Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 150 of 210
Found at i:45580083 original size:17 final size:17
Alignment explanation
Indices: 45580035--45580095 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
45580025 ATGCTAATGA
*
45580035 TTTAGGGATTTTAAGAT
1 TTTAGGGATTTAAAGAT
* *
45580052 TTGA-GGATTTGAAGAT
1 TTTAGGGATTTAAAGAT
* *
45580068 TTTAGGGATTCAAAGAG
1 TTTAGGGATTTAAAGAT
*
45580085 GTTAGGGATTT
1 TTTAGGGATTT
45580096 GGGGAATTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 14 0.40
17 21 0.60
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (17 bp):
TTTAGGGATTTAAAGAT
Found at i:45582321 original size:20 final size:20
Alignment explanation
Indices: 45582296--45582333 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45582286 TAAATATAAC
*
45582296 TAAAAAAATATTTTAGAATT
1 TAAAAAAATAATTTAGAATT
*
45582316 TAAAAAATTAATTTAGAA
1 TAAAAAAATAATTTAGAA
45582334 CTCAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (20 bp):
TAAAAAAATAATTTAGAATT
Found at i:45587199 original size:21 final size:20
Alignment explanation
Indices: 45587153--45587202 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
45587143 ACCTCTATTC
45587153 ATGTTTGTTTGTTTAGTTTT
1 ATGTTTGTTTGTTTAGTTTT
*
45587173 AAGTTTGTTTGTGTTCAG-TTT
1 ATGTTTGTTTGT-TT-AGTTTT
45587194 ATGTTTGTT
1 ATGTTTGTT
45587203 AAGAATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 13 0.50
22 2 0.08
ACGTcount: A:0.12, C:0.02, G:0.22, T:0.64
Consensus pattern (20 bp):
ATGTTTGTTTGTTTAGTTTT
Found at i:45588476 original size:18 final size:18
Alignment explanation
Indices: 45588449--45588485 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45588439 GCTATCAGTT
*
45588449 TCGATTTAACCAATTTGA
1 TCGATCTAACCAATTTGA
*
45588467 TCGATCTAACCAGTTTGA
1 TCGATCTAACCAATTTGA
45588485 T
1 T
45588486 TGAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (18 bp):
TCGATCTAACCAATTTGA
Found at i:45588906 original size:8 final size:8
Alignment explanation
Indices: 45588862--45588906 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
45588852 AAACATTTAT
45588862 AAAAATAA
1 AAAAATAA
* *
45588870 AAATATTA
1 AAAAATAA
*
45588878 AAAAATAC
1 AAAAATAA
45588886 AAAAATAA
1 AAAAATAA
45588894 AAAAATAA
1 AAAAATAA
45588902 AAAAA
1 AAAAA
45588907 ATGGTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAATAA
Found at i:45591352 original size:14 final size:13
Alignment explanation
Indices: 45591316--45591341 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45591306 TAAATTTTAA
45591316 AAATAATATTTTT
1 AAATAATATTTTT
45591329 AAATAATATTTTT
1 AAATAATATTTTT
45591342 CACATATTAT
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:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:45595680 original size:18 final size:18
Alignment explanation
Indices: 45595657--45595704 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
45595647 AAAATATGAG
45595657 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
45595675 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
45595693 AAATGATGTTCA
1 AAATGATGTTCA
45595705 AATTGATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:45596181 original size:72 final size:71
Alignment explanation
Indices: 45596089--45596260 Score: 247
Period size: 72 Copynumber: 2.4 Consensus size: 71
45596079 AACAACAATG
* * * * *
45596089 CTAAACTAATTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTCCTTA
1 CTAAATTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
45596154 TTTAT-
66 TTTATA
* * *
45596159 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAAT-TAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
45596224 TATTTATA
64 TATTTATA
45596232 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTAGTTTTATCAATAGTTGTTTAT
45596261 ATATGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
70 1 0.01
71 24 0.27
72 62 0.70
73 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
TTTATA
Found at i:45598062 original size:19 final size:19
Alignment explanation
Indices: 45598034--45598077 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45598024 TAATTTTTAT
45598034 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
45598053 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
45598072 ATTTAA
1 ATTTAA
45598078 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:45605130 original size:56 final size:56
Alignment explanation
Indices: 45605063--45605174 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
45605053 GTAGAAAAAT
*
45605063 GAACTAATACCCAAGTACCATTACCATCTAAAGCAATCATCTCCTCTATCATTGCA
1 GAACTAATACCCAAGTACCATTACCATCTAAAGCAACCATCTCCTCTATCATTGCA
45605119 GAACTAATACCCAAGTACCATTACCATCTAAAGCAACCATCTCCTCTATCATTGCA
1 GAACTAATACCCAAGTACCATTACCATCTAAAGCAACCATCTCCTCTATCATTGCA
45605175 TTTAGCCAGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.36, C:0.31, G:0.07, T:0.26
Consensus pattern (56 bp):
GAACTAATACCCAAGTACCATTACCATCTAAAGCAACCATCTCCTCTATCATTGCA
Found at i:45607686 original size:21 final size:21
Alignment explanation
Indices: 45607662--45607702 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45607652 AAACACTCAT
*
45607662 TTTCCTTTTTCAATTGAACCA
1 TTTCCTTTTCCAATTGAACCA
*
45607683 TTTCCTTTTCCATTTGAACC
1 TTTCCTTTTCCAATTGAACC
45607703 CTAATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTCCTTTTCCAATTGAACCA
Found at i:45611253 original size:37 final size:38
Alignment explanation
Indices: 45611204--45611279 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
45611194 TATCTCGCAT
* * *
45611204 ACCTCCATTGGATTATGCCATATAGGCGAGTCTAGTGG
1 ACCTCCATTGGATCATGCCATATAAGCGAGTCTAATGG
* *
45611242 ACCTCCA-TGGATCATGCCTTATAAGCGATTCTAATGG
1 ACCTCCATTGGATCATGCCATATAAGCGAGTCTAATGG
45611279 A
1 A
45611280 TTCATAAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 26 0.79
38 7 0.21
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (38 bp):
ACCTCCATTGGATCATGCCATATAAGCGAGTCTAATGG
Found at i:45615205 original size:21 final size:20
Alignment explanation
Indices: 45615175--45615214 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
45615165 AGTATTGTAT
45615175 TTATTATGTGT-CTACATAAC
1 TTATTATGTGTACT-CATAAC
45615195 TTATTCATGTGTACTCATAA
1 TTATT-ATGTGTACTCATAA
45615215 TTCTGTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 11 0.61
22 2 0.11
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
TTATTATGTGTACTCATAAC
Found at i:45616631 original size:41 final size:42
Alignment explanation
Indices: 45616586--45616669 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 42
45616576 AACTGTCAGC
45616586 TAATTAACAAC-TAACAAATTAACTGACTTAATCAGTTACTT
1 TAATTAACAACATAACAAATTAACTGACTTAATCAGTTACTT
45616627 TAATTAACAACTAATAACAAATTAACTGACTTAATCAGTTACT
1 TAATTAACAAC--ATAACAAATTAACTGACTTAATCAGTTACT
45616670 CTAACATTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
41 11 0.28
44 29 0.73
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (42 bp):
TAATTAACAACATAACAAATTAACTGACTTAATCAGTTACTT
Found at i:45628549 original size:15 final size:16
Alignment explanation
Indices: 45628524--45628553 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45628514 TTATCTTCAT
45628524 TTCATCCACTAACATC
1 TTCATCCACTAACATC
45628540 TTCA-CCACTAACAT
1 TTCATCCACTAACAT
45628554 AATTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TTCATCCACTAACATC
Found at i:45629312 original size:42 final size:42
Alignment explanation
Indices: 45629266--45629351 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
45629256 ATGATCCCTC
45629266 TTTATAACAACCACTCGCAATAACATCATTTTATTATAACAA
1 TTTATAACAACCACTCGCAATAACATCATTTTATTATAACAA
45629308 TTTATAACAACCACTCGCAATAACATCATTTTATTATAACAA
1 TTTATAACAACCACTCGCAATAACATCATTTTATTATAACAA
45629350 TT
1 TT
45629352 AAGTTTTTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (42 bp):
TTTATAACAACCACTCGCAATAACATCATTTTATTATAACAA
Found at i:45629906 original size:28 final size:31
Alignment explanation
Indices: 45629866--45629930 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
45629856 TTATAAATTG
*
45629866 ATTAATTGAATTTAATA-ATTCATGAT-A-A
1 ATTAATTAAATTTAATAGATTCATGATCATA
* *
45629894 ATTAATTAAATTTATTAGATTGATGATCATA
1 ATTAATTAAATTTAATAGATTCATGATCATA
45629925 ATTAAT
1 ATTAAT
45629931 CGTGTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 15 0.48
29 8 0.26
30 1 0.03
31 7 0.23
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (31 bp):
ATTAATTAAATTTAATAGATTCATGATCATA
Found at i:45630203 original size:28 final size:28
Alignment explanation
Indices: 45630146--45630203 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
45630136 ACATTATATA
* **
45630146 TTTTGTGTAAATAAAAATTATTTATTTT
1 TTTTGTATAAATAAAAATTATTTACCTT
*
45630174 TTTTGTATAAATAAAGATT-TTTAACCTT
1 TTTTGTATAAATAAAAATTATTT-ACCTT
45630202 TT
1 TT
45630204 GCATAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTGTATAAATAAAAATTATTTACCTT
Found at i:45633891 original size:89 final size:89
Alignment explanation
Indices: 45632975--45633883 Score: 1478
Period size: 89 Copynumber: 10.2 Consensus size: 89
45632965 TTTTACGCCA
* * ** * * * *
45632975 ATGAAAACAAGGTCTG-TTCTCTTCGATCTACTCCCCCACCAGTATGGGGAGACAAGATCTGTTG
1 ATGAAGACAAGATCTGCTT-TCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTA
*
45633039 TCTTTGATCTACTTCACGCCAATAC
65 TCTTTGATCTACTTCACGCCAGTAC
* ** *
45633064 ATGAAGACAATATCTGCTTTTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAT
1 ATGAAGACAAGATCTGC--TTT-CTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGT
45633129 TATCTTTGATCTACTTCACGCCAGTAC
63 TATCTTTGATCTACTTCACGCCAGTAC
* * *
45633156 ATGAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTATTAC
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
45633221 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
* *
45633245 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCACCACCAGTATGAGAAGACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
*
45633310 CTTTGATCTACTTCACGCTAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
* *
45633334 ATGAAGACAAGATCTGCTTTCTTTGATCTGTTTCGCCACCAGTATGGGAAAACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
45633399 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
45633423 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
45633488 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
*
45633512 ATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
