Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 173 of 292
Found at i:51502191 original size:27 final size:27
Alignment explanation
Indices: 51502140--51502191 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
51502130 TTTACAAATC
51502140 GAGGGTAAAACAGTAATTCTATAAACT
1 GAGGGTAAAACAGTAATTCTATAAACT
* *
51502167 GAGGGTAAAACGGTAATTCTGTAAA
1 GAGGGTAAAACAGTAATTCTATAAA
51502192 TCGGGAGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTATAAACT
Found at i:51508249 original size:22 final size:22
Alignment explanation
Indices: 51508221--51508291 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
51508211 AGCTTATCGT
51508221 TTCAGCTAG-TATGAGCTTACTG
1 TTCAGCTAGATA-GAGCTTACTG
*
51508243 TTCAGCTCGATAGAGCTTACCAT-
1 TTCAGCTAGATAGAGCTTA-C-TG
*
51508266 TTTAGCTCA-ATAGAGCTTACTG
1 TTCAGCT-AGATAGAGCTTACTG
51508288 TTCA
1 TTCA
51508292 TCAGCTCGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.03
22 19 0.47
23 19 0.47
24 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (22 bp):
TTCAGCTAGATAGAGCTTACTG
Found at i:51511459 original size:28 final size:28
Alignment explanation
Indices: 51511428--51511483 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
51511418 TGAATTATCG
*
51511428 AGGATGGCACTTAGTGTGTG-TGACATCC
1 AGGATGACACTTAGTGTGTGAT-ACATCC
51511456 AGGATGACACTTAGTGTGTGATACATCC
1 AGGATGACACTTAGTGTGTGATACATCC
51511484 GTGAAGGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
AGGATGACACTTAGTGTGTGATACATCC
Found at i:51511494 original size:28 final size:29
Alignment explanation
Indices: 51511428--51511504 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
51511418 TGAATTATCG
*
51511428 AGGATGGCACTTAGTGTGTG-TGACATCC
1 AGGAAGGCACTTAGTGTGTGATGACATCC
* *
51511456 AGGATGACACTTAGTGTGTGAT-ACATCC
1 AGGAAGGCACTTAGTGTGTGATGACATCC
* *
51511484 -GTGAAGGCACTAAATGTGTGA
1 AG-GAAGGCACTTAGTGTGTGA
51511505 AATATTGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 40 0.95
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
AGGAAGGCACTTAGTGTGTGATGACATCC
Found at i:51514917 original size:57 final size:57
Alignment explanation
Indices: 51514828--51514941 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
51514818 GTCAATTTTG
* * * * * *
51514828 AGAAATGGCACTTAGTGTGCGAGTTATTGAGGATGGCACTTAGTGTGCGAAACATCC
1 AGAAATGGCACGTAGTGAGCGAATTATCGAGGATGACACTTAATGTGCGAAACATCC
* * *
51514885 AGAAATGGCTCGTAGTGAGTGAATTATCGAGGATGACACTTAATGTGCGATACATCC
1 AGAAATGGCACGTAGTGAGCGAATTATCGAGGATGACACTTAATGTGCGAAACATCC
51514942 GTGAAGGCGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (57 bp):
AGAAATGGCACGTAGTGAGCGAATTATCGAGGATGACACTTAATGTGCGAAACATCC
Found at i:51518498 original size:27 final size:27
Alignment explanation
Indices: 51517996--51518497 Score: 607
Period size: 27 Copynumber: 18.6 Consensus size: 27
51517986 AAAGTACTCC
51517996 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51518023 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
51518050 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51518077 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
51518104 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
51518131 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
51518158 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51518185 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
51518212 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51518239 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
51518266 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
51518293 CGATTTATAGAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
51518319 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* * *
51518347 CGATTTACATAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
51518374 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51518401 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51518428 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
51518455 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51518482 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
51518498 TAAAATACCC
Statistics
Matches: 418, Mismatches: 49, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.01
27 410 0.98
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:51519810 original size:9 final size:9
Alignment explanation
Indices: 51519798--51519874 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
51519788 TTGGATAAAC
51519798 ATGATATGT
1 ATGATATGT
*
51519807 ATGATATGCAC
1 ATGATATG--T
*
51519818 ATGACATGT
1 ATGATATGT
*
51519827 ATGATATGCAC
1 ATGATATG--T
51519838 ATGATATGT
1 ATGATATGT
*
51519847 ATGATATGCAC
1 ATGATATG--T
51519858 ATGATATGT
1 ATGATATGT
51519867 ATGATATG
1 ATGATATG
51519875 CACATGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:51519821 original size:20 final size:20
Alignment explanation
Indices: 51519796--51519886 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
51519786 TTTTGGATAA
51519796 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51519816 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
51519836 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51519856 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51519876 ACATGAGATGT
1 ACATGATATGT
51519887 TCATAAATGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51519843 original size:11 final size:11
Alignment explanation
Indices: 51519807--51519881 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
51519797 CATGATATGT
51519807 ATGATATGCAC
1 ATGATATGCAC
* *
51519818 ATGACATG--T
1 ATGATATGCAC
51519827 ATGATATGCAC
1 ATGATATGCAC
*
51519838 ATGATATG--T
1 ATGATATGCAC
51519847 ATGATATGCAC
1 ATGATATGCAC
*
51519858 ATGATATG--T
1 ATGATATGCAC
51519867 ATGATATGCAC
1 ATGATATGCAC
51519878 ATGA
1 ATGA
51519882 GATGTTCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51519963 original size:23 final size:23
Alignment explanation
Indices: 51519933--51520099 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
51519923 AGAAAGTGCA
51519933 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
51519956 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
51519980 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
51520004 AAAGGGCTTATGCCCCAGTAATT
1 AAAGGGCTTATGCCCCAGTTATT
51520027 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
51520050 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
51520073 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
51520097 AAA
1 AAA
51520100 AGAGGCTAGG
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 70 0.51
24 66 0.49
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:51519988 original size:24 final size:23
Alignment explanation
Indices: 51519932--51520121 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
51519922 GAGAAAGTGC
51519932 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51519955 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
51519978 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
51520002 CAAAAGGGCTTATGCCCCAGTAAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
51520026 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51520049 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
51520073 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
51520097 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51520121 A
1 A
51520122 TGATAAAGCA
Statistics
Matches: 152, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
23 65 0.43
24 78 0.51
25 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:51520000 original size:47 final size:47
Alignment explanation
Indices: 51519931--51520099 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
51519921 GGAGAAAGTG
51519931 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
51519978 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTAAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
51520026 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
51520072 TAAAAGGGCTTTTGCCCTAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
51520100 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
46 21 0.19
47 70 0.62
48 21 0.19
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:51523713 original size:43 final size:43
Alignment explanation
Indices: 51523579--51523714 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
51523569 GTCTGGGACA
* * **
51523579 TTGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTAGGACA
1 TTGGCATCGA-TATTTGA-TTACGTGTAAGACCACGTCTAGGATG
* * * * *
51523623 TCGACGTCGA-ATTTGATTTCGTGTAAGACC-CTGTCTGGGATAG
1 TTGGCATCGATATTTGATTACGTGTAAGACCAC-GTCTAGGAT-G
*
51523666 -TGGCATCGATATTTGATTACATGTAAGACCACGTCTAGGATG
1 TTGGCATCGATATTTGATTACGTGTAAGACCACGTCTAGGATG
51523708 TTGGCAT
1 TTGGCAT
51523715 TGTACGAGCG
Statistics
Matches: 71, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
42 27 0.38
43 36 0.51
44 8 0.11
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TTGGCATCGATATTTGATTACGTGTAAGACCACGTCTAGGATG
Found at i:51526530 original size:38 final size:38
Alignment explanation
Indices: 51526482--51526609 Score: 139
Period size: 38 Copynumber: 3.1 Consensus size: 38
51526472 TTCAAATTAA
*
51526482 CATGTATAACCGTGGCATATCCACTTAGCACCACGTTG
1 CATGTTTAACCGTGGCATATCCACTTAGCACCACGTTG
*
51526520 CATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAATG
1 CATGTTTAACCGTGGCATATCCACTTAGCACCACGT---TG
* *
51526561 AATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
1 ---C-ATGT-T-TAACCGTGGCATATCCACTTAGCACCACGTTG
51526605 CATGT
1 CATGT
51526610 ATCAGTATGT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
38 34 0.45
40 3 0.04
41 3 0.04
44 2 0.03
45 3 0.04
46 1 0.01
47 29 0.39
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (38 bp):
CATGTTTAACCGTGGCATATCCACTTAGCACCACGTTG
Found at i:51526641 original size:48 final size:48
Alignment explanation
Indices: 51526521--51526707 Score: 232
Period size: 48 Copynumber: 3.9 Consensus size: 48
51526511 ACCACGTTGC
* * * * *
51526521 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTCA-ATGAATCAAT
1 ATGTGTAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAAT
* * *
51526568 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAGT
1 ATGTGTAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAAT
* ** * *
51526616 ATGTGTAATCGTGGTTTATCCACTTAGCACTATGTTACACGTATCAAT
1 ATGTGTAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAAT
* *
51526664 ATGTGTAATCGTGGCATATGCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGCATATCCACTTAGCACCACGTTACACGTAT
51526708 AACCGTGGTA
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
47 33 0.28
48 87 0.73
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGCATATCCACTTAGCACCACGTTACACGTATCAAT
Found at i:51526693 original size:96 final size:95
Alignment explanation
Indices: 51526521--51526707 Score: 257
Period size: 96 Copynumber: 2.0 Consensus size: 95
51526511 ACCACGTTGC
* *
51526521 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTCAACGAATCAATATATGTAACCGTGGCATA
*
51526586 TCCACTTAGCACCACGTTACATGTATCAGT
66 TCCACTTAGCACCACGTTACACGTATCAGT
