Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 24 of 31
Found at i:11491921 original size:27 final size:27
Alignment explanation
Indices: 11491891--11491958 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
11491881 AGAGATACCA
* *
11491891 TTGGGAGTCCTTTTGAAAGCGGTAGTG
1 TTGGGAGTCCTTTCGAAAGAGGTAGTG
** *
11491918 TTGGGAGTTATTCCGAAAGAGGTAGTG
1 TTGGGAGTCCTTTCGAAAGAGGTAGTG
11491945 TT-GGAGTCCTTTCG
1 TTGGGAGTCCTTTCG
11491959 GAAGGGCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.34
Consensus pattern (27 bp):
TTGGGAGTCCTTTCGAAAGAGGTAGTG
Found at i:11493781 original size:26 final size:26
Alignment explanation
Indices: 11493752--11493831 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
11493742 TATAATTGTC
11493752 AACCTAATGCTTAACCTTGCTGACTG
1 AACCTAATGCTTAACCTTGCTGACTG
11493778 AACCTAATGCTTAACCTTGCTGACTG
1 AACCTAATGCTTAACCTTGCTGACTG
* *
11493804 AACCTAATGCTTAACCCTGCTGGCTG
1 AACCTAATGCTTAACCTTGCTGACTG
11493830 AA
1 AA
11493832 GGTTCCAACT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (26 bp):
AACCTAATGCTTAACCTTGCTGACTG
Found at i:11495607 original size:13 final size:13
Alignment explanation
Indices: 11495589--11495616 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11495579 AATACTTAGT
11495589 AATGATTAATTAA
1 AATGATTAATTAA
11495602 AATGATTAATTAA
1 AATGATTAATTAA
11495615 AA
1 AA
11495617 AATGATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (13 bp):
AATGATTAATTAA
Found at i:11497733 original size:14 final size:14
Alignment explanation
Indices: 11497714--11497744 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11497704 CAGGGGAATC
11497714 GGGACTCGTGGGAG
1 GGGACTCGTGGGAG
*
11497728 GGGACTCTTGGGAG
1 GGGACTCGTGGGAG
11497742 GGG
1 GGG
11497745 GCCGGGGGAA
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:0.13, C:0.13, G:0.58, T:0.16
Consensus pattern (14 bp):
GGGACTCGTGGGAG
Found at i:11504110 original size:8 final size:8
Alignment explanation
Indices: 11504097--11504124 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11504087 AACGGATAAA
11504097 GATTCTTG
1 GATTCTTG
11504105 GATTCTTG
1 GATTCTTG
11504113 GATTCTTG
1 GATTCTTG
11504121 GATT
1 GATT
11504125 TTCATGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.25, T:0.50
Consensus pattern (8 bp):
GATTCTTG
Found at i:11505344 original size:30 final size:30
Alignment explanation
Indices: 11505310--11505374 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
11505300 TAAAGTCCAA
11505310 GAAACTTTACTGATCACAATGTCATCAAGC
1 GAAACTTTACTGATCACAATGTCATCAAGC
11505340 GAAACTTTACTGATCACAATGTCATCAAGC
1 GAAACTTTACTGATCACAATGTCATCAAGC
11505370 GAAAC
1 GAAAC
11505375 ATGATCTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (30 bp):
GAAACTTTACTGATCACAATGTCATCAAGC
Found at i:11507066 original size:16 final size:18
Alignment explanation
Indices: 11507027--11507063 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11507017 AAGAATTTAT
*
11507027 AAACAAAAAATATATAAA
1 AAACTAAAAATATATAAA
11507045 AAACTAAAAATAT-TAAA
1 AAACTAAAAATATATAAA
11507062 AA
1 AA
11507064 CTATTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACTAAAAATATATAAA
Found at i:11508069 original size:9 final size:9
Alignment explanation
Indices: 11508052--11508099 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
11508042 ATATTTTTAT
11508052 TTAATCGTG
1 TTAATCGTG
*
11508061 TTAAACGTG
1 TTAATCGTG
*
11508070 CTAATCGTG
1 TTAATCGTG
*
11508079 TTAAACGTG
1 TTAATCGTG
*
11508088 CTAATCGTG
1 TTAATCGTG
11508097 TTA
1 TTA
11508100 TTAATTATGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (9 bp):
TTAATCGTG
Found at i:11508076 original size:18 final size:18
Alignment explanation
Indices: 11508053--11508099 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
11508043 TATTTTTATT
11508053 TAATCGTGTTAAACGTGC
1 TAATCGTGTTAAACGTGC
11508071 TAATCGTGTTAAACGTGC
1 TAATCGTGTTAAACGTGC
11508089 TAATCGTGTTA
1 TAATCGTGTTA
11508100 TTAATTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (18 bp):
TAATCGTGTTAAACGTGC
Found at i:11508579 original size:27 final size:27
Alignment explanation
Indices: 11508544--11508620 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
11508534 ATATAATATG
11508544 TAGATCAAAAGAAATAAGAAAACTATA
1 TAGATCAAAAGAAATAAGAAAACTATA
* * *
11508571 TAGATCAAAAGAAATAAGCAACCTATG
1 TAGATCAAAAGAAATAAGAAAACTATA
11508598 TAGATCAAAAGAAATAAGAAAAC
1 TAGATCAAAAGAAATAAGAAAAC
11508621 AAAAACTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (27 bp):
TAGATCAAAAGAAATAAGAAAACTATA
Found at i:11509183 original size:16 final size:16
Alignment explanation
Indices: 11509159--11509195 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11509149 GATTTCACAT
11509159 AATAATTAAACATATA
1 AATAATTAAACATATA
* *
11509175 AATAGTTAAATATATA
1 AATAATTAAACATATA
11509191 AATAA
1 AATAA
11509196 AAAGAAGAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
AATAATTAAACATATA
Found at i:11511103 original size:21 final size:22
Alignment explanation
Indices: 11511078--11511121 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
11511068 AAGTGATTAA
11511078 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
11511099 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
11511121 T
1 T
11511122 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:11512190 original size:21 final size:22
Alignment explanation
Indices: 11512165--11512208 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
11512155 AAGTGATTAA
11512165 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
11512186 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
11512208 T
1 T
11512209 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:11521086 original size:72 final size:71
Alignment explanation
Indices: 11520986--11521119 Score: 157
Period size: 72 Copynumber: 1.9 Consensus size: 71
11520976 ACCTTATATT
** *
11520986 AATCAATTAAAATCCCTCTACTGGTCTCAGT-GTGCATTCCAATGTTGTTTTAATCAATTAAAAT
1 AATCAATTAAAATCCCTCTACT-GTCTCA-TAGCCCATTCCAATGTTATTTTAATCAATTAAAAT
11521050 CTTGTGCC
64 CTTGTGCC
* *
11521058 AATCAATTAAAA-CCTCTCTATCCT-TCTCATAGCCCATTCCATTGTTATTTTAATCGATTAAA
1 AATCAATTAAAATCC-CTCTA--CTGTCTCATAGCCCATTCCAATGTTATTTTAATCAATTAAA
11521120 CTATAGGTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
71 3 0.06
72 48 0.91
74 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (71 bp):
AATCAATTAAAATCCCTCTACTGTCTCATAGCCCATTCCAATGTTATTTTAATCAATTAAAATCT
TGTGCC
Found at i:11531902 original size:42 final size:42
Alignment explanation
Indices: 11531856--11532430 Score: 261
Period size: 42 Copynumber: 13.4 Consensus size: 42
11531846 NNNNNNNNAA
** *
11531856 TTTATATTACTTGAACTATGAGGCAAACTTAATATATAAAGT
1 TTTATATTACTTGAACTATGATACAAACTTAATATATAAAAT
* * * * * * *
11531898 TTTATATTAGTTGAACTTGTGA-ACTAAC-AAATGTACAATAAA
1 TTTATATTACTTGAAC-TATGATACAAACTTAATATATAA-AAT
* * *
11531940 TTTATATTACTTAAATTATGATATAAACTTAAATATATAAAACT
1 TTTATATTACTTGAACTATGATACAAACTT-AATATATAAAA-T
* * * * * *
11531984 TTTATATTAGTTGAACT-TGTAAACTAA-TAAATATAGAATAAA
1 TTTATATTACTTGAACTATG-ATACAAACTTAATATATAA-AAT
* * *
11532026 TTTATATTACTTGAACTATGATGCAAATTTAAATATGTAAAATT
1 TTTATATTACTTGAACTATGATACAAACTT-AATATATAAAA-T
* * * * * * *
11532070 TTTACATTAGTTGAACT-TGTAAACTAA-TAAATATAAAATAAA
1 TTTATATTACTTGAACTATG-ATACAAACTTAATATATAA-AAT
* *
11532112 TTTATATTACTTGAACTATGATGCAAACTTAAATATATCAAATT
1 TTTATATTACTTGAACTATGATACAAACTT-AATATAT-AAAAT
* * *
11532156 TTTATAGT-CGTTAAACT-T-AT--AAAC-TAATAAATGTAAAATT
1 TTTATATTAC-TTGAACTATGATACAAACTTAAT--ATATAAAA-T
*
11532196 AATTTATATTACTTGAACTATGATACGAACTTAATATATAAAAT
1 --TTTATATTACTTGAACTATGATACAAACTTAATATATAAAAT
* * * * *
11532240 ATTTATATTAGTTGAACT-TGTAAACTAAC-AAATATCA-AATAAA
1 -TTTATATTACTTGAACTATG-ATACAAACTTAATAT-ATAA-AAT
* * *
11532283 TTTATGTTA-TTCGAACTATGATGCTAACGTTAAATATATAAAATT
1 TTTATATTACTT-GAACTATGATACAAAC-TT-AATATATAAAA-T
* * * * * *
11532328 TTTATATTAGTTGAACT-TGTAAACTAAC-AAATGTA-AACTAAA
1 TTTATATTACTTGAACTATG-ATACAAACTTAATATATAA--AAT
* *
11532370 TTTATATTACTTGAACTATGATATAAATTTAAATATATAAAATT
1 TTTATATTACTTGAACTATGATACAAACTT-AATATATAAAA-T
* *
11532414 TTTACATTAATTGAACT
1 TTTATATTACTTGAACT
11532431 TGTAATTTGT
Statistics
Matches: 396, Mismatches: 88, Indels: 96
0.68 0.15 0.17
Matches are distributed among these distances:
38 3 0.01
39 4 0.01
40 8 0.02
41 15 0.04
42 159 0.40
43 62 0.16
44 99 0.25
45 37 0.09
46 5 0.01
47 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (42 bp):
TTTATATTACTTGAACTATGATACAAACTTAATATATAAAAT
Found at i:11531984 original size:15 final size:18
Alignment explanation
Indices: 11531948--11531984 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11531938 AATTTATATT
11531948 ACTTAAATTATGATATAA
1 ACTTAAATTATGATATAA
11531966 ACTTAAA-TAT-ATA-AA
1 ACTTAAATTATGATATAA
11531981 ACTT
1 ACTT
11531985 TTATATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 3 0.16
17 3 0.16
18 7 0.37
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
ACTTAAATTATGATATAA