45633577 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
*
45633601 ATGAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
45633666 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
*
45633690 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCACTATGGGAAGACAAGATCTGTTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
*
45633755 CTTTGATCTACTTCACGCCAATAC
66 CTTTGATCTACTTCACGCCAGTAC
* * * * *
45633779 ATGAAGATAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
* * *
45633844 CTCTGATCTACTTCACACTAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
45633868 ATGAAGACAAGATCTG
1 ATGAAGACAAGATCTG
45633884 TTATCTTTCA
Statistics
Matches: 772, Mismatches: 44, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
89 688 0.89
90 3 0.00
91 1 0.00
92 80 0.10
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
ATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
CTTTGATCTACTTCACGCCAGTAC
Found at i:45634776 original size:13 final size:13
Alignment explanation
Indices: 45634758--45634782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45634748 GAATTGTCGA
45634758 GGATAACAAAGAT
1 GGATAACAAAGAT
45634771 GGATAACAAAGA
1 GGATAACAAAGA
45634783 AATTGATTTA
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:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:45635179 original size:14 final size:15
Alignment explanation
Indices: 45635162--45635193 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
45635152 CCAGTTTTAC
45635162 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
45635176 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
45635190 TTTT
1 TTTT
45635194 CCACATCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.44
14 6 0.38
15 3 0.19
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:45635194 original size:14 final size:13
Alignment explanation
Indices: 45635163--45635194 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
45635153 CAGTTTTACT
45635163 TTTTCATTTTTCA
1 TTTTCATTTTTCA
45635176 TTTTCATCTTTTCA
1 TTTTCAT-TTTTCA
45635190 TTTTC
1 TTTTC
45635195 CACATCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:45636185 original size:17 final size:18
Alignment explanation
Indices: 45636163--45636203 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45636153 AAAAAATCCA
*
45636163 AAAGAAT-GTAAAGAATG
1 AAAGAATCGTAAAAAATG
45636180 AAAGAATCGTAAAAAATG
1 AAAGAATCGTAAAAAATG
*
45636198 ACAGAA
1 AAAGAA
45636204 CATTTGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.15
Consensus pattern (18 bp):
AAAGAATCGTAAAAAATG
Found at i:45650811 original size:27 final size:27
Alignment explanation
Indices: 45650780--45650863 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 27
45650770 GACTTTTATG
45650780 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* * **
45650807 TCTTCAT-CAGATAAAT-TTCTA-TTTTT
1 TCTTCATCCTGAT--CTGTTGAAGTTTTT
*
45650833 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
45650858 TCTTCA
1 TCTTCA
45650864 CCAGATTGAT
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
23 1 0.03
24 4 0.10
25 12 0.30
26 12 0.30
27 10 0.25
28 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.54
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:45658204 original size:14 final size:14
Alignment explanation
Indices: 45658185--45658215 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45658175 TCACATCCCG
*
45658185 AAAATTGGGTTAGT
1 AAAATTGGGTCAGT
45658199 AAAATTGGGTCAGT
1 AAAATTGGGTCAGT
45658213 AAA
1 AAA
45658216 CTAGGGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (14 bp):
AAAATTGGGTCAGT
Found at i:45660721 original size:48 final size:48
Alignment explanation
Indices: 45660648--45660766 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
45660638 GGGTGTTACA
* * * * *
45660648 ACCAGTGGTTCATCCACAACATATTTTAGTCGGTAGTTTATTAGCACG
1 ACCAGTGGTTCATCCACAACATATTTTAGTCAGCAATATATCAGCACG
* ** *
45660696 ATCAGTGGTTCATCCACAATGTATTTTAGTCAGCAATATATCAGTACG
1 ACCAGTGGTTCATCCACAACATATTTTAGTCAGCAATATATCAGCACG
*
45660744 ACCAATGGTTCATCCACAACATA
1 ACCAGTGGTTCATCCACAACATA
45660767 CTAGCAGTTG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
ACCAGTGGTTCATCCACAACATATTTTAGTCAGCAATATATCAGCACG
Found at i:45660849 original size:96 final size:96
Alignment explanation
Indices: 45660749--45660926 Score: 241
Period size: 96 Copynumber: 1.9 Consensus size: 96
45660739 GTACGACCAA
* *
45660749 TGGTTCATCCACAACATACTAGCAG-TTGTTACCTTCACCAAAGGATGGTTCATCCACCAATATT
1 TGGTTCATCCACAACATACTAGCAGCTT-TTACCTGCACCAAAGGATGATTCATCCACCAATATT
45660813 TTTATCATTAGCAGTTCATTTGCAATGATCAG
65 TTTATCATTAGCAGTTCATTTGCAATGATCAG
** * * * * *
45660845 TGGTTCATCCACAATGTATTAGCAGCTTTTATCTGCAGCGATGGATGATTCATCCACCAATATTT
1 TGGTTCATCCACAACATACTAGCAGCTTTTACCTGCACCAAAGGATGATTCATCCACCAATATTT
* *
45660910 TTATCGTTAGCATTTCA
66 TTATCATTAGCAGTTCA
45660927 GCTACAACGA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
96 68 0.97
97 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (96 bp):
TGGTTCATCCACAACATACTAGCAGCTTTTACCTGCACCAAAGGATGATTCATCCACCAATATTT
TTATCATTAGCAGTTCATTTGCAATGATCAG
Found at i:45663227 original size:39 final size:39
Alignment explanation
Indices: 45663184--45663261 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
45663174 ACATTACGCG
* * *
45663184 TATAATTACATAACGTTCAAGCACATATAGCAATACTCA
1 TATAATCACATAACATTCAACCACATATAGCAATACTCA
* * *
45663223 TATAATCGCATAACATTCAACCATATATCGCAATACTCA
1 TATAATCACATAACATTCAACCACATATAGCAATACTCA
45663262 AAAATAGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.28
Consensus pattern (39 bp):
TATAATCACATAACATTCAACCACATATAGCAATACTCA
Found at i:45665475 original size:25 final size:25
Alignment explanation
Indices: 45665439--45665490 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
45665429 TACTAGGCCA
**
45665439 TGTGTGACACACAGTTTAGGCTATT
1 TGTGTGACACACAGGCTAGGCTATT
*
45665464 TGTG-GACTACACGGGCTAGGCTATT
1 TGTGTGAC-ACACAGGCTAGGCTATT
45665489 TG
1 TG
45665491 GGTTGTGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (25 bp):
TGTGTGACACACAGGCTAGGCTATT
Found at i:45684476 original size:2 final size:2
Alignment explanation
Indices: 45684438--45684467 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45684428 AAGTGTTAGA
45684438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45684468 GCTTATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45688604 original size:3 final size:3
Alignment explanation
Indices: 45688596--45688627 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45688586 ATTTAGTGAT
45688596 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
45688628 TTGTTTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45691188 original size:34 final size:34
Alignment explanation
Indices: 45691145--45691210 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
45691135 AGTAAAATAT
* *
45691145 TTTTCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCGTAAAATGACTTACTGGAAAATATTTTAC
45691178 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGACTTACTGGAAAATATTTT
45691211 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
35 15 0.52
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (34 bp):
TTTTCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:45691197 original size:20 final size:20
Alignment explanation
Indices: 45691159--45691198 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45691149 CGTAAAATGA
**
45691159 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
45691179 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
45691199 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:45694423 original size:6 final size:6
Alignment explanation
Indices: 45694412--45694444 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
45694402 TGTCAAGGAT
*
45694412 AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGG
45694445 AAAATTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:45698979 original size:17 final size:17
Alignment explanation
Indices: 45698945--45698986 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
45698935 AAATATAGAT
*
45698945 TATTATTTA-TTAAATA
1 TATTATTAACTTAAATA
* *
45698961 TATTTTTAACTTAACTA
1 TATTATTAACTTAAATA
45698978 TATTATTAA
1 TATTATTAA
45698987 TTATATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTAACTTAAATA
Found at i:45699066 original size:14 final size:13
Alignment explanation
Indices: 45699033--45699074 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
45699023 ATTCCACTCA
*
45699033 AATTT-TTATAAT
1 AATTTATTAAAAT
45699045 AATTTATTAAAAT
1 AATTTATTAAAAT
45699058 AAGTTTATTAAAAT
1 AA-TTTATTAAAAT
45699072 AAT
1 AAT
45699075 ATTTTAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 9 0.33
14 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:45705182 original size:23 final size:25
Alignment explanation
Indices: 45705155--45705209 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
45705145 TTGACTCATT
45705155 TTTCAAATTT-TATAGAT-ATG-ATA
1 TTTCAAATTTATATA-ATGATGAATA
45705178 TTTC-AATTTATATAATGATGAATA
1 TTTCAAATTTATATAATGATGAATA
*
45705202 TTTGAAAT
1 TTTCAAAT
45705210 ACTAGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 6 0.22
25 3 0.11
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (25 bp):
TTTCAAATTTATATAATGATGAATA
Found at i:45711413 original size:8 final size:8
Alignment explanation
Indices: 45711400--45711438 Score: 55
Period size: 7 Copynumber: 5.1 Consensus size: 8
45711390 TTAAAATTGA
45711400 TTTAAAAT
1 TTTAAAAT
45711408 TTT-AAAT
1 TTTAAAAT
*
45711415 TTTAAAAA
1 TTTAAAAT
45711423 TTTAAAA-
1 TTTAAAAT
45711430 TTTAAAAT
1 TTTAAAAT
45711438 T
1 T
45711439 AAAAGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TTTAAAAT
Found at i:45711420 original size:15 final size:15
Alignment explanation
Indices: 45711399--45711438 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
45711389 TTTAAAATTG
45711399 ATTTAAAATTTTAAA
1 ATTTAAAATTTTAAA
* *
45711414 TTTTAAAAATTTAAA
1 ATTTAAAATTTTAAA
45711429 ATTTAAAATT
1 ATTTAAAATT
45711439 AAAAGTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAAAATTTTAAA
Found at i:45711442 original size:6 final size:7
Alignment explanation
Indices: 45711399--45711442 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
45711389 TTTAAAATTG
45711399 ATTTAAA
1 ATTTAAA
45711406 ATTTTAAA
1 A-TTTAAA
*
45711414 TTTTAAAA
1 ATTT-AAA
45711422 ATTTAAA
1 ATTTAAA
