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 118 of 292
Found at i:35682704 original size:2 final size:2
Alignment explanation
Indices: 35682697--35682722 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35682687 GTATCATGAC
35682697 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35682723 GACTAGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35683973 original size:32 final size:32
Alignment explanation
Indices: 35683932--35683995 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
35683922 GAAACTGCTA
*
35683932 GTGTTAGGCTGCGCGAGTTTTCAAAATTAATG
1 GTGTTAGGCTGCACGAGTTTTCAAAATTAATG
*
35683964 GTGTTAGGCTGTACGAGTTTTCAAAATTAATG
1 GTGTTAGGCTGCACGAGTTTTCAAAATTAATG
35683996 AACGTTTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (32 bp):
GTGTTAGGCTGCACGAGTTTTCAAAATTAATG
Found at i:35685410 original size:21 final size:21
Alignment explanation
Indices: 35685381--35685420 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35685371 AGATGTCTAA
35685381 ACTAAGACATATTTAAAACAT
1 ACTAAGACATATTTAAAACAT
*
35685402 ACTAGGACATATTTAAAAC
1 ACTAAGACATATTTAAAAC
35685421 CCTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (21 bp):
ACTAAGACATATTTAAAACAT
Found at i:35685589 original size:62 final size:62
Alignment explanation
Indices: 35685521--35685644 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
35685511 CTAAAATAAC
35685521 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
1 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
35685583 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
1 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
35685645 GAGCTAGTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (62 bp):
TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
Found at i:35687114 original size:16 final size:16
Alignment explanation
Indices: 35687093--35687123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35687083 AATAAAAACT
35687093 AACTAAATAAACTAAC
1 AACTAAATAAACTAAC
*
35687109 AACTAAATTAACTAA
1 AACTAAATAAACTAA
35687124 AAACCGCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (16 bp):
AACTAAATAAACTAAC
Found at i:35688955 original size:26 final size:29
Alignment explanation
Indices: 35688907--35688973 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
35688897 TGTTAGCTGA
35688907 ATTAATGTGTCTTGTTCATATTA-AT-AT
1 ATTAATGTGTCTTGTTCATATTATATGAT
*
35688934 -TTAATGTGTCTTAGCTT-A-ATTATATGTT
1 ATTAATGTGTCTT-G-TTCATATTATATGAT
35688962 ATTAATGTGTCT
1 ATTAATGTGTCT
35688974 AAGTTCAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 16 0.47
27 4 0.12
28 3 0.09
29 11 0.32
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.52
Consensus pattern (29 bp):
ATTAATGTGTCTTGTTCATATTATATGAT
Found at i:35689439 original size:10 final size:10
Alignment explanation
Indices: 35689424--35689453 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
35689414 GGCAAAGCAA
35689424 TTAAGCTCAT
1 TTAAGCTCAT
35689434 TTAAGCTCAT
1 TTAAGCTCAT
35689444 TTAAGCTCAT
1 TTAAGCTCAT
35689454 GGTCGAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (10 bp):
TTAAGCTCAT
Found at i:35690939 original size:46 final size:46
Alignment explanation
Indices: 35690872--35691043 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
35690862 AACCCGCCCC
*
35690872 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
35690918 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * ** * *
35690966 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
35691011 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
35691044 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:35690984 original size:93 final size:93
Alignment explanation
Indices: 35690877--35691047 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35690867 GCCCCTAAGT
** *
35690877 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
35690942 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
35690970 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
35691035 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35691048 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:35693186 original size:66 final size:68
Alignment explanation
Indices: 35693110--35693296 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
35693100 TAGTACCACT
*
35693110 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
35693172 CACG
65 CACG
35693176 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
35693241 ATCACG
63 ATCACG
35693247 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
35693297 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:35693221 original size:71 final size:71
Alignment explanation
Indices: 35693133--35693296 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35693123 CGATTTGTCT
35693133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35693198 CTTTCA
66 CTTTCA
35693204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35693269 CTTTCA
66 CTTTCA
35693275 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35693297 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35693334 original size:71 final size:70
Alignment explanation
Indices: 35693133--35693330 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
35693123 CGATTTGTCT
* * *
35693133 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35693198 CTTTCA
65 CTTTCA
* * *
35693204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35693269 CTTTCA
65 CTTTCA
* *
35693275 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35693331 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35700780 original size:26 final size:29
Alignment explanation
Indices: 35700732--35700798 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
35700722 TGTTAGCTGA
35700732 ATTAATGTGTCTTGTTCATATTA-AT-AT
1 ATTAATGTGTCTTGTTCATATTATATGAT
*
35700759 -TTAATGTGTCTTAGCTT-A-ATTATATGTT
1 ATTAATGTGTCTT-G-TTCATATTATATGAT
35700787 ATTAATGTGTCT
1 ATTAATGTGTCT
35700799 AAGTTCAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 16 0.47
27 4 0.12
28 3 0.09
29 11 0.32
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.52
Consensus pattern (29 bp):
ATTAATGTGTCTTGTTCATATTATATGAT
Found at i:35704414 original size:46 final size:46
Alignment explanation
Indices: 35704321--35704406 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
35704311 TACATCTCAC
** *
35704321 GAACTCGGACTCAACTCAACGAGTTCGGACTTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACTGCTGCAACCATAAGT
*
35704367 GAACTCGGACTCAACTCAACGAGTTCTGA-TGCT-CAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGACTGCTGCAACCAT
35704407 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 6 0.17
45 2 0.06
46 28 0.78
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACTGCTGCAACCATAAGT
Found at i:35708821 original size:8 final size:8
Alignment explanation
Indices: 35708808--35708844 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
35708798 TTTATTAGCC
35708808 TTTATTAT
1 TTTATTAT
35708816 TTTATTAT
1 TTTATTAT
35708824 TTTATTAT
1 TTTATTAT
* *
35708832 TCTATTTT
1 TTTATTAT
35708840 TTTAT
1 TTTAT
35708845 AATTATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:35709279 original size:47 final size:48
Alignment explanation
Indices: 35709207--35709297 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
35709197 AGTTTTAATT
* * *
35709207 ATGTTTGTGTTTGTTAAATATATCTTTATTTAATGTTTTGCATTTATA
1 ATGTTTGTGTTGGTTAAATACATCTTTATTTAATGTCTTGCATTTATA
* *
35709255 ATGTTT-TGTTGGTTAAATGCATCTTTGTTTAATGTCTTGCATT
1 ATGTTTGTGTTGGTTAAATACATCTTTATTTAATGTCTTGCATT
35709298 AATACATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 32 0.84
48 6 0.16
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (48 bp):
ATGTTTGTGTTGGTTAAATACATCTTTATTTAATGTCTTGCATTTATA
Found at i:35710650 original size:37 final size:37
Alignment explanation
Indices: 35710597--35710699 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
35710587 CGAATAGTCC
*
35710597 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
35710634 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
35710671 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
35710700 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:35710898 original size:48 final size:48
Alignment explanation
Indices: 35710840--35711033 Score: 352
Period size: 48 Copynumber: 4.0 Consensus size: 48
35710830 ATATACACAC
*
35710840 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
35710888 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
35710936 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
35710984 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
35711032 AT
1 AT
35711034 TTATCTTGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:35714625 original size:29 final size:29
Alignment explanation
Indices: 35714592--35714688 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
35714582 AAAGAACTCA
*
35714592 CACACATAGTGCCTCAATTACCAATCTTG
1 CACACATAGTGCCTCAATTACCAATCTCG
* **
35714621 CACACATAGTG-CT-TATTGAAGAA-CTCG
1 CACACATAGTGCCTCAATT-ACCAATCTCG
* ** *
35714648 CACACATAGTGCCTCAACTACTGATCTGG
1 CACACATAGTGCCTCAATTACCAATCTCG
35714677 CACACATAGTGC
1 CACACATAGTGC
35714689 TCGGTTGAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 17 0.31
28 9 0.17
29 28 0.52
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACCAATCTCG
Found at i:35714643 original size:56 final size:57
Alignment explanation
Indices: 35714563--35714720 Score: 210
Period size: 56 Copynumber: 2.8 Consensus size: 57
35714553 GACTGATTTC
* * * * *
35714563 GCACACATAGCGCTCGATTAAAGAACTCACACACATAGTGCCTCAATTACCAATCTT
