 TATATATATATACAC
20496452 TATATATATATACAC
1 TATATATATATACAC
20496467 GTGAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
TATATATATATACAC
Found at i:20498428 original size:131 final size:132
Alignment explanation
Indices: 20498269--20498612 Score: 492
Period size: 132 Copynumber: 2.6 Consensus size: 132
20498259 AGATTCATCG
* * *
20498269 TCTTCGATCTGTGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATTTTCAACCTATTCCACTG
1 TCTTCGATC--TGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTG
* *
20498334 CCAACCA-GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT
64 CCAACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCT
20498398 ACCA
129 ACCA
* * *
20498402 TCTTCGGTCTGCTCCACTACTACTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
* * * *
20498467 AACTAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCTCGGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTAC
20498532 CA
131 CA
* ** * **
20498534 TCTTCGATCTGCTCCACTATTGTTTAGGGAGACAAGATCTGTAATCTTCAACCTATTCCACTGTT
1 TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
*
20498599 GACCAGGGAGATAG
66 AACCAGGGAGATAG
20498613 GATTTGTGGC
Statistics
Matches: 187, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
131 55 0.29
132 124 0.66
133 8 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCC
AACCAGGGAGATAGAATTACTAGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTAC
CA
Found at i:20498507 original size:43 final size:44
Alignment explanation
Indices: 20498317--20498507 Score: 119
Period size: 44 Copynumber: 4.4 Consensus size: 44
20498307 ATTTGTAATT
* * * *
20498317 TTCAACCTATTCCACTGCCAACCA-GGAGATAGAAT-TACTGGC
1 TTCAATCTACTCCACTGCCAACTAGGGAGATAGAATCTACTAGC
* * * * *
20498359 TTCAATGTACTCCACTGTAACC-AC-AGGGAGGTAAAATCTACCATC
1 TTCAATCTACTCCACTG---CCAACTAGGGAGATAGAATCTACTAGC
** * * * *
20498404 TTCGGTCTGCTCCACT-ACTACTTAGGGAGATA-AGATCTA-TAATC
1 TTCAATCTACTCCACTGCCAAC-TAGGGAGATAGA-ATCTACT-AGC
*
20498448 TTCAATCTATTCCACTGCCAACTAGGGAGATAGAAT-TACTAGC
1 TTCAATCTACTCCACTGCCAACTAGGGAGATAGAATCTACTAGC
*
20498491 TTCAATATACTCCACTG
1 TTCAATCTACTCCACTG
20498508 TAACCTCGGG
Statistics
Matches: 112, Mismatches: 24, Indels: 25
0.70 0.15 0.16
Matches are distributed among these distances:
41 1 0.01
42 16 0.14
43 21 0.19
44 52 0.46
45 22 0.20
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCCAACTAGGGAGATAGAATCTACTAGC
Found at i:20498706 original size:128 final size:128
Alignment explanation
Indices: 20498534--20499131 Score: 921
Period size: 128 Copynumber: 4.7 Consensus size: 128
20498524 AAATCTGCCA
* * * *
20498534 TCTTCGATCTGCTCCACTATTGTTTAGGGAGACAAGATCTGTAATCTT-CAACCTATTCCACTGT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-TTCCAACCTATTCCACTGC
* * *
20498598 TGACCAGGGAGATAGGATTTGTGGCTTAAATTTGATTCCTTACTCTTGAAGATAAGATTCGCCG
65 TGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
* * * *
20498662 TCTTCGATCTGCTCTGCTACTGCTTAGAGAGACAAGATCTGTAATTTCCAACCCATTTCACTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * * *
20498727 GACCAGGGATATAGGACTTGTGACTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCTCTG
66 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
* *
20498790 TCTTCGATTTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* *
20498855 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACCCTTGAAGATAAGA-TCAACCG
66 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTC-GCCG
* *
20498918 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCAATCTATTCCACTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * *
20498983 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCTTTACTCTTGAAAATAAGATTCGCCA
66 GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
* * *
20499046 TCTTCGATCTGCTCTGCTACTGATTATGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
20499111 GACCAGGGAGATAGGACTTGT
66 GACCAGGGAGATAGGACTTGT
20499132 TTTCGATCTG
Statistics
Matches: 427, Mismatches: 40, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
127 4 0.01
128 421 0.99
129 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (128 bp):
TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCT
GACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCG
Found at i:20500446 original size:7 final size:7
Alignment explanation
Indices: 20500426--20500472 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
20500416 TTAGCCTCTC
20500426 CATTTTT
1 CATTTTT
*
20500433 ACTTTTTT
1 -CATTTTT
20500441 CATTTTTT
1 CA-TTTTT
20500449 CATTTTT
1 CATTTTT
20500456 CA-TTTT
1 CATTTTT
20500462 CATTTTT
1 CATTTTT
20500469 CATT
1 CATT
20500473 CATTTTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 6 0.17
7 16 0.46
8 13 0.37
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:20500446 original size:15 final size:15
Alignment explanation
Indices: 20500426--20500472 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
20500416 TTAGCCTCTC
*
20500426 CATTTTTACTTTTTT
1 CATTTTTACATTTTT
*
20500441 CATTTTTTCATTTTT
1 CATTTTTACATTTTT
20500456 CA-TTTT-CATTTTT
1 CATTTTTACATTTTT
20500469 CATT
1 CATT
20500473 CATTTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.31
14 5 0.17
15 15 0.52
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (15 bp):
CATTTTTACATTTTT
Found at i:20500463 original size:13 final size:13
Alignment explanation
Indices: 20500445--20500472 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20500435 TTTTTTCATT
20500445 TTTTCATTTTTCA
1 TTTTCATTTTTCA
20500458 TTTTCATTTTTCA
1 TTTTCATTTTTCA
20500471 TT
1 TT
20500473 CATTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:20501444 original size:12 final size:12
Alignment explanation
Indices: 20501429--20501463 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
20501419 TTTCTTCTTT
20501429 TTTTGTTTTTGA
1 TTTTGTTTTTGA
20501441 TTTTGTTTTTGA
1 TTTTGTTTTTGA
20501453 TTTT-TTTTTGA
1 TTTTGTTTTTGA
20501464 ATTGGATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (12 bp):
TTTTGTTTTTGA
Found at i:20507622 original size:16 final size:17
Alignment explanation
Indices: 20507590--20507622 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20507580 ATAATTAATT
20507590 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
20507607 TTAAAATTTT-AATATA
1 TTAAAATTTTAAATATA
20507623 CTTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:20517762 original size:56 final size:57
Alignment explanation
Indices: 20517676--20517789 Score: 176
Period size: 56 Copynumber: 2.0 Consensus size: 57
20517666 GAAGAATTCC
* * *
20517676 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAATA-AATAAAATCTGATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
**
20517732 TATAACCAAGGATTGACTCCGTCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
20517789 T
1 T
20517790 TGTCTCAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
56 34 0.65
57 18 0.35
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (57 bp):
TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
Found at i:20520495 original size:13 final size:13
Alignment explanation
Indices: 20520477--20520501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20520467 TAGGGAGGGA
20520477 AAAAAGAAAGAAC
1 AAAAAGAAAGAAC
20520490 AAAAAGAAAGAA
1 AAAAAGAAAGAA
20520502 AGTAAACATA
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:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAC
Found at i:20523825 original size:28 final size:28
Alignment explanation
Indices: 20523760--20523869 Score: 175
Period size: 28 Copynumber: 3.9 Consensus size: 28
20523750 GAGATTGGCG
* * * *
20523760 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
20523789 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20523817 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20523845 CTAAGTGTGCGAGTTTGATTATATA
1 CTAAGTGTGCGAGTTTGATTATATA
20523870 TGTGACAGCC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 62 0.81
29 15 0.19
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20525541 original size:40 final size:40
Alignment explanation
Indices: 20525457--20525639 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
20525447 TTGAATGCTG
* * * *
20525457 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
20525496 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
20525537 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
20525577 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