* * * * * * * *
51526616 ATGTGTAATCGTGGTTTATCCACTTAGCACTATGTTACACGTATCAATATGTGTAATCGTGGCAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTCA-ACGAATCAATATATGTAACCGTGGCAT
*
51526681 ATGCACTTAGCACCACGTTACACGTAT
65 ATCCACTTAGCACCACGTTACACGTAT
51526708 AACCGTGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 31 0.39
96 48 0.61
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (95 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTCAACGAATCAATATATGTAACCGTGGCATA
TCCACTTAGCACCACGTTACACGTATCAGT
Found at i:51531649 original size:40 final size:39
Alignment explanation
Indices: 51531604--51531808 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
51531594 GATTACAACC
*
51531604 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCCG
* *
51531644 GATATAACGACTTGCACAAATGCCTTCGGGTATTAGCCCG
1 GATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
51531684 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCCG
* ** * *
51531724 GATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCCCG
** * *
51531764 GATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCG
1 GATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCCCG
51531804 GATAT
1 GATAT
51531809 CATTCAATTG
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
GATATAACCACTGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:51531749 original size:80 final size:80
Alignment explanation
Indices: 51531604--51531808 Score: 259
Period size: 80 Copynumber: 2.6 Consensus size: 80
51531594 GATTACAACC
* * *
51531604 GATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATGCCT
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCT
*
51531669 TCGGGTATTAGCCCG
66 TCGGGTATTAACCCG
* * * *
51531684 GATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATTGCC
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAATGCC
*
51531748 TTCGGGTCTTAACCCG
65 TTCGGGTATTAACCCG
** * * * *
51531764 GATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
51531809 CATTCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
GATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCT
TCGGGTATTAACCCG
Found at i:51539771 original size:40 final size:39
Alignment explanation
Indices: 51539726--51539933 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
51539716 TCGGATACAA
*
51539726 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
51539766 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
51539806 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
51539846 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
51539886 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
51539926 CCGGATAT
1 CCGGATAT
51539934 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:51539866 original size:80 final size:80
Alignment explanation
Indices: 51539726--51539933 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
51539716 TCGGATACAA
* * *
51539726 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
51539791 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
51539806 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
51539870 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
51539886 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
51539934 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:51548398 original size:96 final size:96
Alignment explanation
Indices: 51548278--51548470 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
51548268 AAACCTGTTT
51548278 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
1 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
51548343 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
66 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
51548374 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
1 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
*
51548439 CCTTGCTTGGGCTAGGTTGTGTGTTGATGCA
66 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
51548470 A
1 A
51548471 GAAGGTCGAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (96 bp):
AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
Found at i:51550975 original size:40 final size:39
Alignment explanation
Indices: 51550929--51551065 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 39
51550919 GGGCTAAGTC
* * *
51550929 CCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTCAATT
* * * *
51550969 CCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAA-TT
51551009 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGG-CTAATT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTC-AATT
51551048 CCCGAAGGCA-TTGTGCGA
1 -CCGAAGGCATTTGTGCGA
51551066 ATCACTATAA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 25 0.30
40 58 0.70
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAATT
Found at i:51551053 original size:80 final size:79
Alignment explanation
Indices: 51550917--51551092 Score: 223
Period size: 79 Copynumber: 2.2 Consensus size: 79
51550907 CGAATGGTAT
*
51550917 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCA-TTG
51550982 TGCGAGTTACCAAAA
65 TGCGAGTTACCAAAA
* * *
51550997 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATT-CCGAAGGCATT
* * * *
51551060 GTGCGAATCACTATAA
64 GTGCGAGTTACCAAAA
*
51551076 CC-GGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
51551093 ACATCGAGCG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 14 0.17
79 35 0.42
80 35 0.42
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCATTGT
GCGAGTTACCAAAA
Found at i:51559042 original size:40 final size:40
Alignment explanation
Indices: 51558952--51559124 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
51558942 GTATCCGAGC
* * * *
51558952 TAAGTCCCGAAGGCTTTTGTTCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
* * * *
51558993 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
51559033 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
* * * * * *
51559073 TAATTCTCGAAGGCAATTGTGCGAATCACTATAAT-CGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
*
51559113 TATGTCCCGAAG
1 TAAGTCCCGAAG
51559125 ACAACGAGCG
Statistics
Matches: 110, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
40 89 0.81
41 21 0.19
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:51559120 original size:80 final size:81
Alignment explanation
Indices: 51558950--51559124 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 81
51558940 TGGTATCCGA
* * *
51558950 GCTAAGTCCCGAAGGCTTTTGTTCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
* *
51559015 GAGTTACCAAAACCGG
66 GAATCACCAAAACCGG
* * * *
51559031 GTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCTCGAAGGCAATTGTG
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTG
* * *
51559094 CGAATCACTATAATCGG
65 CGAATCACCAAAACCGG
*
51559111 GCTATGTCCCGAAG
1 GCTAAGTCCCGAAG
51559125 ACAACGAGCG
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 57 0.72
81 21 0.27
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (81 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGC
GAATCACCAAAACCGG
Found at i:51571641 original size:12 final size:13
Alignment explanation
Indices: 51571624--51571661 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
51571614 ATCCTGGAAT
51571624 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
51571636 ATTAAGAACACATA
1 ATTAAGAACA-AGA
51571650 ATTAAGAACAAG
1 ATTAAGAACAAG
51571662 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:51577442 original size:27 final size:27
Alignment explanation
Indices: 51577366--51577455 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
51577356 TTTAGTTTAC
* *
51577366 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
51577393 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
51577420 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
51577447 TAAAATTAC
1 TAAAATTAC
51577456 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:51577465 original size:54 final size:54
Alignment explanation
Indices: 51577366--51577472 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
51577356 TTTAGTTTAC
* * *
51577366 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
51577420 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
51577473 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:51577480 original size:27 final size:27
Alignment explanation
Indices: 51577461--51577725 Score: 233
Period size: 27 Copynumber: 9.8 Consensus size: 27
51577451 ATTACCAAAG
***
51577461 TACCCCCGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
51577488 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
51577515 TACCCTCGATTTACAAAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
51577542 TACCCTCGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * * **
51577569 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** **
51577596 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * * *
51577623 TACCTTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
*** * *
51577650 TACTGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
** *
51577677 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
51577704 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
51577726 AGAAATACCC
Statistics
Matches: 206, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 206 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:51577508 original size:54 final size:54
Alignment explanation
Indices: 51577461--51577725 Score: 334
Period size: 54 Copynumber: 4.9 Consensus size: 54
51577451 ATTACCAAAG
* * * * * **
51577461 TACCCCCGATTTACAGAATTATTGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
**
51577515 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
51577569 TACCCTCGATTTATAAAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
* ** *
51577623 TACCTTCGATTTACAAAATTA-TCGTTTTACTGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTACTATTT
* * * *
51577677 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTAC
51577726 AGAAATACCC
Statistics
Matches: 180, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 178 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:51577596 original size:81 final size:81
Alignment explanation
Indices: 51577407--51577752 Score: 334
Period size: 81 Copynumber: 4.3 Consensus size: 81
51577397 AATACTGAAA
* *** * * ** *** *
51577407 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
51577472 TACAGAATTATTGTTT
66 TACAAAATTACTGTTT
* * * *
51577488 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
51577553 TACAGAATTACTATTT
66 TACAAAATTACTGTTT
* * ** *
51577569 TACCCTCGATTTATAAAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCTTCGATT
1 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
51577634 TACAAAATTA-TCGTTT
66 TACAAAATTACT-GTTT
** * * * * *
51577650 TACTGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* ***
51577715 TACAAAATTACAGAAA
66 TACAAAATTACTGTTT
* *
51577731 TACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTATAAAATTAC
51577753 CAAAATACCC
Statistics
Matches: 219, Mismatches: 44, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