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
* **
35714620 GCACACATAGTGCT-TATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
* * *
35714676 GCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
35714721 TAACTCCAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 49 0.56
57 39 0.44
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTG
Found at i:35714650 original size:27 final size:27
Alignment explanation
Indices: 35714561--35714716 Score: 107
Period size: 28 Copynumber: 5.6 Consensus size: 27
35714551 CTGACTGATT
* *
35714561 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
* **
35714589 TCACACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCAATTAAGAA-C
* *
35714618 TTGCACACATAGTGCT-TATTGAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
* * *
35714645 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAATTA-AGAAC
* **
35714674 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCAATT-AAGAAC
* *
35714702 TTGCACACACAGTGC
1 TCGCACACATAGTGC
35714717 CTCATAACTC
Statistics
Matches: 98, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
27 17 0.17
28 43 0.44
29 38 0.39
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAATTAAGAAC
Found at i:35714792 original size:40 final size:40
Alignment explanation
Indices: 35714748--35715076 Score: 574
Period size: 40 Copynumber: 8.3 Consensus size: 40
35714738 CCTTCGAGGT
35714748 TTAGCCCGGATAT-ATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGAT-TCATCACTAGCACGAATGCTCTTCGGAAC
* *
35714788 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
* *
35714828 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
35714868 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
35714908 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
35714948 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTC-GAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
*
35714987 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
*
35715027 TTAG-CCGGATTCATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
35715066 TTAGCCCGGAT
1 TTAGCCCGGAT
35715077 ATATATAACT
Statistics
Matches: 279, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
39 75 0.27
40 204 0.73
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATTCATCACTAGCACGAATGCTCTTCGGAAC
Found at i:35716415 original size:37 final size:37
Alignment explanation
Indices: 35716362--35716464 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
35716352 CGAATAGTCC
*
35716362 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
35716399 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
35716436 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
35716465 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:35716742 original size:48 final size:48
Alignment explanation
Indices: 35716605--35716796 Score: 343
Period size: 48 Copynumber: 4.0 Consensus size: 48
35716595 ATATACACAC
*
35716605 ATCTCCTACATATTTCACACTAGCCATTC-GCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
35716652 ATCTCATACATATTTCACA-TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
35716699 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
35716747 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
35716795 AT
1 AT
35716797 ATTTATCTTG
Statistics
Matches: 140, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
46 9 0.06
47 55 0.39
48 76 0.54
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:35724369 original size:46 final size:49
Alignment explanation
Indices: 35724277--35724374 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 49
35724267 GGAGACATGC
* *
35724277 ACGTTGCATATAAATATTTAAAAAAAATCATCTTTTTTATGTTTTCAGCAT
1 ACGTTGCATATAAATATTT-AAAAAAATCATC-TTTTCATGCTTTCAGCAT
**
35724328 ACGTTGCATATAAATA-TT-AAAATTTCATC-TTTCATGCTTTCAGCAT
1 ACGTTGCATATAAATATTTAAAAAAATCATCTTTTCATGCTTTCAGCAT
35724374 A
1 A
35724375 ATCAGCCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
46 16 0.37
48 9 0.21
50 2 0.05
51 16 0.37
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (49 bp):
ACGTTGCATATAAATATTTAAAAAAATCATCTTTTCATGCTTTCAGCAT
Found at i:35727990 original size:3 final size:3
Alignment explanation
Indices: 35727982--35728038 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
35727972 AAGTTGCTTT
35727982 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
35728030 TTC TTC TTC
1 TTC TTC TTC
35728039 AACCCTGTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:35732897 original size:23 final size:23
Alignment explanation
Indices: 35732867--35732970 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 23
35732857 CCGATTAGAA
35732867 ACTTTATGTGTCGTATATCAGGC
1 ACTTTATGTGTCGTATATCAGGC
* *
35732890 ACTTTATGTGTCATATTTCAGGC
1 ACTTTATGTGTCGTATATCAGGC
* **
35732913 ACCTCGTGTGTCG--TATCAGGC
1 ACTTTATGTGTCGTATATCAGGC
* ** *
35732934 ACCTCGTGTGTC--ATTTCAGGC
1 ACTTTATGTGTCGTATATCAGGC
35732955 A-TTTATGTGTCGTATA
1 ACTTTATGTGTCGTATA
35732971 CTGATCAGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.11
21 27 0.41
22 2 0.03
23 30 0.45
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (23 bp):
ACTTTATGTGTCGTATATCAGGC
Found at i:35733870 original size:22 final size:22
Alignment explanation
Indices: 35733840--35733909 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
35733830 TCTTTGATTG
*
35733840 TTAACACATTAGTGCTCTCCGT
1 TTAACACATTAGTGCTCTCTGT
* *
35733862 TTAGCACATCT-GTGCTATCTGT
1 TTAACACAT-TAGTGCTCTCTGT
* *
35733884 ATAACACTTTAGTGCTCTCTGT
1 TTAACACATTAGTGCTCTCTGT
35733906 TTAA
1 TTAA
35733910 TAGTACATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (22 bp):
TTAACACATTAGTGCTCTCTGT
Found at i:35734156 original size:30 final size:30
Alignment explanation
Indices: 35734122--35734218 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35734112 AGCTCACTCC
35734122 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
35734152 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
35734182 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
35734212 TAGCTCA
1 TAGCTCA
35734219 TTTTTAGTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:35735954 original size:13 final size:13
Alignment explanation
Indices: 35735936--35735983 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 13
35735926 TATACAAGTC
35735936 AAAAAAAATTC--
1 AAAAAAAATTCAA
35735947 AAAAAAAATTCAA
1 AAAAAAAATTCAA
35735960 AAAAAAAATTTCGAA
1 AAAAAAAA-TTC-AA
35735975 AAGAAAAAA
1 AA-AAAAAA
35735984 AATCTGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.34
13 8 0.25
14 3 0.09
15 4 0.12
16 6 0.19
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:35735966 original size:12 final size:11
Alignment explanation
Indices: 35735934--35735965 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
35735924 GTTATACAAG
35735934 TCAAAAAAAAT
1 TCAAAAAAAAT
35735945 TCAAAAAAAAT
1 TCAAAAAAAAT
35735956 TCAAAAAAAA
1 TCAAAAAAAA
35735966 AATTTCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:35735992 original size:17 final size:17
Alignment explanation
Indices: 35735958--35735997 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
35735948 AAAAAAATTC
*
35735958 AAAAAAAAAATTTCGAA
1 AAAAAAAAAATCTCGAA
35735975 AAGAAAAAAAATCT-GAA
1 AA-AAAAAAAATCTCGAA
35735992 AAAAAA
1 AAAAAA
35735998 GTGTTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAATCTCGAA
Found at i:35736916 original size:9 final size:10
Alignment explanation
Indices: 35736909--35736965 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
35736899 AAGAGAAAAC
35736909 AAAGAAAAGA
1 AAAGAAAAGA
35736919 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
35736931 AAAGAAGA-A
1 AAAGAAAAGA
35736940 AAAGAAAATGA
1 AAAGAAAA-GA
35736951 AATA-AAAAGA
1 AA-AGAAAAGA
35736961 AAAGA
1 AAAGA
35736966 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:35736932 original size:21 final size:20
Alignment explanation
Indices: 35736898--35736965 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
35736888 ACATTCTTGT
35736898 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
35736919 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
35736940 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
35736961 AAAGA
1 AAAGA
35736966 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:35736933 original size:6 final size:5
Alignment explanation
Indices: 35736909--35736965 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
35736899 AAGAGAAAAC
*
35736909 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
35736956 AAAGA AAAGA
1 AAAGA AAAGA
35736966 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:35736940 original size:15 final size:14
Alignment explanation
Indices: 35736909--35736965 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
35736899 AAGAGAAAAC
35736909 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
35736925 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
35736940 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
35736956 AAAGAAAAGA
1 AAAGAAAAGA
35736966 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:35737045 original size:11 final size:12
Alignment explanation
Indices: 35737013--35737043 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35737003 TTGAGAGAAC
35737013 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35737025 TTGAAAAAGCCT
1 TTGAAAAAGCCT
35737037 TTGAAAA
1 TTGAAAA
35737044 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:35737109 original size:30 final size:31
Alignment explanation
Indices: 35737046--35737116 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