20525617 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20525640 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.81
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:20525594 original size:80 final size:81
Alignment explanation
Indices: 20525457--20525636 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
20525447 TTGAATGCTG
* * *
20525457 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
20525521 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
20525537 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
20525598 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
20525617 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
20525637 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 12 0.14
80 67 0.76
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:20533448 original size:40 final size:40
Alignment explanation
Indices: 20533364--20533515 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
20533354 TTGAATGCTG
* *
20533364 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * * *
20533403 ATCCGGACTAAGAT-CCGAAGGTATTTGTGTGAGTTATTAAT
1 -TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
** *
20533444 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
** *
20533484 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAG
20533516 TTTTAAAATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20533501 original size:80 final size:81
Alignment explanation
Indices: 20533364--20533544 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 81
20533354 TTGAATGCTG
* * *
20533364 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* * *
20533428 TGTGTGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
20533444 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
20533505 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
20533524 TCCGGGTTAAGTCCTGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
20533545 ATTGAATGAG
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 4 0.05
80 74 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:20533528 original size:40 final size:39
Alignment explanation
Indices: 20533417--20533547 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
20533407 GGACTAAGAT
* *
20533417 CCGAAGGTATTTGTGTGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTT-TTAATTCCGGGTTAAGTC
* **
20533457 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TTTTAATTCCGGGTTAAGTC
* *
20533497 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTTT-AATTCCGGGTTAAGTC
*
20533537 CTGAAGGCATT
1 CCGAAGGCATT
20533548 GAATGAGTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.03
40 75 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTTTAATTCCGGGTTAAGTC
Found at i:20533568 original size:39 final size:39
Alignment explanation
Indices: 20533444--20533594 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
20533434 AGTTATTAAT
* ** * *
20533444 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACT-AAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
20533484 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* * *
20533524 TCCGGGTTAAGTCCTGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
20533564 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
20533595 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:20534407 original size:22 final size:22
Alignment explanation
Indices: 20534379--20534423 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20534369 GGTGATGAAA
20534379 AAAAAAAAGGAATAATGGTCTC
1 AAAAAAAAGGAATAATGGTCTC
20534401 AAAAAAAAGGAATAATGGTCTC
1 AAAAAAAAGGAATAATGGTCTC
20534423 A
1 A
20534424 TGCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAAAAAAGGAATAATGGTCTC
Found at i:20536282 original size:27 final size:27
Alignment explanation
Indices: 20536248--20536449 Score: 232
Period size: 27 Copynumber: 7.6 Consensus size: 27
20536238 TAAATTGTAC
20536248 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
20536275 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