Found at i:11532010 original size:86 final size:85
Alignment explanation
Indices: 11531708--11532489 Score: 883
Period size: 86 Copynumber: 9.0 Consensus size: 85
11531698 NNNNNNNNNN
* * *
11531708 AAACTTAAATATATAAAATTTTTTATATCAGTTAAACTTATAAACTAATAAATGTTAAATAAATT
1 AAACTTAAATATATAAAA-TTTTTATATTAGTTGAACTTGTAAACTAATAAATG-TAAATAAATT
*
11531773 TATAGTACTTGAACTATGATAC
64 TATATTACTTGAACTATGATAC
* * ********
11531795 AAAGTTAAATATAT-AAATTTTTATAGTAGTTGAACTTGTAAACTAA-AAANNNNNNNNNNAATT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAA--TGTAAATAAATT
**
11531858 TATATTACTTGAACTATGAGGC
64 TATATTACTTGAACTATGATAC
* * *
11531880 AAACTT-AATATAT-AAAGTTTTATATTAGTTGAACTTGTGAACTAACAAATGTACAATAAATTT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGTA-AATAAATTT
* * *
11531943 ATATTACTTAAATTATGATAT
65 ATATTACTTGAACTATGATAC
* *
11531964 AAACTTAAATATATAAAACTTTTATATTAGTTGAACTTGTAAACTAATAAATATAGAATAAATTT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGTA-AATAAATTT
*
11532029 ATATTACTTGAACTATGATGC
65 ATATTACTTGAACTATGATAC
* * * *
11532050 AAATTTAAATATGTAAAATTTTTACATTAGTTGAACTTGTAAACTAATAAATATAAAATAAATTT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGT-AAATAAATTT
*
11532115 ATATTACTTGAACTATGATGC
65 ATATTACTTGAACTATGATAC
* * * * * *
11532136 AAACTTAAATATATCAAATTTTTATAGTCGTTAAACTTATAAACTAATAAATGTAAAATTAATTT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGT-AAATAAATTT
11532201 ATATTACTTGAACTATGATAC
65 ATATTACTTGAACTATGATAC
* * * *
11532222 GAACTT-AATATATAAAATATTTATATTAGTTGAACTTGTAAACTAACAAATATCAAATAAATTT
1 AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGT-AAATAAATTT
* *
11532286 ATGTTA-TTCGAACTATGATGC
65 ATATTACTT-GAACTATGATAC
* *
11532307 TAACGTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAACTAAATT
1 AAAC-TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGTAAA-TAAATT
*
11532372 TATATTACTTGAACTATGATAT
64 TATATTACTTGAACTATGATAC
* * * *
11532394 AAATTTAAATATATAAAATTTTTACATTAATTGAACTTGTAATTTGTAAACTAATATATGTAAAA
1 AAACTTAAATATATAAAATTTTT--A-T-ATT--AGTTG-AACTTGTAAACTAATAAATGT-AAA
* *
11532459 TGAATTTATATTACTTGAACTATGATGC
58 TAAATTTATATTACTTGAACTATGATAC
11532487 AAA
1 AAA
11532490 TTTCATATCA
Statistics
Matches: 590, Mismatches: 85, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
84 68 0.12
85 130 0.22
86 249 0.42
87 83 0.14
88 3 0.01
89 1 0.00
90 3 0.01
92 4 0.01
93 46 0.08
94 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (85 bp):
AAACTTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAATAAATGTAAATAAATTTA
TATTACTTGAACTATGATAC
Found at i:11532803 original size:29 final size:29
Alignment explanation
Indices: 11532739--11532803 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
11532729 TTTTTCATTT
* *
11532739 AAGATAAGATAAGATAAAACTAAGAAATA
1 AAGATAAGATAACATAAAACTAAGAAAGA
* * *
11532768 AATATAAGATAACATAATA-TAATAAAGA
1 AAGATAAGATAACATAAAACTAAGAAAGA
11532796 ATAGATAA
1 A-AGATAA
11532804 TACCCTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.65, C:0.03, G:0.11, T:0.22
Consensus pattern (29 bp):
AAGATAAGATAACATAAAACTAAGAAAGA
Found at i:11533790 original size:31 final size:30
Alignment explanation
Indices: 11533706--11533812 Score: 119
Period size: 31 Copynumber: 3.6 Consensus size: 30
11533696 TTTAAAAAAT
* * ** *
11533706 TCAAATAAGTTTTTATACTTTTATTACG-T
1 TCAAATAAATTTTTATATTTTTATTTTGAG
11533735 TC-AATCAAATTTTTATATTTTTATTTTGAG
1 TCAAAT-AAATTTTTATATTTTTATTTTGAG
*
11533765 TTAAATAAATTTTTATATTTTTTATTTTGAG
1 TCAAATAAATTTTTATA-TTTTTATTTTGAG
*
11533796 TCAAATAAACTTTTATA
1 TCAAATAAATTTTTATA
11533813 ACTAATGATT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.05
29 20 0.30
30 12 0.18
31 31 0.47
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (30 bp):
TCAAATAAATTTTTATATTTTTATTTTGAG
Found at i:11536907 original size:4 final size:4
Alignment explanation
Indices: 11536898--11536922 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11536888 TGGAAGCAAA
11536898 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
11536923 TGTGCAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:11542530 original size:18 final size:18
Alignment explanation
Indices: 11542481--11542545 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
11542471 CAGAATAATC
*
11542481 ATATAATTGTTTGAACAA
1 ATATAATTGTTTGAATAA
* *
11542499 ATATCATTATTTGAATAA
1 ATATAATTGTTTGAATAA
*
11542517 ATATAATTGCTTGAATAA
1 ATATAATTGTTTGAATAA
* *
11542535 ACACAATTGTT
1 ATATAATTGTT
11542546 AAAAAACTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (18 bp):
ATATAATTGTTTGAATAA
Found at i:11551878 original size:13 final size:14
Alignment explanation
Indices: 11551862--11551890 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11551852 AATATGATTC
11551862 AATAATTCAA-AAA
1 AATAATTCAAGAAA
11551875 AATAATTCAAGAAA
1 AATAATTCAAGAAA
11551889 AA
1 AA
11551891 GTTAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAATTCAAGAAA
Found at i:11566382 original size:50 final size:49
Alignment explanation
Indices: 11566328--11566441 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 49
11566318 AAAGGTATCT
11566328 TGTAAGGGTTATCATTTCCCATTAAAAAGCAAAAATCCCTTAGTGAATTG
1 TGTAAGGGTTATCATTT-CCATTAAAAAGCAAAAATCCCTTAGTGAATTG
* * * * * *
11566378 TGTAAGGGTTATCGCTTTTCATTAAAAAGCAAGAATCCTTTTGTGGATTG
1 TGTAAGGGTTATC-ATTTCCATTAAAAAGCAAAAATCCCTTAGTGAATTG
* *
11566428 GGTAAAGGTTATCA
1 TGTAAGGGTTATCA
11566442 CTTGATCTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
50 51 0.94
51 3 0.06
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (49 bp):
TGTAAGGGTTATCATTTCCATTAAAAAGCAAAAATCCCTTAGTGAATTG
Found at i:11575565 original size:29 final size:29
Alignment explanation
Indices: 11575500--11575576 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
11575490 AGAAGAGTTG
* ** *
11575500 TACATAAACAGGTACAAGAAAGGAAGTTA
1 TACATGAACAGGTACAAGAAAAAAAGTGA
11575529 TACATGAACAGGTACAAGAAAAAAAGCTGA
1 TACATGAACAGGTACAAGAAAAAAAG-TGA
* * *
11575559 -ACGTGAACAAGTATAAGA
1 TACATGAACAGGTACAAGA
11575577 GAACAAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.16
Consensus pattern (29 bp):
TACATGAACAGGTACAAGAAAAAAAGTGA
Found at i:11575811 original size:18 final size:18
Alignment explanation
Indices: 11575769--11575813 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11575759 TCTTACAAAA
*
11575769 TAGTTGTTCTACTTATAT
1 TAGTTGTTCCACTTATAT
*
11575787 TAATTGTTCCACTTAT-T
1 TAGTTGTTCCACTTATAT
11575804 CTAGTTGTTC
1 -TAGTTGTTC
11575814 TGCATGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (18 bp):
TAGTTGTTCCACTTATAT
Found at i:11592452 original size:13 final size:13
Alignment explanation
Indices: 11592423--11592460 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11592413 ATTCTGATCT
*
11592423 TTTATTAAT-TTA
1 TTTATTAATATAA
11592435 TTTATTAATATAA
1 TTTATTAATATAA
*
11592448 TTTATTTATATAA
1 TTTATTAATATAA
11592461 AATGTCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTATTAATATAA
Found at i:11592702 original size:21 final size:21
Alignment explanation
Indices: 11592677--11592724 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
11592667 AATGATGACT
*
11592677 TCAATTAAGTAACAATGAAAA
1 TCAATTAAGTAAAAATGAAAA
*
11592698 TCAATTAAGTAAAAATGATAA
1 TCAATTAAGTAAAAATGAAAA
*
11592719 TTAATT
1 TCAATT
11592725 TAAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (21 bp):
TCAATTAAGTAAAAATGAAAA
Found at i:11594689 original size:48 final size:48
Alignment explanation
Indices: 11594624--11594715 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
11594614 CAAAAGTATG
11594624 TGCATTTCTCCACTTCCATAAGAACCAAACTGTTACTCCAAAAACATA
1 TGCATTTCTCCACTTCCATAAGAACCAAACTGTTACTCCAAAAACATA
* *
11594672 TGCATTTCTCCATTTCCATAAGAACCAAATTGTTACTCCAAAAA
1 TGCATTTCTCCACTTCCATAAGAACCAAACTGTTACTCCAAAAA
11594716 TTATAGCCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (48 bp):
TGCATTTCTCCACTTCCATAAGAACCAAACTGTTACTCCAAAAACATA
Found at i:11602469 original size:21 final size:22
Alignment explanation
Indices: 11602435--11602475 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11602425 TTAAAAAAGG
**
11602435 ACCTAAAATGTTAAA-ATATGA
1 ACCTAAAAACTTAAAGATATGA
11602456 ACCTAAAAACTTAAAGATAT
1 ACCTAAAAACTTAAAGATAT
11602476 AGCTACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (22 bp):
ACCTAAAAACTTAAAGATATGA
Found at i:11607927 original size:42 final size:42
Alignment explanation
Indices: 11607845--11607939 Score: 131
Period size: 42 Copynumber: 2.2 Consensus size: 42
11607835 AACTTGCACT
11607845 TTTGGATATTTGATCTTGCTTGGGGAATTAAGTTCTCAAACTC
1 TTTGGATATTTGATCTTGCTT-GGGAATTAAGTTCTCAAACTC
* *
11607888 TTTGGATATTTGATCTTGCCTT-GGAATTGGATTTC-CAAACTC
1 TTTGGATATTTGATCTTG-CTTGGGAATT-AAGTTCTCAAACTC
11607930 TTTGGATATT
1 TTTGGATATT
11607940 GGTTACGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 23 0.48
43 22 0.46
44 3 0.06
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (42 bp):
TTTGGATATTTGATCTTGCTTGGGAATTAAGTTCTCAAACTC
Found at i:11609660 original size:61 final size:60