35737036 TTTGAAAAGC
* *
35737046 AAAAAGAAA-ATGAGATTGAAAAAGAGAACG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
*
35737076 -AAAAGAAATTTGAGAGTGAAAAAGA-AGATG
1 AAAAAGAAATTTGAGAGTGAAAAAGAGA-ACG
35737106 AAAAAGAAATT
1 AAAAAGAAATT
35737117 GAAACAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 9 0.26
30 16 0.46
31 10 0.29
ACGTcount: A:0.62, C:0.01, G:0.23, T:0.14
Consensus pattern (31 bp):
AAAAAGAAATTTGAGAGTGAAAAAGAGAACG
Found at i:35739331 original size:40 final size:40
Alignment explanation
Indices: 35739236--35739445 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
35739226 ACCCAATTAT
* ** *
35739236 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* ** * * *
35739274 CGTCGGGTGTTAGCCCGGATATGGCCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
35739314 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
35739354 CTTCGGAACTTAGCCCGGA-ATTTGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
35739394 CTTCGGGACTTAGCCCAGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
35739434 CTTCGGGACTTA
1 CTTCGGGACTTA
35739446 ACCCCATTAG
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
38 10 0.07
39 18 0.12
40 118 0.81
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:35740948 original size:24 final size:24
Alignment explanation
Indices: 35740921--35741127 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
35740911 CTTATTATGT
* * *
35740921 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
35740945 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35740969 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
35740993 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
35741017 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35741041 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35741065 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35741089 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35741113 TCGCACACATAGTGC
1 TCGCACACATAGTGC
35741128 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:35748672 original size:24 final size:24
Alignment explanation
Indices: 35748645--35748851 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
35748635 CTTATTATGT
* * *
35748645 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
35748669 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35748693 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
35748717 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
35748741 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35748765 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35748789 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
35748813 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
35748837 TCGCACACATAGTGC
1 TCGCACACATAGTGC
35748852 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:35758000 original size:39 final size:40
Alignment explanation
Indices: 35757951--35758104 Score: 123
Period size: 40 Copynumber: 3.9 Consensus size: 40
35757941 CCAGATATAA
* **
35757951 CCACTCGCAC-AAGGCCGTCGGGTGTTAGCCCGGATATGG
1 CCACTAGCACAAAGGCCGTCGGGACTTAGCCCGGATATGG
* * *
35757990 CCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCACTAGCACAAAGGCCGTCGGGACTTAGCCCGGATATGG
** * * * * *
35758030 TAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATTTG
1 CCACTAGCACAAAGGCCGTCGGGACTTAGCCCGGATA-TGG
** * * *
35758070 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CCACTAGCACAAAGGCCGTCGGGACTTAGCCCGGA
35758105 ATTAATCACT
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
39 12 0.12
40 87 0.86
41 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (40 bp):
CCACTAGCACAAAGGCCGTCGGGACTTAGCCCGGATATGG
Found at i:35758023 original size:40 final size:41
Alignment explanation
Indices: 35757975--35758137 Score: 208
Period size: 40 Copynumber: 4.1 Consensus size: 41
35757965 CCGTCGGGTG
* **
35757975 TTAGCCCGGATA-TGGCCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATTAGTAACTAGCACAAATGCCTTCGGGAC
*
35758015 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATTAGTAACTAGCACAAATGCCTTCGGGAC
* * *
35758055 TTAGCCC-GAAATTTGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATTAGTAACTAGCACAAATGCCTTCGGGAC
* * *
35758095 TTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGAC
1 TTAGCCCGGATATTAGTAACTAGCACAAATGCCTTCGGGAC
35758135 TTA
1 TTA
35758138 ACCCCGTTAG
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.03
40 105 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
TTAGCCCGGATATTAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:35761193 original size:30 final size:30
Alignment explanation
Indices: 35761159--35761255 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
35761149 AGCTTACTCC
35761159 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
35761189 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
35761219 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
*
35761249 TAACTCA
1 TAGCTCA
35761256 TTTTTAGTTT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:35766746 original size:39 final size:39
Alignment explanation
Indices: 35766692--35766772 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
35766682 TTTAGTTATT
* *
35766692 TTAGTTTGTGTCTTTAATTATGTCAT-GATTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAG-TTTGAACATCA
35766731 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
35766770 TTA
1 TTA
35766773 ATATATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
Found at i:35769763 original size:31 final size:31
Alignment explanation
Indices: 35769710--35769790 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
35769700 TGCAAGCTGA
* * *
35769710 TCAACTCG-ATTCTAGCTTATTGAGCATGAT
1 TCAACTCGAATTCTATCTCATTGAGCATAAT
*
35769740 TCAACTCGAATTCTATCTCATTGAGCTTAAT
1 TCAACTCGAATTCTATCTCATTGAGCATAAT
* *
35769771 TCAGCTCAAATT-T-TCTCATT
1 TCAACTCGAATTCTATCTCATT
35769791 TATATTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
31 28 0.64
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (31 bp):
TCAACTCGAATTCTATCTCATTGAGCATAAT
Found at i:35770808 original size:26 final size:26
Alignment explanation
Indices: 35770771--35770854 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
35770761 TGATACAAAT
* *
35770771 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35770797 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35770823 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35770849 TGATAA
1 TGATAA
35770855 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:35772922 original size:137 final size:137
Alignment explanation
Indices: 35772636--35772905 Score: 486
Period size: 137 Copynumber: 2.0 Consensus size: 137
35772626 GAGTAGTCTC
*
35772636 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
35772701 TATTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TACTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAGTACC
35772766 ACTACTA
131 ACTACTA
*
35772773 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
35772838 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAGTACC
66 TACTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAGTACC
35772903 ACT
131 ACT
35772906 GTTACCTGAA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 127 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TACTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCGGGCCCAGTACC
ACTACTA
Found at i:35776650 original size:26 final size:26
Alignment explanation
Indices: 35776613--35776696 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
35776603 TGATACAAAT
* *
35776613 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35776639 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35776665 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
35776691 TGATAA
1 TGATAA
35776697 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:35778723 original size:137 final size:137
Alignment explanation
Indices: 35778477--35778763 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
35778467 GAGTAGTCTC
*
35778477 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCTTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
* * *
35778542 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
66 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35778607 ACTGTTA
131 ACTGTTA
* *
35778614 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
35778679 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35778744 ACTGTTA
131 ACTGTTA
**
35778751 CCTGAATGGGCTT
1 CCCAAATGGGCTT
35778764 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:35783052 original size:43 final size:45
Alignment explanation
Indices: 35782901--35783158 Score: 257
Period size: 45 Copynumber: 5.9 Consensus size: 45
35782891 TAGGGTTCTG
*
35782901 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
35782946 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGACATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
35782991 ATATGTGTTTTCGTGTAAGACCACATTTGGGACGTTGGCATC-A-
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * * *
35783034 ATATGTGGTTACGAGTAAGACCATGTCTGGGACATCGGCATCG-T
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * *
35783078 AT-T-TGATTT-GTGTAAGACC-CTATTTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * ** *
35783120 ATA--AGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
35783159 TGTATGATAT
Statistics
Matches: 175, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
41 23 0.13
42 11 0.06
43 57 0.33
44 4 0.02
45 80 0.46
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:35783158 original size:84 final size:88