20536302 TGCACT-AGTGTGCGA-ATGA-TATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20536325 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20536353 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20536381 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20536408 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20536435 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20536450 GACTCAATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
24 9 0.06
25 12 0.08
26 12 0.08
27 96 0.63
28 23 0.15
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20538817 original size:27 final size:27
Alignment explanation
Indices: 20538761--20538819 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
20538751 GGGTGTTACA
* *
20538761 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGACTTGAAT
* *
20538788 ATATAGCATTGAGTGTGCGGACTT-AAT
1 ATATAGCACTAAGTGTGC-GACTTGAAT
20538815 ATATA
1 ATATA
20538820 CTTTTGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGACTTGAAT
Found at i:20548229 original size:51 final size:51
Alignment explanation
Indices: 20548153--20548340 Score: 211
Period size: 51 Copynumber: 3.7 Consensus size: 51
20548143 TGCCTATAAA
* *
20548153 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-GATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGA-AGGAT-ATGGT
* * *
20548204 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGATATGGT
* * * * * * * *
20548255 CACATGTGTAGGACTATGTCCAGGCTACTACGTGAACCAGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGATATGGT
*
20548305 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTA
20548341 TCGAATGATA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
50 35 0.30
51 78 0.67
52 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAAGGATATGGT
Found at i:20549915 original size:79 final size:79
Alignment explanation
Indices: 20549784--20549942 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
20549774 AATGTTTAAA
*
20549784 ATGTGTCATATCTTTACTGAAAGATGCAACATATCATTGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCAATGGTGGATAACATTAGTATCTGTGGTTC
20549849 CGAAAGAAAGGGTT
66 CGAAAGAAAGGGTT
20549863 ATGTGTCATATCTTTACTGAAAGATGCAACATATCAATGGTGGATAACATTAGTATCTGTGGTTC
1 ATGTGTCATATCTTTACTGAAAGATGCAACATATCAATGGTGGATAACATTAGTATCTGTGGTTC
20549928 CGAAAGAAAGGGTT
66 CGAAAGAAAGGGTT
20549942 A
1 A
20549943 CATGGGATTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (79 bp):
ATGTGTCATATCTTTACTGAAAGATGCAACATATCAATGGTGGATAACATTAGTATCTGTGGTTC
CGAAAGAAAGGGTT
Found at i:20555532 original size:51 final size:51
Alignment explanation
Indices: 20555456--20555643 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 51
20555446 TGCCTATAAA
* *
20555456 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGAT-ATGGT
* * * * *
20555507 CACGTGTGTTGTACTATGTGCAGGCTACTATGTGTACCGGA-AGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-GATATGGT
* * * * * * *
20555558 CACATGTGTAGGACTATGTCCAGGCTACTACGTGAACCAGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATATGGT
*
20555608 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
20555644 TCGAATAATA
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 36 0.31
51 74 0.64
52 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGATATGGT
Found at i:20559889 original size:3 final size:3
Alignment explanation
Indices: 20559881--20559905 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20559871 TCCTAAATTC
20559881 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
20559906 ACTCTTCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:20561272 original size:17 final size:17
Alignment explanation
Indices: 20561236--20561296 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
20561226 ATAAAAGGAG
*
20561236 ATTTGGAGGTTTTAAGA
1 ATTTAGAGGTTTTAAGA
*
20561253 ATTTTGAGGTTTT-AGAA
1 ATTTAGAGGTTTTAAG-A
20561270 ATTTAGAGGATTTTTAGAGA
1 ATTTAGAGG--TTTTA-AGA
20561290 A-TTAGAG
1 ATTTAGAG
20561297 TTTAAAGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 10 0.27
20 2 0.05
21 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (17 bp):
ATTTAGAGGTTTTAAGA
Found at i:20561715 original size:13 final size:15
Alignment explanation
Indices: 20561697--20561728 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
20561687 TTTAAAGAAA
20561697 TTTAAAT-ATCAA-T
1 TTTAAATAATCAAGT
20561710 TTTAAATAATCAAGT
1 TTTAAATAATCAAGT
20561725 TTTA
1 TTTA
20561729 CTACTGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 5 0.29