80 1 0.00
81 218 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:51577762 original size:54 final size:53
Alignment explanation
Indices: 51577704--51577850 Score: 163
Period size: 54 Copynumber: 2.7 Consensus size: 53
51577694 ATTACTATTT
* **
51577704 TACCCTCGATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCA-AAATACCCT-AATTTGTAAAATTACCAAAA
* ** * *
51577758 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTAATTTGTAAAATTACCAAAA
51577812 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTT
1 TACCCTCAATTTGTAAAATTACCAAAATA-CCCTAATTT
51577851 ACAAAGTTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
53 1 0.01
54 69 0.90
55 7 0.09
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAA
Found at i:51577762 original size:81 final size:81
Alignment explanation
Indices: 51577515--51577853 Score: 229
Period size: 81 Copynumber: 4.2 Consensus size: 81
51577505 ATTACCGTTT
* * * *** *
51577515 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTA-TTTTACCCTCGAT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-AGAAATACCCTCAAT
*****
51577579 TTATAAAATTACTGTTT
65 TTATAAAATTACCAAAA
** * *** ** *
51577596 TACCCTTGATTTACAGAATTACTGTTTTACCTTCGATTTACAAAATTATC-GTTTTACTGTCGAT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTCAAT
* * ***
51577660 TTATAGAATTACTATTT
65 TTATAAAATTACCAAAA
*
51577677 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
*
51577742 TGTAAAATTACCAAAA
66 TATAAAATTACCAAAA
* * *** * *** *
51577758 TACCCCTAGTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTACAGAAATACCCTCA
*
51577820 ATTTGTAAAATTACCAAAA
63 ATTTATAAAATTACCAAAA
* *
51577839 TACCCCTAATTTACA
1 TACCCTTGATTTACA
51577854 AAGTTACAGA
Statistics
Matches: 212, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
79 2 0.01
80 7 0.03
81 190 0.90
82 11 0.05
83 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
TATAAAATTACCAAAA
Found at i:51577867 original size:81 final size:81
Alignment explanation
Indices: 51577719--51577869 Score: 241
Period size: 81 Copynumber: 1.9 Consensus size: 81
51577709 TCGATTTACA
* **
51577719 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
51577784 ATACCACTGGTTTGTG
66 ATACCACTGGTTTGTG
* *
51577800 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCA-A
51577864 AATACC
65 AATACC
51577870 CTTGACTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 2 0.03
81 62 0.97
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
ATACCACTGGTTTGTG
Found at i:51577933 original size:27 final size:27
Alignment explanation
Indices: 51577717--51577934 Score: 143
Period size: 27 Copynumber: 8.0 Consensus size: 27
51577707 CCTCGATTTA
* * *
51577717 CAAAATTACAGAAATACCCTCAATTTG
1 CAAAATTACCGAAATACCCTTAGTTTG
* * *
51577744 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCGAAATACCCTTAGTTTG
* * *
51577771 TAAAATTACCAAAATACCAC-TGGTTTG
1 CAAAATTACCGAAATACC-CTTAGTTTG
** * *
51577798 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCGAAATACCCTTAGTTTG
* * * * *
51577825 TAAAATTACCAAAATACCCCTAATTTA
1 CAAAATTACCGAAATACCCTTAGTTTG
* * *
51577852 CAAAGTTACAGAAATACCCTTGACTTT-
1 CAAAATTACCGAAATACCCTT-AGTTTG
** * * *
51577879 CTAAAAATTATAGAAATACCATTGGTTTA
1 C--AAAATTACCGAAATACCCTTAGTTTG
*
51577908 CAAAATTACTGAAATACCCTTAGTTTG
1 CAAAATTACCGAAATACCCTTAGTTTG
51577935 TAGATTTACC
Statistics
Matches: 152, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 125 0.82
28 8 0.05
29 18 0.12
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
CAAAATTACCGAAATACCCTTAGTTTG
Found at i:51578017 original size:27 final size:27
Alignment explanation
Indices: 51577986--51578078 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
51577976 TACCCCTATT
*
51577986 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
51578013 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
51578040 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
51578067 TGGTAAAATGAC
1 AGGTAAAATGAC
51578079 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:51579339 original size:9 final size:9
Alignment explanation
Indices: 51579327--51579383 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
51579317 TTTGATAAAC
51579327 ATGATATGT
1 ATGATATGT
*
51579336 ATGATATGCAC
1 ATGATATG--T
*
51579347 ATGACATGT
1 ATGATATGT
*
51579356 ATGATATGCAC
1 ATGATATG--T
51579367 ATGATATGT
1 ATGATATGT
51579376 ATGATATG
1 ATGATATG
51579384 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:51579350 original size:20 final size:20
Alignment explanation
Indices: 51579325--51579387 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
51579315 ATTTTGATAA
51579325 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51579345 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
51579365 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
51579385 ACA
1 ACA
51579388 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51579469 original size:24 final size:23
Alignment explanation
Indices: 51579442--51579776 Score: 449
Period size: 24 Copynumber: 14.0 Consensus size: 23
51579432 GAGGAAGTGA
51579442 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
51579465 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
51579489 AAAAAGGGTTTATACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
51579513 CAAAAGGGCTTATGTCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
51579537 CAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
51579562 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51579585 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51579608 GATAAAGGGCTTATGCCCCTGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
*
51579633 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
51579656 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
*
51579681 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
51579704 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
51579728 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
51579752 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51579776 A
1 A
51579777 TGATAAAGCA
Statistics
Matches: 284, Mismatches: 17, Indels: 20
0.88 0.05 0.06
Matches are distributed among these distances:
23 94 0.33
24 130 0.46
25 60 0.21
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:51580003 original size:31 final size:31
Alignment explanation
Indices: 51579968--51580069 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 31
51579958 CGTTTACAGT
51579968 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
51579999 AAAGGCTTCGGCCCAGTGTTATGTAATATGAAATTTGA
1 AAAGGCTTCGGCCC------A-GTAATATGAAATTTGA
** *
51580037 AAAGGCTTCGGCCCAGTTTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
51580068 AA
1 AA
51580070 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 29 0.48
32 1 0.02
37 1 0.02
38 30 0.49
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATTTGA
Found at i:51580034 original size:38 final size:38
Alignment explanation
Indices: 51579983--51580092 Score: 168
Period size: 38 Copynumber: 2.9 Consensus size: 38
51579973 CTTCGGCCCA
51579983 GTAATATGAAATTTGAAAAGGCTTCGGCCCAGTGTTAT
1 GTAATATGAAATTTGAAAAGGCTTCGGCCCAGTGTTAT
*
51580021 GTAATATGAAATTTGAAAAGGCTTCGGCCCAGTTTTAT
1 GTAATATGAAATTTGAAAAGGCTTCGGCCCAGTGTTAT
* *
51580059 GAAATATGAAATATGAAAAGGGCTGT-GGCCCAGT
1 GTAATATGAAATTTGAAAA-GGCT-TCGGCCCAGT
51580093 ACATGTTTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
38 54 0.81
39 12 0.18
40 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (38 bp):
GTAATATGAAATTTGAAAAGGCTTCGGCCCAGTGTTAT
Found at i:51599333 original size:54 final size:54
Alignment explanation
Indices: 51599274--51599403 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
51599264 ATTACTGAAA
*
51599274 TACCCTCAAATTGTA-A-AATTACCAAAGTACCCTCGATTTATAGAATTATCGTTT
1 TACCCTC-AATT-TACAGAATTACCAAAGTACACTCGATTTATAGAATTATCGTTT
* **** *
51599328 TACCCTCGATTTACAGAATTACCGGTTTACACTCGATTTATAGAATTATTGTTT
1 TACCCTCAATTTACAGAATTACCAAAGTACACTCGATTTATAGAATTATCGTTT
**
51599382 TACCCTTGATTTACAGAATTAC
1 TACCCTCAATTTACAGAATTAC
51599404 TATTTTACCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.03
53 4 0.06
54 60 0.91
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTACCAAAGTACACTCGATTTATAGAATTATCGTTT
Found at i:51599409 original size:27 final size:27
Alignment explanation
Indices: 51599301--51599431 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 27
51599291 ATTACCAAAG
*
51599301 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
51599328 TACCCTCGATTTACAGAATTACCGGTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
51599355 TACACTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
51599382 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
51599409 TACCTTCAATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
51599432 AAAATACCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:51599439 original size:27 final size:27
Alignment explanation
Indices: 51599390--51599469 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
51599380 TTTACCCTTG
* *** *
51599390 ATTTACAGAATTACTATTTTACCTTCA
1 ATTTACAAAATTACTAAAATACCCTCA
*
51599417 ATTTACAAAATTACTAAAATACCCTCG
1 ATTTACAAAATTACTAAAATACCCTCA
* *
51599444 GTTTACAAAATTACCAAAATACCCTC
1 ATTTACAAAATTACTAAAATACCCTC
51599470 GATCAGTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (27 bp):
ATTTACAAAATTACTAAAATACCCTCA
Found at i:51599470 original size:27 final size:27
Alignment explanation
Indices: 51599418--51599566 Score: 122
Period size: 27 Copynumber: 5.6 Consensus size: 27
51599408 TTACCTTCAA
* *
51599418 TTTACAAAATTACTAAAATACCCTCGG
1 TTTATAAAATTACCAAAATACCCTCGG
*
51599445 TTTACAAAATTACCAAAATACCCTC-G
1 TTTATAAAATTACCAAAATACCCTCGG
* * * *
51599471 ATCAGTAAACTTACCAAAATACCCT-AG
1 TTTA-TAAAATTACCAAAATACCCTCGG
* * * * *
51599498 TCTGTAAAATTGCTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTCGG
* * **
51599525 TTTGTAAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTCGG
*
51599552 TTTGTAAAATTACCA
1 TTTATAAAATTACCA
51599567 CTAGTTTGTA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 20 0.20
27 78 0.80
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTCGG
Found at i:51599516 original size:53 final size:54
Alignment explanation
Indices: 51599423--51599566 Score: 137
Period size: 53 Copynumber: 2.7 Consensus size: 54
51599413 TTCAATTTAC
* ** * **
51599423 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAATACCCTCGATCAGT
* * * * * * **
51599477 AAACTTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAATACCCTCGATCAGT
* *
51599530 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCAATCTGTAAAATTACCA
51599567 CTAGTTTGTA
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
53 41 0.58
54 30 0.42
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCAATCTGTAAAATTACCAAAATACCCTCGATCAGT
Found at i:51599589 original size:73 final size:71
Alignment explanation
Indices: 51599486--51599620 Score: 200
Period size: 73 Copynumber: 1.9 Consensus size: 71
51599476 TAAACTTACC
* *
51599486 AAAATACCCTAGTCTGTAAAATTGCTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTC
1 AAAATACCCTAGTCTGTAAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTC
51599550 AATTTGT
65 AATTTGT
* *
51599557 AAAATTACCACTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCC
1 AAAA-TACC-CTAGTCTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCC
51599621 CTGATTTACA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 4 0.07
72 4 0.07
73 48 0.84
74 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (71 bp):
AAAATACCCTAGTCTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCA
ATTTGT
Found at i:51599600 original size:27 final size:27
Alignment explanation
Indices: 51599557--51599619 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
51599547 CTCAATTTGT
51599557 AAAATTACCACTAGTTTGTAAAATTACC
1 AAAA-TACCACTAGTTTGTAAAATTACC
* *
51599585 AAAATACCACTGGTTTGTGAAATTACC
1 AAAATACCACTAGTTTGTAAAATTACC
*
51599612 GAAATACC
1 AAAATACC
51599620 CCTGATTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATACCACTAGTTTGTAAAATTACC
Found at i:51599720 original size:27 final size:27
Alignment explanation
Indices: 51599570--51599720 Score: 101
Period size: 27 Copynumber: 5.5 Consensus size: 27
51599560 ATTACCACTA
**
51599570 GTTTGTAAAATTACCAAAATACCAC-TG
1 GTTTGTAAAATTACTGAAATACC-CTTG
* * *
51599597 GTTTGTGAAATTACCGAAATACCCCTG
1 GTTTGTAAAATTACTGAAATACCCTTG
* ** *
51599624 ATTTACAAAGTTA-TAGAAATACCCTTG
1 GTTTGTAAAATTACT-GAAATACCCTTG
* * *
51599651 ACTTTCTAAAAATTA-TGGAAATACCATTG
1 -GTTTGT-AAAATTACT-GAAATACCCTTG
**
51599680 GTTTACAAAATTACTGAAATACCCTTG
1 GTTTGTAAAATTACTGAAATACCCTTG
*
51599707 GTTTGTAAATTTAC
1 GTTTGTAAAATTAC
51599721 CAAAACACCC
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 71 0.73
28 7 0.07
29 18 0.19
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (27 bp):
GTTTGTAAAATTACTGAAATACCCTTG
Found at i:51599795 original size:27 final size:27
Alignment explanation
Indices: 51599765--51599851 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
51599755 CCCCTATTAA
*
51599765 GTAAAAAGACCT-TAAAGCCCTTGTAGG
1 GTAAAAAGA-CTGTAAAGCCCCTGTAGG
*
51599792 GTAAAGAGACTGTAAAGCCCCTGTAGG
1 GTAAAAAGACTGTAAAGCCCCTGTAGG
** * *
51599819 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAAAGACTGTAA-AGCCCCTGTAGG
51599846 GTAAAA
1 GTAAAA
51599852 TGACGAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.04
27 49 0.94
28 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (27 bp):
GTAAAAAGACTGTAAAGCCCCTGTAGG
Found at i:51600732 original size:52 final size:51
Alignment explanation
Indices: 51600654--51600789 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 51
51600644 GAGGAAGTGC
51600654 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
51600706 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
51600757 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
51600790 AGGCCTCCAG
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 25 0.30
52 36 0.43
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:51600751 original size:25 final size:26
Alignment explanation
Indices: 51600654--51600789 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
51600644 GAGGAAGTGC
51600654 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
51600680 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
51600706 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
51600732 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
51600757 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
51600780 AAAAGAGGCT
1 AAAAG-GGCT
51600790 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 58 0.57
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:51601072 original size:31 final size:31
Alignment explanation
Indices: 51600995--51601073 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
51600985 CGTTTAGAGT
*
51600995 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
**
51601026 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
51601057 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
51601074 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:51609786 original size:40 final size:39
Alignment explanation
Indices: 51609621--51609804 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
51609611 AAATTGAATG
* * *
51609621 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
51609661 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
51609701 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
51609741 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
51609780 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
51609805 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:51609829 original size:80 final size:81
Alignment explanation
Indices: 51609661--51609849 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
51609651 GCTGGAAATT
* * * *
51609661 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
51609726 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
51609742 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
51609805 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
51609821 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
51609850 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:51615070 original size:41 final size:40
Alignment explanation
Indices: 51614943--51615087 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51614933 CTCGCACAAG
* * * *
51614943 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
51614983 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
51615023 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
51615064 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
51615088 CATTGAGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:51617934 original size:6 final size:6
Alignment explanation
Indices: 51617908--51617973 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
51617898 AAGGTGAATT
* * * *
51617908 AATAAA AACATAA AATGAA AATAAA AATGAA AATAAA AATAAA GATAAA
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
51617957 GAT-AA AATAAA ATTAAA
1 AATAAA AATAAA AATAAA
51617974 CATCATCATC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
5 4 0.08
6 41 0.84
7 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:51617973 original size:23 final size:23
Alignment explanation
Indices: 51617917--51617973 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
51617907 TAATAAAAAC
*
51617917 ATAAAATGAAAATAAAAATGAAA
1 ATAAAATTAAAATAAAAATGAAA
* *
51617940 ATAAAAATAAAGATAAAGAT-AAA
1 ATAAAATTAAA-ATAAAAATGAAA
51617963 ATAAAATTAAA
1 ATAAAATTAAA
51617974 CATCATCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (23 bp):
ATAAAATTAAAATAAAAATGAAA
Found at i:51625970 original size:53 final size:54
Alignment explanation
Indices: 51625902--51626109 Score: 240
Period size: 53 Copynumber: 3.9 Consensus size: 54
51625892 TTTCCTTTTT
* * * * *
51625902 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
51625955 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
51626009 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
51626064 GAACTTATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
51626110 ATCTTACCAA
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
52 2 0.02
53 44 0.33
54 41 0.31
55 44 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:51626038 original size:55 final size:53
Alignment explanation
Indices: 51625913--51626101 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
51625903 AACTTACCAT
* * *
51625913 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
51625966 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * *
51626021 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
51626075 TGCCATGCCTTGGCATGATCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
51626102 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 34 0.29
55 44 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:51626098 original size:54 final size:54
Alignment explanation
Indices: 51625902--51626115 Score: 234
Period size: 54 Copynumber: 4.0 Consensus size: 54
51625892 TTTCCTTTTT
* * * * * *
51625902 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* ** *
51625955 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTACCTTATA
* * *
51626009 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
* * * * *
51626064 GAACTTATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTTATCTTA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTA
51626116 CCAAATGCCT
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 44 0.32
54 46 0.33
55 44 0.32
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA
Found at i:51626147 original size:47 final size:47
Alignment explanation
Indices: 51626088--51626209 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
51626078 CATGCCTTGG
* * *
51626088 CATGATCTTACATGATATCCTTATCTTACCAAATGCCTTGATCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGATCCAAA
* *
51626135 CATGGTTTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGATCCAAA
*
51626182 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
51626210 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGATCCAAA
Found at i:51628460 original size:15 final size:15
Alignment explanation
Indices: 51628436--51628473 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
51628426 GCCTGTGTCA
51628436 GCCCACACCCGTGTG
1 GCCCACACCCGTGTG
* *
51628451 GCCTACACCCTTGTG
1 GCCCACACCCGTGTG
51628466 GCCCACAC
1 GCCCACAC
51628474 GGCCCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (15 bp):
GCCCACACCCGTGTG
Found at i:51630111 original size:22 final size:23
Alignment explanation
Indices: 51630078--51630121 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
51630068 AATGAAAAAG
51630078 ATAAAATAAAGAAATA-AAAGTTA
1 ATAAAATAAAGAAA-ACAAAGTTA
51630101 ATAAAAT-AAGAAAACAAAGTT
1 ATAAAATAAAGAAAACAAAGTT
51630122 TCTCTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.05
22 12 0.60
23 7 0.35
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (23 bp):
ATAAAATAAAGAAAACAAAGTTA
Found at i:51632985 original size:16 final size:16
Alignment explanation
Indices: 51632958--51633000 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
51632948 GTAGATCGGC
*
51632958 AAAAGCCAAAATGCCG
1 AAAAGCCGAAATGCCG
* *
51632974 AATAGCCGAAATGCTG
1 AAAAGCCGAAATGCCG
51632990 AAAAGCCGAAA
1 AAAAGCCGAAA
51633001 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:51633276 original size:29 final size:29
Alignment explanation
Indices: 51633211--51633321 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
51633201 TGAGCATGAT
51633211 TATAAATGTGATTTGGGCCTAAT-GGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
*
51633239 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
51633268 TATAAATGTGATTTAGGCCTTATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
51633297 TATGAAA-GAGA-TTGGGCCTAGTGGG
1 TAT-AAATGTGATTTGGGCCTAATGGG
51633322 TTACATACAG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 33 0.45
29 37 0.51
30 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCCA
Found at i:51633312 original size:57 final size:57