45711429 ATTTAAA
1 ATTTAAA
45711436 A-TTAAA
1 ATTTAAA
45711442 A
1 A
45711443 GTATTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 6 0.18
7 15 0.45
8 12 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTTAAA
Found at i:45712270 original size:24 final size:24
Alignment explanation
Indices: 45712243--45712303 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
45712233 TTCTCTCTCC
45712243 AGGGTTAGGGTTATTTAATTAT-TT
1 AGGGTTAGGGTTATTT-ATTATATT
* * *
45712267 AGGGTCAGAGTT-TTTATTTTATT
1 AGGGTTAGGGTTATTTATTATATT
45712290 AGGGTTAAGGGTTA
1 AGGGTT-AGGGTTA
45712304 GGGTATTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 4 0.14
23 10 0.34
24 15 0.52
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (24 bp):
AGGGTTAGGGTTATTTATTATATT
Found at i:45719491 original size:54 final size:54
Alignment explanation
Indices: 45719433--45719551 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 54
45719423 TATGTAATAT
* * * * * *
45719433 AAGGTCACATGGTTGTGTGACC-AGACCCTATAACTCTCTGTGATCGTGTGGCTC
1 AAGGTCACATGGATGAGTCACCAAG-CCCTATAACCCTCTGTGACCGTATGGCTC
* * *
45719487 AAGGTCAAATGGATGAGTCACCAAGCCGTGTAACCCTCTGTGACCGTATGGCTC
1 AAGGTCACATGGATGAGTCACCAAGCCCTATAACCCTCTGTGACCGTATGGCTC
**
45719541 TGGGTCACATG
1 AAGGTCACATG
45719552 ACCATGTGAT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 50 0.96
55 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (54 bp):
AAGGTCACATGGATGAGTCACCAAGCCCTATAACCCTCTGTGACCGTATGGCTC
Found at i:45721133 original size:63 final size:63
Alignment explanation
Indices: 45721028--45721226 Score: 227
Period size: 63 Copynumber: 3.2 Consensus size: 63
45721018 GACCGTGTGA
* ** * ** *
45721028 TAGGCTGTGTAACTCACTATTTTTGAATTAATGTCAAACGGGCTAGGGACATGAGCATTTGTC
1 TAGGCCGTGTAACTCACTATTTTTGAATTAGGGTCAAACGGGCCAGGGACACAAGCATCTGTC
* * *
45721091 TATGTCGTGTAACTCACTATTTTTGAATTAGGGTCACACGGGCCAGGGACACAAGCATCTGTC
1 TAGGCCGTGTAACTCACTATTTTTGAATTAGGGTCAAACGGGCCAGGGACACAAGCATCTGTC
* * * * * * *
45721154 TAGGCCGTGTAACTTACTATTTGTGAATTAGTGTTACATGGGCCAGAGACACAAGCATCTGTC
1 TAGGCCGTGTAACTCACTATTTTTGAATTAGGGTCAAACGGGCCAGGGACACAAGCATCTGTC
* *
45721217 CAGGTCGTGT
1 TAGGCCGTGT
45721227 GATAGATATT
Statistics
Matches: 116, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 116 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (63 bp):
TAGGCCGTGTAACTCACTATTTTTGAATTAGGGTCAAACGGGCCAGGGACACAAGCATCTGTC
Found at i:45731445 original size:14 final size:15
Alignment explanation
Indices: 45731419--45731456 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
45731409 CCAAGGATTA
45731419 AAAAAGAAA-GGAGG
1 AAAAAGAAATGGAGG
45731433 -AAAAGAAATGGAGG
1 AAAAAGAAATGGAGG
45731447 AAAAAGAAAT
1 AAAAAGAAAT
45731457 ATCATGCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 5 0.23
15 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (15 bp):
AAAAAGAAATGGAGG
Found at i:45731727 original size:46 final size:46
Alignment explanation
Indices: 45731660--45731752 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
45731650 ATGGGACTTG
45731660 GAAATACACCCACATTTCAAAATTTTGTGAAGCATGCAAAGTTTAT
1 GAAATACACCCACATTTCAAAATTTTGTGAAGCATGCAAAGTTTAT
45731706 GAAATACACCCACATTTCAAAATTTTGTGAAGCATGCAAAGTTTAT
1 GAAATACACCCACATTTCAAAATTTTGTGAAGCATGCAAAGTTTAT
45731752 G
1 G
45731753 CACAATTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (46 bp):
GAAATACACCCACATTTCAAAATTTTGTGAAGCATGCAAAGTTTAT
Found at i:45749789 original size:19 final size:20
Alignment explanation
Indices: 45749765--45749803 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45749755 TTTATACAAC
45749765 AAAAAT-AATTTAAAATTAA
1 AAAAATAAATTTAAAATTAA
*
45749784 AAAAATAAATTTAACATTAA
1 AAAAATAAATTTAAAATTAA
45749804 TGAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATAAATTTAAAATTAA
Found at i:45751012 original size:12 final size:13
Alignment explanation
Indices: 45750981--45751011 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45750971 AGTTAAAAGT
45750981 TAAAAATATATAG
1 TAAAAATATATAG
*
45750994 TAAAAATATCTAG
1 TAAAAATATATAG
45751007 TAAAA
1 TAAAA
45751012 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (13 bp):
TAAAAATATATAG
Found at i:45751070 original size:19 final size:19
Alignment explanation
Indices: 45751046--45751095 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
45751036 TAAAAACTGA
45751046 AAAAGAATAAAATAAAAAT
1 AAAAGAATAAAATAAAAAT
**
45751065 AAAAGAATTACGATAAAAAT
1 AAAAGAA-TAAAATAAAAAT
45751085 -AAAG-ATAAAAT
1 AAAAGAATAAAAT
45751096 TCTAATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 11 0.42
20 10 0.38
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAGAATAAAATAAAAAT
Found at i:45762449 original size:18 final size:18
Alignment explanation
Indices: 45762423--45762463 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
45762413 ACTTTCTTAT
*
45762423 TTATTATTA-TATTA-TA
1 TTATTATCATTATTACTA
45762439 -TATTATCATTATTACTA
1 TTATTATCATTATTACTA
45762456 TTATTATC
1 TTATTATC
45762464 TCCATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.33
16 5 0.24
17 2 0.10
18 7 0.33
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATCATTATTACTA
Found at i:45762573 original size:11 final size:11
Alignment explanation
Indices: 45762559--45762589 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
45762549 TATACATATG
45762559 TTTTTATTTTA
1 TTTTTATTTTA
45762570 TTTTTATTTTA
1 TTTTTATTTTA
45762581 TTTTTATTT
1 TTTTTATTT
45762590 CCTAACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:45762606 original size:2 final size:2
Alignment explanation
Indices: 45762599--45762623 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45762589 TCCTAACTTC
45762599 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
45762624 TAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45768086 original size:6 final size:6
Alignment explanation
Indices: 45768070--45768113 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
45768060 TGGTTTTCTC
* * *
45768070 AAAATG GAAATG AAAATG AAAATG GAAATG GAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A
45768114 TTCATTTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:45768087 original size:12 final size:12
Alignment explanation
Indices: 45768070--45768112 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
45768060 TGGTTTTCTC
45768070 AAAATGGAAATG
1 AAAATGGAAATG
*
45768082 AAAATGAAAATG
1 AAAATGGAAATG
*
45768094 GAAATGGAAATG
1 AAAATGGAAATG
45768106 AGAAATG
1 A-AAATG
45768113 ATTCATTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:45768093 original size:18 final size:18
Alignment explanation
Indices: 45768070--45768112 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
45768060 TGGTTTTCTC
45768070 AAAATGGAAATGAAAATG
1 AAAATGGAAATGAAAATG
*
45768088 AAAATGGAAATGGAAATG
1 AAAATGGAAATGAAAATG
45768106 AGAAATG
1 A-AAATG
45768113 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:45769966 original size:13 final size:13
Alignment explanation
Indices: 45769948--45769988 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45769938 GCGTATCATT
45769948 TGGAAAACCTTTG
1 TGGAAAACCTTTG
*
45769961 TGGAAAA--TTCTC
1 TGGAAAACCTT-TG
45769973 TGGAAAACCTTTG
1 TGGAAAACCTTTG
45769986 TGG
1 TGG
45769989 CGTATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 2 0.09
12 8 0.35
13 11 0.48
14 2 0.09
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (13 bp):
TGGAAAACCTTTG
Found at i:45770008 original size:25 final size:24
Alignment explanation
Indices: 45769936--45770014 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
45769926 CAAGCTTTTA
45769936 TGGCGTATCATTTGGAAAACCTTTG
1 TGGCGTATCATTT-GAAAACCTTTG
*** *
45769961 TGGAAAATTC-TCTGGAAAACCTTTG
1 TGGCGTA-TCAT-TTGAAAACCTTTG
45769986 TGGCGTATCATTTGAAAAGCCTTTG
1 TGGCGTATCATTTGAAAA-CCTTTG
45770011 TGGC
1 TGGC
45770015 AAATTCTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
24 8 0.19
25 31 0.74
26 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (24 bp):
TGGCGTATCATTTGAAAACCTTTG
Found at i:45770029 original size:25 final size:25
Alignment explanation
Indices: 45769946--45770028 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
45769936 TGGCGTATCA
*
45769946 TTTGGAAAACCTTTGTGGAAAATTC
1 TTTGGAAAACCTTTGTGGCAAATTC
* **
45769971 TCTGGAAAACCTTTGTGGCGTA-TC
1 TTTGGAAAACCTTTGTGGCAAATTC
45769995 ATTT-GAAAAGCCTTTGTGGCAAATTC
1 -TTTGGAAAA-CCTTTGTGGCAAATTC
45770021 TTTGGAAA
1 TTTGGAAA
45770029 GTTGTTGTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 7 0.15
25 34 0.72
26 6 0.13
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (25 bp):
TTTGGAAAACCTTTGTGGCAAATTC
Found at i:45771883 original size:32 final size:33
Alignment explanation
Indices: 45771846--45771911 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
45771836 TTTCTTTGAT
45771846 TGTCTCTACAACTTTC-TATTTTCACCTTTAAG
1 TGTCTCTACAACTTTCTTATTTTCACCTTTAAG
45771878 TGTCTCTACAACTTTCTTATTTTCACCTTTAAG
1 TGTCTCTACAACTTTCTTATTTTCACCTTTAAG
45771911 T
1 T
45771912 CTAACATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.48
Consensus pattern (33 bp):
TGTCTCTACAACTTTCTTATTTTCACCTTTAAG
Found at i:45787760 original size:58 final size:62
Alignment explanation
Indices: 45787610--45787766 Score: 216
Period size: 58 Copynumber: 2.6 Consensus size: 62
45787600 TAAAGTAGGC
* * *
45787610 TATATATTATTATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATATATTGTTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATGATTAAAT
*
45787673 TATATATTTTTATTTTTATTAAATTATATTTAATAATAATTATATTAA-AATATGATTAAA-
1 TATATATTGTTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
*
45787733 T-TAT-TTGTTATTATTATTAAATTATATTTAATAA
1 TATATATTGTTATTTTTATTAAATTATATTTAATAA
45787767 CAATAATCAT
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
58 28 0.32
59 3 0.03
60 1 0.01
61 10 0.11
62 20 0.23
63 22 0.25
64 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (62 bp):
TATATATTGTTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGATTAAAT
Found at i:45797270 original size:30 final size:31
Alignment explanation
Indices: 45797208--45797278 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
45797198 AAATTATTCG
*
45797208 AAAA-TTTTTATTTAAATCACTAAACTATTT
1 AAAATTTTTTATTTAAATCACTAAACTAGTT
* * *
45797238 AAAATTTTTTATTTAAATTATTAGACT-GTT
1 AAAATTTTTTATTTAAATCACTAAACTAGTT
*
45797268 AAATTTTTTTA
1 AAAATTTTTTA
45797279 GAAAAATTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (31 bp):