15 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTAAATAATCAAGT
Found at i:20564487 original size:31 final size:31
Alignment explanation
Indices: 20564439--20564499 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
20564429 ACCAACTGCC
* * *
20564439 GTGTTAGGTTTTCTTGCTTAATTAACTAGTT
1 GTGTCAGGTTTTATTGCTCAATTAACTAGTT
20564470 GTGTCAGGTTTTATTGCTCAATTAACTAGT
1 GTGTCAGGTTTTATTGCTCAATTAACTAGT
20564500 CAATACCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (31 bp):
GTGTCAGGTTTTATTGCTCAATTAACTAGTT
Found at i:20569502 original size:67 final size:67
Alignment explanation
Indices: 20569430--20569588 Score: 246
Period size: 67 Copynumber: 2.4 Consensus size: 67
20569420 CCATATACTA
* *
20569430 CCATAGTCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGCAGAATCTATTGGT
1 CCATAGCCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGAATCTATTGGT
20569495 TG
66 TG
* * *
20569497 CCATAGCCGAGCTATGGTCTTTCACATCATGCCTAATGTTTAATGTCCTGGAAGACTCTATTGGT
1 CCATAGCCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGAATCTATTGGT
20569562 TG
66 TG
* * *
20569564 CCAAAGCCGATCTATAGTCTTACAC
1 CCATAGCCGAGCTATGGTCTTACAC
20569589 CTGTAATCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 83 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (67 bp):
CCATAGCCGAGCTATGGTCTTACACATCATGCCCAATGTTTAATGTCCTGGAAGAATCTATTGGT
TG
Found at i:20571623 original size:50 final size:52
Alignment explanation
Indices: 20571495--20571734 Score: 197
Period size: 50 Copynumber: 4.7 Consensus size: 52
20571485 GATAATAACA
* ** * **
20571495 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATACACGG
* * * * * *
20571544 TACCAATGTCATATCCCAGATATGCTCTTACATGGGA-GTTCTCATAC-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATACACGG
* ** * *
20571594 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC-TCTCAT-CTCTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATACACGG
* * * *
20571644 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATATCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TCATA-C-ACGG
*
20571700 TGCCAATGCCATGTCCCAGACATGATCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
20571735 TATCTCTTTA
Statistics
Matches: 150, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 35 0.23
50 72 0.48
52 2 0.01
53 3 0.02
55 1 0.01
56 33 0.22
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATACACGG
Found at i:20579098 original size:50 final size:51
Alignment explanation
Indices: 20579020--20579210 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 51
20579010 TTTCTTGTAC
* * * * * **
20579020 TGCCAATGTCATATCCCAGATATAGTCTTACCTGGGAGTTCTCATAC-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
* * **
20579070 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
*
20579120 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A-CTC---GG
20579176 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
20579211 AATCTCTTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 79 0.66
53 3 0.03
56 36 0.30
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACTCGG
Found at i:20579148 original size:100 final size:104
Alignment explanation
Indices: 20579020--20579206 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 104
20579010 TTTCTTGTAC
* * * ** * *
20579020 TGCCAATGTCATATCCCAGATATAGTCTTACCTGGGAGTTCTCAT-A-C-C-GGTGCCCATGCCA
1 TGCCAATGCCATATCCCAGACATAGTCTTACATGGGACCTCTCATAATCTCAGATGCCAATGCCA
*
20579081 TGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGG
66 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
* *
20579120 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAATGCCATATCCCAGACATAGTCTTACATGGGACCTCTCATAATCTC-A-GATGCCAATGC
20579185 CATGTCCCAGACATGGTCTTAC
64 CATGTCCCAGACATGGTCTTAC
20579207 ATGGAATCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 1 0.01
102 1 0.01
103 1 0.01
106 30 0.42
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (104 bp):
TGCCAATGCCATATCCCAGACATAGTCTTACATGGGACCTCTCATAATCTCAGATGCCAATGCCA
TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:20581224 original size:130 final size:126
Alignment explanation
Indices: 20581072--20581304 Score: 279