Alignment explanation
Indices: 35782901--35783163 Score: 240
Period size: 84 Copynumber: 3.0 Consensus size: 88
35782891 TAGGGTTCTG
* * * * * * *
35782901 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATATATG-TGTTTTCG-TGTAA
1 ATATGTGATTTCGTGTAAGACCACATTTGGGACGTTGGCATC-A-ATATGAAG-ATACGATGTAA
*
35782964 GACCACGTCTGGGACATTGACATCGAT
63 GACCACGTCTGGGACATTGGCATCG-T
* ** *
35782991 ATATGTGTTTTCGTGTAAGACCACATTTGGGACGTTGGCATCAATATGTGGTTACGA-GTAAGAC
1 ATATGTGATTTCGTGTAAGACCACATTTGGGACGTTGGCATCAATATGAAGATACGATGTAAGAC
* *
35783055 CATGTCTGGGACATCGGCATCGT
66 CACGTCTGGGACATTGGCATCGT
*
35783078 AT-T-TGATTT-GTGTAAGACC-CTATTTGGGACAG-TGGCATCGATAT-AAGATA-GCATGTAA
1 ATATGTGATTTCGTGTAAGACCAC-ATTTGGGAC-GTTGGCATCAATATGAAGATACG-ATGTAA
* *
35783136 GACCACGTCTGGGACGTTGGCATTGT
63 GACCACGTCTGGGACATTGGCATCGT
35783162 AT
1 AT
35783164 GATATATGTG
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
82 1 0.01
83 5 0.03
84 58 0.39
85 6 0.04
86 1 0.01
87 3 0.02
88 35 0.23
89 2 0.01
90 39 0.26
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (88 bp):
ATATGTGATTTCGTGTAAGACCACATTTGGGACGTTGGCATCAATATGAAGATACGATGTAAGAC
CACGTCTGGGACATTGGCATCGT
Found at i:35784833 original size:45 final size:45
Alignment explanation
Indices: 35784774--35784860 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
35784764 TGATATCATT
* * * *
35784774 TTACCGGCTTTATAGCCTGTTAGGCTCAAAAGCCCGAATAATATC
1 TTACCGACATTATAGCCTGCTAAGCTCAAAAGCCCGAATAATATC
* *
35784819 TTACCGACATTATAGTCTGCTAAGCTCAAAGGCCCGAATAAT
1 TTACCGACATTATAGCCTGCTAAGCTCAAAAGCCCGAATAAT
35784861 CAAATCAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (45 bp):
TTACCGACATTATAGCCTGCTAAGCTCAAAAGCCCGAATAATATC
Found at i:35785238 original size:43 final size:43
Alignment explanation
Indices: 35785190--35785313 Score: 198
Period size: 43 Copynumber: 2.9 Consensus size: 43
35785180 CCGGCATTAC
*
35785190 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
*
35785233 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* *
35785276 GCTTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCAC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCAC
35785314 TAGGCCTGTG
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
41 8 0.11
42 2 0.03
43 66 0.87
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:35785344 original size:38 final size:38
Alignment explanation
Indices: 35785294--35785417 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
35785284 GGCACGAAGG
* * * * *
35785294 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
35785332 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * * *
35785370 CCCAGATATTTTACTAGGACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
35785409 GCCCGGATA
1 -CCCGGATA
35785418 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 60 0.83
39 5 0.07
40 7 0.10
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:35789283 original size:29 final size:29
Alignment explanation
Indices: 35789250--35789380 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
35789240 GTGACGAGAT
35789250 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35789279 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
35789308 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
35789337 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
35789366 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35789381 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:35797416 original size:29 final size:29
Alignment explanation
Indices: 35797383--35797513 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
35797373 GTGACGAGAT
35797383 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35797412 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
35797441 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
35797470 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
35797499 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
35797514 GAAATAGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:35802565 original size:194 final size:194
Alignment explanation
Indices: 35802236--35802619 Score: 689
Period size: 194 Copynumber: 2.0 Consensus size: 194
35802226 ACCCTAGCTA
* *
35802236 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTTAATTTTGT
1 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTCAAATTTGT
* *
35802301 TTTTAATTCATTTTAATAACTAAATGACCAAAATGCCTTTAATTAAAAACTATGGTGTTTTATCT
66 TTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAATTAAAAACTATGGTGTTTTATCT
* *
35802366 TCCTTTAGGTATTTTTGTCCAAACTAGTATAATGGTCTAATTACTCTCCAAGGACCTCCAGATT
131 TCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCAGATT
*
35802430 TGTCTTCCTCATGTGAAATTCTGCCAAGGGGTTGAAGATGGACAAAAATT-GCCTTTCAAATTTG
1 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAG-CTTTCAAATTTG
35802494 TTTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAATTAAAAACTATGGTGTTTTATC
65 TTTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAATTAAAAACTATGGTGTTTTATC
35802559 TTCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCA
130 TTCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCA
35802620 CTTTAAAAAC
Statistics
Matches: 182, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
193 1 0.01
194 181 0.99
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (194 bp):
TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTCAAATTTGT
TTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAATTAAAAACTATGGTGTTTTATCT
TCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCAGATT
Found at i:35804654 original size:2 final size:2
Alignment explanation
Indices: 35804647--35804698 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
35804637 TTCAGCCTAT
35804647 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35804689 TA TA TA TA TA
1 TA TA TA TA TA
35804699 CTAGCTGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35807923 original size:31 final size:31
Alignment explanation
Indices: 35807880--35807957 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
35807870 TTAACGATTG
35807880 CTGGGCCGAAGCCTTTTCATAAATCATATCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
* *
35807911 CTGGGCCAAAGCCTTTTCATAAATCATTTCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
*
35807942 CTAGGCCGAAGCCTTT
1 CTGGGCCGAAGCCTTT
35807958 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTTCATAAATCATATCA
Found at i:35808028 original size:42 final size:42
Alignment explanation
Indices: 35807981--35808072 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
35807971 TGGCCCATAG
* ** *
35807981 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
35808023 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
35808065 GCCCATTT
1 GCCCATTT
35808073 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:35808269 original size:26 final size:26
Alignment explanation
Indices: 35808217--35808340 Score: 214
Period size: 26 Copynumber: 4.8 Consensus size: 26
35808207 CCTCTTTAAT
35808217 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
35808242 AACTGGGGCATAAGACCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35808268 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35808294 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
35808320 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
35808341 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.11
26 82 0.89
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:35809241 original size:27 final size:27
Alignment explanation
Indices: 35809146--35809232 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
35809136 TATTCGTCAT
* *
35809146 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
35809173 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
35809200 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
35809227 TTTACC
1 TTTACC
35809233 TAATAGGGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:35809463 original size:81 final size:81
Alignment explanation
Indices: 35809375--35809609 Score: 339
Period size: 81 Copynumber: 2.9 Consensus size: 81
35809365 TTTGTAAATC
* *
35809375 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTT
*
35809439 TGGTAATTTTACAAACT
65 TAGTAATTTTACAAACT
*
35809456 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAGACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
* *
35809521 AGCAATTTTACAGACT
66 AGTAATTTTACAAACT
** * * **
35809537 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
35809601 AGTAATTTT
66 AGTAATTTT
35809610 GTAAATTGAG
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 64 0.46
81 73 0.53
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:35809621 original size:27 final size:27
Alignment explanation
Indices: 35809352--35809770 Score: 238
Period size: 27 Copynumber: 15.6 Consensus size: 27
35809342 AAAGTCAAGT
* *
35809352 GTATTTCT-GTAACTTTGTAAATC-AGGG
1 GTATTT-TGGTAATTTTATAAATCGA-GG
* * *
35809379 GTATTTTGGTAATTTTACAAATTGAAG
1 GTATTTTGGTAATTTTATAAATCGAGG
* * * *
35809406 GTATTTCGGTAATTTCACAAA-CCAGTG
1 GTATTTTGGTAATTTTATAAATCGAG-G
* *
35809433 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTGGTAATTTTATAAATCGA-GG
* *
35809460 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
* * * * *
35809487 GTATTTCGGTAATTTTACAGACCAAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
* * * * *
35809514 GTATTTTAGCAATTTTACAGA-CTAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
*
35809540 GTATTTTGGTAATTTTACT-GATCGAGG
1 GTATTTTGGTAATTTTA-TAAATCGAGG
* * *
35809567 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
* * *