Alignment explanation
Indices: 51633211--51633321 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
51633201 TGAGCATGAT
* * *
51633211 TATAAATGTGATTTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGATTTAGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
* *
51633268 TATAAATGTGATTTAGGCCTTATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGG
1 TATAAATGTGATTTAGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGG
51633322 TTACATACAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 34 0.71
58 14 0.29
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.31
Consensus pattern (57 bp):
TATAAATGTGATTTAGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
Found at i:51635921 original size:22 final size:22
Alignment explanation
Indices: 51635891--51635949 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
51635881 CCTGAGCTGA
*
51635891 TGAATAGTAAGCTC-TATCGAGC
1 TGAACAGTAAGCTCATA-CGAGC
*
51635913 TGAACAGTAAGTTCATACGAGC
1 TGAACAGTAAGCTCATACGAGC
*
51635935 TAAAACAGTAAGCTC
1 T-GAACAGTAAGCTC
51635950 CAATGAGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCATACGAGC
Found at i:51642604 original size:20 final size:20
Alignment explanation
Indices: 51642558--51642604 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
51642548 TATTTAAATA
*
51642558 TATATTATGTAGAATTATAT
1 TATATTATGTAAAATTATAT
* *
51642578 TAAATTATTTAAATATTAT-T
1 TATATTATGTAAA-ATTATAT
51642598 TATATTA
1 TATATTA
51642605 AATTATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
TATATTATGTAAAATTATAT
Found at i:51642611 original size:14 final size:14
Alignment explanation
Indices: 51642572--51642612 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
51642562 TTATGTAGAA
51642572 TTATATTAAATTAT
1 TTATATTAAATTAT
*
51642586 TTA-A--ATATTAT
1 TTATATTAAATTAT
51642597 TTATATTAAATTAT
1 TTATATTAAATTAT
51642611 TT
1 TT
51642613 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 1 0.05
14 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATTAAATTAT
Found at i:51644143 original size:27 final size:27
Alignment explanation
Indices: 51644111--51644168 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
51644101 ATATCGTACA
51644111 TAATTATTAAACTAAATTTTAAAACAG
1 TAATTATTAAACTAAATTTTAAAACAG
51644138 TAATTATTAAACTAAATTTTAAAACAG
1 TAATTATTAAACTAAATTTTAAAACAG
51644165 TAAT
1 TAAT
51644169 GATTTGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (27 bp):
TAATTATTAAACTAAATTTTAAAACAG
Found at i:51647963 original size:20 final size:19
Alignment explanation
Indices: 51647940--51647996 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
51647930 ACCGAATGGT
*
51647940 ACAGAGTAGAGCAGAACTGA
1 ACAGAGTAGAACAGAAC-GA
** *
51647960 ACAGAACAGAACAAAACGA
1 ACAGAGTAGAACAGAACGA
51647979 AGCAGAGTAGAACAGAAC
1 A-CAGAGTAGAACAGAAC
51647997 ATGTAAGTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.53, C:0.18, G:0.25, T:0.05
Consensus pattern (19 bp):
ACAGAGTAGAACAGAACGA
Found at i:51648113 original size:732 final size:733
Alignment explanation
Indices: 51645771--51651088 Score: 6010
Period size: 733 Copynumber: 7.2 Consensus size: 733
51645761 ACCGAATGGT
* * * * * *
51645771 ACAGAACAAGAA-GGAGCAGAGCAAAACAAAACATGTATGTTTATGCAGGTGCAATACTTTTCAG
1 ACAGAACAA-AACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAA
* * * *
51645835 ATAGATTAGAATGCAGATTTATTAGAAACAGTCATTCCAAACTCTGTTACACACAAAAATAGAGT
65 ATAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGT
* * * * *
51645900 TCTCCCCCAAACTAATCCATCCAAAACACACTAAGAAAGTCA-CCCGGGGTTGATACCACTCAAT
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTC-GGGTTGATACCACTAAAT
* *
51645964 ATAACACCCCAAACCTGACCTGGAAGTTTAAGCAGAACTTGGACGAGTTACACCAATGCATTTAA
194 GTAACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAA
* * ** * *
51646029 AGCAGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTTGTTTTTTTCAATTTTGGTGAT
259 AACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGAT
* * * *
51646094 TTTGTAGCTTCTTGTTAGAAATTGACTAATACGGACAAGATTATCAAAAGGAAAGCAAGGTAAAT
324 TTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAAT
* * *
51646159 CCAAGACAATTTACAAACCCAAAAGA-CTAGTTCGTAGTTATTTCAGTGTAAAACAATTCGAGCT
389 CCAAGACAATTTACAAACCCAAAAGATC-AATTCGCAGTTATTTTAGTGTAAAACAATTCGAGCT
** * * *
51646223 CCCGTACGACGTCCGATCCTAAATCAAATGTTTTACTAAACAGATGAA-GTTAGAAAAAGGGTGA
453 CCCGTACGATATCCGATCCTAAATCAGATGTTTTACTAAACAGATGAAGGTAAGACAAAGGGTGA
* * **
51646287 GTTACCAAGCATCGCGTATAACCAGGCTCAAATACAACTAAATAGAGCATACTATATAACTCGTA
518 GTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAA-TCGTA
* * * * *
51646352 GTAATGCAAATAACTGAAGAGCAGTTGTATAACCAATTCAGACAACACTAGAGTATCACAGAGAT
582 GTAATGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGAT
* * *
51646417 TTAATCAAAGGTCGTACAATAGAAAAAAGCAAAACAGAATAGAGCAGAACAAAACTGAATGGTAC
646 TTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTAC
*
51646482 AGAGCAGAGCAGAACTCAACAGA
711 AGAGCAGAGCAGAACTGAACAGA
* *
51646505 ATAGAACAAAAC-AGAGTAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAA
1 ACAGAACAAAACGA-AGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAA
* * * *
51646569 ATAGATCAAAATGCGGATTTATCAGAAACAGTC-ATCTCAAACAT-CGTTATACAC-AAAATAGA
65 ATAGATCAGAATGCAGATTTATCAGAAACAGTCTTTC-CAAAC-TCCGTTACACACAAAAATAGA
* * *
51646631 GTTCTTCCTCGAACTCATCCATCCAAAACACACTAAGAAAGTCATCTCGGGTT-ATACCACTAAA
128 GTTCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAA
* * * * * *
51646695 TGTGACACCCCAAACCAGACTTGGAAATTTAAGCCGAACTTGGACAAGTTACACCAATGCATTGA
193 TGTAACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTA
* * * *
51646760 AAACTGGTTTCTTTTCGAGATTTTAATTTTGAAAACGAGAAATT-AGTTTTTTTCGATTTGGGTG
258 AAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCA-TTTTTTTCGATTTAGGTG
** * *
51646824 ATTTTGTAGTTTCGTGTTAGAAATTGACTGATATAGACGAGATTATCAAAAGAAAAGCAAGGCAA
322 ATTTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAA
* * * ** *
51646889 ATCTATGACAATTTACAAACCCAAAAGATTAATTAACAATTA--TT--TG-AAAACAA-TCTGAG
387 ATCCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATTC-GAG
** ** * * * *
51646948 CTCGAGTTTG-TCATCTGATCCTAAATCAGATGCTTT-CTCGAACAGATGAATGTAAGACAAAGG
451 CTCCCGTACGAT-ATCCGATCCTAAATCAGATGTTTTACT-AAACAGATGAAGGTAAGACAAAGG
* * *
51647011 GTGAGTTACGAAGCACCGCGTACAACCAGGCTCAAATACGAATAAGCAGAGCATACTATATAACT
514 GTGAGTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAA-T
* ** * * *
51647076 AGTAGTAACACAAATAACTTAAGAGCAATTGTATAACTAGTATGGACAACTCTAGAGTATCACAG
578 CGTAGTAATGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAG
* * * *
51647141 AGATTAAATCAAAGGTAGTACAATAGAACAAAGGAAAACAGAATATAGCAGAACAAAACCAAATG
642 AGATTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATG
* * * *
51647206 GTATAGAACAGAGTATAACTGAACAGA
707 GTACAGAGCAGAGCAGAACTGAACAGA
* * * * *
51647233 ACAGAACAAAAAGGAGTAGAGCAGAACAGAACATGTCTGTTTATGCAGGTGCAGTACTTTTCAAA
1 ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* * * *
51647298 CAGATTA-AATGCAGATTTATCAGAAACAGTCTTCCCAAACTCTGTTACACACAAAAATAGAGTT
66 TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGTT
* ** * * * *
51647362 CTTCCATGAACTAATCCATCTAAAACATACCAAGACAGTCAT-TCGAGGTTGATACCACTAAATG
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCG-GGTTGATACCACTAAATG
* * ** * *
51647426 TAACACCTCAAACTTGACCTGGAAGTTTAATTCGAACTTGGACGAGTTACACTACTGCATTTAAA
195 TAACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAAA
* * *
51647491 ACTGATTTCTTTTCGAGATTTTAATTTTGAAAACCAAAAATTCATTTTTTTCAATTTAGGTGATT
260 ACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGATT
* * * *
51647556 TTGTAGCTTCGTGTTAGAAATTGACTAAAACGGACAAGATTATAAAAAGGAAAGCAAGGCAAATC
325 TTGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAATC
* * * * *
51647621 CAAGACAATTTACAAACCCAAAAGACCAGTTCGTAGTTATTTTAGTGTAAAACAATCCGAGCTCT
390 CAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATTCGAGCTCC
* * * * *
51647686 CGTACGATGTCCAATCCTAAATCAGGTGTTTTACTAAACAAATGAAGGT-AGACAAATGGTGAGT
455 CGTACGATATCCGATCCTAAATCAGATGTTTTACTAAACAGATGAAGGTAAGACAAAGGGTGAGT
**
51647750 TACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAATAGAGCATACTATATAATCGTAGTA
520 TACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAATCGTAGTA
* * * * * *
51647815 ATGCAAATAATTGAAAAGCAGTTGTATATCTAGTGCGGTCAACTCTAGAGTATCACAGAGATTTT
585 ATGCAAATAATT-AAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGATTTA
*
51647880 ATCAAAGGTAGTGCAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTACAGA
649 ATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTACAGA
*
51647945 GTAGAGCAGAACTGAACAGA
714 GCAGAGCAGAACTGAACAGA
* * *** *
51647965 ACAGAACAAAACGAAGCAGAGTAGAACAGAACATGTAAGTTTATATGGGAGCAGTATTTTTCAAA
1 ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
*
51648030 TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACATAAAAATAGAG-T
66 TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGTT
* *
51648094 CTCCCCCGAACTCATCCAT-CTAAA-ACACTAAGAAAGTCATC-CTGGGTTGATACCACTAAATG
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTC-GGGTTGATACCACTAAATG
* * * *
51648156 TAACACCCCAAA-CTAGACTTGGAAGTTTAAGCCGAACTTGGATGAGTTACACCAAAGCATTGAA
195 TAACACCCCAAACCT-GACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAA
* * *
51648220 AACTGAGTTT-TTCTCGGGATTTTAATCTTGAAAACCAGAAATTCA-TTTTGTCGATTTAGGTGA
259 AACTGA-TTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGA
* ** *
51648283 TTTTGTAGTTTCATGTTAGAAATTGACTGATACATACAACATTATCAAAAGGAAAGCAAGGCAAA
323 TTTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAA
* * * * *
51648348 TCCAAGAAAATTTACAAACCCAAAAGAACAATTCGCAGTTATTTCAGTATAAAACAATTCAAGCT
388 TCCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATTCGAGCT
* *** * * * * * *
51648413 CCCATACCCCATCCGATCCTAAATCAGGTATTTTTCT-GACTAGATGAAAGTAAGACAAATGGTG
453 CCCGTACGATATCCGATCCTAAATCAGATGTTTTACTAAAC-AGATGAAGGTAAGACAAAGGGTG
* * *
51648477 AGTTACCAAGCACTGCATATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATGACTCGT
517 AGTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATAT-AATCGT
* ** *
51648542 AGTAACT-CAAATAACTTAAGAGTAGTTGTATAGTCAGTACGGACAACTCTAGTGTATCACAGAG
581 AGTAA-TGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAG
* * * *
51648606 ATTTAATCAAAGGTAATACAATAAAACAAAGCAAATCAGAATAGAGCAGAACAAAATCGAATGGT
644 ATTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGT
* * *
51648671 ---GTAG-A-A-CATAACAGAACAAA
709 ACAG-AGCAGAGCAGAACTGAACAGA
* *
51648691 ACAGAACAAAATGAAGCAGAGCAGAACATAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
1 ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* ** * * * *
51648756 CAGATTTGAATGCAGATTTATTAGAAATAGTCTTTCCAAATTCCGTTACACATAAAAATAGAGTT
66 TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGTT
* * * *
51648821 CTCCTCTGAACTCATCCGTCCAAAACACATCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
* * * * * *
51648886 AACACCCCAAA-C---CC-AGAGGTTTATGCCAAACTTGGACAAGTTATACCAATGCATTTAAAA
196 AACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAAAA
* * *
51648946 CTGATATCTTTTTGGGATTTTAATTTTGAAAACCAGAAATTCATATTTTTCGATTTAGGTGATTT
261 CTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGATTT
* * * * * ** * * *
51649011 TGTAGCTTCGTGATAGAAATTGGCTAATATGGATGAGATTATCAAAAGGAAAGTAAGGAAAATCT
326 TGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAATCC
* * * * * * * *
51649076 AAGATAATTTACAAACCCAAAAGATCAGTTTGCAATTATGTTAGTGCAAAAAAAATTCCGAGCTT
391 AAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTG-TAAAACAATT-CGAGCTC
** * * * * * *
51649141 CTATACGACATTCGATCCTAAATCAGATGTTTTAATGAATAGATGAAGGTAAGACAAATGGTGAG
454 CCGTACGATATCCGATCCTAAATCAGATGTTTTACTAAACAGATGAAGGTAAGACAAAGGGTGAG
* * * ** *
51649206 TTACCAAGCACTGCGTAAAACCAGGTTCAAATACAAATAAATAGAGCATACTATATATCTCGTAG
519 TTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATA-ATCGTAG
* * * **
51649271 TAATGCAAATAATTGAATAGCAGTTGCATAACTAGTATAGACAACTCTAGAGTATCACAGAGATT
583 TAATGCAAATAATT-AAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGATT
* * * * * * *
51649336 TAATCAAAGGTACTACAACAGAAAAAAACAAAACAAAATAGAGCAAAACAGAACCGAATGGTACA
647 TAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTACA
*
51649401 GAGCAGAACA-AAGCTGAATGGTACAGAGTAA
712 GAGCAGAGCAGAA-CTG-A----AC--AG--A
* * * *
51649432 AGTAGAACTTAATAGAATAGAAAAAAAATGGAGTAGAGCAAAACAGAACATGTATGTTTATGCAG
1 A-CAGAAC---A-A-AA-CG-------A---AGCAGAGCAGAACAGAACATGTATGTTTATGCAG
* * * ** * **
51649497 GTGCAGTATTTTTCAAATAGATCAGAATGTAAATTTATTAGAAATGGTCTTCCCAAACTCTATTA
49 GTGCAGTATTTTTCAAATAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTA
* * * *
51649562 CAAACAAAAATAGAGTTCT-CCCCAAACTCATCTATCCAAAACACACCAAGAAAGTTATCTCGGG
114 CACACAAAAATAGAGTTCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGG
* * * * *
51649626 TTGATACCACTAAATGTAACGCCCCAAACCTGACCTGAAAGTTTAAGCCAAACTTAGATGAGTTA
179 TTGATACCACTAAATGTAACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTA
* **
51649691 CACCAATGC-TTTGAAAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAAAAATTTGTTTT
244 CACCAATGCATTT-AAAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTT
* * * * ** *
51649755 TTGTTGATTTAGGTGATTTTTTTAGTTTTGTATTAGAAATCAACTGATATGGA-AGAGATTATCA
308 TT-TCGATTTAGGTGA-TTTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACA-AGATTATCA
* * * * * *
51649819 AAAGGAAAACACGGAAAATCCAAGACAATTTACAAACCCAAAAAATCAATTCGTAGTTATTTCAG
370 AAAGGAAAGCAAGGCAAATCCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAG
* * ** ** * * *
51649884 TGTAAAACAATTTGAGCTCCC-TACGCTATTTGATCCTATGTCATATGTTTTCCTGAACAGATGA
435 TGTAAAACAATTCGAGCTCCCGTACGATATCCGATCCTAAATCAGATGTTTTACTAAACAGATGA
* * * * *
51649948 AGGTAA-ACAAAGGGTGAGTTACCAAGCACTGCATACAACCAGGCTCAAATATAAATAAGCAAAG
500 AGGTAAGACAAAGGGTGAGTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAG
* *
51650012 CATACTATATAACTGGTAGTAACGCAAATAACTTAAGAGCAGTTGTATAACCAGTACGGACAACT
565 CATACTATATAA-TCGTAGTAATGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACT
* *
51650077 CTAGAGTATCACAGAGATTTAATCAAAGGTATTACAATAGAACAAATCAAAACAGAATAGAGCAG
628 CTAGAGTATCACAGAGATTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAG
* * * *
51650142 AACAAAACCAAATGGTATAGAGCAGAGGAGAACTGAACAAA
693 AACAAAACCGAATGGTACAGAGCAGAGCAGAACTGAACAGA
* * * * * * *
51650183 ACAGAATAAAATGGAGCAAAGCAAAATAGAACATGTATGTTTATGCAAGTGCAGTATTTTTCAAA
1 ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* *
51650248 TAGTTCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
66 TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGTT
* *
51650313 CTCCCCCGAGCTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGGTACCACTAAATGT
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
* * * * * * *
51650378 AA-ACCTCAAACCCGACCTAGAAGTTTAAGCCAAACTTGGATGAGTTACAACAATGCATTAAAAA
196 AACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAAAA
* * *
51650442 TTGATTTCTTTTTGGGATTTTAATTTTGAAAACTAGAAATT--TGTTTTTTCGATTTAGGTGATT
261 CTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCAT-TTTTTTCGATTTAGGTGATT
* * *
51650505 TTGTAGTTTCATGTTAGAAATTGACTGATACGGACGAGATTATCCAAAGGAAAGCAAGGCAAATC
325 TTGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAATC
* *
51650570 CAAGATAATTTACAAACCCAAAAGATCAATTCACAGTTATTTTAGTGTAAAACAATTCGAGCTCC
390 CAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATTCGAGCTCC
* * * * * * * * **
51650635 CGTAC-ACCATTCGATTCTAAATTAGATGTATTCCTGAATC-GATGAAGGTAATACAAAGAATGA
455 CGTACGA-TATCCGATCCTAAATCAGATGTTTTACT-AAACAGATGAAGGTAAGACAAAGGGTGA
** * * *
51650698 GTTACCAAGCACCATGTATAACCAGGCTCAAATACAAATTAGCATATCATACTATATAA-CATGT
518 GTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAATC--GT
* * * * * *
51650762 AGTAACGCAAATAGTTTAAGAGCAATTGTATAACCAGTACGGATAACTCTAGAGTATCACGGGGA
581 AGTAATGCAAATA-ATTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGA
* * * * * ** * * *
51650827 TTTAATCAAAGGTAGTACAACAAAACAAAGTAAAATAGAATATAATAGAACAAAATCAAAAGGTA
645 TTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTA
* * * * *
51650892 CAGAGCAGAGAAAAATTGAATAAA
710 CAGAGCAGAGCAGAACTGAACAGA
* * * ** *
51650916 ACAGAACAAAACGGAGCAAAGCA-ATACAGTACATGTATGTTTATATAGATGCAGTATTTTTCAA
1 ACAGAACAAAACGAAGCAGAGCAGA-ACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAA
* * * * * *
51650980 ACATATCAGAATACAAATTTATCAGAAACAATCTTACCAAACTCCGTTACACACAAAAATAGAGT
65 ATAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGT
* * * *
51651045 TTTCCCCTGAACTCATCCATCTAAAACACACCAACAAAGTCATC
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATC
51651089 CTAGGTTGCT
Statistics
Matches: 3878, Mismatches: 599, Indels: 215
0.83 0.13 0.05
Matches are distributed among these distances:
723 2 0.00
724 73 0.02
725 109 0.03
726 142 0.04
727 321 0.08
728 328 0.08
729 429 0.11
730 192 0.05
731 243 0.06
732 477 0.12
733 529 0.14
734 335 0.09
735 66 0.02
737 2 0.00
739 1 0.00
741 2 0.00
742 5 0.00
744 1 0.00
745 3 0.00
746 2 0.00
747 3 0.00
748 1 0.00
750 4 0.00
751 2 0.00
753 1 0.00
755 3 0.00
757 65 0.02
758 104 0.03
759 1 0.00
760 189 0.05
761 49 0.01
762 83 0.02
763 20 0.01
764 91 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (733 bp):
ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
TAGATCAGAATGCAGATTTATCAGAAACAGTCTTTCCAAACTCCGTTACACACAAAAATAGAGTT
CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
AACACCCCAAACCTGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTTAAAA
CTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGATTT
TGTAGTTTCGTGTTAGAAATTGACTGATACGGACAAGATTATCAAAAGGAAAGCAAGGCAAATCC
AAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATTCGAGCTCCC
GTACGATATCCGATCCTAAATCAGATGTTTTACTAAACAGATGAAGGTAAGACAAAGGGTGAGTT
ACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAATCGTAGTAA
TGCAAATAATTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGATTTAAT
CAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTACAGAGC
AGAGCAGAACTGAACAGA
Found at i:51649403 original size:25 final size:25
Alignment explanation
Indices: 51649375--51649428 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
51649365 AAAACAAAAT
51649375 AGAGCAAAACAGAA-CCGAATGGTAC
1 AGAGCAAAACA-AAGCCGAATGGTAC
* *
51649400 AGAGCAGAACAAAGCTGAATGGTAC
1 AGAGCAAAACAAAGCCGAATGGTAC
51649425 AGAG
1 AGAG
51649429 TAAAGTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.46, C:0.17, G:0.28, T:0.09
Consensus pattern (25 bp):
AGAGCAAAACAAAGCCGAATGGTAC
Found at i:51658949 original size:40 final size:40
Alignment explanation
Indices: 51658890--51659110 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
51658880 CATTTGAATG
*
51658890 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
51658930 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
51658970 ATATCTGGGCAAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
51659010 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
51659050 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
51659090 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
51659111 AAACTTGGGT
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 152 0.92
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:51664286 original size:39 final size:40
Alignment explanation
Indices: 51664232--51664369 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
51664222 AAACCAAGTA
** *
51664232 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51664271 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
51664311 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
51664351 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51664370 TTATCATCCG
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.16
40 75 0.84
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51672249 original size:40 final size:40
Alignment explanation
Indices: 51672172--51672392 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
51672162 AAACCAAGTA
** * *
51672172 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
51672211 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
51672251 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
51672291 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTT
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * **
51672331 CCTTCGGG-CTTAGCCCAG-AATTAGTCACTAACACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
51672370 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
51672393 CATCCGAATA
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 42 0.27
40 113 0.72
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:51676772 original size:47 final size:47
Alignment explanation
Indices: 51676650--51676861 Score: 212
Period size: 47 Copynumber: 4.7 Consensus size: 47
51676640 GTTATACGTG
* * ** *
51676650 TAACATGGTGCTAAGTGGATATACCA-GAATTACGCATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACG-GTTACATATATTGATTCAT
*
51676697 ATAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
51676745 TAACATGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
51676783 TAATGTGGTGCTAAGTAGATATGA-TACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATAT-ACCACGGTTACATATATTGATTCAT
*
51676830 TAACGTGGTGCTAAGTGGATATACCACAGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
51676862 AACATGTAAC
Statistics
Matches: 134, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
38 26 0.19
39 2 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 56 0.42
48 39 0.29
49 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:51676804 original size:38 final size:38
Alignment explanation
Indices: 51676745--51676906 Score: 146
Period size: 38 Copynumber: 4.0 Consensus size: 38
51676735 ATTGATTCAT
*
51676745 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
51676783 TAATGTGGTGCTAAGTAGATATGA-TACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATAT-ACCACGGTTA-A-ACA-TG
*
51676824 ATTCATTAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
51676868 TAACGTGGTGCTAAGTGGATATTCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
51676906 T
1 T
51676907 TAATTTGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
38 61 0.62
39 2 0.02
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 26 0.26
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:51676899 original size:85 final size:85
Alignment explanation
Indices: 51676693--51676899 Score: 333