AAAATTTTTTATTTAAATCACTAAACTAGTT
Found at i:45808702 original size:18 final size:18
Alignment explanation
Indices: 45808679--45808715 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45808669 CTAGCTCAAG
45808679 TGGGTCAAATGAGCCCTA
1 TGGGTCAAATGAGCCCTA
45808697 TGGGTCAAATGAGCCCTA
1 TGGGTCAAATGAGCCCTA
45808715 T
1 T
45808716 TTAATCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (18 bp):
TGGGTCAAATGAGCCCTA
Found at i:45809377 original size:47 final size:47
Alignment explanation
Indices: 45809323--45809417 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
45809313 AATTAGACTT
45809323 TGCCAATGATTACGCTTCAAGTTTCAATACAATATTCAGGATCTTTC
1 TGCCAATGATTACGCTTCAAGTTTCAATACAATATTCAGGATCTTTC
45809370 TGCCAATGATTACGCTTCAAGTTTCAATACAATATTCAGGATCTTTC
1 TGCCAATGATTACGCTTCAAGTTTCAATACAATATTCAGGATCTTTC
45809417 T
1 T
45809418 ATCCTCTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (47 bp):
TGCCAATGATTACGCTTCAAGTTTCAATACAATATTCAGGATCTTTC
Found at i:45813233 original size:25 final size:25
Alignment explanation
Indices: 45813205--45813383 Score: 116
Period size: 25 Copynumber: 7.2 Consensus size: 25
45813195 CGCCATAAAA
*
45813205 GCTTTCCAAATAATACACCACATAT
1 GCTTTCCAAATAATACACCACATAG
** * * * *
45813230 GCTTTTTGAGATAACTA-GCCACAAAT
1 GC-TTTCCAAATAA-TACACCACATAG
* * *
45813256 GCTTCCCAAATAATAC-GC-TATAG
1 GCTTTCCAAATAATACACCACATAG
*
45813279 GCTTTCCAAATAATACGCCACATAG
1 GCTTTCCAAATAATACACCACATAG
* * * * *
45813304 CCTTTTCAGATAACA-AGCCACAAAG
1 GCTTTCCAAATAATACA-CCACATAG
* *
45813329 GCTTCCCAAATAATACATCACATAG
1 GCTTTCCAAATAATACACCACATAG
*
45813354 GC-TTCCTAAATAATACATCACATAG
1 GCTTTCC-AAATAATACACCACATAG
45813379 GCTTT
1 GCTTT
45813384 TCGAGATAAC
Statistics
Matches: 115, Mismatches: 30, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
23 17 0.15
24 7 0.06
25 69 0.60
26 20 0.17
27 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.27
Consensus pattern (25 bp):
GCTTTCCAAATAATACACCACATAG
Found at i:45813401 original size:26 final size:26
Alignment explanation
Indices: 45813372--45813456 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 26
45813362 AATAATACAT
* *
45813372 CACATAGGCTTTTCGAGATAACTAGC
1 CACAAAGGCTTTTCGAGATAACTAGA
* * *
45813398 CACAAATGCTTCTCGA-ATAA-TATA
1 CACAAAGGCTTTTCGAGATAACTAGA
* * *
45813422 CA-ATAGGCTTTT-TAGATCACTAGA
1 CACAAAGGCTTTTCGAGATAACTAGA
45813446 CACAAAGGCTT
1 CACAAAGGCTT
45813457 GTTTGGTTTG
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
22 1 0.02
23 10 0.23
24 9 0.20
25 11 0.25
26 13 0.30
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (26 bp):
CACAAAGGCTTTTCGAGATAACTAGA
Found at i:45817825 original size:29 final size:29
Alignment explanation
Indices: 45817790--45817848 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
45817780 TGACTCTGCT
45817790 AGAGAGTGGCTAGTTTATTTACCTCTAAG
1 AGAGAGTGGCTAGTTTATTTACCTCTAAG
45817819 AGAGAGTGGCTAGTTTATTTACCTCTAAG
1 AGAGAGTGGCTAGTTTATTTACCTCTAAG
45817848 A
1 A
45817849 TCTATCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (29 bp):
AGAGAGTGGCTAGTTTATTTACCTCTAAG
Found at i:45823022 original size:74 final size:74
Alignment explanation
Indices: 45822898--45823062 Score: 294
Period size: 74 Copynumber: 2.2 Consensus size: 74
45822888 AACCCCAAAA
*
45822898 AACAAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTACCCAAATACCAAAT
1 AACAAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTAACCAAATACCAAAT
45822963 TACCCACAT
66 TACCCACAT
*
45822972 AATAAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTAACCAAATACCAAAT
1 AACAAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTAACCAAATACCAAAT
**
45823037 TACCCTTAT
66 TACCCACAT
45823046 AACAAATCCAATACCCA
1 AACAAATCCAATACCCA
45823063 ATGTCATGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 86 1.00
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (74 bp):
AACAAATCCAATACCCATCCACGAACCCAATACCTACCCCAAATCAACTTAACCAAATACCAAAT
TACCCACAT
Found at i:45823243 original size:13 final size:11
Alignment explanation
Indices: 45823222--45823267 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
45823212 GCCTACAAGG
*
45823222 AAAAAAGAAAG
1 AAAAAAGAAAA
*
45823233 AAAAAAGAGAA
1 AAAAAAGAAAA
*
45823244 AAAAAA-AACA
1 AAAAAAGAAAA
45823254 AAAAAAGAAAA
1 AAAAAAGAAAA
45823265 AAA
1 AAA
45823268 CAATCACCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:45823248 original size:21 final size:19
Alignment explanation
Indices: 45823221--45823267 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
45823211 TGCCTACAAG
* *
45823221 GAAAAAAGAAAGAAAAAAGA
1 GAAAAAAAAAACAAAAAA-A
45823241 GAAAAAAAAAACAAAAAAA
1 GAAAAAAAAAACAAAAAAA
45823260 GAAAAAAA
1 GAAAAAAA
45823268 CAATCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAACAAAAAAA
Found at i:45835523 original size:15 final size:14
Alignment explanation
Indices: 45835494--45835535 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
45835484 TTTATTTTCT
*
45835494 TTTATTTTTCTTTA
1 TTTATTTTTATTTA
45835508 TTTATTTTTATATTA
1 TTTATTTTTAT-TTA
45835523 TTTATTTTTATTT
1 TTTATTTTTATTT
45835536 TACTGATCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:45835649 original size:15 final size:15
Alignment explanation
Indices: 45835629--45835662 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
45835619 AGTTATATTT
*
45835629 TTATTTTTTTTAGTA
1 TTATTTTTTTTACTA
45835644 TTA-TTTTTTTACTA
1 TTATTTTTTTTACTA
45835658 TTATT
1 TTATT
45835663 CTTACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTTTTTTTACTA
Found at i:45835739 original size:18 final size:20
Alignment explanation
Indices: 45835716--45835764 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
45835706 AGTTTCTTTT
45835716 TTTTTATTTTTA-T-CTGTA
1 TTTTTATTTTTACTGCTGTA
*
45835734 TTTTTATTTTTAGCTGCTTTA
1 TTTTTATTTTTA-CTGCTGTA
45835755 TTTTTATTTT
1 TTTTTATTTT
45835765 CTGAGACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.44
20 1 0.04
21 14 0.52
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (20 bp):
TTTTTATTTTTACTGCTGTA
Found at i:45835756 original size:21 final size:18
Alignment explanation
Indices: 45835710--45835764 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
45835700 TTATTTAGTT
*
45835710 TCTTTTTTTTTATTTTTA
1 TCTTTATTTTTATTTTTA
*
45835728 TCTGTATTTTTATTTTTA
1 TCTTTATTTTTATTTTTA
45835746 GCTGCTTTATTTTTATTTT
1 --T-CTTTATTTTTATTTT
45835765 CTGAGACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.52
20 1 0.03
21 14 0.45
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
TCTTTATTTTTATTTTTA
Found at i:45836665 original size:11 final size:12
Alignment explanation
Indices: 45836649--45836680 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
45836639 TTAGATAAAT
45836649 AGAAAAAAAGA-
1 AGAAAAAAAGAG
45836660 AGAAAAAAA-AG
1 AGAAAAAAAGAG
45836671 AGAAAAAAAG
1 AGAAAAAAAG
45836681 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 18 0.95
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAG
Found at i:45838208 original size:72 final size:72
Alignment explanation
Indices: 45838117--45838261 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
45838107 AATCCATAGA
45838117 TCGAGCTAATGTGACGATAGGGATTTTAATTAGAAATAGATTTCAATTAATCAACTTAGAGTCAG
1 TCGAGCTAATGTGACGATAGGGATTTTAATTAGAAATAGATTTCAATTAATCAACTTAGAGTCAG
45838182 TTGTTCT
66 TTGTTCT
45838189 TCGAGCTAATGTGACGATAGGGATTTTAATTAGAAATAGATTTCAATTAATCAACTTAGAGTCAG
1 TCGAGCTAATGTGACGATAGGGATTTTAATTAGAAATAGATTTCAATTAATCAACTTAGAGTCAG
45838254 TTGTTCT
66 TTGTTCT
45838261 T
1 T
45838262 ACTCTCGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (72 bp):
TCGAGCTAATGTGACGATAGGGATTTTAATTAGAAATAGATTTCAATTAATCAACTTAGAGTCAG
TTGTTCT
Found at i:45847390 original size:258 final size:257
Alignment explanation
Indices: 45846933--45847452 Score: 934
Period size: 258 Copynumber: 2.0 Consensus size: 257
45846923 TTGAGCAACT
45846933 ATTTTAAATGCCTATTAGGGTCCTCTGTCATTGTGCCCCAAACTGTAGATTGTTCTGGATCATCT
1 ATTTTAAATGCCTATTAGGGTCCTCTGTCATTGTGCCCCAAACTGTAGATTGTTCTGGATCATCT
*
45846998 GAATCATTTTTGATTTGATCTTGAAATTATTATTGTGATTGTCAGCCTTGTTATACTTTCTTGAA
66 GAATCATTTTAGATTTGATCTTGAAATTATTATTGTGATTGTCAGCCTTGTTATACTTTCTTGAA
45847063 CCATGTCTAGACTTGGTAAGGCATAATTCCCTAAAGTTATCTCATTCCGAGTCGTATGTACATTT
131 CCATGTCTAGACTTGGTAAGGCATAATTCCCTAAAGTTATCTCATTCCGAGTCGTATGTACATTT
** *
45847128 GCAGGGAGTTGTGGTATGGGTTGGTTTTGCTAGGGCATTATCGTGAATGTCACTGAATATTGG
196 GCAGGGAGCGGTGGTATGGGTTGG-TTTCCTAGGGCATTATCGTGAATGTCACTGAATATTGG
* * *
45847191 ATTTTAAATGCCTATTAGGGTCCTCTGTTATTGTTCCCTAAACTGTAGATTGTTCTGGATCATCT
1 ATTTTAAATGCCTATTAGGGTCCTCTGTCATTGTGCCCCAAACTGTAGATTGTTCTGGATCATCT
45847256 GAATCATTTTCAG-TTTGATCTTGAAATTATTATTGTGATTGTCAGCCTTGTTATACTTTCTTGA
66 GAATCATTTT-AGATTTGATCTTGAAATTATTATTGTGATTGTCAGCCTTGTTATACTTTCTTGA
* *
45847320 ACCATGTCTAGACTTGGTAAGGTATAATTCCCTAAAGTTCTCTCATTCCGAGTCGTATGTACATT
130 ACCATGTCTAGACTTGGTAAGGCATAATTCCCTAAAGTTATCTCATTCCGAGTCGTATGTACATT
45847385 TGCAGGGAGCGGTGGTATGGGTTGGTTTCCTAGGGCATTATCGTGAATGTCACTGAATATTGG
195 TGCAGGGAGCGGTGGTATGGGTTGGTTTCCTAGGGCATTATCGTGAATGTCACTGAATATTGG
45847448 ATTTT
1 ATTTT
45847453 CGCATGGTAC
Statistics
Matches: 252, Mismatches: 9, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
257 42 0.17
258 209 0.83
259 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (257 bp):
ATTTTAAATGCCTATTAGGGTCCTCTGTCATTGTGCCCCAAACTGTAGATTGTTCTGGATCATCT
GAATCATTTTAGATTTGATCTTGAAATTATTATTGTGATTGTCAGCCTTGTTATACTTTCTTGAA
CCATGTCTAGACTTGGTAAGGCATAATTCCCTAAAGTTATCTCATTCCGAGTCGTATGTACATTT
GCAGGGAGCGGTGGTATGGGTTGGTTTCCTAGGGCATTATCGTGAATGTCACTGAATATTGG
Found at i:45852127 original size:50 final size:50
Alignment explanation
Indices: 45852059--45852221 Score: 202
Period size: 50 Copynumber: 3.3 Consensus size: 50
45852049 TAGAGGACTT
* * *
45852059 GCCATAAAAGCTTTCCAAATAATATGCCACATAGATTTTTCAGATAAGTA
1 GCCATAAAAGCTTCCCAAATAATACGCCACATAGATTTTTCAGATAACTA
* * * ** *
45852109 GCCACAAAAGCTTCCCAAATAATACACTACATAGGCTTTTCAGGTAACTA
1 GCCATAAAAGCTTCCCAAATAATACGCCACATAGATTTTTCAGATAACTA
* *
45852159 GCCATAAAGGCTTCCCAAATAATACGCCACATAGGCTTTTT-AGATAACTA
1 GCCATAAAAGCTTCCCAAATAATACGCCACATA-GATTTTTCAGATAACTA
*
45852209 GCCATAAAGGCTT
1 GCCATAAAAGCTT
45852222 ATTTTGTTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 91 0.95
51 5 0.05
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (50 bp):
GCCATAAAAGCTTCCCAAATAATACGCCACATAGATTTTTCAGATAACTA