Alignment explanation
Indices: 11609590--11609708 Score: 193
Period size: 61 Copynumber: 2.0 Consensus size: 60
11609580 AGCAAGCCGA
* *
11609590 ATCAATCAAGCTTAAGATATCAGCATAAACTGTTAGCCTGTTGGACTTTGGGCAATGATAG
1 ATCAATCAAGCTTAAAATATCAGCATAAAATGTTAGCCTGTTGGA-TTTGGGCAATGATAG
* *
11609651 ATCAATCAAGCTTAAAATATCAGCATAAAATGTTGGCTTGTTGGATTTGGGCAATGAT
1 ATCAATCAAGCTTAAAATATCAGCATAAAATGTTAGCCTGTTGGATTTGGGCAATGAT
11609709 GAGGCTGGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 13 0.24
61 41 0.76
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (60 bp):
ATCAATCAAGCTTAAAATATCAGCATAAAATGTTAGCCTGTTGGATTTGGGCAATGATAG
Found at i:11613751 original size:2 final size:2
Alignment explanation
Indices: 11613744--11613768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11613734 ATGCTACTAC
11613744 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11613769 CCAAGTACAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11619141 original size:16 final size:17
Alignment explanation
Indices: 11619105--11619142 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11619095 AGACACAATC
11619105 TTTTGAACAAACATAAT
1 TTTTGAACAAACATAAT
*
11619122 TTTTGAACAAGCATAAT
1 TTTTGAACAAACATAAT
11619139 TTTT
1 TTTT
11619143 CAAAAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (17 bp):
TTTTGAACAAACATAAT
Found at i:11620541 original size:15 final size:16
Alignment explanation
Indices: 11620516--11620545 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11620506 ATTTGTCAAA
11620516 CTTACCAAAACTTATG
1 CTTACCAAAACTTATG
11620532 CTTA-CAAAACTTAT
1 CTTACCAAAACTTAT
11620546 CCTAACTACA
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:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (16 bp):
CTTACCAAAACTTATG
Found at i:11625158 original size:6 final size:6
Alignment explanation
Indices: 11625147--11625171 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11625137 GCAACTTGTC
11625147 GAGATG GAGATG GAGATG GAGATG G
1 GAGATG GAGATG GAGATG GAGATG G
11625172 CGTTGGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GAGATG
Found at i:11627437 original size:22 final size:22
Alignment explanation
Indices: 11627394--11627440 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11627384 TAGTTTAAAA
11627394 ATTATATCTTATAAAATAAATT
1 ATTATATCTTATAAAATAAATT
* *
11627416 ATTATCATTTTATAAAGT-AATT
1 ATTAT-ATCTTATAAAATAAATT
11627438 ATT
1 ATT
11627441 GAAAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTATATCTTATAAAATAAATT
Found at i:11631933 original size:15 final size:16
Alignment explanation
Indices: 11631913--11631944 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11631903 TAAGGTTTGA
11631913 TAAAATATTAT-TAAT
1 TAAAATATTATATAAT
11631928 TAAAATATTATATAAT
1 TAAAATATTATATAAT
11631944 T
1 T
11631945 TTGATGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATATTATATAAT
Found at i:11645579 original size:11 final size:10
Alignment explanation
Indices: 11645559--11645597 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
11645549 TTTTAATTTA
11645559 TATTTATATT
1 TATTTATATT
11645569 TATTTATTATT
1 TATTTA-TATT
11645580 TATTT-TATT
1 TATTTATATT
*
11645589 TACTTATAT
1 TATTTATAT
11645598 GTTTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTATATT
Found at i:11645579 original size:17 final size:16
Alignment explanation
Indices: 11645549--11645595 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
11645539 TTTTTAAGTT
11645549 TTTTAATTTA-TATTTA
1 TTTT-ATTTATTATTTA
11645565 TATTTATTTATTATTTA
1 T-TTTATTTATTATTTA
11645582 TTTTATTTACTTAT
1 TTTTATTTA-TTAT
11645596 ATGTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATTTATTATTTA
Found at i:11647001 original size:13 final size:12
Alignment explanation
Indices: 11646976--11647013 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11646966 AACAGCTCGT
11646976 AAATAAA-AATA
1 AAATAAATAATA
*
11646987 AAATATCATAATA
1 AAATA-AATAATA
11647000 AAATAAATAATA
1 AAATAAATAATA
11647012 AA
1 AA
11647014 TACAATCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 9 0.39
13 9 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:11652429 original size:2 final size:2
Alignment explanation
Indices: 11652422--11652448 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11652412 TTGTAAGCAT
11652422 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
11652449 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11652453 original size:2 final size:2
Alignment explanation
Indices: 11652448--11652493 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
11652438 TCTCTCTCTC
* *
11652448 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11652490 TA TA
1 TA TA
11652494 AACTTTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11658242 original size:21 final size:21
Alignment explanation
Indices: 11658194--11658246 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11658184 CCTTTAAAGT
* *
11658194 TGTTGATGTGACGTTAACCGG
1 TGTTGATGTGACATTAACCAG
* * *
11658215 TGCTGATGTGGCATTGACCAG
1 TGTTGATGTGACATTAACCAG
11658236 TGTTGATGTGA
1 TGTTGATGTGA
11658247 TGTTTATCAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.13, G:0.34, T:0.34
Consensus pattern (21 bp):
TGTTGATGTGACATTAACCAG
Found at i:11658386 original size:31 final size:31
Alignment explanation
Indices: 11658343--11658414 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
11658333 CCTGGTCCTC
* *
11658343 TATCAAAAATGTTGAATGTAGTCCCTGTACTT
1 TATC-AAAATGTTGAATGTAGTCCCTATACTA
* * *
11658375 TATCAAAATGTTGGATTTAGTTCCTATACTA
1 TATCAAAATGTTGAATGTAGTCCCTATACTA
*
11658406 TACCAAAAT
1 TATCAAAAT
11658415 ATTGGATTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (31 bp):
TATCAAAATGTTGAATGTAGTCCCTATACTA
Found at i:11659350 original size:21 final size:21
Alignment explanation
Indices: 11659326--11659365 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11659316 AGGAGTTCTA
11659326 TGTTAGCACCAGTCAATGTTG
1 TGTTAGCACCAGTCAATGTTG
* *
11659347 TGTTAGCATCGGTCAATGT
1 TGTTAGCACCAGTCAATGT
11659366 CACATCAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (21 bp):
TGTTAGCACCAGTCAATGTTG
Found at i:11674786 original size:2 final size:2
Alignment explanation
Indices: 11674781--11674815 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11674771 AAAAAATCAA
*
11674781 AG AG AG AG AG AG AG AG AG AG AG AG AA AG A- AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11674816 GAAAGGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11675381 original size:15 final size:15
Alignment explanation
Indices: 11675361--11675399 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11675351 TAACATTACA
* *
11675361 AAAATTGTAACTTAT
1 AAAATTATAAATTAT
11675376 AAAATTATAAATTAT
1 AAAATTATAAATTAT
11675391 -AAATTATAA
1 AAAATTATAA
11675400 TATATACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
AAAATTATAAATTAT
Found at i:11675662 original size:17 final size:18
Alignment explanation
Indices: 11675642--11675690 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
11675632 ATATACTAAA
11675642 ATACTTTATAT-ATATAT
1 ATACTTTATATAATATAT
11675659 ATACTTTTAATATAAATATAT
1 ATAC-TTT-ATAT-AATATAT
*
11675680 TTACTTTATAT
1 ATACTTTATAT
11675691 TTTGTGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
18 3 0.11
19 8 0.30
20 3 0.11
21 9 0.33
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
ATACTTTATATAATATAT
Found at i:11675736 original size:15 final size:15
Alignment explanation
Indices: 11675702--11675747 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
11675692 TTGTGTTAAC
11675702 ATTATAAAATTATAT
1 ATTATAAAATTATAT
*
11675717 CTTATAAAATTAT-T
1 ATTATAAAATTATAT
*
11675731 AATTATAATA-TATAT
1 -ATTATAAAATTATAT
11675746 AT
1 AT
11675748 CTTTATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAAAATTATAT
Found at i:11675896 original size:341 final size:338
Alignment explanation
Indices: 11675314--11676405 Score: 1203
Period size: 325 Copynumber: 3.2 Consensus size: 338
11675304 ACACACATAC
* *
11675314 ACTTTTAATATAAATATATTTACTTTGCATTTTGTGTTAACATTACAAAAATTGTAACTTATAAA
1 ACTTTTAATATAAATATATTTACTTT-TATTTTGTGTTAACATTACAAAAATTATAACTTATAAA
* * *
11675379 ATTATAAATTATAAATTATAATATATACCATTGTTTATATAAACTTATAATATATATA-CTTAAA
65 ATTATTAATTAT-AA-TAT-ATATAT--CTTTGTTTATATAAACTTATAATATATAAATC-TAAA
* *
11675443 GAG-AGCTT-TGAGATTAGA-ATAGTTTTGGAACCTAGCTATTTTTTTTTAATTTCATATAATTA
124 GAGAAG-TTGTGAGA-TA-ATATAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCAT-TAATTA
* * *
11675505 AGG-ACAACCTTATATAGTTAATTAAATTAATTGATGAATCTATGATTATTAATTAACTTGTAAT
185 AGGAAAAACC--ATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTGTAAT
* * * * *
11675569 ATCTTTGAATATAAATAGTTTATATATTGTGTTAATTTATAAGAAATATAATTACTATTATATAT
248 GTCTTTTAATATATATACTTTATATATTGTGTTCATTTATAAGAAATATAATTACTATTATATAT
11675634 ATACTAAAATACTTTATATATATATAT
313 ATAC-AAAATACTTTATATATATATAT
* *
11675661 ACTTTTAATATAAATATATTTACTTTATATTTTGTGTTAACATTA-TAAAATTATATCTTATAAA
1 ACTTTTAATATAAATATATTTACTTT-TATTTTGTGTTAACATTACAAAAATTATAACTTATAAA