35809594 GTATTTTAGTAATTTTGTAAATTGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
***** * *
35809621 GTAAAACAGTAATTCTATAAATCAAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
***** *
35809648 GTAAAACAGTAATTCTATAAATCGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
*** *
35809675 GTAAAATGGTAATTTTGTAAATCGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
**** *
35809702 GTAAAACGGTAATTCTATAAATCGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
* * * *
35809729 GTACTTTGGTAATTTTACAATTTGAGG
1 GTATTTTGGTAATTTTATAAATCGAGG
*
35809756 GTATTTTAGTAATTT
1 GTATTTTGGTAATTT
35809771 GGTAAACTAA
Statistics
Matches: 322, Mismatches: 62, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
26 24 0.07
27 295 0.92
28 3 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GTATTTTGGTAATTTTATAAATCGAGG
Found at i:35820522 original size:28 final size:28
Alignment explanation
Indices: 35820453--35820553 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35820443 GACAAGATTG
* * * *
35820453 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35820483 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35820511 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35820540 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35820554 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35820547 original size:29 final size:28
Alignment explanation
Indices: 35820482--35820553 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
35820472 AAAATTGTAC
*
35820482 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
35820510 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
35820539 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35820554 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:35835248 original size:29 final size:29
Alignment explanation
Indices: 35835214--35835347 Score: 101
Period size: 29 Copynumber: 4.6 Consensus size: 29
35835204 TACTCGATTT
* * *
35835214 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
35835243 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
35835272 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
35835301 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
35835330 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
35835348 TATTTCCAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:35835306 original size:58 final size:59
Alignment explanation
Indices: 35835213--35835372 Score: 200
Period size: 58 Copynumber: 2.7 Consensus size: 59
35835203 ATACTCGATT
** * ** * * *
35835213 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
* *
35835271 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
35835330 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGC
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGC
35835373 TAATCTCGTC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 85 0.94
59 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATACACTTCCAGCA
Found at i:35835348 original size:29 final size:29
Alignment explanation
Indices: 35835273--35835372 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
35835263 CTTCGAGCTC
35835273 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35835302 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35835331 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35835360 GCACACTTAGTGC
1 GCACACTTAGTGC
35835373 TAATCTCGTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35837694 original size:40 final size:40
Alignment explanation
Indices: 35837580--35837782 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
35837570 GAATGATACT
* *
35837580 CGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATC
35837619 CGGG-TAA-ACCCGAAGGCATTT-TGCGAGTT-TCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT-TATATC
* *
35837656 CGGGTTAAGACCCTAAGGCATTTGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATC
* * *
35837696 CGGGCAAAGACCCGAAGGCATTTGTGCGAGTTGCTATACC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATC
* * ** *
35837736 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATC
35837776 C-GGCTAA
1 CGGGCTAA
35837783 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
36 1 0.01
37 15 0.11
38 20 0.14
39 22 0.16
40 82 0.58
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATC
Found at i:35837741 original size:80 final size:77
Alignment explanation
Indices: 35837575--35837778 Score: 259
Period size: 80 Copynumber: 2.6 Consensus size: 77
35837565 CAATTGAATG
* * * *
35837575 ATACTCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTAAACCCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGAAAACCCGAAGGCAT
*
35837638 TTTGCGAGTTTCT
65 TTTGCGAGTTGCT
* * *
35837651 ATATCCGGGTTAAGACCCTAAGGCATTTGTGCGAGTTGTTATATCCGGGCAAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGG-AAA-ACCCGAAGGCA
35837716 TTTGTGCGAGTTGCT
64 TTT-TGCGAGTTGCT
* * *
35837731 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGG
35837779 CTAAATTCCG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
76 11 0.10
77 28 0.26
78 4 0.04
79 14 0.13
80 52 0.48
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (77 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGAAAACCCGAAGGCATT
TTGCGAGTTGCT
Found at i:35845735 original size:38 final size:40
Alignment explanation
Indices: 35845641--35845814 Score: 220
Period size: 38 Copynumber: 4.5 Consensus size: 40
35845631 TGAATGATAC
* *
35845641 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
35845680 CCGGG-TAAGACCCGAAGGCATTT-TGCGAGTT-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * *
35845717 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
35845757 CCGGGCTAAGACCCGAAGGCA-TT-TGTGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
35845794 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
35845815 ATTGTGCTTG
Statistics
Matches: 123, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
37 30 0.24
38 39 0.32
39 29 0.24
40 25 0.20
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:35845767 original size:40 final size:40
Alignment explanation
Indices: 35845641--35845841 Score: 240
Period size: 39 Copynumber: 5.2 Consensus size: 40
35845631 TGAATGATAC
* *
35845641 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
35845680 CCGGG-TAAGACCCGAAGGCATTT-TGCGAGTT-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
35845717 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
35845757 CCGGGCTAAGACCCGAAGGCATTTGT--GAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
35845794 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
35845834 CC-GGCTAA
1 CCGGGCTAA
35845842 ATTCCGAAGA
Statistics
Matches: 142, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
37 34 0.24
38 37 0.26
39 39 0.27
40 32 0.23
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:35845787 original size:77 final size:78
Alignment explanation
Indices: 35845641--35845841 Score: 279
Period size: 77 Copynumber: 2.6 Consensus size: 78
35845631 TGAATGATAC
* *
35845641 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGG-TAAGACCCGAAGGCATTT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
35845703 TGCGAGTT-CTATA
65 TGCGAGTTGCTATA
*
35845716 TCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA-TT
1 -CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
*
35845780 TGTGAGTTGCTATA
65 TGCGAGTTGCTATA
* * *
35845794 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
35845842 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
76 15 0.13
77 76 0.67
78 22 0.19
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTT
GCGAGTTGCTATA
Found at i:35845807 original size:37 final size:38
Alignment explanation
Indices: 35845641--35845820 Score: 208
Period size: 37 Copynumber: 4.7 Consensus size: 38
35845631 TGAATGATAC
* *
35845641 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTG--AGTTG-CTATAT
*
35845680 CCGGG-TAAGACCCGAAGGCATTTTGCGAGTT-CTATAT
1 CCGGGCTAAGACCCGAAGGCA-TTTGTGAGTTGCTATAT
* *
35845717 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGT--GAGTTGCTATAT
35845757 CCGGGCTAAGACCCGAAGGCATTTGTGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGAGTTGCTATAT
* *
35845794 CCGGGTTAAGACCCGAAGGCAATTGTG
1 CCGGGCTAAGACCCGAAGGCATTTGTG
35845821 CTTGTGGTTA
Statistics
Matches: 125, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
37 39 0.31
38 31 0.25
39 21 0.17
40 34 0.27
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (38 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGAGTTGCTATAT
Found at i:35853670 original size:49 final size:49
Alignment explanation
Indices: 35853612--35853709 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
35853602 TTGTGTGTGG
35853612 CTATTGAGCCGAAATTGGAAAGGTTTGATAAATGTTTTGTGTTTGAGCC
1 CTATTGAGCCGAAATTGGAAAGGTTTGATAAATGTTTTGTGTTTGAGCC
*
35853661 CTATTGAGCCGAAATTGGAAAGGTTTGATAAATGTTTTTTGTTTGAGCC
1 CTATTGAGCCGAAATTGGAAAGGTTTGATAAATGTTTTGTGTTTGAGCC
35853710 TTAGTAACGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.38
Consensus pattern (49 bp):
CTATTGAGCCGAAATTGGAAAGGTTTGATAAATGTTTTGTGTTTGAGCC
Found at i:35853709 original size:39 final size:45
Alignment explanation
Indices: 35853601--35853697 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 45
35853591 AATCATGCTC
* *
35853601 TTTGTGTGTGGCTATTGAGCCGAAATTGGAAAGGTTTGATAAATG
1 TTTGTGTTTAGCTATTGAGCCGAAATTGGAAAGGTTTGATAAATG
35853646 TTTTGTGTTTGAGCCCTATTGAGCCGAAATTGGAAAGGTTTGATAAATG
1 -TTTGTGTTT-AG--CTATTGAGCCGAAATTGGAAAGGTTTGATAAATG
35853695 TTT
1 TTT
35853698 TTTGTTTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 8 0.17
47 1 0.02
48 3 0.07
49 34 0.74
