Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 209 of 325
Found at i:64805733 original size:14 final size:14
Alignment explanation
Indices: 64805714--64805743 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
64805704 GATTTATGGA
64805714 TTAATGAATAGAAT
1 TTAATGAATAGAAT
64805728 TTAATGAATAGAAT
1 TTAATGAATAGAAT
64805742 TT
1 TT
64805744 TCAGGCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (14 bp):
TTAATGAATAGAAT
Found at i:64809001 original size:42 final size:42
Alignment explanation
Indices: 64808954--64809060 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
64808944 TATTGGTCTC
64808954 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
64808996 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
64809038 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
64809061 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:64809125 original size:27 final size:28
Alignment explanation
Indices: 64809068--64809137 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
64809058 AAAATTGTAC
**
64809068 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
64809096 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
64809123 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64809138 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:64810916 original size:41 final size:40
Alignment explanation
Indices: 64810776--64810931 Score: 222
Period size: 40 Copynumber: 3.9 Consensus size: 40
64810766 GATATAACTG
* * * *
64810776 CTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
* *
64810816 CTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
*
64810856 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
* *
64810896 CTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
64810932 CATTCGAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 72 0.69
41 32 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
Found at i:64820568 original size:46 final size:46
Alignment explanation
Indices: 64820518--64820693 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
64820508 TGGTTGAGCA
64820518 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
64820564 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
64820611 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
64820657 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64820694 GCGAGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64820674 original size:93 final size:93
Alignment explanation
Indices: 64820515--64820685 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
64820505 GGATGGTTGA
* *
64820515 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
64820580 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
64820608 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
64820673 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64820686 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:64822086 original size:41 final size:41
Alignment explanation
Indices: 64822014--64822192 Score: 209
Period size: 41 Copynumber: 4.3 Consensus size: 41
64822004 AATATCTTGG
* * *
64822014 ACACTAAGTGCCAAAGCATAGCTGAAACTATTATAATCTCGC
1 ACACTAAGTG-CAAAACATAGCCGAAGCTATTATAATCTCGC
*
64822056 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCAC
1 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCGC
* *
64822097 ACACTAAGTGCATAATATAGCCGAAGCTATTATAA-CGTCGC
1 ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATC-TCGC
** * ** *
64822138 ACACTAAGTGCATTACATAGCCGGAGCTATCT-CGATCTTGC
1 ACACTAAGTGCAAAACATAGCCGAAGCTAT-TATAATCTCGC
64822179 ACACTAAGTGCAAA
1 ACACTAAGTGCAAA
64822193 CTTAATCGAT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 106 0.89
42 12 0.10
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (41 bp):
ACACTAAGTGCAAAACATAGCCGAAGCTATTATAATCTCGC
Found at i:64822663 original size:29 final size:29
Alignment explanation
Indices: 64822599--64822664 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
64822589 CTTTCATTTA
* *
64822599 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
64822628 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
64822656 TTTACTCAA
1 TTT-CTCAA
64822665 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:64825527 original size:43 final size:42
Alignment explanation
Indices: 64825480--64825632 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
64825470 GGCATTTCGT
** *
64825480 CTGCTAGGCTTGAAGCCCAATATCATTTCACCAGCATTATAGC
1 CTGCTAGGCCAGAAGCCCGATAT-ATTTCACCAGCATTATAGC
* * *
64825523 CTGCTAGGCCAAAAGCCCGATATTATCTCACCGGCATTATAGC
1 CTGCTAGGCCAGAAGCCCGATA-TATTTCACCAGCATTATAGC