* *
11675725 ATTATTAATTATAATATATATATCTTTATTTATATAAACTTATAATACATAAATCTAAAGAGAAG
65 ATTATTAATTATAATATATATATCTTTGTTTATATAAACTTATAATATATAAATCTAAAGAGAAG
* *
11675790 TTGTGAGAGTAATATAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCATGAATTTAGGAAAAAC
130 TTGTGAGA-TAATATAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCATTAATTAAGGAAAAAC
*************** * *
11675855 CNNNNNNNNNNNNNNNNTTAATTCATGAAACTATAATTATTAGTTAACTTGTAATGTCTTTTAAT
194 C-ATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTGTAATGTCTTTTAAT
* * *
11675920 ATATATACTTTATATATAT-TAGGTTCATTTTTAAGAAATATAATGACTATTATATATATAC-AC
258 ATATATACTTTATATAT-TGT--GTTCATTTATAAGAAATATAATTACTATTATATATATACAAA
*
11675983 ACACTTTA-A-ATATA-A-
320 ATACTTTATATATATATAT
* *
11675998 AC-------------ATATTTACTTTCTATTTTGTGTTAACATTATAAAAATTATAACTTACAAA
1 ACTTTTAATATAAATATATTTACTTT-TATTTTGTGTTAACATTACAAAAATTATAACTTATAAA
* *
11676050 ATTATTAATTATAATATATATACCTTTGTTTATATAAACTTATAATATATAAATCTAAAGATAAG
65 ATTATTAATTATAATATATATATCTTTGTTTATATAAACTTATAATATATAAATCTAAAGAGAAG
* * * * *
11676115 TTGTGATATTATAATAGTTTTGAAACTTAGTTA-TTTTTTTTAATTTAATTTAATTAAGGACAAA
130 TTGTGAGATAAT-ATAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCA-TTAATTAAGGAAAAA
* * *
11676179 CTCATATATTTAATTAAATTAATTTATGAAACTATGATTATTAATTAACTTGTCATGTCTTTTAA
193 C-CATATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTGTAATGTCTTTTAA
* * *
11676244 TATATGTACTTTATATATATTGGGTTCATTTATAAGAAATATAATTACTATTATATGTATACACA
257 TATATATAC-TT-TATATATTGTGTTCATTTATAAGAAATATAATTACTATTATATATATACA-A
*
11676309 AATACTTT-TAGTATACATAT
319 AATACTTTATA-TATATATAT
*
11676329 ACTTTTAATATAAATATATTTACTTGTTATTTTGTATTAACATTACAAAAATTATAACTTATAAA
1 ACTTTTAATATAAATATATTTACTT-TTATTTTGTGTTAACATTACAAAAATTATAACTTATAAA
11676394 ATTATTAATTAT
65 ATTATTAATTAT
11676406 GTTTGAGATA
Statistics
Matches: 619, Mismatches: 90, Indels: 75
0.79 0.11 0.10
Matches are distributed among these distances:
324 46 0.07
325 203 0.33
326 4 0.01
327 15 0.02
329 4 0.01
330 1 0.00
331 2 0.00
337 2 0.00
338 1 0.00
339 5 0.01
340 1 0.00
341 109 0.18
342 51 0.08
343 42 0.07
344 60 0.10
345 3 0.00
346 27 0.04
347 43 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (338 bp):
ACTTTTAATATAAATATATTTACTTTTATTTTGTGTTAACATTACAAAAATTATAACTTATAAAA
TTATTAATTATAATATATATATCTTTGTTTATATAAACTTATAATATATAAATCTAAAGAGAAGT
TGTGAGATAATATAGTTTTGAAACCTAGTTATTTTTTTTTAATTTCATTAATTAAGGAAAAACCA
TATAGTTAATTAAATTAATTCATGAAACTATGATTATTAATTAACTTGTAATGTCTTTTAATATA
TATACTTTATATATTGTGTTCATTTATAAGAAATATAATTACTATTATATATATACAAAATACTT
TATATATATATAT
Found at i:11676332 original size:17 final size:17
Alignment explanation
Indices: 11676310--11676346 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11676300 GTATACACAA
* *
11676310 ATACTTTTAGTATACAT
1 ATACTTTTAATATAAAT
11676327 ATACTTTTAATATAAAT
1 ATACTTTTAATATAAAT
11676344 ATA
1 ATA
11676347 TTTACTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (17 bp):
ATACTTTTAATATAAAT
Found at i:11677084 original size:21 final size:22
Alignment explanation
Indices: 11677045--11677087 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11677035 TTTAGAACTT
11677045 TTAAGATAGAAATAAAAAGAAA
1 TTAAGATAGAAATAAAAAGAAA
11677067 TTAAGA-A-AAATAAAAAAGAAA
1 TTAAGATAGAAAT-AAAAAGAAA
11677088 AGATAAGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (22 bp):
TTAAGATAGAAATAAAAAGAAA
Found at i:11684236 original size:94 final size:94
Alignment explanation
Indices: 11684075--11684264 Score: 317
Period size: 94 Copynumber: 2.0 Consensus size: 94
11684065 CATTACTAGG
11684075 TATATGATTGGAGACAGTTGATTTTGGCTACTAATTTATTATCTCTAAGAATTGTTTTACAACTT
1 TATATGATTGGAGACAGTTGATTTTGGCTACTAATTTATTATCTCTAAGAATTGTTTTACAACTT
*
11684140 AGTGCTATATAAAGAATAATGAGAACCAC
66 AGTGCTATATAAAGAATAATGAGAACAAC
* * * *
11684169 TATATGATTGTAGACATTTGATTTTGGCTACTAATTTATTATCTTTGAGAATTGTTTTACAACTT
1 TATATGATTGGAGACAGTTGATTTTGGCTACTAATTTATTATCTCTAAGAATTGTTTTACAACTT
**
11684234 AGTGCTATATAGGGAATAATGAGAACAAC
66 AGTGCTATATAAAGAATAATGAGAACAAC
11684263 TA
1 TA
11684265 GAATAAGTGA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (94 bp):
TATATGATTGGAGACAGTTGATTTTGGCTACTAATTTATTATCTCTAAGAATTGTTTTACAACTT
AGTGCTATATAAAGAATAATGAGAACAAC
Found at i:11684329 original size:35 final size:32
Alignment explanation
Indices: 11684289--11684441 Score: 135
Period size: 32 Copynumber: 4.6 Consensus size: 32
11684279 CTATTTTACA
*
11684289 CAAAACAATTAGAGTAAGTGAAGCGCTACTTCATG
1 CAAAACAATTAGAGCAAGTGAA--GC-ACTTCATG
* * * * *
11684324 TAAAACTACTACAGCAAGTGAATCATTACTTCATG
1 CAAAACAATTAGAGCAAGTGAAGC---ACTTCATG
**
11684359 CAAAACAATTAGAAAAAGTGAAGCACTTCATG
1 CAAAACAATTAGAGCAAGTGAAGCACTTCATG
* **
11684391 CAAAACCATTAGAATAAGTGAAGCACTTCATG
1 CAAAACAATTAGAGCAAGTGAAGCACTTCATG
* *
11684423 TAAAACACTTAGAGCAAGT
1 CAAAACAATTAGAGCAAGT
11684442 AGACTCCTAT
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
32 52 0.54
33 1 0.01
35 43 0.45
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (32 bp):
CAAAACAATTAGAGCAAGTGAAGCACTTCATG
Found at i:11694065 original size:21 final size:20
Alignment explanation
Indices: 11694032--11694071 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11694022 AAAAAAACTA
*
11694032 ATTGTTTCAAACTGATTACT
1 ATTGTTTCAAACTAATTACT
*
11694052 ATTGTTTCTTAACTAATTAC
1 ATTGTTTC-AAACTAATTAC
11694072 CATTTTCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTGTTTCAAACTAATTACT
Found at i:11694434 original size:80 final size:80
Alignment explanation
Indices: 11694278--11694447 Score: 180
Period size: 80 Copynumber: 2.1 Consensus size: 80
11694268 TTGTTTCACA
* * ** *
11694278 ATAAAAGAAAGTCAAATCCTTCTCTTCTCTTCCTTAGAATTTGCAAGAAAAATCTGATGGCCTTT
1 ATAAAAGAAAGTCAAATCCTTCTCTTCTCTTCCTTAGAATCTACAAGAAAAATCCAATGGCCTTC
11694343 TCATCTCTAAAATCT
66 TCATCTCTAAAATCT
* * * * ** **
11694358 ATAAAAGAAAGTCAAATCCTTCTCTTTTTTTTCTTAGAATCTATAAGGGAAATCCAATGTTCTTC
1 ATAAAAGAAAGTCAAATCCTTCTCTTCTCTTCCTTAGAATCTACAAGAAAAATCCAATGGCCTTC
* *
11694423 TC-TTTCTTAAAATTT
66 TCATCTC-TAAAATCT
*
11694438 GTAAAAGAAA
1 ATAAAAGAAA
11694448 TTTAATGGCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
79 3 0.04
80 70 0.96
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (80 bp):
ATAAAAGAAAGTCAAATCCTTCTCTTCTCTTCCTTAGAATCTACAAGAAAAATCCAATGGCCTTC
TCATCTCTAAAATCT
Found at i:11695233 original size:25 final size:25
Alignment explanation
Indices: 11695183--11695234 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
11695173 TATTTGATCC
* * *
11695183 GAAATAAAAGTTTAACAGCTTCATT
1 GAAAGAAAAGTATAACAGCTTAATT
11695208 GAAAGAAAAGTATAA-AGACTTAATT
1 GAAAGAAAAGTATAACAG-CTTAATT
11695233 GA
1 GA
11695235 CATTTTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (25 bp):
GAAAGAAAAGTATAACAGCTTAATT
Found at i:11704520 original size:2 final size:2
Alignment explanation
Indices: 11704515--11704543 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11704505 ATTCACATGC
11704515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11704544 CACTCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11704946 original size:33 final size:32
Alignment explanation
Indices: 11704909--11704978 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
11704899 AAATTAGAGA
*
11704909 ATTCAAAAGATAATGGGTAATTATCATAATCTC
1 ATTCAAAA-ATAATGGGTAATTATCACAATCTC
*
11704942 ATTC--AAATAATGGGTAGTTATCACAATCTC
1 ATTCAAAAATAATGGGTAATTATCACAATCTC
11704972 ATT-AAAA
1 ATTCAAAA
11704979 CTATATCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 25 0.76
31 4 0.12
33 4 0.12
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (32 bp):
ATTCAAAAATAATGGGTAATTATCACAATCTC
Found at i:11704954 original size:30 final size:30
Alignment explanation
Indices: 11704918--11704974 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
11704908 AATTCAAAAG
*
11704918 ATAATGGGTAATTATCATAATCTCATTCAA
1 ATAATGGGTAATTATCACAATCTCATTCAA
*
11704948 ATAATGGGTAGTTATCACAATCTCATT
1 ATAATGGGTAATTATCACAATCTCATT
11704975 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (30 bp):
ATAATGGGTAATTATCACAATCTCATTCAA
Found at i:11713862 original size:23 final size:23
Alignment explanation
Indices: 11713836--11713879 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11713826 TTCATTTTTT
*
11713836 GAAAAGCATT-ATGTGCAATTTAA
1 GAAAAACATTAATGTG-AATTTAA
11713859 GAAAAACATTAATGTGAATTT
1 GAAAAACATTAATGTGAATTT
11713880 TTCGATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (23 bp):
GAAAAACATTAATGTGAATTTAA
Found at i:11714371 original size:14 final size:14
Alignment explanation
Indices: 11714349--11714393 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
11714339 TGGTAAGAAA
11714349 AATAAATTTCTTTT
1 AATAAATTTCTTTT
* * **
11714363 AATAGATTTATTAA
1 AATAAATTTCTTTT
11714377 AATAAATTTCTTTT
1 AATAAATTTCTTTT
11714391 AAT
1 AAT
11714394 TGATTTATTA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (14 bp):
AATAAATTTCTTTT
Found at i:11714383 original size:28 final size:28
Alignment explanation