Found at i:45852169 original size:25 final size:25
Alignment explanation
Indices: 45852141--45852221 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
45852131 TACACTACAT
*
45852141 AGGCTTTTCAGGTAACTAGCCATAA
1 AGGCTTTTCAGATAACTAGCCATAA
** * * *
45852166 AGGCTTCCCAAATAA-TACGCCACAT
1 AGGCTTTTCAGATAACTA-GCCATAA
*
45852191 AGGCTTTTTAGATAACTAGCCATAA
1 AGGCTTTTCAGATAACTAGCCATAA
45852216 AGGCTT
1 AGGCTT
45852222 ATTTTGTTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 2 0.05
25 38 0.90
26 2 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (25 bp):
AGGCTTTTCAGATAACTAGCCATAA
Found at i:45855742 original size:24 final size:24
Alignment explanation
Indices: 45855706--45855757 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
45855696 TCCAGCTAGA
* *
45855706 GATGAGTTGAGAGGCAAGACAGAC
1 GATGAGTTCAGAGGCAAGACAAAC
45855730 GATGAGTTCAGAGGCAAGACAAAC
1 GATGAGTTCAGAGGCAAGACAAAC
45855754 GATG
1 GATG
45855758 GTCCAGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.35, T:0.13
Consensus pattern (24 bp):
GATGAGTTCAGAGGCAAGACAAAC
Found at i:45862242 original size:23 final size:23
Alignment explanation
Indices: 45862216--45862304 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 23
45862206 TCACCTCAAG
*
45862216 GGCATTACAGAATACGCCAAAAA
1 GGCATCACAGAATACGCCAAAAA
*
45862239 GGCATCACAGAATACGCCACAAA
1 GGCATCACAGAATACGCCAAAAA
* * * **
45862262 GGCATCAAAAAATATGCCACCAA
1 GGCATCACAGAATACGCCAAAAA
* * *
45862285 GACATCATAGAATACACCAA
1 GGCATCACAGAATACGCCAA
45862305 TATGGTTTTC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.12
Consensus pattern (23 bp):
GGCATCACAGAATACGCCAAAAA
Found at i:45868979 original size:25 final size:24
Alignment explanation
Indices: 45868951--45869085 Score: 101
Period size: 25 Copynumber: 5.4 Consensus size: 24
45868941 TACTCAGCAT
* * *
45868951 AAAGGATTTCCAGAGAACTCTCCAC
1 AAAGGCTTTCCAAAGAA-TCACCAC
*
45868976 AAAGGCTTTCCAAATGATAT-GCCAC
1 AAAGGCTTTCCAAA-GA-ATCACCAC
*
45869001 AAGGGCTTTCCAAAGAATTCACCAC
1 AAAGGCTTTCCAAAGAA-TCACCAC
* ** *
45869026 AAAGGCTTTCCAGAGAATTCAGTAT
1 AAAGGCTTTCCAAAGAA-TCACCAC
* **
45869051 AAAAGCTTTCCAAAGAATTTGCCAC
1 AAAGGCTTTCCAAAGAA-TCACCAC
45869076 AAAGGCTTTC
1 AAAGGCTTTC
45869086 TAGTGAATTC
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
23 1 0.01
24 3 0.03
25 80 0.91
26 3 0.03
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
AAAGGCTTTCCAAAGAATCACCAC
Found at i:45880642 original size:3 final size:3
Alignment explanation
Indices: 45880634--45880658 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45880624 AATTAGTTAA
45880634 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
45880659 TTTTGAATAA
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:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:45885508 original size:14 final size:13
Alignment explanation
Indices: 45885469--45885511 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
45885459 CGTCAACTAG
*
45885469 AAACAAAAAAAGA
1 AAACAAAAGAAGA
*
45885482 AAAC-AAAGTAGA
1 AAACAAAAGAAGA
45885494 AAAGCAAAAGAAGA
1 AAA-CAAAAGAAGA
45885508 AAAC
1 AAAC
45885512 CATAAGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 9 0.36
13 6 0.24
14 10 0.40
ACGTcount: A:0.74, C:0.09, G:0.14, T:0.02
Consensus pattern (13 bp):
AAACAAAAGAAGA
Found at i:45889713 original size:18 final size:18
Alignment explanation
Indices: 45889670--45889713 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45889660 AGTGAAATTT
* *
45889670 ATATGAAAATCTCTAAAGG
1 ATAT-AAAATCCCTAAAAG
*
45889689 ATTTAAAATCCCTAAAAG
1 ATATAAAATCCCTAAAAG
45889707 ATATAAA
1 ATATAAA
45889714 GTTTCTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (18 bp):
ATATAAAATCCCTAAAAG
Found at i:45889909 original size:21 final size:21
Alignment explanation
Indices: 45889885--45889926 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
45889875 TTTTGTGATA
45889885 ATTATTTTTTATGTTGATGGT
1 ATTATTTTTTATGTTGATGGT
45889906 ATTATTTTTTATGTTGATGGT
1 ATTATTTTTTATGTTGATGGT
45889927 CTAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (21 bp):
ATTATTTTTTATGTTGATGGT
Found at i:45894734 original size:18 final size:18
Alignment explanation
Indices: 45894707--45894745 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
45894697 TCAGTTGTAA
45894707 TTTAGATTTTCTTTTAGT
1 TTTAGATTTTCTTTTAGT
*
45894725 TTTAGTTTTTCTTTTAGT
1 TTTAGATTTTCTTTTAGT
45894743 TTT
1 TTT
45894746 CTATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.05, G:0.10, T:0.72
Consensus pattern (18 bp):
TTTAGATTTTCTTTTAGT
Found at i:45894752 original size:18 final size:19
Alignment explanation
Indices: 45894712--45894757 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
45894702 TGTAATTTAG
*
45894712 ATTTTCTTTTAGTTTTAGT
1 ATTTTCTTTTAGTTTTACT
45894731 -TTTTCTTTTAGTTTT-CT
1 ATTTTCTTTTAGTTTTACT
*
45894748 ATTTTATTTT
1 ATTTTCTTTT
45894758 TCACGAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.74
Consensus pattern (19 bp):
ATTTTCTTTTAGTTTTACT
Found at i:45897280 original size:29 final size:30
Alignment explanation
Indices: 45897243--45897302 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
45897233 CATAGTTTGG
* *
45897243 CACATGGCCGTGTG-GTAGCCTGTGTGGCT
1 CACATGGCCGTGTGCCTAGCCCGTGTGGCT
*
45897272 CACATGGCCTTGTGCCTAGCCCGTGTGGCT
1 CACATGGCCGTGTGCCTAGCCCGTGTGGCT
45897302 C
1 C
45897303 TTGAAACTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (30 bp):
CACATGGCCGTGTGCCTAGCCCGTGTGGCT
Found at i:45907028 original size:23 final size:23
Alignment explanation
Indices: 45906976--45907050 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
45906966 TACAACACCT
* **
45906976 AAGTGCCTG-AA-ACGACACACG
1 AAGTGCCTGAAATACGAAACATA
*
45906997 AAGTGCCTGAAATATGAAACATA
1 AAGTGCCTGAAATACGAAACATA
* *
45907020 AAGTTCCTGAAATACGACACATA
1 AAGTGCCTGAAATACGAAACATA
45907043 AAGTGCCT
1 AAGTGCCT
45907051 AATCGGCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 9 0.20
22 2 0.05
23 33 0.75
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (23 bp):
AAGTGCCTGAAATACGAAACATA
Found at i:45907401 original size:26 final size:25
Alignment explanation
Indices: 45907370--45907419 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45907360 TAGTTCAATA
45907370 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
45907396 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
45907420 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:45907807 original size:11 final size:11
Alignment explanation
Indices: 45907791--45907815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45907781 TTAAATTTTC
45907791 CTATTCAATTT
1 CTATTCAATTT
45907802 CTATTCAATTT
1 CTATTCAATTT
45907813 CTA
1 CTA
45907816 CCGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:45912154 original size:22 final size:21
Alignment explanation
Indices: 45912121--45912175 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 21
45912111 CAAGTGCTCC
*
45912121 CACAACTAAATCAACAGTTAA
1 CACAACTAAATCAAAAGTTAA
45912142 CACAAGCTAAATCAAAAGTTAA
1 CACAA-CTAAATCAAAAGTTAA
45912164 CACAACCTAAAT
1 CACAA-CTAAAT
45912176 TAGTAACGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.53, C:0.24, G:0.05, T:0.18
Consensus pattern (21 bp):
CACAACTAAATCAAAAGTTAA
Found at i:45914387 original size:43 final size:43
Alignment explanation
Indices: 45914326--45914704 Score: 507
Period size: 43 Copynumber: 8.8 Consensus size: 43
45914316 TCATACACAC
*
45914326 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCATCA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
*
45914369 AACGCCGCTATAGACCATGGTCTTTCGCGGCGCTTA-CCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
*
45914411 AACGCCGCTATAGACCATGGTCTTTCGCGGCGCTTACCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* *
45914454 AACGCCGCTATAAACCATGGTCTTTCGCGGCGCTTACCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* *
45914497 AACGCCGCTATAGATCATGGTCTTTCGCGGCGCTTACCCAACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
*
45914540 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAATA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
* * * *** **
45914583 AACGCCGCGAAAGACAATAACCTTTAGCGGCGCTTACTGTGAA-A
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTAC--CCAACA
45914627 AACGCCGCTATAGACCATGGTCTTTAGCGGCGCCTT-CACC-ACA
1 AACGCCGCTATAGACCATGGTCTTTAGCGGCG-CTTAC-CCAACA
* * *
45914670 AACACCGCTAAAG-CTCATGGTTTTTAGCGGCGCTT
1 AACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
45914705 TTAGAAAAAC
Statistics
Matches: 302, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
42 46 0.15
43 223 0.74
44 28 0.09
45 5 0.02
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (43 bp):
AACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTACCCAACA
Found at i:45915049 original size:21 final size:21
Alignment explanation
Indices: 45915023--45915076 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
45915013 AGCTGTTCTG
45915023 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
* *
45915044 CTTCCCTCACTGCAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
*
45915065 CTTCTCTCGCTG
1 CTTCCCTCGCTG
45915077 TCGCATCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.46, G:0.15, T:0.31
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:45915174 original size:87 final size:87
Alignment explanation
Indices: 45915044--45915241 Score: 231
Period size: 87 Copynumber: 2.3 Consensus size: 87
45915034 GCAGCCTCTA
* * * * *
45915044 CTTCCCTCACTGCAGCCTCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCT-GGTGGAGTTC
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTG-TAGCTAGAGTTC
*
45915108 TTTATA-CTTTCATT-GAACCTCAG
65 TTCATATCTTT--TTGGAACCTCAG
* * *
45915131 CTTCTCTCGCTGCTGCCTCTGCTTCTTTTGCTGTCGCATCTGCTTTAAGTTGTAGCTAGAGTTCT
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGTAGCTAGAGTTCT
45915196 TCATATCTTTTTGGAACCTCAG
66 TCATATCTTTTTGGAACCTCAG
* * * *
45915218 CTTTTCTCGATGTTGCCTCCGCTT
1 CTTCTCTCGCTGCTGCCTCTGCTT
45915242 TAAGTTGTGT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
86 3 0.03
87 88 0.93
88 4 0.04
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.40
Consensus pattern (87 bp):
CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGTAGCTAGAGTTCT
TCATATCTTTTTGGAACCTCAG
Found at i:45920752 original size:16 final size:15
Alignment explanation
Indices: 45920739--45921148 Score: 128