Period size: 127 Copynumber: 1.8 Consensus size: 126
20581062 TCGTTTTAAT
*
20581072 TTTAAAAGGATATTCGATTATTTAGGATCAACGCGAAAAAAATCGAAGCCCAGTAAGTTAGGGCA
1 TTTAAAAGGATATTCGACTATTTAGGATCAA--CGAAAAAAATCGAA-CCCAGTAAGTTAGGGCA
* * * **
20581137 CGATTTCTCGAATTTTCTAAATACGGAATATTGCCTTTATTTTTAAAATTTTATATGTTTGGAAA
63 CAATTTCTCGAATTTCCAAAATACAAAATATTGCC-TTATTTTTAAAATTTTATATGTTTGGAAA
* * * * * * * *
20581202 TTTAAAAGGATATTTTG-CTATTTAGGTTTAACGAGAAAATTGGGACCCAGTAAGTTAGGGTACA
1 TTTAAAAGGATA-TTCGACTATTTAGGATCAACGAAAAAAATCGAACCCAGTAAGTTAGGGCACA
*
20581266 ATTTCTCGAATTTCCAAAATGCAAAATATTGCCTTATTT
65 ATTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTT
20581305 GAAATTTGTT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
126 6 0.07
127 45 0.52
128 10 0.11
130 23 0.26
131 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGACTATTTAGGATCAACGAAAAAAATCGAACCCAGTAAGTTAGGGCACAA
TTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTTTTAAAATTTTATATGTTTGGAAA
Found at i:20582502 original size:11 final size:11
Alignment explanation
Indices: 20582486--20582531 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
20582476 CAAAAGAAGG
20582486 AAAAATAAAAT
1 AAAAATAAAAT
20582497 AAAAATAAAAT
1 AAAAATAAAAT
* *
20582508 -AAGATAAGAT
1 AAAAATAAAAT
20582518 AACAAAT-AAAT
1 AA-AAATAAAAT
20582529 AAA
1 AAA
20582532 TTAAAAAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 9 0.31
11 17 0.59
12 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:20583273 original size:40 final size:41
Alignment explanation
Indices: 20583215--20583818 Score: 408
Period size: 40 Copynumber: 14.3 Consensus size: 41
20583205 ATTTCTTCCG
*
20583215 TCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
* * * ***
20583255 TCTACTCAACTACTGCTTAGGGAGATAAGACCTGTAGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
* * ** * *
20583298 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCCTTTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TTGC---GA
* *
20583342 TCTGCTCCACTACTGCTTAGGGAGATAAGAC-TCGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
***
20583382 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
** * ** * *
20583425 TCCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTCTCTCG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACTTGG--T-T-GCGA
*
20583469 TCTGCTCCACAACTGCTTAGGGAGATAAGACTT-GTTGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
***
20583509 TCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
* * ** * * *
20583552 TCTACTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTCTCA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TT-GC-GA
*
20583596 TCTTCTCCACTACTGCTTAGGGAGATAAGACTT-GTTGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
* ***
20583636 TTTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
* ** * * *
20583679 TCTGCTCCACTGCAACTTCAGGGAGTTAGGA-TTGGTTTCCTTTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGG-TTGC---GA
20583723 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAG--GCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTG-GTTGCGA
*
20583763 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT-CTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTGCGA
20583805 TCTGCTCCACTACT
1 TCTGCTCCACTACT
20583819 TCAGGAAAGT
Statistics
Matches: 436, Mismatches: 85, Indels: 84
0.72 0.14 0.14
Matches are distributed among these distances:
39 4 0.01
40 147 0.34
41 23 0.05
42 36 0.08
43 117 0.27
44 107 0.25
45 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTGCGA
Found at i:20583394 original size:127 final size:126
Alignment explanation
Indices: 20583162--20583815 Score: 1040
Period size: 127 Copynumber: 5.2 Consensus size: 126
20583152 GGATTAGATT
* * *
20583162 TGGTTTTAATCTGCTCCACTGCAAATTTAGGGAGATAGGATTGATTTCTTCCGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-CGTCTGCTCCACTA
* *
20583227 CTGCTTAGGGAGATAAGACTTGATGCGATCTACTCAACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* * *
20583289 TAGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
*
20583354 CTGCTTAGGGAGATAAGACTCGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
** * *
20583416 TGGTTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTCTCGTCTGCTCCACAA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