* *
64825566 CTGCTAGGCCCGAAGCCCGATAATATTATTCACCAGC-TTAAAGC
1 CTGCTAGGCCAGAAGCCCGAT-ATA-T-TTCACCAGCATTATAGC
* *
64825610 TTGCTAGGCC-GAGGCCCGA-ATAT
1 CTGCTAGGCCAGAAGCCCGATATAT
64825633 CACATTTCGA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
43 64 0.69
44 18 0.19
45 7 0.08
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (42 bp):
CTGCTAGGCCAGAAGCCCGATATATTTCACCAGCATTATAGC
Found at i:64827543 original size:14 final size:15
Alignment explanation
Indices: 64827514--64827543 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64827504 CAAAATTTAG
64827514 ACATGATACTTTCAC
1 ACATGATACTTTCAC
64827529 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
64827543 A
1 A
64827544 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:64831654 original size:42 final size:42
Alignment explanation
Indices: 64831593--64831753 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
64831583 TACTGTACCA
* * * *
64831593 ATGCCATATCCCATATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAATCTCATATCG
* * *
64831635 ATGCCA-ATAGCCAACTATGGCCTTACACGAAATCTCATATCG
1 ATGCCATAT-CCCAAATATGGTCTTACACGAAATCTCATATCG
* * * *
64831677 ATGTCATATCCCAAATATGGTCTTATAC-AATGTCTCATACCG
1 ATGCCATATCCCAAATATGGTCTTACACGAA-ATCTCATATCG
* * *
64831719 ATGCCATATCCCAGATATGATCTTACACGTAATCT
1 ATGCCATATCCCAAATATGGTCTTACACGAAATCT
64831754 TAACTAACCC
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.04
42 88 0.93
43 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAATCTCATATCG
Found at i:64834278 original size:17 final size:18
Alignment explanation
Indices: 64834258--64834297 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
64834248 TTTTCTTGTG
64834258 TTTATTTTTCTTATTT-A
1 TTTATTTTTCTTATTTAA
*
64834275 TTTATTTTTGTTATTTAA
1 TTTATTTTTCTTATTTAA
64834293 TTTAT
1 TTTAT
64834298 ATCATCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTTTCTTATTTAA
Found at i:64838887 original size:27 final size:27
Alignment explanation
Indices: 64838834--64839008 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 27
64838824 TTTGTAGAAC
* *
64838834 TACCATTTTA-CCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTACAAAAT
* * *
64838860 TACCGTTTCACCCTCGACTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
** * *
64838887 TACTGTTTTACCCTCGATTTATAGAAT
1 TACCATTTTACCCTCGATTTACAAAAT
* *
64838914 TACCATTTTACCCTCAATTTACAGAAT
1 TACCATTTTACCCTCGATTTACAAAAT
* *
64838941 TACTA-TTTACCCTTGATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
* *
64838967 TGCCATTTTACCCTC-AGTTTAAAAAAT
1 TACCATTTTACCCTCGA-TTTACAAAAT
*
64838994 TACCGTTTTACCCTC
1 TACCATTTTACCCTC
64839009 AATTGTGAAA
Statistics
Matches: 122, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 30 0.25
27 92 0.75
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCATTTTACCCTCGATTTACAAAAT
Found at i:64838915 original size:54 final size:53
Alignment explanation
Indices: 64838839--64839008 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 53
64838829 AGAACTACCA
* * *
64838839 TTTTA-CCTCGATTTATAGAATTACCGTTTCACCCTCGACTTACAAAATTACTG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-ATTTACAAAATTACTG
*
64838892 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACT-
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-ATTTACAAAATTACTG
* * * * * * *
64838945 ATTTACCCTTGATTTACAAAATTGCCATTTTACCCTCAGTTTAAAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCA-TTTACAAAATTACTG
64838999 TTTTACCCTC
1 TTTTACCCTC
64839009 AATTGTGAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 48 0.48
54 50 0.51
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (53 bp):
TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCATTTACAAAATTACTG
Found at i:64838953 original size:80 final size:81
Alignment explanation
Indices: 64838817--64839012 Score: 236
Period size: 80 Copynumber: 2.4 Consensus size: 81
64838807 TACTGAAATG
* * * * *
64838817 CCCTCGATTTGTAGAACTACCATTTTA-CCTCGATTTATAGAATTACCGTTTCACCCTCGACTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTCACCCTCGACTTA
**
64838881 CAAAATTACTGTTTTA
66 CAAAATTACCATTTTA
* * *
64838897 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTT-ACCCTTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTCACCCTCGACTTA
*
64838961 CAAAATTGCCATTTTA
66 CAAAATTACCATTTTA
* * *
64838977 CCCTC-AGTTTAAAAAATTACCGTTTTACCCTCAATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCAATT
64839013 GTGAAATTAC
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 79 0.79
81 20 0.20
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTCACCCTCGACTTA
CAAAATTACCATTTTA