Period size: 16 Copynumber: 26.7 Consensus size: 15
45920729 TCGTATTATG
45920739 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
45920754 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
45920770 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
45920786 T--GTATCAT-T-TTAA
1 TAAGT-T-ATGTATTAA
*
45920799 -AA-TATATATATTAA
1 TAAGT-TATGTATTAA
45920813 TAAGTTATGTCGTATTATA
1 TAAGTTA--T-GTATTA-A
45920832 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
45920847 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
45920863 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
45920879 T--GTATCAT-T-TTAA
1 TAAGT-T-ATGTATTAA
*
45920892 -AA-TATATATATTAA
1 TAAGT-TATGTATTAA
*
45920906 TAAGTTATGTCGTACTATA
1 TAAGTTA--T-GTATTA-A
45920925 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
45920940 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
45920956 TAAGTTATGTGAGTT-A
1 TAAGTTATGT-A-TTAA
45920972 T--GTATCAT-T-TTAA
1 TAAGT-T-ATGTATTAA
*
45920985 -AA--TATATA-T-A
1 TAAGTTATGTATTAA
*
45920995 TATA-TATATATATTAA
1 TA-AGT-TATGTATTAA
45921011 TAAGTTATGTCGTATTATA
1 TAAGTTA--T-GTATTA-A
45921030 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
45921045 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
45921061 T--GTATCAT-T-TTAA
1 TAAGT-T-ATGTATTAA
*
45921074 -AA-TATATATATTAA
1 TAAGT-TATGTATTAA
45921088 TAAGTTATGTCGTATTATA
1 TAAGTTA--T-GTATTA-A
*
45921107 AAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
45921122 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
45921138 TAAGTTATGTA
1 TAAGTTATGTA
45921149 AGTTATGTAT
Statistics
Matches: 312, Mismatches: 14, Indels: 138
0.67 0.03 0.30
Matches are distributed among these distances:
10 3 0.01
11 4 0.01
12 15 0.05
13 16 0.05
14 26 0.08
15 76 0.24
16 106 0.34
17 16 0.05
18 19 0.06
19 31 0.10
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:45920763 original size:43 final size:42
Alignment explanation
Indices: 45920716--45920954 Score: 112
Period size: 40 Copynumber: 5.2 Consensus size: 42
45920706 TGATATATAT
45920716 TTATGTTATTATGTCGTATTATGTAAGTTATGTATTAAAAATG
1 TTATG-TATTATGTCGTATTATGTAAGTTATGTATTAAAAATG
* * *
45920759 TTATGTATTA-AT--AAGTTATGTAAGTTATGTATCATTTTAAAATATA
1 TTATGTATTATGTCGTA-TTATGTAAGTTATG--T-A--TTAAAA-ATG
* *
45920805 TATATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATG
1 T-TA-T-GT-A-TTATGTCGTATTATGTAAGTTATGTATTAAAAATG
* * *
45920852 TTATGTATTA-AT--AAGTTATGTAAGTTATGTATCATTTTAAAATATA
1 TTATGTATTATGTCGTA-TTATGTAAGTTATG--T-A--TTAAAA-ATG
* * *
45920898 TATATTAATAAGTTATGTCGTACTATATAAGTTATGTATTAAAAATG
1 T-TA-T-GT-A-TTATGTCGTATTATGTAAGTTATGTATTAAAAATG
45920945 TTATGTATTA
1 TTATGTATTA
45920955 ATAAGTTATG
Statistics
Matches: 146, Mismatches: 20, Indels: 61
0.64 0.09 0.27
Matches are distributed among these distances:
39 2 0.01
40 27 0.18
41 2 0.01
42 13 0.09
43 9 0.06
44 2 0.01
45 14 0.10
46 10 0.07
47 10 0.07
48 14 0.10
49 2 0.01
50 4 0.03
51 8 0.05
52 2 0.01
53 25 0.17
54 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.47
Consensus pattern (42 bp):
TTATGTATTATGTCGTATTATGTAAGTTATGTATTAAAAATG
Found at i:45920822 original size:34 final size:33
Alignment explanation
Indices: 45920779--45920915 Score: 89
Period size: 34 Copynumber: 4.3 Consensus size: 33
45920769 ATAAGTTATG
45920779 TAAGTTATGTATCATTTTAAAATATATATATTAA
1 TAAGTTATGTAT-ATTTTAAAATATATATATTAA
* * * *
45920813 TAAGTTATGTCGTATTATATAAGT-TATGTATTAA
1 TAAGTTATGT-ATATTTTA-AAATATATATATTAA
* *
45920847 AAATGTTATG--TA--TT--AATA-AGT-TA-T-G
1 TAA-GTTATGTATATTTTAAAATATA-TATATTAA
45920872 TAAGTTATGTATCATTTTAAAATATATATATTAA
1 TAAGTTATGTAT-ATTTTAAAATATATATATTAA
45920906 TAAGTTATGT
1 TAAGTTATGT
45920916 CGTACTATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 32
0.65 0.08 0.27
Matches are distributed among these distances:
24 6 0.08
25 2 0.03
26 2 0.03
27 6 0.08
28 1 0.01
29 2 0.03
30 1 0.01
31 5 0.06
32 5 0.06
33 1 0.01
34 36 0.47
35 10 0.13
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (33 bp):
TAAGTTATGTATATTTTAAAATATATATATTAA
Found at i:45920826 original size:93 final size:93
Alignment explanation
Indices: 45920724--45921192 Score: 765
Period size: 93 Copynumber: 5.1 Consensus size: 93
45920714 ATTTATGTTA
*
45920724 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
45920789 ATCATTTTAAAATATATATATTAATAAG
66 ATCATTTTAAAATATATATATTAATAAG
45920817 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
45920882 ATCATTTTAAAATATATATATTAATAAG
66 ATCATTTTAAAATATATATATTAATAAG
* *
45920910 TTATGTCGTACTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTGAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
45920975 ATCATTTTAAAATATATATA-T-AT-A-
66 ATCATTTTAAAATATATATATTAATAAG
* * *
45920999 -TATAT-ATATTA-ATAAGTTATGTCGTATTATATAA-GTTATGTATTAATAAGTTATGTAAGTT
1 TTATGTCGTATTATATAAGTTA--T-GTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTT
45921060 ATGTATCATTTTAAAATATATATATTAATAAG
62 ATGTATCATTTTAAAATATATATATTAATAAG
*
45921092 TTATGTCGTATTATAAAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
45921157 ATCATTTTAAAATATATATATATTAATAAG
66 ATCATTTT-AAA-ATATATATATTAATAAG
45921187 TTATGT
1 TTATGT
45921193 AATGTATGTA
Statistics
Matches: 350, Mismatches: 12, Indels: 26
0.90 0.03 0.07
Matches are distributed among these distances:
86 8 0.02
87 4 0.01
88 5 0.01
89 56 0.16
90 5 0.01
91 4 0.01
92 5 0.01
93 220 0.63
94 8 0.02
95 28 0.08
96 7 0.02
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (93 bp):
TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTTAAAATATATATATTAATAAG
Found at i:45921034 original size:19 final size:17
Alignment explanation
Indices: 45921005--45921054 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 17
45920995 TATATATATA
45921005 TATTAATAAGTTATGTCG
1 TATTAATAAGTTATGT-G
45921023 TATTATATAAGTTA--TG
1 TATTA-ATAAGTTATGTG
45921039 TATTAATAAGTTATGT
1 TATTAATAAGTTATGT
45921055 AAGTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.28
16 6 0.21
17 2 0.07
18 5 0.17
19 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (17 bp):
TATTAATAAGTTATGTG
Found at i:45921044 original size:34 final size:34
Alignment explanation
Indices: 45921005--45921148 Score: 125
Period size: 34 Copynumber: 4.1 Consensus size: 34
45920995 TATATATATA
45921005 TATTAATAAGTTATGTCGTATTATATAAGTTATG
1 TATTAATAAGTTATGTCGTATTATATAAGTTATG
* * *
45921039 TATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATA
1 TATTAATAAGTTATGT-CG-TAT-TAT-A---T-AAGT-TATG
*
45921082 TATTAATAAGTTATGTCGTATTATAAAAGTTATG
1 TATTAATAAGTTATGTCGTATTATATAAGTTATG
*
45921116 TATTAAAAATGTTA--T-GTATTA-ATAAGTTATG
1 TATTAATAA-GTTATGTCGTATTATATAAGTTATG
45921147 TA
1 TA
45921149 AGTTATGTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
31 11 0.12
32 6 0.07
33 1 0.01
34 27 0.30
35 8 0.09
36 3 0.03
37 3 0.03
38 1 0.01
39 1 0.01
40 3 0.03
41 4 0.04
42 4 0.04
43 19 0.21
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (34 bp):
TATTAATAAGTTATGTCGTATTATATAAGTTATG
Found at i:45921114 original size:182 final size:183
Alignment explanation
Indices: 45920724--45921179 Score: 751
Period size: 182 Copynumber: 2.5 Consensus size: 183
45920714 ATTTATGTTA
*
45920724 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
* *
45920789 ATCATTTTAAAATATATATATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGTT
66 ATCATTTTAAAATATATATA-T-ATAAG-TATATCATATTATATAAGTTATGTATTAAAAATGTT
45920854 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
128 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
* *
45920910 TTATGTCGTACTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTGAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
*
45920975 ATCATTTTAAAATATATATATAT-A-TATAT-ATATTA-ATAAGTTATGTCGTATTATATAA-GT
66 ATCATTTTAAAATATATATATATAAGTATATCATATTATATAAGTTA--T-GTATTA-AAAATGT
45921035 TATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
127 TATGTATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
*
45921092 TTATGTCGTATTATAAAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
45921157 ATCATTTTAAAATATATATATAT
66 ATCATTTTAAAATATATATATAT
45921180 TAATAAGTTA
Statistics
Matches: 257, Mismatches: 9, Indels: 12
0.92 0.03 0.04
Matches are distributed among these distances:
179 8 0.03
180 5 0.02
181 5 0.02
182 150 0.58
183 4 0.02
184 2 0.01
185 1 0.00
186 82 0.32
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (183 bp):
TTATGTCGTATTATATAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTTAAAATATATATATATAAGTATATCATATTATATAAGTTATGTATTAAAAATGTTATG
TATTAATAAGTTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
Found at i:45924745 original size:74 final size:74
Alignment explanation
Indices: 45924624--45924856 Score: 414
Period size: 74 Copynumber: 3.2 Consensus size: 74
45924614 ATAACTATCA
* *
45924624 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAATGAAGTCATTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
45924689 GGTTAAACT
66 GGTTAAACT
*
45924698 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATACAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
45924763 GGTTAAACT
66 GGTTAAACT
*
45924772 TTTGCGGCGTTTTTACCAGAAACGCCGCTAATACCAATAAACAGTAT-AAAAACGAAGTCGTTTT
1 TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
45924836 GGTTAAACT
66 GGTTAAACT
*
45924845 TTTGCTGCGTTT
1 TTTGCGGCGTTT
45924857 TTACAATAAA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
73 36 0.24
74 117 0.76
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (74 bp):
TTTGCGGCGTTTGTACCAGAAACGCCGCTAATACCAATAAACAGTATAAAAAACGAAGTCGTTTT
GGTTAAACT
Found at i:45924963 original size:2 final size:2
Alignment explanation
Indices: 45924956--45924996 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
45924946 ATGTTTCATA
*
45924956 AT AT AT AT AT AT AT AT AT AT AT AT A- AC AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45924996 A
1 A
45924997 ATAAGAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:45925000 original size:19 final size:21
Alignment explanation
Indices: 45924962--45925000 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45924952 CATAATATAT
45924962 ATATATATATATATATATAAC
1 ATATATATATATATATATAAC
45924983 ATATATATAT-TATA-ATAA
1 ATATATATATATATATATAA
45925001 GAAGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATATATATATATATATAAC
Found at i:45926055 original size:41 final size:41