Period size: 85 Copynumber: 2.4 Consensus size: 85
51676683 GCATATTGAT
*
51676693 ACATATAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
*
51676758 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACAGTTAA
* * ** *
51676778 ACATGTAATGTGGTGCTAAGTAGATATGATACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
51676843 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
* *
51676863 ACATGTAACGTGGTGCTAAGTGGATATTCCATGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
51676900 TACATGTTAA
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 109 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTA
AGTGGATATACCACAGTTAA
Found at i:51679393 original size:62 final size:61
Alignment explanation
Indices: 51679357--51679520 Score: 249
Period size: 61 Copynumber: 2.7 Consensus size: 61
51679347 GTCCCTGGTT
* * *
51679357 GTGTGGTCTTAAATCATAAACAGTGGGTTACACGGCCTGGACACACATCCATGTCCTTGCCG
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACACGGCCTGGACACACA-CCATGTCCTTGCCC
* *
51679419 GTGTGGTCCTAAATCATAAAC-GTGAGTTACAAGGCCTGGACACACACCTATGTCCTTACCC
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACACGGCCTGGACACACACC-ATGTCCTTGCCC
*
51679480 GTGTGGTCCTAAATCATAAACAGTGAGTTACACAGCCTGGA
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACACGGCCTGGA
51679521 TACATGACCA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
60 2 0.02
61 54 0.58
62 37 0.40
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (61 bp):
GTGTGGTCCTAAATCATAAACAGTGAGTTACACGGCCTGGACACACACCATGTCCTTGCCC
Found at i:51681905 original size:2 final size:2
Alignment explanation
Indices: 51681900--51681940 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
51681890 AATATCGATA
51681900 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
51681941 AAAGCACGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51682234 original size:23 final size:24
Alignment explanation
Indices: 51682200--51682259 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
51682190 TTGGGTAAAT
51682200 TTTTTA-AT-TAAATA-AATATAA
1 TTTTTATATATAAATATAATATAA
* *
51682221 TTTTTATATATAAATATAATTTTA
1 TTTTTATATATAAATATAATATAA
51682245 TTTTTAGTATGATAA
1 TTTTTA-TAT-ATAA
51682260 TGATTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.19
22 2 0.06
23 6 0.19
24 11 0.34
25 3 0.09
26 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTTATATATAAATATAATATAA
Found at i:51683876 original size:46 final size:46
Alignment explanation
Indices: 51683823--51683998 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51683813 TATTTGGGCA
51683823 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
51683869 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
51683916 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
51683962 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51683999 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:51683978 original size:93 final size:93
Alignment explanation
Indices: 51683819--51683990 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51683809 GGGATATTTG
* *
51683819 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51683884 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
51683912 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51683977 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51683991 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:51686970 original size:15 final size:15
Alignment explanation
Indices: 51686950--51687018 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
51686940 GTATCTTGGG
51686950 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51686965 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51686980 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
51686995 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51687010 TTTCTTTAT
1 TTTCTTTAT
51687019 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51687019 original size:30 final size:30
Alignment explanation
Indices: 51686941--51687028 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
51686931 CATAGTATCG
* * * *
51686941 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
51686971 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
51687001 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
51687029 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:51689466 original size:46 final size:46
Alignment explanation
Indices: 51689413--51689588 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51689403 TATTTGGGCA
51689413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
51689459 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
51689506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
51689552 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51689589 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:51689568 original size:93 final size:93
Alignment explanation
Indices: 51689409--51689580 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51689399 GGGATATTTG
* *
51689409 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51689474 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
51689502 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51689567 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51689581 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:51691108 original size:15 final size:15
Alignment explanation
Indices: 51691088--51691117 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51691078 ATTATACTTA
51691088 TTTTATTAATAATAT
1 TTTTATTAATAATAT
*
51691103 TTTTATTATTAATAT
1 TTTTATTAATAATAT
51691118 AATAGTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTATTAATAATAT
Found at i:51691416 original size:26 final size:26
Alignment explanation
Indices: 51691366--51691416 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
51691356 TTTCAGTTAT
*
51691366 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
51691392 TATTATTTGATATT-AATAATATTTA
1 TATTATTTGATATTCAATAAT-TTTA
51691417 TATAATTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:51697456 original size:32 final size:33
Alignment explanation
Indices: 51697420--51697493 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
51697410 GGCCCTGCTG
*
51697420 TGGTCTT-TCATTC-ACATGCCATAACCCAGTTA
1 TGGTCTTATCATTCGA-ATGCCATAACCCAGCTA
* *
51697452 TGGTCTTATTATTCGATTGCCATAACCCAGCTA
1 TGGTCTTATCATTCGAATGCCATAACCCAGCTA
51697485 TGGTCTTAT
1 TGGTCTTAT
51697494 TCGGCAGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 7 0.19
33 29 0.78
34 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (33 bp):
TGGTCTTATCATTCGAATGCCATAACCCAGCTA
Found at i:51701645 original size:27 final size:27
Alignment explanation
Indices: 51701612--51701666 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51701602 CATTATAAAC
51701612 ACAGAAAATAAATGGAGTAAGCTATAT
1 ACAGAAAATAAATGGAGTAAGCTATAT
51701639 ACAGAAAATAAATGGAGTAAGCTATAT
1 ACAGAAAATAAATGGAGTAAGCTATAT
51701666 A
1 A
51701667 GCTTAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.22
Consensus pattern (27 bp):
ACAGAAAATAAATGGAGTAAGCTATAT
Found at i:51702707 original size:51 final size:51
Alignment explanation
Indices: 51702630--51702777 Score: 244
Period size: 51 Copynumber: 2.9 Consensus size: 51
51702620 ATGATACACG
* *
51702630 GTGGCATTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
51702681 GTGGCCTTCACATAGTAGCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
51702732 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
51702778 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:51702842 original size:24 final size:24
Alignment explanation
Indices: 51702813--51702912 Score: 94
Period size: 24 Copynumber: 4.0 Consensus size: 24
51702803 ACTAAGCACA
*
51702813 ATGCCATGGACTTACTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
51702837 ATGCCATCGACTTATTTCACTAAG
1 ATGCCATGGACTTATTTCACTTAG
**
51702861 CACATTGTCC-TAAACTTATTTCACTTAG
1 ---A-TG-CCATGGACTTATTTCACTTAG
*
51702889 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
51702913 CATAAAGTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.03
24 38 0.62
25 1 0.02
27 1 0.02
28 17 0.28
29 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:51711786 original size:46 final size:46
Alignment explanation
Indices: 51711719--51711894 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
51711709 TGTAACCCGC
*
51711719 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
** * * * *
51711765 CCATAAGTGAACTCAAACTCAACTCAACGAGCTTGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTAGCAT
* *** * * *
51711811 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
*
51711858 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
51711895 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 71 0.69
47 32 0.31
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGCAT
Found at i:51711834 original size:93 final size:93
Alignment explanation
Indices: 51711727--51711898 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
51711717 GCCCATAAGT
*
51711727 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
51711792 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* * **
51711820 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
51711885 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
51711899 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:51714314 original size:15 final size:15
Alignment explanation
Indices: 51714294--51714334 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
51714284 CGAGAAAACC
51714294 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
51714309 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
51714324 GGATAAAGAAA
1 GAATAAAGAAA
51714335 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:51714343 original size:15 final size:15
Alignment explanation
Indices: 51714296--51714343 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
51714286 AGAAAACCGA
51714296 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
51714310 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
51714326 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
51714341 ATA
1 ATA
51714344 CAATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:51717330 original size:45 final size:45
Alignment explanation
Indices: 51717266--51717439 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 45
51717256 TGTAACCCGC
*
51717266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGCAT
*
51717311 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGC-A--T
* *** * * *
51717357 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-GATTCGCAT
*
51717404 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
51717440 ATGCCCAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 34 0.31
46 33 0.31
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGATTCGCAT
Found at i:51717432 original size:93 final size:92
Alignment explanation
Indices: 51717274--51717444 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
51717264 GCCCATAAGT
**
51717274 GAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