Found at i:64839032 original size:80 final size:80
Alignment explanation
Indices: 64838834--64839033 Score: 183
Period size: 80 Copynumber: 2.5 Consensus size: 80
64838824 TTTGTAGAAC
* * **** **
64838834 TACCATTTTA-CCTCGATTTATAGAATTACCGTTTCACCCTCGACTTACAAAATTACTGTTTTAC
1 TACCATTTTACCCTCAATTTACAGAATTACTAAAT-ACCCTCGACTTACAAAATTACCATTTTAC
* *
64838898 CCTCGATTTATAGAAT
65 CCTCGATTTAAAAAAT
** * * *
64838914 TACCATTTTACCCTCAATTTACAGAATTACTATTTACCCTTGATTTACAAAATTGCCATTTTACC
1 TACCATTTTACCCTCAATTTACAGAATTACTAAATACCCTCGACTTACAAAATTACCATTTTACC
64838979 CTC-AGTTTAAAAAAT
66 CTCGA-TTTAAAAAAT
* *
64838994 TACCGTTTTACCCTCAATTGT-GA-AATTACTGAAATACCCT
1 TACCATTTTACCCTCAATT-TACAGAATTACT-AAATACCCT
64839034 ATAGGATAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
79 8 0.08
80 72 0.71
81 21 0.21
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.38
Consensus pattern (80 bp):
TACCATTTTACCCTCAATTTACAGAATTACTAAATACCCTCGACTTACAAAATTACCATTTTACC
CTCGATTTAAAAAAT
Found at i:64839073 original size:27 final size:27
Alignment explanation
Indices: 64839043--64839220 Score: 234
Period size: 27 Copynumber: 6.6 Consensus size: 27
64839033 TATAGGATAG
64839043 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
64839070 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
64839097 AATTAGCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
64839124 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
64839151 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
64839178 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
64839205 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
64839221 TTGACTTTCT
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.04
27 124 0.93
28 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:64839271 original size:27 final size:27
Alignment explanation
Indices: 64839198--64839283 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
64839188 ATACCCCTAA
* * *
64839198 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
64839226 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
64839254 TTTACAAAATTACTGAAATACCGTTGG
1 TTTACAAAATTACTGAAATACCATTGG
64839281 TTT
1 TTT
64839284 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:64840231 original size:26 final size:25
Alignment explanation
Indices: 64840202--64840316 Score: 118
Period size: 25 Copynumber: 4.8 Consensus size: 25
64840192 GAGGAAGTGC
**
64840202 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
64840228 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
**
64840254 AAAA-GG----G--CCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
64840272 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
64840297 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
64840317 ATTAAAGAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
18 13 0.17
19 2 0.03
20 1 0.01
23 1 0.01
25 30 0.40
26 28 0.37
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:64840266 original size:18 final size:18
Alignment explanation
Indices: 64840243--64840278 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64840233 GGCTTATGCC
64840243 CCAGTTTACCGAAAAGGG
1 CCAGTTTACCGAAAAGGG
**
64840261 CCAGTTTATTGAAAAGGG
1 CCAGTTTACCGAAAAGGG
64840279 TTTTGCCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (18 bp):
CCAGTTTACCGAAAAGGG
Found at i:64840299 original size:43 final size:44
Alignment explanation
Indices: 64840217--64840304 Score: 160
Period size: 43 Copynumber: 2.0 Consensus size: 44
64840207 GGCTTATGCC
64840217 CCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGG
1 CCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGG
*
64840261 CCAGTTTATTGAAAAGGG-TTTTGCCCCAGTTTACCGAAAAGGG
1 CCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGG
64840304 C
1 C
64840305 TTTGCCCCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 25 0.58
44 18 0.42
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
CCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGG
Found at i:64840508 original size:42 final size:42
Alignment explanation
Indices: 64840461--64840552 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
64840451 TAGTCTCCCC
* ** *
64840461 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
64840503 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
64840545 AAATGGGC
1 AAATGGGC
64840553 CTAAGGGCCA
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:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATACATTGACATTACATGTGATATTG
Found at i:64840653 original size:31 final size:31
Alignment explanation