Indices: 11714347--11714405 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
11714337 AGTGGTAAGA
11714347 AAAATAAATTTCTTTTAATAGATTTATT
1 AAAATAAATTTCTTTTAATAGATTTATT
*
11714375 AAAATAAATTTCTTTTAATTGATTTATT
1 AAAATAAATTTCTTTTAATAGATTTATT
11714403 AAA
1 AAA
11714406 TTGTGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (28 bp):
AAAATAAATTTCTTTTAATAGATTTATT
Found at i:11727940 original size:17 final size:17
Alignment explanation
Indices: 11727905--11727940 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11727895 CTTGGAGCTT
*
11727905 TTGCTTCCACAAATTTC
1 TTGCTTCCACAAATGTC
*
11727922 TTGCTTCCACAAGTGTC
1 TTGCTTCCACAAATGTC
11727939 TT
1 TT
11727941 TCCTGTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (17 bp):
TTGCTTCCACAAATGTC
Found at i:11743006 original size:31 final size:31
Alignment explanation
Indices: 11742940--11743042 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
11742930 ATAATGTTAT
* *
11742940 AATTAAAATAAAATATATAATATAAG-AATCAAA
1 AATTAAAAT-AAA-ATAGAATATAAGAAAT-TAA
11742973 AATTAAAATAAAATAGAATATAAGAAATTAA
1 AATTAAAATAAAATAGAATATAAGAAATTAA
* * * *
11743004 AATCT-ATATAACATAG-GTAAAAGAAATTAA
1 AAT-TAAAATAAAATAGAATATAAGAAATTAA
11743034 AA-TAAAATA
1 AATTAAAATA
11743043 TATAATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.02
29 4 0.07
30 14 0.23
31 25 0.42
32 7 0.12
33 9 0.15
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (31 bp):
AATTAAAATAAAATAGAATATAAGAAATTAA
Found at i:11743085 original size:34 final size:33
Alignment explanation
Indices: 11743033--11743118 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 33
11743023 AAAGAAATTA
*
11743033 AAAT-AAAATATATAATATAAAAAATTATATTAAAG
1 AAATGAAAATA-A-AATATAAAAAATTATAAT-AAG
* * *
11743068 AAATGAAAATAAAATATATAAGATTATAATAAT
1 AAATGAAAATAAAATATAAAAAATTATAATAAG
11743101 AAATGAAAATAAAATATA
1 AAATGAAAATAAAATATA
11743119 TGATATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 20 0.43
34 15 0.33
35 5 0.11
36 6 0.13
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (33 bp):
AAATGAAAATAAAATATAAAAAATTATAATAAG
Found at i:11743360 original size:15 final size:15
Alignment explanation
Indices: 11743338--11743376 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11743328 TTTTCCTTGC
*
11743338 AATCACATTACTTGT
1 AATCACATTACCTGT
*
11743353 AATTACATTACCTGT
1 AATCACATTACCTGT
11743368 AATCACATT
1 AATCACATT
11743377 GCATTGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (15 bp):
AATCACATTACCTGT
Found at i:11759285 original size:15 final size:16
Alignment explanation
Indices: 11759265--11759301 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11759255 TATCATCAAT
11759265 TATTATA-TATTAATA
1 TATTATATTATTAATA
*
11759280 TATTATATTATTATTA
1 TATTATATTATTAATA
11759296 -ATTATA
1 TATTATA
11759302 ATATATTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATATTATTAATA
Found at i:11759290 original size:20 final size:20
Alignment explanation
Indices: 11759265--11759309 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11759255 TATCATCAAT
*
11759265 TATTATATATTAA-TATATTA
1 TATTAT-TATTAATTATAATA
11759285 TATTATTATTAATTATAATA
1 TATTATTATTAATTATAATA
11759305 TATTA
1 TATTA
11759310 ACATGTTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTATTAATTATAATA
Found at i:11759299 original size:23 final size:25
Alignment explanation
Indices: 11759263--11759309 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11759253 GTTATCATCA
11759263 ATTATTATATA-T-TAATATATTAT
1 ATTATTATATATTATAATATATTAT
11759286 ATTATTAT-TAATTATAATATATTA
1 ATTATTATAT-ATTATAATATATTA
11759310 ACATGTTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.05
23 9 0.43
24 1 0.05
25 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTATTATATATTATAATATATTAT
Found at i:11759481 original size:29 final size:29
Alignment explanation
Indices: 11759428--11759483 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
11759418 TTTGATTCAA
*
11759428 AATAAAAATATAATAGTTTAATTAAATGT
1 AATAAAAATATAATAATTTAATTAAATGT
*
11759457 AATAAAAATATAA-AATCTTATTTAAAT
1 AATAAAAATATAATAAT-TTAATTAAAT
11759484 TATCTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (29 bp):
AATAAAAATATAATAATTTAATTAAATGT
Found at i:11759992 original size:138 final size:138
Alignment explanation
Indices: 11759719--11759968 Score: 313
Period size: 138 Copynumber: 1.8 Consensus size: 138
11759709 TGCAATGAAA
* * *
11759719 ATATAACATTATTAATATACATTAGTTTCAATAATAATTGCCATTTGTTACATACATGAAATTTG
1 ATATAACATTATTAACATACATTAGTTTCAATAATAACTGCCATTTGTTACATACATGAAAATTG
* * * * * **
11759784 ACACGATATGTTAATAAGACACAATATTTGTGATATGACGTGCTACGACAATAATTACAACAAAA
66 ACACAACATGTTAATAAGACACAATATTTGTGATATAACGTACCACGACAATAAACACAACAAAA
11759849 ATTAATAG
131 ATTAATAG
* * ** *
11759857 ATATAACTTTATTAACATACATTA-TTCTCAATAATAACTGTCATTTGTTGTATATATGAAAATT
1 ATATAACATTATTAACATACATTAGTT-TCAATAATAACTGCCATTTGTTACATACATGAAAATT
*** *
11759921 GATGTAACATGTTAATTAGACACAATATTTGTGATATAACGTACCACG
65 GACACAACATGTTAATAAGACACAATATTTGTGATATAACGTACCACG
11759969 GTAAAAGACA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
137 2 0.02
138 92 0.98
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (138 bp):
ATATAACATTATTAACATACATTAGTTTCAATAATAACTGCCATTTGTTACATACATGAAAATTG
ACACAACATGTTAATAAGACACAATATTTGTGATATAACGTACCACGACAATAAACACAACAAAA
ATTAATAG
Found at i:11760499 original size:18 final size:19
Alignment explanation
Indices: 11760470--11760510 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11760460 TCATTTAATT
*
11760470 ATTATTATTATATTAATAA
1 ATTATTATTATATCAATAA
*
11760489 ATTATTA-TATATCAATAT
1 ATTATTATTATATCAATAA
11760507 ATTA
1 ATTA
11760511 GCATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTATTATTATATCAATAA
Found at i:11760893 original size:13 final size:14
Alignment explanation
Indices: 11760875--11760911 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
11760865 AACCTTACAA
11760875 TAAAAAAATCTTAT
1 TAAAAAAATCTTAT
11760889 TAAAAAAATCTTAT
1 TAAAAAAATCTTAT
11760903 TAAAAAAAT
1 TAAAAAAAT
11760912 TCAAGTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAAAATCTTAT
Found at i:11764656 original size:28 final size:28
Alignment explanation
Indices: 11764590--11764658 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
11764580 TCGTTATTCA
* *
11764590 TCATCCACTTCTGGTGGGTTAAAAGTAT
1 TCATCCACTTTTGGTGGATTAAAAGTAT
*
11764618 TCATCCACTTTTGGTGGATTACAAGTAT
1 TCATCCACTTTTGGTGGATTAAAAGTAT
*
11764646 TTATCCACTTTTG
1 TCATCCACTTTTG
11764659 ATTGGTTATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (28 bp):
TCATCCACTTTTGGTGGATTAAAAGTAT
Found at i:11765265 original size:38 final size:38
Alignment explanation
Indices: 11765149--11765265 Score: 93
Period size: 38 Copynumber: 3.1 Consensus size: 38
11765139 CTCACAATCA
* *
11765149 AAAAATTTGATTGCGAGACAAAGAAAACTTAATCGACT
1 AAAAATTTGATTGTGAGACAAAGAAAACTTAATCGATT
* * * * *
11765187 AAAAA-GT-ATTGTTAG-C-TAGCTAAAAGC-TCA-CGATCA
1 AAAAATTTGATTGTGAGACAAAG--AAAA-CTTAATCGAT-T
11765223 AAAAATTTGATTGTGAGACAAAGAAAACTTAATCGATT
1 AAAAATTTGATTGTGAGACAAAGAAAACTTAATCGATT
11765261 AAAAA
1 AAAAA
11765266 GAATGGTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 20
0.64 0.13 0.22
Matches are distributed among these distances:
34 2 0.04
35 4 0.07
36 17 0.30
37 4 0.07
38 23 0.40
39 5 0.09
40 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (38 bp):
AAAAATTTGATTGTGAGACAAAGAAAACTTAATCGATT
Found at i:11765306 original size:74 final size:74
Alignment explanation
Indices: 11765022--11765291 Score: 441
Period size: 74 Copynumber: 3.6 Consensus size: 74
11765012 TACGAGATAG
* * *
11765022 AGAAGACTTAATCAACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
1 AGAAAACTTAATCGACTAAAAAGTATGGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
11765087 GCGAGACAA
66 GCGAGACAA
* *
11765096 AGAAAACTTAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACAATCAAAAAATTTGATT
1 AGAAAACTTAATCGACTAAAAAGTATGGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
11765161 GCGAGACAA
66 GCGAGACAA
*
11765170 AGAAAACTTAATCGACTAAAAAGTATTGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
1 AGAAAACTTAATCGACTAAAAAGTATGGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
*
11765235 GTGAGACAA
66 GCGAGACAA
* * * *
11765244 AGAAAACTTAATCGATTAAAAAGAATGGTTAACCAGCTAAAAGCTCAC
1 AGAAAACTTAATCGACTAAAAAGTATGGTTAGCTAGCTAAAAGCTCAC
11765292 TATTTGAGAA
Statistics
Matches: 184, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 184 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (74 bp):
AGAAAACTTAATCGACTAAAAAGTATGGTTAGCTAGCTAAAAGCTCACGATCAAAAAATTTGATT
GCGAGACAA
Found at i:11766141 original size:26 final size:26
Alignment explanation
Indices: 11766056--11766143 Score: 113
Period size: 26 Copynumber: 3.4 Consensus size: 26
11766046 AACCAATAGT
*
11766056 AAAATTATCCATTCACTTCTAGTAGC
1 AAAATTATCCATTCACTTCTAGTGGC
* * *
11766082 AAAATTATCTATCCACTTCTAGTGAC
1 AAAATTATCCATTCACTTCTAGTGGC
* *
11766108 AAAATTATCCATTCACTTTTAGTGGT
1 AAAATTATCCATTCACTTCTAGTGGC