Alignment explanation
Indices: 45925966--45926059 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
45925956 GCTAGCTACA
* *
45925966 AAACGCCGCTAATGCTCCGGTCTTTAGCGGCGTTTTCTTAT
1 AAACGCCGCTAATGCTCCGGTCTTTAGCGGCGCTTTCTTAG
** * *
45926007 ATGCGCCGCTAATGCTGCGGTTTTTAGCGGCGCTTT-TTAGG
1 AAACGCCGCTAATGCTCCGGTCTTTAGCGGCGCTTTCTTA-G
45926048 AAACGCCGCTAA
1 AAACGCCGCTAA
45926060 AGACCTGAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.07
41 41 0.93
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAATGCTCCGGTCTTTAGCGGCGCTTTCTTAG
Found at i:45926075 original size:41 final size:41
Alignment explanation
Indices: 45926030--45926294 Score: 281
Period size: 41 Copynumber: 6.5 Consensus size: 41
45926020 GCTGCGGTTT
* **
45926030 TTAGCGGCGCTTTTTAGGAAACGCCGCTAAAGACC-TGAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
*
45926071 TTAGC-GCGCTTCGTAAAAAACGCCGCTAAAGACC-TGAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
* * * *
45926111 TTAGCGGCGCTTCGTAAAAAACGACACTAAAGGCCGTAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
* * *
45926152 TTAGCGACGCCTTGTAAAAAACGCCGCTAAAGACCGTAACA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
* *
45926193 TTAGTGGCGCTTTGTAAAAAACGCCGCTAGAGACC-TGAGCA
1 TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGT-AGCA
* * *
45926234 TTAGCGGCGCATAT-TAGAAAAA-GCCGCGAAAGACCGCAGCA
1 TTAGCGGCGC-TTTGTA-AAAAACGCCGCTAAAGACCGTAGCA
*
45926275 TTAGCGGCGATTATGTAAAA
1 TTAGCGGCGCTT-TGTAAAA
45926295 GCACCGTTAA
Statistics
Matches: 190, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
40 38 0.20
41 142 0.75
42 10 0.05
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTGTAAAAAACGCCGCTAAAGACCGTAGCA
Found at i:45926275 original size:123 final size:122
Alignment explanation
Indices: 45926048--45926280 Score: 317
Period size: 123 Copynumber: 1.9 Consensus size: 122
45926038 GCTTTTTAGG
*
45926048 AAACGCCGCTAAAGACCTGAGCATTAGCGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCATT
1 AAACGCCGCTAAAGACCTGAACATTAGCGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCATT
* * * * *
45926113 AGCGGCGCTTCGTAAAAAACGACACTAAAGGCCGTAGCATTAGCGACGCCTTGTAAA
66 AGCGGCGCATAGTAAAAAACGACACGAAAGACCGCAGCATTAGCGACGCCTTGTAAA
* * *
45926170 AAACGCCGCTAAAGACC-GTAACATTAGTGGCGCTTTGTAAAAAACGCCGCTAGAGACCTGAGCA
1 AAACGCCGCTAAAGACCTG-AACATTAG-CGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCA
* * *
45926234 TTAGCGGCGCATATTAGAAAAA-GCCGCGAAAGACCGCAGCATTAGCG
64 TTAGCGGCGCATAGTA-AAAAACGACACGAAAGACCGCAGCATTAGCG
45926281 GCGATTATGT
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 24 0.25
123 66 0.69
124 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (122 bp):
AAACGCCGCTAAAGACCTGAACATTAGCGCGCTTCGTAAAAAACGCCGCTAAAGACCTGAGCATT
AGCGGCGCATAGTAAAAAACGACACGAAAGACCGCAGCATTAGCGACGCCTTGTAAA
Found at i:45926507 original size:12 final size:12
Alignment explanation
Indices: 45926490--45926514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45926480 TTTGTCCAAA
45926490 CGCCGCTAAAAG
1 CGCCGCTAAAAG
45926502 CGCCGCTAAAAG
1 CGCCGCTAAAAG
45926514 C
1 C
45926515 CTGTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CGCCGCTAAAAG
Found at i:45950673 original size:29 final size:29
Alignment explanation
Indices: 45950640--45950722 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
45950630 TCCACATTGA
*
45950640 CACGAATTCTCAACGAACAAATTCTTTGT
1 CACGAACTCTCAACGAACAAATTCTTTGT
*
45950669 CACGAACTCTCAATGAACAAATTCTTTGT
1 CACGAACTCTCAACGAACAAATTCTTTGT
* *
45950698 CATGAACTCTCAACGAACAAGTTCT
1 CACGAACTCTCAACGAACAAATTCT
45950723 CTACCTCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (29 bp):
CACGAACTCTCAACGAACAAATTCTTTGT
Found at i:45956651 original size:49 final size:49
Alignment explanation
Indices: 45956578--45956671 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
45956568 TGCTATGCAA
* *
45956578 TGCTAAACTTGGCCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGCCTTCCACTGTCTACACTCTTATCACTATTTATACAT
**
45956627 TGCTAAACTTAGTTTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGCCTTCCACTGTCTACACTCTTATCACTATTTAT
45956672 CCCTTCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.43
Consensus pattern (49 bp):
TGCTAAACTTAGCCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:45959228 original size:16 final size:17
Alignment explanation
Indices: 45959207--45959247 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
45959197 TTTCTATTTC
*
45959207 TTTATTATGTTT-TCAT
1 TTTATTATCTTTATCAT
45959223 TTTATTATCTTTATCAT
1 TTTATTATCTTTATCAT
45959240 TATTATTA
1 T-TTATTA
45959248 AAGTTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTATTATCTTTATCAT
Found at i:45959599 original size:43 final size:43
Alignment explanation
Indices: 45959328--45959579 Score: 364
Period size: 43 Copynumber: 5.9 Consensus size: 43
45959318 GCGCCGGAAA
* *
45959328 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* *
45959371 AAACGCCGCTAAAGACCATA-ACCTTTAACGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTACCAC
45959414 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
45959457 AAATGCCGCAAAAGACCAAGACCTTTAGTGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
45959500 AAACGCCGCTAAAGAACAAGACCTTTAGCGTCGCTTTCT-CCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT-TACCAC
* *
45959543 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT
45959580 ATCCAAAAAT
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 187 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:45960660 original size:91 final size:91
Alignment explanation
Indices: 45960505--45961302 Score: 628
Period size: 91 Copynumber: 8.7 Consensus size: 91
45960495 CTTTAACACT
* ** *
45960505 TCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAAC-CTATCAATTAACAACATTTAT
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACATTTAT
*
45960569 ACACCACAATTACAGCGATAAAACATC
65 ACACCTCAATTACAGCGATAAAACATC
* * *
45960596 TCAATTTCCAGCAACTAAACTCTTCAATTTGCATCACTTAAACACTTCAATTAACAACATTTATA
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
45960661 CACCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
45960687 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
45960752 CACCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
* * ** * * *
45960778 TCAATTTCTAGCAACTAAATACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGCACTTAAA
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
* *
45960843 CACTTCAATTTACAGC-ATTTAAACA-C
66 CACCTCAA-TTACAGCGA-TAAAACATC
* ** * * * * *
45960869 TTAAATTTGC-AGC-ACTTAAACA-TATCAATTAACAACATTTACACACCTCAATT-ACAGCGA-
1 -TCAATTT-CTAGCAAC-TAAACACT-TCAATTTGCAGCACTTAAACACTTCAATTAACAAC-AT
* * * * * *
45960929 TAAAATATCTCAATTTCCAGCAACT-AAACA-C
61 TTATACACCTCAA-TTACAGCGA-TAAAACATC
* * *
45960960 TTCAATTTGC-AGC-ACTTAAACATTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTT
1 -TCAATTT-CTAGCAAC-TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTT
* * * * * *
45961023 AAACACTTAAATTTGCAGC-ACTTAAACATA
63 ATACACCTCAA-TTACAGCGA-TAAAACATC
** * ** * * * ** * * ** * ** *
45961053 TCAATTAATAACATTTATACACCTCAA-TTACAAAAATAAAACATCTT-AATTTCCAGCAACTAA
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACA-CTTCAATTAACAACATTTAT
** * ** *
45961116 ATTCTTCAATTTGTAGC-ACTTAAACA-C
65 ACACCTCAA-TTACAGCGA-TAAAACATC
45961143 TTCAATTTGC-AGC-ACTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACATT
1 -TCAATTT-CTAGCAAC-TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACATT
*
45961205 TATACACCTCAAATACAGCGATAAAACATC
62 TATACACCTCAATTACAGCGATAAAACATC
* * * * *
45961235 TCAATTTCCAACAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAA
1 TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
45961300 CAC
66 CAC
45961303 TTAAATTTAC
Statistics
Matches: 581, Mismatches: 98, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
90 2 0.00
91 444 0.76
92 134 0.23
93 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (91 bp):
TCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
CACCTCAATTACAGCGATAAAACATC
Found at i:45960760 original size:137 final size:136
Alignment explanation
Indices: 45960596--45961310 Score: 680
Period size: 137 Copynumber: 5.2 Consensus size: 136
45960586 ATAAAACATC
* ** * *
45960596 TCAATTTCCAGCAACTAAACTCTTCAATTTGCATCACTTAAACACT-TCAATTAACAACATTTAT
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTAT
*
45960660 ACACCTCAATTACAGCGATAAAACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCAGCACT
65 ACACCTCAATTACAGCAATAAAACATCTCAATTTC-AGCAACTAAACACTTCAATTTGCAGCACT
45960725 TAAACACT
129 TAAACACT
* * * * * * * * * **
45960733 TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATT-TCTAGCAACTA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTAAACATATCAATTAAC-AACATTTA
* * * * * *
45960795 AATACTTCAATTTACAGCACTTAAACA-CTTCAATTTGCAGC-ACTTAAACACTTCAATTTACAG
64 TACACCTCAA-TTACAGCAATAAAACATC-TCAATTT-CAGCAAC-TAAACACTTCAATTTGCAG
*
45960858 CATTTAAACACT
125 CACTTAAACACT
* * * ** * * * ** * *
45960870 TAAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTACACACCTCAATT-ACAGCGA-TAA
1 TCAATTTACAGCATTTAAACACT-TCAATTTGCAGCACTTAAACATATCAATTAACAAC-ATTTA
* * * * *
45960932 AATATCTCAATTTCCAGCAACT-AAACA-CTTCAATTTGCAGC-ACTTAAACATTTCAATTTGCA
64 TACACCTCAA-TTACAGCAA-TAAAACATC-TCAATTT-CAGCAAC-TAAACACTTCAATTTGCA
45960994 GCACTTAAACACT
124 GCACTTAAACACT
* *
45961007 TCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTAATAACATTTATA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
** * ** *
45961072 CACCTCAATTACAAAAATAAAACATCTTAATTTCCAGCAACTAAATTCTTCAATTTGTAGCACTT
66 CACCTCAATTACAGCAATAAAACATCTCAATTT-CAGCAACTAAACACTTCAATTTGCAGCACTT
45961137 AAACACT
130 AAACACT
* *
45961144 TCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
* * * *
45961209 CACCTCAAATACAGCGATAAAACATCTCAATTTCCAACAACTAAATACTTCAATTTGCAGCACTT
66 CACCTCAATTACAGCAATAAAACATCTCAATTT-CAGCAACTAAACACTTCAATTTGCAGCACTT
45961274 AAACACT
130 AAACACT
* *
45961281 TCAATTTACAACATTTAAACACTTAAATTT
1 TCAATTTACAGCATTTAAACACTTCAATTT
45961311 ACAAATCCAC
Statistics
Matches: 473, Mismatches: 87, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
135 2 0.00
136 33 0.07
137 401 0.85
138 37 0.08
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (136 bp):
TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACATTTATA
CACCTCAATTACAGCAATAAAACATCTCAATTTCAGCAACTAAACACTTCAATTTGCAGCACTTA
AACACT