51717339 GAGCTCGGATGCCTAGTTACATCTCTC
66 GAGCTCGGATGCCTAGTTACATCTCTC
* *
51717366 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
51717431 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
51717445 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:51721891 original size:42 final size:43
Alignment explanation
Indices: 51721782--51721898 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
51721772 ATATGCGTTC
51721782 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGACTTATGATT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGACTTATGATT
* * * *
51721825 TATGTGTAAGACCATGTTTGGGACATTGGCATC-A-TATTTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCGACT-TATGATT
* *
51721868 TCGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TCGTGTAAGACCCTGTCTGGGACATTGGCAT
51721899 TGTAACAGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 26 0.42
43 9 0.15
44 27 0.44
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGACTTATGATT
Found at i:51722717 original size:34 final size:34
Alignment explanation
Indices: 51722672--51722747 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
51722662 TAACAGTCCG
* *
51722672 GTATCAGTGTGGGCTTTAGCCCA-TAGCAGTAGCA
1 GTATCAGTGTGGGCCTTAGCCCATTA-CAGTAACA
* *
51722706 GTATCATTGTGGGCCTTAGCCGATTACAGTAACA
1 GTATCAGTGTGGGCCTTAGCCCATTACAGTAACA
51722740 GTATCAGT
1 GTATCAGT
51722748 AATGCAATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (34 bp):
GTATCAGTGTGGGCCTTAGCCCATTACAGTAACA
Found at i:51750853 original size:28 final size:28
Alignment explanation
Indices: 51750821--51750876 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
51750811 CTTTCTAGAA
*
51750821 TATCAATCCTTCATTCAGACTATCCATC
1 TATCAATCATTCATTCAGACTATCCATC
51750849 TATCAATCATTCATTCAGACTATCCATC
1 TATCAATCATTCATTCAGACTATCCATC
51750877 GATATAGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (28 bp):
TATCAATCATTCATTCAGACTATCCATC
Found at i:51752288 original size:15 final size:16
Alignment explanation
Indices: 51752268--51752297 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51752258 GAAAATTGCC
51752268 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
51752283 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
51752298 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:51753351 original size:66 final size:66
Alignment explanation
Indices: 51753194--51753351 Score: 162
Period size: 66 Copynumber: 2.4 Consensus size: 66
51753184 CATTATGATG
* * * * * *
51753194 TAGCTAGGTCGCATGGGTGATACT-A-T-ATGTACACCATGTAGACAAGAAAGCTACGGATTTAT
1 TAGCTAGGTCGCATGGGTGGTACTAAGTGAAGGACACCATGTAGAAAAGAAAGCTACGGATTAAA
*
51753256 G
66 C
* * * * *
51753257 TAGTTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGAAAAGAGAGCTACGAGA-TAA
1 TAGCTAGGTCGCATGGGTGGTACTAAGTGAAGGACACCATGTAGAAAAGAAAGCTACG-GATTAA
51753321 AC
65 AC
*
51753323 TAGCTAGGTCACATGGGTGGTACTAAGTG
1 TAGCTAGGTCGCATGGGTGGTACTAAGTG
51753352 TTCACCATGT
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
63 19 0.26
64 1 0.01
65 1 0.01
66 51 0.69
67 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (66 bp):
TAGCTAGGTCGCATGGGTGGTACTAAGTGAAGGACACCATGTAGAAAAGAAAGCTACGGATTAAA
C
Found at i:51758064 original size:40 final size:39
Alignment explanation
Indices: 51758019--51758148 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
51758009 CGGAATATAA
51758019 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
51758059 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
51758099 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
51758139 CCGGATATAA
1 CCGGATATAA
51758149 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:51758163 original size:40 final size:40
Alignment explanation
Indices: 51758035--51758186 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
51758025 ATAACCATGT
* * *
51758035 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
51758075 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
51758115 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
51758155 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
51758187 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:51758169 original size:80 final size:80
Alignment explanation
Indices: 51758035--51758184 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
51758025 ATAACCATGT
*
51758035 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
51758099 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
51758115 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
51758178 CCCGGAT
64 CCCGGAT
51758185 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:51765828 original size:40 final size:39
Alignment explanation
Indices: 51765783--51765989 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
51765773 TCGGATACAA
*
51765783 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
51765823 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
51765863 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
51765903 CCGGATGTAGTCACTAGCAC-AATTCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
51765942 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
51765982 CCGGATAT
1 CCGGATAT
51765990 CATTCAATTG
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 35 0.24
40 109 0.76
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:51765923 original size:80 final size:79
Alignment explanation
Indices: 51765783--51765989 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 79
51765773 TCGGATACAA
* * *
51765783 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCAC-AATG
*
51765848 CCTTCGGGTATTAGC
65 CCTTCGGGTATTAAC
* * * *
51765863 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAATG
*
51765927 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
** * * * *
51765942 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
51765990 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
79 56 0.51
80 52 0.48
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAATGC
CTTCGGGTATTAAC
Found at i:51774441 original size:96 final size:96
Alignment explanation
Indices: 51774321--51774513 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
51774311 AAACCTGTTT
51774321 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
1 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
51774386 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
66 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
51774417 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
1 AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
*
51774482 CCTTGCTTGGGCTAGGTTGTGTGTTGATGCA
66 CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
51774513 A
1 A
51774514 GAAGGTCGAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (96 bp):
AACTGAAGCTCCAGTGCTAGTACAGCCGGAATCCGGTAAAGAGTTTGTTATTTACAGTGATGCAT
CCTTGCTTGGGCTAGGTTGTATGTTGATGCA
Found at i:51783124 original size:38 final size:38
Alignment explanation
Indices: 51783065--51783141 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
51783055 TTTCAAATTA
* *
51783065 ACATGTATAACTGTGGCATATCCAATTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCAATTAGCACCAAGTT
* * *
51783103 ACATGTTTAACCGTGGTATATCCACTTAGCACCAAGTT
1 ACATGTATAACCGTGGCATATCCAATTAGCACCAAGTT
51783141 A
1 A
51783142 ATGAATCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCAATTAGCACCAAGTT
Found at i:51783226 original size:48 final size:48
Alignment explanation
Indices: 51783105--51783291 Score: 241
Period size: 48 Copynumber: 3.9 Consensus size: 48
51783095 ACCACGTTAC
* * * * *
51783105 ATGTTTAACCGTGGTATATCCACTTAGCACCAAGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
* * * *
51783152 ATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
* * *
51783200 ATGTGTAATCGTGGTATATCCACTTAGCAGCATGTTACACGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
* *
51783248 ATGTGTAATCGTGGTATATCCACTTAGCACCACATTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACACGTAT
51783292 AACAGTGGTA
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 32 0.26
48 90 0.74
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
Found at i:51787620 original size:67 final size:67
Alignment explanation
Indices: 51787506--51787638 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 67
51787496 AACATATATT
* * * * **
51787506 ACAGGGGATTTAGCTTGGACTGGTAATCCTGCTGTAATAAATGAGGTTCGTGGGAGTGTGCTCTC
1 ACAGGGAATTTAGCTTGGACTGGTAATCCCGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCTC
51787571 TC
66 TC
*
51787573 ACAGGGAATTTAG-TCTGGACTGGTAATCCCGCTGTGAGAAATAAGGTTCACGGGAGTGTGCTCT
1 ACAGGGAATTTAGCT-TGGACTGGTAATCCCGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCT
51787637 CT
65 CT
51787639 GAAATGGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (67 bp):
ACAGGGAATTTAGCTTGGACTGGTAATCCCGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCTC
TC
Found at i:51788626 original size:4 final size:4
Alignment explanation
Indices: 51788619--51788644 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
51788609 ACAAAAAAAA
51788619 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
51788645 GTGATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:51790431 original size:68 final size:67
Alignment explanation
Indices: 51790359--51790508 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
51790349 CATCATGTGT
* * * *
51790359 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
51790421 ATGTAG
62 ATGTAG
** * *
51790427 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
51790492 AG
66 AG
51790494 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
51790509 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:51790464 original size:64 final size:64
Alignment explanation
Indices: 51790383--51790566 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
51790373 AGACATTATG
* *
51790383 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
51790447 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
51790512 AA
63 AA
* * * *
51790514 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
51790567 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:51794879 original size:68 final size:67
Alignment explanation
Indices: 51794807--51794956 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
51794797 CATCATGTGT
* * * *
51794807 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
51794869 ATGTAG
62 ATGTAG
** * *
51794875 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
51794940 AG
66 AG
51794942 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
51794957 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:51794912 original size:64 final size:64
Alignment explanation
Indices: 51794831--51795014 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
51794821 AGACATTATG
* *
51794831 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
51794895 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
51794960 AA
63 AA
* * * *
51794962 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
51795015 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Done.