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (45 bp):
TTTGTGTTTAGCTATTGAGCCGAAATTGGAAAGGTTTGATAAATG
Found at i:35853859 original size:40 final size:40
Alignment explanation
Indices: 35853815--35854007 Score: 359
Period size: 40 Copynumber: 4.8 Consensus size: 40
35853805 TGCTAGTGAT
35853815 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
1 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
35853855 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
1 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
*
35853895 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
35853935 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
1 TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
* *
35853975 TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATATCCGGGTTAAGACCCGAAGGCATTTGTGC
35854008 TTGTGATTAT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGC
Found at i:35854023 original size:120 final size:119
Alignment explanation
Indices: 35853787--35854007 Score: 370
Period size: 120 Copynumber: 1.8 Consensus size: 119
35853777 ATACCCGAGC
* *
35853787 TAAGCCCCAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGT
1 TAAGCCCCAAGGCATTTATGCGAGTGACTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGT
* *
35853852 TGCTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGT
66 TGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTTGCTATATCCGGGT
* * *
35853906 TAAGACCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAG
1 TAAG-CCCCAAGGCATTTATGCGAGTGACTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAG
35853971 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
65 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
35854008 TTGTGATTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 4 0.04
120 90 0.96
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TAAGCCCCAAGGCATTTATGCGAGTGACTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGT
TGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTTGCTATATCCGGGT
Found at i:35865559 original size:27 final size:28
Alignment explanation
Indices: 35865502--35865571 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
35865492 AAACTTGTAC
*
35865502 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35865530 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
35865557 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35865572 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:35865582 original size:27 final size:27
Alignment explanation
Indices: 35865502--35865583 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
35865492 AAACTTGTAC
* * *
35865502 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
35865530 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
35865557 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
35865584 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:35873499 original size:27 final size:28
Alignment explanation
Indices: 35873442--35873511 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
35873432 AAACTTGTAC
*
35873442 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35873470 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
35873497 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
35873512 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:35873522 original size:27 final size:27
Alignment explanation
Indices: 35873442--35873523 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
35873432 AAACTTGTAC
* * *
35873442 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
35873470 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
35873497 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
35873524 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:35877664 original size:371 final size:371
Alignment explanation
Indices: 35876054--35878081 Score: 3914
Period size: 371 Copynumber: 5.5 Consensus size: 371
35876044 CTTGTCCATT
*
35876054 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
35876119 ATAGGCTGGAAACCTGACGGGTTGCCTTAAATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
35876184 GTAACAACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTG-AAAAAGTTCTATCGAGC
35876249 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
195 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
35876314 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
260 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
35876379 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
324 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
* *
35876427 AAAATTACAATAATAGTTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
* *
35876492 ATAGGCTGGAAACCTGACGGGCTGCCTTATATCGAGCTACAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
35876557 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAACAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA-AGTTCTATCGAGC
35876622 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
195 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
35876687 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
260 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
35876752 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
325 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
35876799 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
35876864 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
35876929 GTAACAACACCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAACAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA-AGTTCTATCGAGC
35876994 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
195 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
35877059 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
260 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
35877124 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
324 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
35877172 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
35877237 ATAGGCTGGAAACCTGAC-GGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
35877301 GTAACAACGCCACGTATGATGAATCTTAAAAAATTTAAAAAGACTTGAAAAAGTTCTATCGAGCT
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAGTTCTATCGAGCT
35877366 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
196 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
35877431 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
35877496 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
35877542 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
35877607 ATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
35877672 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAGTTCTATCGAGCT
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAGTTCTATCGAGCT
35877737 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
196 CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
35877802 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
261 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
35877867 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
35877913 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
35877978 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
35878043 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
35878082 TGTTTCAATT
Statistics
Matches: 1636, Mismatches: 16, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
370 159 0.10
371 568 0.35
372 466 0.28
373 443 0.27
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (371 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAGTTCTATCGAGCT
CATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAAT
ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:35878207 original size:24 final size:24
Alignment explanation
Indices: 35878176--35878235 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
35878166 TTGAAATTTC
35878176 TCGTCCGTTTTATCACAAATATTA
1 TCGTCCGTTTTATCACAAATATTA
*
35878200 TTC-TCCGTTTTATTACAAATATTA
1 -TCGTCCGTTTTATCACAAATATTA
35878224 TCGTCCGTTTTA
1 TCGTCCGTTTTA
35878236 CCATTTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 2 0.06
24 29 0.88
25 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (24 bp):
TCGTCCGTTTTATCACAAATATTA
Found at i:35878456 original size:15 final size:15
Alignment explanation
Indices: 35878412--35878467 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
35878402 AACGACATGT
35878412 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
35878428 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
35878441 ATATTATTTAATTAA
1 ATATTATTTAATTAA
35878456 ATATTATTTAAT
1 ATATTATTTAAT
35878468 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:35878584 original size:9 final size:9
Alignment explanation
Indices: 35878572--35878797 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
35878562 TATTTGATAT
*
35878572 CATAATTTA
1 CATAACTTA
35878581 CATAACTTA
1 CATAACTTA
* *
35878590 TATAACATA
1 CATAACTTA
*
35878599 TATAACTTA
1 CATAACTTA
35878608 CATAACTTA
1 CATAACTTA
* *
35878617 TATAACATA
1 CATAACTTA
35878626 CATAACTTA
1 CATAACTTA
*
35878635 TATAACTTA
1 CATAACTTA
*
35878644 TATAACTTA
1 CATAACTTA
* *
35878653 GATAA-ATA
1 CATAACTTA
*
35878661 TATAACTTA
1 CATAACTTA
35878670 CATAACTTA
1 CATAACTTA
35878679 CATAATACTTA
1 CAT-A-ACTTA
* *
35878690 AATATATTTTATA
1 CATA-A--CT-TA
*
35878703 TCATAATTTA
1 -CATAACTTA
35878713 CATAACTTA
1 CATAACTTA
35878722 CATAACTTA
1 CATAACTTA
*
35878731 TATAACTTA
1 CATAACTTA
* *
35878740 GATAA-ATA
1 CATAACTTA
* *
35878748 TATAATTTA
1 CATAACTTA
*
35878757 CATAA-ATA
1 CATAACTTA
* * *