Found at i:45960878 original size:160 final size:160
Alignment explanation
Indices: 45960702--45961187 Score: 812
Period size: 160 Copynumber: 3.0 Consensus size: 160
45960692 TTCTAGCAAC
*
45960702 TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACATTTATACACCTCAATTACAG
1 TAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAATTACAG
* *
45960766 CGATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTACAGCACTTAAACACTTCAATTT
65 CGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
45960831 GCAGCACTTAAACACTTCAATTTACAGCATT
130 GCAGCACTTAAACACTTCAATTTACAGCATT
*
45960862 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTACACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* * *
45960927 GATAAAATATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACATTTCAATTTG
66 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTG
45960992 CAGCACTTAAACACTTCAATTTACAGCATT
131 CAGCACTTAAACACTTCAATTTACAGCATT
* **
45961022 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAATAACATTTATACACCTCAATTACAAA
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* * * *
45961087 AATAAAACATCTTAATTTCCAGCAACTAAATTCTTCAATTTGTAGCACTTAAACACTTCAATTTG
66 GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTG
* *
45961152 CAGCACTTAAACACTTCAATTTGCAGCACT
131 CAGCACTTAAACACTTCAATTTACAGCATT
45961182 TAAACA
1 TAAACA
45961188 TATCAATTAA
Statistics
Matches: 305, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
159 1 0.00
160 304 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (160 bp):
TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTG
CAGCACTTAAACACTTCAATTTACAGCATT
Found at i:45960990 original size:114 final size:114
Alignment explanation
Indices: 45960491--45961028 Score: 479
Period size: 114 Copynumber: 4.7 Consensus size: 114
45960481 AATGGAAAGT
* * * *
45960491 AGCACTTTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAACCTATCAAT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAAT
* * *
45960556 TAACAACATTTATACACCACAATTACAGCGA-TAAAACA-TCTCAATTTCC
66 T-ACAGCATTTAAACACCTCAATTACAGCGACTAAAACACT-TCAATTTCC
* * * * ** * * * **
45960605 AGCAAC-TAAACTCTTCAATTTGCATCACTTAAACACTTCAATTAACAACATTTATACACCTCAA
1 AGC-ACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAA
* * * * *
45960669 TTACAGCGA-TAAAACATCTCAATTTCTAGCAACT-AAACACTTCAATTTGC
65 TTACAGC-ATTTAAACACCTCAATTAC-AGCGACTAAAACACTTCAATTTCC
* * * * * * *
45960719 AGCACTTAAACACTTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAA
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTAAACATATCAA
* ** * * * *
45960782 TTTCTAGCAACTAAATACTTCAATTTACAGC-ACTTAAACACTTCAATTTGC
65 TTAC-AGCATTTAAACACCTCAA-TTACAGCGACTAAAACACTTCAATTTCC
*
45960833 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATCAAT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAAT
* * *
45960898 TAACAACATTTACACACCTCAATTACAGCGA-TAAAATA-TCTCAATTTCC
66 T-ACAGCATTTAAACACCTCAATTACAGCGACTAAAACACT-TCAATTTCC
* * *
45960947 AGCAAC-TAAACACTTCAATTTGCAGCACTTAAACATTTCAATTTGCAGCACTTAAACACT-TCA
1 AGC-ACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACA-TATCA
45961010 ATTTACAGCATTTAAACAC
64 A-TTACAGCATTTAAACAC
45961029 TTAAATTTGC
Statistics
Matches: 339, Mismatches: 66, Indels: 38
0.77 0.15 0.09
Matches are distributed among these distances:
113 41 0.12
114 253 0.75
115 44 0.13
116 1 0.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.30
Consensus pattern (114 bp):
AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATATCAAT
TACAGCATTTAAACACCTCAATTACAGCGACTAAAACACTTCAATTTCC
Found at i:45961285 original size:160 final size:160
Alignment explanation
Indices: 45960491--45961310 Score: 744
Period size: 160 Copynumber: 5.1 Consensus size: 160
45960481 AATGGAAAGT
* ** * * *
45960491 AGCACTTTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAAC-CTATCAA
1 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACT-TCAA
** * * * * * * *
45960555 TTAACAACATTTATACACCA-CAATT-ACAGCGA-TAAAACATCTCAATTTCCAGCAACT-AA-A
65 TTTGCAGCACTTAAACA-CATCAATTAACAAC-ATTTAAACACCTCAA-TTACAGCAA-TAAATA
* * *
45960615 CTCTTCAATTTGCATC-ACTTAAACACTTCAATTAAC
126 CTC-TCAATTTCCAGCAAC-TAAACACTTCAATTTAC
* * * * * *
45960651 AACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTT-CTAGCAAC-TAAACACTT
1 AGCACTTAAACACTTCAATTTGCAGC-ACTTAAACACT-TCAATTTAC-AGC-ACTTAAACACTT
* * *
45960711 CAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATACACCTCAATTACAGCGATAAA-AC
62 CAATTTGCAGCACTTAAACACATCAATTAACAACATTTAAACACCTCAATTACAGCAATAAATAC
* *
45960775 ATCTCAATTTCTAGCAACTAAATACTTCAATTTAC
127 -TCTCAATTTCCAGCAACTAAACACTTCAATTTAC
* *
45960810 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAAT
1 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACTTCAAT
* * *
45960875 TTGCAGCACTTAAACATATCAATTAACAACATTTACACACCTCAATTACAGCGATAAAATA-TCT
66 TTGCAGCACTTAAACACATCAATTAACAACATTTAAACACCTCAATTACAGCAAT-AAATACTCT
*
45960939 CAATTTCCAGCAACTAAACACTTCAATTTGC
130 CAATTTCCAGCAACTAAACACTTCAATTTAC
* * *
45960970 AGCACTTAAACATTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAAT
1 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACTTCAAT
* * * **
45961035 TTGCAGCACTTAAACATATCAATTAATAACATTTATACACCTCAATTACAAAAATAAA-ACATCT
66 TTGCAGCACTTAAACACATCAATTAACAACATTTAAACACCTCAATTACAGCAATAAATAC-TCT
* ** **
45961099 TAATTTCCAGCAACTAAATTCTTCAATTTGT
130 CAATTTCCAGCAACTAAACACTTCAATTTAC
*
45961130 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAA
1 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACT-TCAA
** * * * * * * * * * *
45961194 TTAACAACATTTATACACCTCAAAT-ACAGCGA-TAAAACATCTCAATTTCCAACAACTAAATAC
65 TTTGCAGCACTTAAACACATCAATTAACAAC-ATTTAAACACCTCAA-TTACAGCAA-TAAATAC
*
45961257 T-TCAATTTGCAGC-ACTTAAACACTTCAATTTAC
127 TCTCAATTTCCAGCAAC-TAAACACTTCAATTTAC
* * *
45961290 AACATTTAAACACTTAAATTT
1 AGCACTTAAACACTTCAATTT
45961311 ACAAATCCAC
Statistics
Matches: 557, Mismatches: 77, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
158 5 0.01
159 118 0.21
160 421 0.76
161 10 0.02
162 3 0.01
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (160 bp):
AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACTTCAAT
TTGCAGCACTTAAACACATCAATTAACAACATTTAAACACCTCAATTACAGCAATAAATACTCTC
AATTTCCAGCAACTAAACACTTCAATTTAC
Found at i:45961314 original size:23 final size:23
Alignment explanation
Indices: 45960491--45961313 Score: 525
Period size: 23 Copynumber: 36.0 Consensus size: 23
45960481 AATGGAAAGT
* *
45960491 AGCACTTTAACACTTCAATTTAT
1 AGCACTTAAACACTTCAATTTAC
* *
45960514 AGCATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
45960537 AGCACTTTAAC-CTATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * **
45960560 AACATTTATACACCACAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
45960582 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
45960605 AGCAAC-TAAACTCTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
* *
45960628 ATCACTTAAACACTTCAATTAAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
45960651 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
*
45960673 AGCGA-TAAAACA-TCTCAATTT-C
1 AGC-ACTTAAACACT-TCAATTTAC
*
45960695 TAGCAAC-TAAACACTTCAATTTGC
1 -AGC-ACTTAAACACTTCAATTTAC
*
45960719 AGCACTTAAACACTTCAATTAAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
45960742 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
*
45960764 AGCGA-TAAAACA-TCTCAATTT-C
1 AGC-ACTTAAACACT-TCAATTTAC
*
45960786 TAGCAAC-TAAATACTTCAATTTAC
1 -AGC-ACTTAAACACTTCAATTTAC
*
45960810 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
45960833 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
45960856 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
45960879 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
45960902 AACATTTACACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
45960924 AGCGA-TAAAATA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
*
45960947 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
* *
45960970 AGCACTTAAACATTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
45960993 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
45961016 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
45961039 AGCACTTAAACA-TATCAATTAAT
1 AGCACTTAAACACT-TCAATTTAC
* * * *
45961062 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
** * * *
45961084 AAAAATAAAACATCTT-AATTTCC
1 AGCACTTAAACA-CTTCAATTTAC
** **
45961107 AGCAAC-TAAATTCTTCAATTTGT
1 AGC-ACTTAAACACTTCAATTTAC
*
45961130 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
45961153 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
45961176 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * * *
45961199 AACATTTATACACCTCAA-ATAC
1 AGCACTTAAACACTTCAATTTAC
* *
45961221 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* * *
45961244 AACAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
45961267 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
45961290 AACATTTAAACACTTAAATTTAC
1 AGCACTTAAACACTTCAATTTAC
45961313 A
1 A
45961314 AATCCACCAT
Statistics
Matches: 615, Mismatches: 138, Indels: 94
0.73 0.16 0.11
Matches are distributed among these distances:
22 101 0.16
23 505 0.82
24 9 0.01
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:45964298 original size:41 final size:40
Alignment explanation
Indices: 45964241--45964318 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
45964231 TCAGTTCGGG
* *
45964241 ATTAGCGGCACTTTTTCAAAAACGCCTCTAAAGACCCGAGC
1 ATTAGCAGCACTTTTTCAAAAACGCCGCTAAAG-CCCGAGC
*
45964282 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCG
1 ATTAGCAGCACTTTTTCAAAAACGCCGCTAAAGCCCG
45964319 GAAAGGTCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (40 bp):
ATTAGCAGCACTTTTTCAAAAACGCCGCTAAAGCCCGAGC
Found at i:45964424 original size:39 final size:40
Alignment explanation
Indices: 45964380--45964479 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
45964370 AAAAAAACGT
* * *
45964380 CGCTAATGCTC-ATTTTTCGCGGCGCTTT-CCTGGAAGCGC
1 CGCTAATGCTCGATTTTTAGCGGCGCTTTACGT-AAAGCGC
* * *
45964419 TGCTAATGCTCGATCTTTAGCGGCGTTTTACGTAAAGCGC
1 CGCTAATGCTCGATTTTTAGCGGCGCTTTACGTAAAGCGC
45964459 CGCTAATGCTCGATTTTTAGC
1 CGCTAATGCTCGATTTTTAGC
45964480 AGCGTTTTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 10 0.20
40 39 0.76
41 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (40 bp):
CGCTAATGCTCGATTTTTAGCGGCGCTTTACGTAAAGCGC
Done.