*
11766134 AAAGTTATCC
1 AAAATTATCC
11766144 TTAATTAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (26 bp):
AAAATTATCCATTCACTTCTAGTGGC
Found at i:11767826 original size:14 final size:14
Alignment explanation
Indices: 11767809--11767907 Score: 63
Period size: 14 Copynumber: 6.9 Consensus size: 14
11767799 CCCCACCCAC
11767809 TTTTCCCTCCAAAG
1 TTTTCCCTCCAAAG
*** *
11767823 TTTTTAATTCAAAG
1 TTTTCCCTCCAAAG
* *
11767837 TATTCCCCCCAAAAG
1 TTTTCCCTCC-AAAG
*
11767852 ATTTCCCTCCAAAG
1 TTTTCCCTCCAAAG
** *
11767866 TTTTCAATTCAAAG
1 TTTTCCCTCCAAAG
* *
11767880 TATTCCCCCCAAAAG
1 TTTTCCCTCC-AAAG
*
11767895 ATTTCCCTCCAAA
1 TTTTCCCTCCAAA
11767908 ACATTTGGGA
Statistics
Matches: 58, Mismatches: 25, Indels: 4
0.67 0.29 0.05
Matches are distributed among these distances:
14 36 0.62
15 22 0.38
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.32
Consensus pattern (14 bp):
TTTTCCCTCCAAAG
Found at i:11767857 original size:15 final size:15
Alignment explanation
Indices: 11767839--11767913 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
11767829 ATTCAAAGTA
*
11767839 TTCCCCCCAAAAGAT
1 TTCCCTCCAAAAGAT
*
11767854 TTCCCTCC-AAAGTT
1 TTCCCTCCAAAAGAT
** *
11767868 TTCAATTC-AAAG-T
1 TTCCCTCCAAAAGAT
*
11767881 ATTCCCCCCAAAAGAT
1 -TTCCCTCCAAAAGAT
*
11767897 TTCCCTCCAAAACAT
1 TTCCCTCCAAAAGAT
11767912 TT
1 TT
11767914 GGGAGGTTCT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.02
14 18 0.39
15 26 0.57
16 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.29
Consensus pattern (15 bp):
TTCCCTCCAAAAGAT
Found at i:11767858 original size:43 final size:43
Alignment explanation
Indices: 11767810--11767907 Score: 187
Period size: 43 Copynumber: 2.3 Consensus size: 43
11767800 CCCACCCACT
*
11767810 TTTCCCTCCAAAGTTTTTAATTCAAAGTATTCCCCCCAAAAGA
1 TTTCCCTCCAAAGTTTTCAATTCAAAGTATTCCCCCCAAAAGA
11767853 TTTCCCTCCAAAGTTTTCAATTCAAAGTATTCCCCCCAAAAGA
1 TTTCCCTCCAAAGTTTTCAATTCAAAGTATTCCCCCCAAAAGA
11767896 TTTCCCTCCAAA
1 TTTCCCTCCAAA
11767908 ACATTTGGGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.32, C:0.31, G:0.06, T:0.32
Consensus pattern (43 bp):
TTTCCCTCCAAAGTTTTCAATTCAAAGTATTCCCCCCAAAAGA
Found at i:11773256 original size:15 final size:14
Alignment explanation
Indices: 11773206--11773258 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
11773196 ATATATGTAT
11773206 TTTTTCTCTTTCCA
1 TTTTTCTCTTTCCA
* *
11773220 CTTTTCTCCTCTCCCAA
1 TTTTTCT-CT-TTCC-A
11773237 TTTTTCATCTTTCCA
1 TTTTTC-TCTTTCCA
11773252 TTTTTCT
1 TTTTTCT
11773259 ATCCTCCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.23
15 9 0.29
16 6 0.19
17 8 0.26
18 1 0.03
ACGTcount: A:0.09, C:0.32, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTTCTCTTTCCA
Found at i:11777608 original size:28 final size:28
Alignment explanation
Indices: 11777567--11777632 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
11777557 TAATAAAAAC
11777567 ATATAAA-AAACAAATAAATTACACCAA
1 ATATAAATAAACAAATAAATTACACCAA
* * *
11777594 ATATAAATAAGCAAATACATTACATCAA
1 ATATAAATAAACAAATAAATTACACCAA
*
11777622 ACATAAATAAA
1 ATATAAATAAA
11777633 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.21
Consensus pattern (28 bp):
ATATAAATAAACAAATAAATTACACCAA
Found at i:11780094 original size:37 final size:37
Alignment explanation
Indices: 11780053--11780133 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
11780043 ATTTAGACCA
* *
11780053 ACAAACAACAATTCACAATTGATTGATCCAACAATTC
1 ACAAACAACAATTCACAACTAATTGATCCAACAATTC
* * *
11780090 ACAAATAACAATTTACAACTAATTGATCCAAGAATTC
1 ACAAACAACAATTCACAACTAATTGATCCAACAATTC
11780127 ACAAACA
1 ACAAACA
11780134 CATTTACACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.23
Consensus pattern (37 bp):
ACAAACAACAATTCACAACTAATTGATCCAACAATTC
Found at i:11780639 original size:12 final size:12
Alignment explanation
Indices: 11780609--11780646 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11780599 AATGGTCGAC
11780609 GGGCGATGGGTAT
1 GGGCGATGGG-AT
*
11780622 -GTCGATGGGAT
1 GGGCGATGGGAT
11780633 GGGCGATGGGAT
1 GGGCGATGGGAT
11780645 GG
1 GG
11780647 TCGACCTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.16, C:0.08, G:0.55, T:0.21
Consensus pattern (12 bp):
GGGCGATGGGAT
Found at i:11789841 original size:22 final size:23
Alignment explanation
Indices: 11789815--11789871 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
11789805 GTATCGAATA
11789815 ATTTATATATTAATA-TTAAAAT
1 ATTTATATATTAATATTTAAAAT
* *
11789837 ATTTA-ATTATTTATATTTCAAAT
1 ATTTATA-TATTAATATTTAAAAT
*
11789860 -TTTATATTTTAA
1 ATTTATATATTAA
11789872 AAACATGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.71
23 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTATATATTAATATTTAAAAT
Found at i:11793593 original size:2 final size:2
Alignment explanation
Indices: 11793586--11793610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11793576 ATGCAGTAGC
11793586 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11793611 AATGGTACAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11809361 original size:2 final size:2
Alignment explanation
Indices: 11809356--11809384 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11809346 TATAAAATTA
11809356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11809385 ATGAGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11810559 original size:30 final size:30
Alignment explanation
Indices: 11810501--11810560 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11810491 CAAACATAAA
** *
11810501 TTTTAAAAAATACTTTAAAAATATAACTTT
1 TTTTAAAAAATAAATTAAAAATAAAACTTT
11810531 TTTTAAAAAATAAAATTAAAAA-AAAACTTT
1 TTTTAAAAAAT-AAATTAAAAATAAAACTTT
11810561 AGGAAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (30 bp):
TTTTAAAAAATAAATTAAAAATAAAACTTT
Found at i:11819746 original size:13 final size:13
Alignment explanation
Indices: 11819728--11819752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11819718 ATTGATAAGG
11819728 TTATTTTATTTAC
1 TTATTTTATTTAC
11819741 TTATTTTATTTA
1 TTATTTTATTTA
11819753 TAATATGTTC
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTATTTAC
Found at i:11821220 original size:73 final size:73
Alignment explanation
Indices: 11821139--11821274 Score: 245
Period size: 73 Copynumber: 1.9 Consensus size: 73
11821129 GCATACAAAT
* *
11821139 TCATAAGCATACGTTACATATTCATTCATAAACTCGTAGGTGGGAATATCTACATCCACCAAGTA
1 TCATAAGCATACGTTACATACTCATTCATAAACTCGTAGGTGGGAATATCCACATCCACCAAGTA
11821204 TATCATCA
66 TATCATCA
*
11821212 TCATAAGCATACGTTTCATACTCATTCATAAACTCGTAGGTGGGAATATCCACATCCACCAAG
1 TCATAAGCATACGTTACATACTCATTCATAAACTCGTAGGTGGGAATATCCACATCCACCAAG
11821275 CATACATGCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.29
Consensus pattern (73 bp):
TCATAAGCATACGTTACATACTCATTCATAAACTCGTAGGTGGGAATATCCACATCCACCAAGTA
TATCATCA
Found at i:11825074 original size:51 final size:51
Alignment explanation
Indices: 11825004--11825107 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
11824994 AATTGCCAAG
* * * *
11825004 ATAATGGGGACTGTACCATTATCCTCTATAATCTTAGATAGTGGGAATTGT
1 ATAATGGGGACTATACCATTATCCTCGATAATCTTAGATAGTCGAAATTGT
11825055 ATAATGGGGACTATACCATTATCCTCGATAATCTTAGATAGTCGAAATTGT
1 ATAATGGGGACTATACCATTATCCTCGATAATCTTAGATAGTCGAAATTGT
11825106 AT
1 AT
11825108 CATTGTCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (51 bp):
ATAATGGGGACTATACCATTATCCTCGATAATCTTAGATAGTCGAAATTGT
Found at i:11834630 original size:57 final size:57
Alignment explanation
Indices: 11834355--11834709 Score: 239
Period size: 57 Copynumber: 6.2 Consensus size: 57
11834345 GTATAACGAA
* * * * * * *
11834355 CATGTGTCTTACCCACTACACATATCTAGCACTAATCATTGTTAGATAGATATCAAG
1 CATGTGTCTTACCCAATACACATGTCTAGCACCAACCTTTGCTAGATAGGTATCAAG
** * * * * ** *
11834412 CATGTGTCTTACCCACCACACATGTCTAGCACCAAGCTTTGATAAAAAGACAACAAG
1 CATGTGTCTTACCCAATACACATGTCTAGCACCAACCTTTGCTAGATAGGTATCAAG
* *** * *
11834469 CATGTGTCTCATTTAATATACATGTCTAGCACCAACCTTTGCTAGATATGTATAACAAG
1 CATGTGTCTTACCCAATACACATGTCTAGCACCAACCTTTGCTAGATAGGTAT--CAAG
* ** * * *
11834528 CATGTGTCTTACACAGA-ACACAAATCTAACACCAAGCC-TAGCTAGATAGGCATCAAG
1 CATGTGTCTTACCCA-ATACACATGTCTAGCACCAA-CCTTTGCTAGATAGGTATCAAG
* * * * *
11834585 CATGTGTCTCACGCAATACACATGTCTAACACTAACCTTTTCTAGATAGGTATAACAAG
1 CATGTGTCTTACCCAATACACATGTCTAGCACCAACCTTTGCTAGATAGGTAT--CAAG
* * * * * * * * *
11834644 CATGTCTTTTACCCATTGCACATGTTTAGCACCAA-ATCTTACTAAATAGGCATCAAG
1 CATGTGTCTTACCCAATACACATGTCTAGCACCAACCT-TTGCTAGATAGGTATCAAG
*
11834701 CATGCGTCT
1 CATGTGTCT
11834710 GATGGCAAAG
Statistics
Matches: 229, Mismatches: 60, Indels: 18
0.75 0.20 0.06
Matches are distributed among these distances:
56 3 0.01
57 139 0.61
58 1 0.00
59 83 0.36
60 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (57 bp):
CATGTGTCTTACCCAATACACATGTCTAGCACCAACCTTTGCTAGATAGGTATCAAG
Found at i:11834677 original size:116 final size:115
Alignment explanation
Indices: 11834355--11834709 Score: 338
Period size: 116 Copynumber: 3.1 Consensus size: 115