35878765 TATATCATA
1 CATAACTTA
*
35878774 TCATAAATTA
1 -CATAACTTA
35878784 CATAACTTA
1 CATAACTTA
35878793 CATAA
1 CATAA
35878798 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:35878594 original size:18 final size:18
Alignment explanation
Indices: 35878572--35878797 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
35878562 TATTTGATAT
* *
35878572 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
35878590 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
35878608 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
35878626 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
35878644 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
35878661 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
35878679 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
35878703 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
35878722 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
35878740 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
35878757 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
35878774 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
35878793 CATAA
1 CATAA
35878798 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:35878785 original size:114 final size:114
Alignment explanation
Indices: 35878600--35878821 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
35878590 TATAACATAT
* * *
35878600 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
35878665 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
35878714 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
35878777 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
35878822 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:35884476 original size:21 final size:21
Alignment explanation
Indices: 35884443--35884493 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
35884433 ACAACTTAGA
*
35884443 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
35884464 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
35884485 GCAGAGGCA
1 GCAGAGGCA
35884494 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:35884956 original size:42 final size:42
Alignment explanation
Indices: 35884905--35885174 Score: 504
Period size: 42 Copynumber: 6.4 Consensus size: 42
35884895 AAAGGTCAAG
35884905 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
35884947 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
35884989 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
35885031 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCC-TGAC
*
35885074 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAAGCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
35885116 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCC-TGAC
*
35885159 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGCTTTT
35885175 TTCCAATAAA
Statistics
Matches: 223, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
42 163 0.73
43 60 0.27
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
Found at i:35885128 original size:85 final size:85
Alignment explanation
Indices: 35884905--35885174 Score: 515
Period size: 85 Copynumber: 3.2 Consensus size: 85
35884895 AAAGGTCAAG
35884905 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
35884970 ACGCCGCTAAAAGCC-TGAC
66 ACGCCGCTAAAAGCCTTGAC
35884989 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
35885054 ACGCCGCTAAAAGCCTTGAC
66 ACGCCGCTAAAAGCCTTGAC
*
35885074 CTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
35885139 ACGCCGCTAAAAGCCTTGAC
66 ACGCCGCTAAAAGCCTTGAC
*
35885159 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGCTTTT
35885175 TTCCAATAAA
Statistics
Matches: 183, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 80 0.44
85 103 0.56
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
ACGCCGCTAAAAGCCTTGAC
Found at i:35885189 original size:127 final size:125
Alignment explanation
Indices: 35884905--35885174 Score: 468
Period size: 127 Copynumber: 2.1 Consensus size: 125
35884895 AAAGGTCAAG
*
35884905 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
1 CTTTAGCGGCGCTTTTCCCACAAAC-ACGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAA
35884970 ACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
65 ACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
*
35885031 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAAC-ACGCTAAAAGCC-TGACCTTTAGCGGCGCTTTTCCCACA
*
35885096 AACGTCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGAC
64 AACGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCC-TGAC
*
35885159 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGCTTTT
35885175 TTCCAATAAA
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
126 38 0.27
127 83 0.59
128 19 0.14
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (125 bp):
CTTTAGCGGCGCTTTTCCCACAAACACGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAA
CGCCGCTAAAAGCCTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTGAC
Found at i:35891601 original size:37 final size:38
Alignment explanation
Indices: 35891537--35891643 Score: 171
Period size: 37 Copynumber: 2.8 Consensus size: 38
35891527 TCAATCATGC
*
35891537 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
35891576 ACTGGGCCGAAG-CTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
35891613 ACTGGGCCGAAGCCTTTTCATATTTTATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
35891644 ACTGGGCCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
37 36 0.57
38 16 0.25
39 11 0.17
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:35891635 original size:31 final size:31
Alignment explanation
Indices: 35891560--35891661 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
35891550 CCTTTTCATA
35891560 TTTCATATTTCATAATACTGGGCCGAAGCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAGC----C-T
35891596 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
35891628 TTTCATATTTTATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
35891659 TTT
1 TTT
35891662 ACTATAAACG
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 29 0.46
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:35891898 original size:24 final size:24
Alignment explanation
Indices: 35891852--35891970 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
35891842 GCTTTATCAT
*
35891852 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
35891877 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
35891901 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
35891924 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
35891948 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35891971 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:35891931 original size:47 final size:48
Alignment explanation
Indices: 35891852--35891970 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
35891842 GCTTTATCAT
*
35891852 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
35891901 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
35891948 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35891971 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:35892045 original size:20 final size:20
Alignment explanation
Indices: 35892020--35892079 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
35892010 TATGATTACC
35892020 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
35892040 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
35892060 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
35892080 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:35892050 original size:11 final size:11
Alignment explanation
Indices: 35892020--35892074 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35892010 TATGATTACC
35892020 TCATGTGCATA
1 TCATGTGCATA
*
35892031 TCA--TACATA
1 TCATGTGCATA
35892040 TCATGTGCATA
1 TCATGTGCATA
* *
35892051 TCA--TACATT
1 TCATGTGCATA
35892060 TCATGTGCATA
1 TCATGTGCATA
35892071 TCAT
1 TCAT
35892075 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35892149 original size:25 final size:25
Alignment explanation
Indices: 35892121--35892168 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35892111 ATACATAAAC
* * *
35892121 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35892146 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35892169 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35899926 original size:30 final size:31
Alignment explanation
Indices: 35899885--35900014 Score: 183
Period size: 30 Copynumber: 4.1 Consensus size: 31
35899875 CCTTTTCATA
35899885 TTTCATATTTCATAATACTGGGCCGAAGCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAGC----C-T
35899921 GTTTCATATTTCATAATA-TGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
35899952 TTTCATATTTCATAATA-TGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
35899982 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
35900013 TT
1 TT
35900015 ACTGTAAACG
Statistics
Matches: 91, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
30 46 0.51
31 16 0.18
32 1 0.01
36 11 0.12
37 17 0.19
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:35899926 original size:37 final size:37
Alignment explanation
Indices: 35899864--35899997 Score: 176
Period size: 37 Copynumber: 3.8 Consensus size: 37
35899854 AATCATGCAC
*
35899864 TGGGCCGTAGCCCTTTTCATATTTCATATTTCATAATA
1 TGGGCCGAAG-CCTTTTCATATTTCATATTTCATAATA
*
35899902 CTGGGCCGAAG-CTTTTCATGTTTCATATTTCATAATA
1 -TGGGCCGAAGCCTTTTCATATTTCATATTTCATAATA
35899939 TGGGCCGAAG-C----C-T-TTTCATATTTCATAATA
1 TGGGCCGAAGCCTTTTCATATTTCATATTTCATAATA