*
20583481 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* * *
20583543 TGGTTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCATCTTCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
* *
20583608 CTGCTTAGGGAGATAAGACTTGTTGCGATTTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
* *
20583670 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGTTAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* *
20583735 CTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
65 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
*
20583797 TGGTTCT-ATCTGCTCCACT
1 TGGTTTTAATCTGCTCCACT
20583816 ACTTCAGGAA
Statistics
Matches: 492, Mismatches: 32, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
126 14 0.03
127 473 0.96
128 5 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (126 bp):
TGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCGTCTGCTCCACTAC
TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
Found at i:20583485 original size:87 final size:85
Alignment explanation
Indices: 20583161--20583818 Score: 346
Period size: 84 Copynumber: 7.8 Consensus size: 85
20583151 GGGATTAGAT
* * * * *
20583161 TTGGTTTTAATCTGCTCCACTGCAAATTTAGGGAGATAGGA-TTGATTTCTTCCGTCTGCTCCAC
1 TTGGTTTTAATCTGCTCCACTAC-AACTTAGGGAGATAAGACTTGGTTTC-TCTGTCTGCTCCAC
20583225 TACTGCTTAGGGAGATAAGA-C
64 TACTGCTTAGGGAGATAAGACC
* *** * * ** * ** *
20583246 TT-GATGCGATCTACTCAACTACTGCTTAGGGAGATAAGACCTGTAGTTT-T-AATCCGCTCCAC
1 TTGGTTTTAATCTGCTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTCTGTCTGCTCCAC
* ** *
20583308 TGCAACTTCAGGGAGATAGGA--
64 TACTGCTT-AGGGAGATAAGACC
** ** * * *
20583329 TTGGTTTCCTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGAC-TCG-AT-GC-GATCTGCTCC
1 TTGG-TT--TTAATCTGCTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTCTG-TCTGCTCC
20583390 ACTACTGCTTAGGGAGATAAGACC
62 ACTACTGCTTAGGGAGATAAGACC
** * *
20583414 TGTGGTTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTCTCTCGTCTGCTCCA
1 T-TGGTTTTAATCTGCTCCACTACAAC-TTAGGGAGATAAGACTTGGTTTCTCT-GTCTGCTCCA
*
20583478 CAACTGCTTAGGGAGATAAGA-C
63 CTACTGCTTAGGGAGATAAGACC
*** ** ** *
20583500 TT-GTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTGGTTT-T-AATCTACTCCAC
1 TTGGTTTTAATCTGCTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTCTGTCTGCTCCAC
* ** *
20583562 TGCAACTTCAGGGAGATAGGA--
64 TACTGCTT-AGGGAGATAAGACC
* * ** * **
20583583 TTGGTTTCTCTCATCTTCTCCACTACTGCTTAGGGAGATAAGACTT-GTTGCGAT-T-TGCTCCA
1 TTGG-TT-T-TAATCTGCTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTCTGTCTGCTCCA
20583645 CTACTGCTTAGGGAGATAAGACC
63 CTACTGCTTAGGGAGATAAGACC
* * * *
20583668 TGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGTTAGGA-TTGGTTTCCTTTGTCTGCTCCA
1 T-TGGTTTTAATCTGCTCCACTACAACTT-AGGGAGATAAGACTTGGTTT-CTCTGTCTGCTCCA
20583732 CTACTGCTTAGGGAGATAAGA-C
63 CTACTGCTTAGGGAGATAAGACC
*** ** *
20583754 TTGAG--GCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG--T-TCTATCTGCTCCA
1 TTG-GTTTTAATCTGCTCCACTACAACTTAGGGAGATAAGA-CT-TGGTTTCTCTGTCTGCTCCA
20583814 CTACT
63 CTACT
20583819 TCAGGAAAGT
Statistics
Matches: 435, Mismatches: 97, Indels: 85
0.71 0.16 0.14
Matches are distributed among these distances:
82 16 0.04
83 121 0.28
84 130 0.30
85 23 0.05
86 29 0.07
87 115 0.26
88 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (85 bp):
TTGGTTTTAATCTGCTCCACTACAACTTAGGGAGATAAGACTTGGTTTCTCTGTCTGCTCCACTA
CTGCTTAGGGAGATAAGACC
Found at i:20584604 original size:108 final size:108
Alignment explanation
Indices: 20584414--20584609 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
20584404 GAAAAATGCT
*
20584414 TGAAAAATATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
*
20584479 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGAAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * **
20584522 TGAAAAAGATTATCACAATGGATAAGATAGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAA
*
20584586 TTAATCAAGATAGAAAATTTTGCT
65 TCAATCAAGATAGAAAATTTTGCT
20584610 AGAATACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 74 0.95
109 4 0.05
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGAAAATTTTGCTGAGATACGAGATGAATAAGA
Done.