11834345 GTATAACGAA
* * * * * *
11834355 CATGTGTCTTACCCACTACACATATCTAGCACTAATCATTGT-TAGATAG-ATATCAAGCATGTG
1 CATGTGTCTCACCCAATACACATGTCTAGCACTAA-CCTTTTCTAGATAGTATAACAAGCATGTG
* * * * * *
11834418 TCTTACCCACCACACATGTCTAGCACCAAGCTTTGATAAAAAGACAACAAG
65 TCTTACCCACAACACATGTCTAGCACCAAGCTTAGCTAAATAGGCATCAAG
*** * * *
11834469 CATGTGTCTCATTTAATATACATGTCTAGCACCAACCTTTGCTAGATATGTATAACAAGCATGTG
1 CATGTGTCTCACCCAATACACATGTCTAGCACTAACCTTTTCTAGATA-GTATAACAAGCATGTG
* * ** * * *
11834534 TCTTACACAGAACACAAATCTAACACCAAGCCTAGCTAGATAGGCATCAAG
65 TCTTACCCACAACACATGTCTAGCACCAAGCTTAGCTAAATAGGCATCAAG
* * *
11834585 CATGTGTCTCACGCAATACACATGTCTAACACTAACCTTTTCTAGATAGGTATAACAAGCATGTC
1 CATGTGTCTCACCCAATACACATGTCTAGCACTAACCTTTTCTAGATA-GTATAACAAGCATGTG
* *** * *
11834650 TTTTACCCATTGCACATGTTTAGCACCAAATCTTA-CTAAATAGGCATCAAG
65 TCTTACCCACAACACATGTCTAGCACC-AAGCTTAGCTAAATAGGCATCAAG
*
11834701 CATGCGTCT
1 CATGTGTCT
11834710 GATGGCAAAG
Statistics
Matches: 190, Mismatches: 47, Indels: 6
0.78 0.19 0.02
Matches are distributed among these distances:
113 3 0.02
114 33 0.17
115 1 0.01
116 148 0.78
117 5 0.03
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (115 bp):
CATGTGTCTCACCCAATACACATGTCTAGCACTAACCTTTTCTAGATAGTATAACAAGCATGTGT
CTTACCCACAACACATGTCTAGCACCAAGCTTAGCTAAATAGGCATCAAG
Found at i:11835099 original size:112 final size:112
Alignment explanation
Indices: 11834902--11835127 Score: 335
Period size: 112 Copynumber: 2.0 Consensus size: 112
11834892 TTTGATTCCT
* * * * ** *
11834902 TGTCCAAATTACAGCAAACAACTCTTTTAACAAACTTCACATCAAGCTTAATTGTTGCAAACCTA
1 TGTCCAAACTACACCAAACAACTCTTTTAACAAACCTCACACCAAGCCCAATTGTTGCAAACCAA
*
11834967 AGCTGTCTAATAAATGTTTGTGCAGCCTCTAACAAAAATCCACATGG
66 AGCTGTCTAATAAATGTTTGTGCAACCTCTAACAAAAATCCACATGG
* * *
11835014 TGTCCAAACTACACCAAACAACTCTTTTAAGAGACCTCGCACCAAGCCCAATTGTTGCAAACCAA
1 TGTCCAAACTACACCAAACAACTCTTTTAACAAACCTCACACCAAGCCCAATTGTTGCAAACCAA
* *
11835079 AGCTGTCTAATAAATGTTTGTGCAACCTCTAACAAAAGTTCACATGG
66 AGCTGTCTAATAAATGTTTGTGCAACCTCTAACAAAAATCCACATGG
11835126 TG
1 TG
11835128 AGAAATCCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (112 bp):
TGTCCAAACTACACCAAACAACTCTTTTAACAAACCTCACACCAAGCCCAATTGTTGCAAACCAA
AGCTGTCTAATAAATGTTTGTGCAACCTCTAACAAAAATCCACATGG
Found at i:11839910 original size:16 final size:16
Alignment explanation
Indices: 11839885--11839915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11839875 AGTTTGGTAT
*
11839885 GACTTTAGTGCAACCG
1 GACTTGAGTGCAACCG
11839901 GACTTGAGTGCAACC
1 GACTTGAGTGCAACC
11839916 CCAACAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (16 bp):
GACTTGAGTGCAACCG
Found at i:11841885 original size:26 final size:28
Alignment explanation
Indices: 11841839--11841894 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
11841829 TGAGAAGGGA
*
11841839 TATGAATTATATTATATAAATAAAATAT
1 TATGAAGTATATTATATAAATAAAATAT
11841867 TATGAAGTA-ATTA-ATAAATAAAATAT
1 TATGAAGTATATTATATAAATAAAATAT
11841893 TA
1 TA
11841895 GAGTGTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 15 0.56
27 4 0.15
28 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
TATGAAGTATATTATATAAATAAAATAT
Found at i:11857271 original size:34 final size:31
Alignment explanation
Indices: 11857208--11857273 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 31
11857198 GGTGCGTGAC
*
11857208 TTAATAAAAACTTATAATGGTTTAATAAAAA
1 TTAATAAAAAATTATAATGGTTTAATAAAAA
*
11857239 TTAATAAATAAATTATTAATTGTTATAATAAAAA
1 TTAATAAA-AAATTA-TAATGGTT-TAATAAAAA
11857273 T
1 T
11857274 ATCATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 8 0.27
32 5 0.17
33 7 0.23
34 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (31 bp):
TTAATAAAAAATTATAATGGTTTAATAAAAA
Found at i:11859270 original size:2 final size:2
Alignment explanation
Indices: 11859263--11859292 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11859253 TTGGAGTCAA
11859263 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11859293 TTATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11863896 original size:254 final size:254
Alignment explanation
Indices: 11863447--11863948 Score: 860
Period size: 254 Copynumber: 2.0 Consensus size: 254
11863437 AAAGCATGCC
* * * *
11863447 GATAATTGATATGCCTGCTTGTTTTGGTTGATTTCATAATGCTTGAAATTTCTTGGGAAGTGTTT
1 GATAATTGATATGCCTGCTTATTTTGATTGATTTCATAATGCTTCAAATTTCTTGGGAAGTGCTT
* *
11863512 TGCTCTGATCCAGAATTTTTCTAGGAATCTTCCTTAGGTTGTCAATAAGCAAGTCATTTAGCTTT
66 TGCTCTGATCCAGAATTTTTCTAGGAATCTTCATTAGGCTGTCAATAAGCAAGTCATTTAGCTTT
* *
11863577 TGTGTTGTTCTACACTCTGGCCATGCAATATATGTATGTAATTATTCGTGATGTCTAAGTATGAT
131 TGTGTTGTTCTACACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCGAAGTATGAT
*
11863642 GCCCCAGTGGTGATACTTGATCAATTATTTTGTTTGAGAGATCTCTACCTGGCCTTCCT
196 GCCCCAATGGTGATACTTGATCAATTATTTTGTTTGAGAGATCTCTACCTGGCCTTCCT
* *
11863701 GATAATTGATATGCCTGCTTATTTTGATTGATTTCATAGTGGTTCAAATTTCTTGGGAAGTGCTT
1 GATAATTGATATGCCTGCTTATTTTGATTGATTTCATAATGCTTCAAATTTCTTGGGAAGTGCTT
*
11863766 TGCTCTGATCCAGAATTTTTCTAGGAATCTTCATTAGGCTGTGAATAAGCAAGTCATTTAGCTTT
66 TGCTCTGATCCAGAATTTTTCTAGGAATCTTCATTAGGCTGTCAATAAGCAAGTCATTTAGCTTT
* *
11863831 TGTGTTGTTGTGCACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCGAAGTATGAT
131 TGTGTTGTTCTACACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCGAAGTATGAT
* *
11863896 GCCCCAATGGTGATACTTGATTAATTATTTTGTTTGAGAGATCTCTACTTGGC
196 GCCCCAATGGTGATACTTGATCAATTATTTTGTTTGAGAGATCTCTACCTGGC
11863949 TGCTATTGAA
Statistics
Matches: 232, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
254 232 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (254 bp):
GATAATTGATATGCCTGCTTATTTTGATTGATTTCATAATGCTTCAAATTTCTTGGGAAGTGCTT
TGCTCTGATCCAGAATTTTTCTAGGAATCTTCATTAGGCTGTCAATAAGCAAGTCATTTAGCTTT
TGTGTTGTTCTACACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCGAAGTATGAT
GCCCCAATGGTGATACTTGATCAATTATTTTGTTTGAGAGATCTCTACCTGGCCTTCCT
Found at i:11875546 original size:13 final size:14
Alignment explanation
Indices: 11875523--11875556 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
11875513 ATGTAATTTG
11875523 ATTTGAATTA-TTAT
1 ATTT-AATTATTTAT
11875537 ATTTAATTATTTAT
1 ATTTAATTATTTAT
11875551 ATTTAA
1 ATTTAA
11875557 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTAATTATTTAT
Found at i:11879840 original size:36 final size:36
Alignment explanation
Indices: 11879800--11879869 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
11879790 CCACCATCTG
*
11879800 ACAATCCTCTGTCCC-CACCAGCACCATCACCACCGT
1 ACAATCCTCTG-CCCTCACCAGCACCACCACCACCGT
* *
11879836 ACAATCCTCTGCCCTCTCCATCACCACCACCACC
1 ACAATCCTCTGCCCTCACCAGCACCACCACCACC
11879870 ACCACCTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 27 0.90
ACGTcount: A:0.24, C:0.53, G:0.06, T:0.17
Consensus pattern (36 bp):
ACAATCCTCTGCCCTCACCAGCACCACCACCACCGT
Found at i:11883438 original size:20 final size:21
Alignment explanation
Indices: 11883408--11883451 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
11883398 GATTAAAATT
11883408 AGAATGGTAACACTAATCTAA
1 AGAATGGTAACACTAATCTAA
*
11883429 AGAA-GGTAACACTGATCTAA
1 AGAATGGTAACACTAATCTAA
11883449 AGA
1 AGA
11883452 TCTCTTGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (21 bp):
AGAATGGTAACACTAATCTAA
Found at i:11889533 original size:17 final size:18
Alignment explanation
Indices: 11889511--11889545 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11889501 CTTTTATAGG
*
11889511 TTTAAT-GAAGGAAGAAT
1 TTTAATGGAAGAAAGAAT
11889528 TTTAATGGAAGAAAGAAT
1 TTTAATGGAAGAAAGAAT
11889546 GCAATTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (18 bp):
TTTAATGGAAGAAAGAAT
Found at i:11901471 original size:12 final size:12
Alignment explanation
Indices: 11901413--11901475 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
11901403 TAGTGTTGAC
* *
11901413 TAATAATAAATA
1 TAATAACAAAAA
11901425 TAATAACAAAAA
1 TAATAACAAAAA
*
11901437 TTAACAACAAAAA
1 -TAATAACAAAAA
* *
11901450 AAATTAACAAATA
1 TAA-TAACAAAAA
11901463 TAATAACAAAAA
1 TAATAACAAAAA
11901475 T
1 T
11901476 CTTAATGGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 21 0.51
13 20 0.49
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (12 bp):
TAATAACAAAAA
Found at i:11902628 original size:23 final size:25
Alignment explanation
Indices: 11902578--11902636 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
11902568 TTATTTTTAG
11902578 ATATTAATAATTTATTATTTATTTAAA
1 ATATTAATAATTTATTA--TATTTAAA
11902605 ATATTAATAATTTA-TA-ATTTAAA
1 ATATTAATAATTTATTATATTTAAA
11902628 ATATTAATA
1 ATATTAATA
11902637 TGTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 16 0.50
26 2 0.06
27 14 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTAATAATTTATTATATTTAAA
Found at i:11902801 original size:29 final size:30
Alignment explanation
Indices: 11902738--11902804 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
11902728 ACATTTAATT
* * * *
11902738 AAACCTTTGTGCTTTTATTTTTAATCAAAT
1 AAACCTTTATACTTTTATTTTGAATCAAAC
*
11902768 AAACCTTTATACTTTTATTTTGAGT-AAAC