35899969 TGGGCCGAAGCCTTTTCATATTTCATATT
1 TGGGCCGAAGCCTTTTCATATTTCATATT
35899998 ACTGGGCCGA
Statistics
Matches: 86, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
30 27 0.31
31 2 0.02
32 1 0.01
35 1 0.01
36 12 0.14
37 34 0.40
39 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (37 bp):
TGGGCCGAAGCCTTTTCATATTTCATATTTCATAATA
Found at i:35900251 original size:24 final size:23
Alignment explanation
Indices: 35900205--35900322 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 23
35900195 GCTTTATCAT
**
35900205 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
*
35900230 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGG-CAAAGCCCTTTTA
35900254 ATAACTGGGGCAAAGCCCTTTT-
1 ATAACTGGGGCAAAGCCCTTTTA
* **
35900276 ATAACTGGGGAATAAGCCCTTTCG
1 ATAACTGGGGCA-AAGCCCTTTTA
35900300 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCA-AAGCCCTTTT
35900323 TCACTTCCTC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
22 11 0.13
23 20 0.24
24 38 0.46
25 13 0.16
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:35900283 original size:46 final size:47
Alignment explanation
Indices: 35900205--35900322 Score: 150
Period size: 46 Copynumber: 2.5 Consensus size: 47
35900195 GCTTTATCAT
** *
35900205 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCAAAGCC-CTTTTAATAACTGGGG-AATAAGCCCTTTCA
*
35900254 ATAACTGGGGCAAAGCCCTTTT-ATAACTGGGGAATAAGCCCTTTCG
1 ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGAATAAGCCCTTTCA
35900300 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCA-AAGCCCTTTT
35900323 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
45 1 0.02
46 32 0.51
47 15 0.24
48 7 0.11
49 8 0.13
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (47 bp):
ATAACTGGGGCAAAGCCCTTTTAATAACTGGGGAATAAGCCCTTTCA
Found at i:35900398 original size:20 final size:20
Alignment explanation
Indices: 35900373--35900432 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
35900363 TATGATTACC
35900373 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
35900393 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
35900413 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
35900433 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:35900403 original size:11 final size:11
Alignment explanation
Indices: 35900373--35900427 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35900363 TATGATTACC
35900373 TCATGTGCATA
1 TCATGTGCATA
*
35900384 TCA--TACATA
1 TCATGTGCATA
35900393 TCATGTGCATA
1 TCATGTGCATA
* *
35900404 TCA--TACATT
1 TCATGTGCATA
35900413 TCATGTGCATA
1 TCATGTGCATA
35900424 TCAT
1 TCAT
35900428 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35900502 original size:25 final size:25
Alignment explanation
Indices: 35900474--35900521 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35900464 ATACATAAAC
* * *
35900474 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
35900499 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
35900522 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:35902604 original size:20 final size:18
Alignment explanation
Indices: 35902532--35902610 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 18
35902522 ACTCACTCTC
* *
35902532 TTTTCAATCTTCTTTTCT
1 TTTTCAATTTTTTTTTCT
**
35902550 TGATCAATTTTTTTTTTCT
1 TTTTCAA-TTTTTTTTTCT
35902569 TTTTCAATTTTGTTTTTCT
1 TTTTCAATTTT-TTTTTCT
*
35902588 TTTCTCACTTTCTTTTTTGCT
1 TTT-TCAATTT-TTTTTT-CT
35902609 TT
1 TT
35902611 CTTTCACACT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.18
19 24 0.49
20 11 0.22
21 5 0.10
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTCAATTTTTTTTTCT
Found at i:35903550 original size:19 final size:18
Alignment explanation
Indices: 35903517--35903552 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35903507 TCTCACCTTT
*
35903517 TTTTTTTATATTTCAAAA
1 TTTTTTTATACTTCAAAA
35903535 TTTTTTTATAACTTCAAA
1 TTTTTTTAT-ACTTCAAA
35903553 GTAATGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTTATACTTCAAAA
Found at i:35906779 original size:33 final size:33
Alignment explanation
Indices: 35906742--35906813 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
35906732 CCCACAATGC
*
35906742 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
* **
35906775 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
35906808 TACTGT
1 TACTGT
35906814 GTTGTTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:35907917 original size:20 final size:21
Alignment explanation
Indices: 35907874--35907917 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
35907864 TATATTCATT
*
35907874 CTAGACATATTTAAACAACAA
1 CTAGACATACTTAAACAACAA
* *
35907895 CTAGACA-ACTTAAATAACTA
1 CTAGACATACTTAAACAACAA
35907915 CTA
1 CTA
35907918 ACCTATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
CTAGACATACTTAAACAACAA
Found at i:35908084 original size:20 final size:20
Alignment explanation
Indices: 35908061--35908108 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
35908051 TGTGCTCGTA
35908061 TGAGCTGAAATAAGCTCAAG
1 TGAGCTGAAATAAGCTCAAG
35908081 TGAGCTGAAATAAGCTCAAG
1 TGAGCTGAAATAAGCTCAAG
35908101 TGAGCTGA
1 TGAGCTGA
35908109 TGGGAGCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (20 bp):
TGAGCTGAAATAAGCTCAAG
Found at i:35910308 original size:27 final size:27
Alignment explanation
Indices: 35910278--35910341 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
35910268 GGGGTAAAAT
*
35910278 AGTCATTTTAGCACATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
* *
35910305 AGTCATGTTACCTCATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
35910332 AGTCATTTTA
1 AGTCATTTTA
35910342 TTGATTAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCAAAGC
Found at i:35915267 original size:6 final size:6
Alignment explanation
Indices: 35915256--35915288 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
35915246 GCCTTTGTAA
35915256 CTTGAG CTTGAG CTTGAG CTTGAG CTTGAG CTT
1 CTTGAG CTTGAG CTTGAG CTTGAG CTTGAG CTT
35915289 TCTATGCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.36
Consensus pattern (6 bp):
CTTGAG
Found at i:35917621 original size:141 final size:141
Alignment explanation
Indices: 35917367--35917645 Score: 549
Period size: 141 Copynumber: 2.0 Consensus size: 141
35917357 GAGATCCTAG
35917367 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
*
35917432 GTGTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACATC
66 GTGTGTCATGCATGTATTTTGATGATTAATGGAGGAATATAGAAGTTTGGTGTTAAATGAACATC
35917497 TTTTTCTATGT
131 TTTTTCTATGT
35917508 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
35917573 GTGTGTCATGCATGTATTTTGATGATTAATGGAGGAATATAGAAGTTTGGTGTTAAATGAACATC
66 GTGTGTCATGCATGTATTTTGATGATTAATGGAGGAATATAGAAGTTTGGTGTTAAATGAACATC
35917638 TTTTTCTA
131 TTTTTCTA
35917646 AGTGATTTTT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (141 bp):
AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
GTGTGTCATGCATGTATTTTGATGATTAATGGAGGAATATAGAAGTTTGGTGTTAAATGAACATC
TTTTTCTATGT
Found at i:35918444 original size:48 final size:48
Alignment explanation
Indices: 35918193--35918469 Score: 246
Period size: 48 Copynumber: 5.8 Consensus size: 48
35918183 GGGTCGATGA
* * * ** *
35918193 GATCCCGTATAAGACCATATCTGGGATATGGCATCAGCATCGATATAT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
35918241 GATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATC-ATTATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGA-TATGT
*
35918289 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * * * *
35918337 G-TACATCGTGTAAGACCA-GAGCTGGG-CTATCGG-GTTTG-AT--ATGTGT
1 GAT-C-CCATATAAGACCATG-TCTGGGAC-AT-GGCATTGGCATCGATATGT
*
35918383 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
** * * *
35918431 GGCCCCATATAAGACCATATCTGGGATATGGCATCGGCA
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
35918470 CCCTATTATG
Statistics
Matches: 184, Mismatches: 31, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
44 2 0.01
45 21 0.11
46 10 0.05
47 3 0.02
48 125 0.68
49 21 0.11
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:35920673 original size:28 final size:26
Alignment explanation
Indices: 35920611--35920680 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
35920601 ATTGTAGTTA
35920611 AATGTAAATATTACATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
35920637 AATGTAAATATTATATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
35920663 AATGTAAAAATATACATA
1 AATGTAAATAT-TACATA
35920681 AGCTATAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 35 0.88
27 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (26 bp):
AATGTAAATATTACATATTTTTTTGT
Found at i:35922944 original size:29 final size:29
Alignment explanation
Indices: 35922902--35922968 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
35922892 CCACACGGGC
35922902 GTGTGTGACCACACGGCCTACCCATACAG
1 GTGTGTGACCACACGGCCTACCCATACAG
35922931 GTGTGTGACCACACGGCCTACCCATACAG
1 GTGTGTGACCACACGGCCTACCCATACAG
*
35922960 GCGTGTGAC
1 GTGTGTGAC
35922969 TCTCCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (29 bp):
GTGTGTGACCACACGGCCTACCCATACAG
Found at i:35923615 original size:24 final size:24
Alignment explanation
Indices: 35923588--35923638 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35923578 CCCATGACCG
35923588 AAACATCAAAGAAAGAAAAGAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
*
35923612 AAACATCAAAGAAAGAAAATAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
35923636 AAA
1 AAA
35923639 GCTTTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.10
Consensus pattern (24 bp):
AAACATCAAAGAAAGAAAAGAAAT
Done.