1 AAACCTTTATACTTTTATTTTGAATCAAAC
11902797 AAACCTTT
1 AAACCTTT
11902805 TTGGCTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (30 bp):
AAACCTTTATACTTTTATTTTGAATCAAAC
Found at i:11904433 original size:26 final size:26
Alignment explanation
Indices: 11904404--11904454 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11904394 CACGCATTGA
* *
11904404 AAAAAATATTATTACATGTCATGTTG
1 AAAAAAGATCATTACATGTCATGTTG
* *
11904430 AAAAAAGGTCGTTACATGTCATGTT
1 AAAAAAGATCATTACATGTCATGTT
11904455 TAAAGTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
AAAAAAGATCATTACATGTCATGTTG
Found at i:11904570 original size:27 final size:27
Alignment explanation
Indices: 11904516--11904608 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
11904506 CAAGTTATAT
*
11904516 GTCATGTTTAAAAAATAATATTACTACAC
1 GTCATGTTT--AAAATAATATTATTACAC
* * *
11904545 CTCATGTTTAAAATAATATTGTTACAT
1 GTCATGTTTAAAATAATATTATTACAC
* *
11904572 GTCATGTTGAAAA-AAAATTATTACAC
1 GTCATGTTTAAAATAATATTATTACAC
*
11904598 GTTATGTTTAA
1 GTCATGTTTAA
11904609 GGTATTTAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
26 19 0.36
27 26 0.49
29 8 0.15
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (27 bp):
GTCATGTTTAAAATAATATTATTACAC
Found at i:11904704 original size:153 final size:151
Alignment explanation
Indices: 11904400--11904712 Score: 337
Period size: 151 Copynumber: 2.1 Consensus size: 151
11904390 AGTGCACGCA
** * * *
11904400 TTGAAAAAAATATTATTACATGTCATGTTGAAAAAAGGTCGTTACATGTCATGTTTAAAGTGTTT
1 TTGAAAAAAATATTATTACATGTCATGTTGAAAAAAAATCATTACACGTCATGTTTAAAGTATTT
* *** * **
11904465 AACTTCGAAAGTTTGTCTTAGTGAAATGCAAAGATAGTGACCAAGTTATATGTCATGTTTAAAAA
66 AACTTCGAAAGTTTGTCTTAGTGAAATACAAAGATAAAAACCAAGTTACATGTCATGTAGAAAAA
*
11904530 ATAATATTACTACACCTCATG
131 AAAATATTACTACACCTCATG
* * * * * *
11904551 TTTAAAATAATATTGTTACATGTCATGTTGAAAAAAAATTATTACACGTTATGTTTAAGGTATTT
1 TTGAAAAAAATATTATTACATGTCATGTTGAAAAAAAATCATTACACGTCATGTTTAAAGTATTT
* * *
11904616 AAC-TCTAAGAGTTTATGTCTTGGTGAAATACAAAGATAAAAACCAAGTTACGTGTCATGTAGAA
66 AACTTCGAA-AG-TT-TGTCTTAGTGAAATACAAAGATAAAAACCAAGTTACATGTCATGTAGAA
*
11904680 AAAGAAAAGTTATTA-TA-AGC-CATG
128 AAA-AAAA--TATTACTACACCTCATG
11904704 TTGAAAAAA
1 TTGAAAAAA
11904713 GAAAAATTAT
Statistics
Matches: 131, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
150 4 0.03
151 59 0.45
152 2 0.02
153 54 0.41
154 5 0.04
155 2 0.02
156 5 0.04
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (151 bp):
TTGAAAAAAATATTATTACATGTCATGTTGAAAAAAAATCATTACACGTCATGTTTAAAGTATTT
AACTTCGAAAGTTTGTCTTAGTGAAATACAAAGATAAAAACCAAGTTACATGTCATGTAGAAAAA
AAAATATTACTACACCTCATG
Found at i:11904842 original size:21 final size:21
Alignment explanation
Indices: 11904804--11904843 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11904794 TACAAACTAT
**
11904804 GTTGAAAAAAAAGTTATTATA
1 GTTGAAAAAAAAAATATTATA
11904825 GTTGAAAAAAAAAATATTA
1 GTTGAAAAAAAAAATATTA
11904844 AGTGCCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
GTTGAAAAAAAAAATATTATA
Found at i:11911864 original size:13 final size:13
Alignment explanation
Indices: 11911832--11911875 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
11911822 ATTGAAAAAG
11911832 ATAAATAAATATAA
1 ATAAAT-AATATAA
11911846 AT-AATAATATAA
1 ATAAATAATATAA
11911858 ATAAATAA-ATTAA
1 ATAAATAATA-TAA
11911871 ATAAA
1 ATAAA
11911876 AACTTTACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATAATATAA
Found at i:11911873 original size:22 final size:23
Alignment explanation
Indices: 11911810--11911874 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
11911800 ATATATGAGC
11911810 AAATAGAATAGAATTGAAA-AAGAT
1 AAATA-AATAGAATT-AAATAAGAT
* * *
11911834 AAATAAATATAAAT-AATAATAT
1 AAATAAATAGAATTAAATAAGAT
11911856 AAATAAATA-AATTAAATAA
1 AAATAAATAGAATTAAATAA
11911875 AAACTTTACC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 18 0.51
23 7 0.20
24 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (23 bp):
AAATAAATAGAATTAAATAAGAT
Found at i:11917736 original size:46 final size:46
Alignment explanation
Indices: 11917685--11917775 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
11917675 ATTTTTTACA
*
11917685 TTTA-GGATAACTATGTGA-TAAAATTATAATTATGGATAATTTTGTC
1 TTTAGGGATAACTATGT-ATTAAAATTATAA-TAAGGATAATTTTGTC
* *
11917731 TTTAGGGATAAGTATGTATTTAAATTATAATAAGGATAATTTTGT
1 TTTAGGGATAACTATGTATTAAAATTATAATAAGGATAATTTTGT
11917776 TTTTTATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 19 0.47
47 21 0.52
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.44
Consensus pattern (46 bp):
TTTAGGGATAACTATGTATTAAAATTATAATAAGGATAATTTTGTC
Found at i:11926531 original size:202 final size:201
Alignment explanation
Indices: 11926128--11926615 Score: 656
Period size: 202 Copynumber: 2.4 Consensus size: 201
11926118 CATGCAAACC
* * * * * *
11926128 CTAAAAACTAGTGAACAAATGCCTCAAAACAAAAAATGAATTGCACAAGCCATGCACCGCCAGTC
1 CTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCACGCACCGTCAGTC
* * * *
11926193 TCGTAATACCTAATAATAAGTCACTTAATGCGTAATATCCATTCACATTATGCCAACATAACCAA
66 TCGCAATACCTAATAATAAGTCACTCAATGCGTAACATCCATACACATTATGCCAACATAACCAA
* * * *
11926258 TCACGTAACGGCCCAATCTCACGTAAAACATAATGACAAGTTACGCAATACATAAAAACAGTCAC
131 TCACGTAACGACCCAATCTCACGCAAAACATAA-GACAAGTCACGCAATACATAAAAACAATCAC
11926323 GCAATGT
195 GCAATGT
* * *
11926330 CTAAAAACTAGTTAACAAAAGCCTCAAAACAAGTGATGAATTGCATAAGTCACGCACCGTCAGTC
1 CTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCACGCACCGTCAGTC
* *
11926395 TCGCAATTCCTAATAATAAGTCACTCAATGCGTAACATCCACTCACACATTATGCCAACATAACT
66 TCGCAATACCTAATAATAAGTCACTCAATGCGTAACATCCA-T-ACACATTATGCCAACATAACC
* *
11926460 AATCACGTAACGACCCAATGTCACGCAAAACAT-A-ACAAGTCATGCAATACATAAAAACCAATC
129 AATCACGTAACGACCCAATCTCACGCAAAACATAAGACAAGTCACGCAATACATAAAAA-CAATC
*
11926523 ATGCAATGT
193 ACGCAATGT
* * * * * * *
11926532 CTACAAACTAGTGAAAAAAAGCTTCAAAATAAGAGATGAATTGCACAAGTCACGCACCTTTACTC
1 CTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCACGCACCGTCAGTC
*
11926597 TTGCAATACCTAATAATAA
66 TCGCAATACCTAATAATAA
11926616 TAACTCATTT
Statistics
Matches: 249, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
201 21 0.08
202 177 0.71
203 2 0.01
204 49 0.20
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (201 bp):
CTAAAAACTAGTGAACAAAAGCCTCAAAACAAGAGATGAATTGCACAAGTCACGCACCGTCAGTC
TCGCAATACCTAATAATAAGTCACTCAATGCGTAACATCCATACACATTATGCCAACATAACCAA
TCACGTAACGACCCAATCTCACGCAAAACATAAGACAAGTCACGCAATACATAAAAACAATCACG
CAATGT
Found at i:11935270 original size:2 final size:2
Alignment explanation
Indices: 11935265--11935307 Score: 56
Period size: 2 Copynumber: 22.5 Consensus size: 2
11935255 TTTAAAAATA
11935265 AT AT AT A- AT AT -T AT AT AT AT -T ACT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
11935305 AT A
1 AT A
11935308 GAAAATACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 3 0.08
2 32 0.86
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11937277 original size:30 final size:30
Alignment explanation
Indices: 11937241--11937306 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
11937231 TCTCCGACTC
* * *
11937241 CATTTGCTCGAGTCGGACCATCAGAGCATG
1 CATTTGCTCGAGTCGGACAATCAGACCACG
*
11937271 CATTTGCTCGAGTCGGTCAATCAGACCACG
1 CATTTGCTCGAGTCGGACAATCAGACCACG
11937301 CATTTG
1 CATTTG
11937307 GGGGGTAGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (30 bp):
CATTTGCTCGAGTCGGACAATCAGACCACG
Found at i:11940652 original size:9 final size:9
Alignment explanation
Indices: 11940626--11940694 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
11940616 CTAGTATTTC
*
11940626 TATATTATA
1 TATATAATA
11940635 TATAT-ATA
1 TATATAATA
*
11940643 TATGTAATA
1 TATATAATA
11940652 TATATAATA
1 TATATAATA
*
11940661 TTATATATTA
1 -TATATAATA
* *
11940671 T-TTTAAATT
1 TATAT-AATA
*
11940680 TATATAAAA
1 TATATAATA
11940689 TATATA
1 TATATA
11940695 TTTTCATTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 9 0.19
9 28 0.60
10 10 0.21
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (9 bp):
TATATAATA
Found at i:11945660 original size:24 final size:24
Alignment explanation
Indices: 11945618--11945684 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
11945608 CTAAATCCAC
11945618 AACAACCAAAACCTCAAATATTCA
1 AACAACCAAAACCTCAAATATTCA
*
11945642 AACAA-CAAAATCCTTAAATATTCA
1 AACAACCAAAA-CCTCAAATATTCA
* *
11945666 ATA-AATCAAAACCACAAAT
1 A-ACAACCAAAACCTCAAAT
11945685 TAATGAGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 5 0.14
24 26 0.70
25 6 0.16
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (24 bp):
AACAACCAAAACCTCAAATATTCA
Found at i:11965792 original size:21 final size:22
Alignment explanation
Indices: 11965757--11965800 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11965747 CTCTTAAAGT
11965757 AATTTAAAATAAAATAACATAA
1 AATTTAAAATAAAATAACATAA
* *
11965779 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACATAA
11965800 A
1 A
11965801 TTAATTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACATAA
Done.