Indices: 64840576--64840654 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
64840566 CGTTTACAGT
*
64840576 AAAA-GCTTCGGCCCAATGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
64840606 AAAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
64840637 AAAAGGCTTCGGCCCAGT
1 AAAAGGCTTCGGCCCAGT
64840655 AACCATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:64841563 original size:28 final size:27
Alignment explanation
Indices: 64841502--64841590 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 27
64841492 AAAGCATGAC
*
64841502 TATAAATGTGAATTGGGTCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCT-ATGGGCCA
64841531 TATAAATGTGATTTGGGCCTATGGGCCA
1 TATAAATGTGA-TTGGGCCTATGGGCCA
64841559 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTA-TGGGCCA
64841587 TATA
1 TATA
64841591 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
27 9 0.16
28 31 0.54
29 17 0.30
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (27 bp):
TATAAATGTGATTGGGCCTATGGGCCA
Found at i:64843949 original size:40 final size:40
Alignment explanation
Indices: 64843890--64844071 Score: 125
Period size: 40 Copynumber: 4.5 Consensus size: 40
64843880 AAATTGAATG
* * *
64843890 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
64843930 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
64843970 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
* * * * ** *
64844010 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
64844050 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
64844072 GCATTTGTGC
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 3 0.02
40 123 0.98
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:64844072 original size:40 final size:40
Alignment explanation
Indices: 64843931--64844081 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
64843921 CTGGAAATTA
* * *** *
64843931 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
64843971 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
64844011 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
*
64844051 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGC
64844082 ACATGCTTAT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.97
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
Found at i:64848075 original size:39 final size:40
Alignment explanation
Indices: 64847994--64848200 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
64847984 CATTGGAATG
* * *
64847994 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
64848034 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * **
64848073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
64848113 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
64848153 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
64848193 ATATCCGG
1 ATATCCGG
64848201 TTAAATTCGA
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
38 3 0.02
39 32 0.23
40 102 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:64848127 original size:79 final size:80
Alignment explanation
Indices: 64847994--64848181 Score: 227
Period size: 79 Copynumber: 2.4 Consensus size: 80
64847984 CATTGGAATG
* * ** *
64847994 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGA-CCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
***
64848057 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTCACT
* * *
64848073 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
64848138 ATTGTGCGAGTCACT
66 ATTGTGCGAGTCACT
* **
64848153 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
64848182 AGCGAGTCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
79 47 0.51
80 42 0.46
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTCACT
Found at i:64856058 original size:40 final size:40
Alignment explanation
Indices: 64855999--64856206 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
64855989 CATTGGAATG
* * *
64855999 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
64856039 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
64856079 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
64856119 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
64856159 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
64856199 ATATCCGG
1 ATATCCGG
64856207 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:64859159 original size:31 final size:31
Alignment explanation
Indices: 64859121--64859184 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
64859111 CCTTTTCATA
64859121 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
64859152 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
64859183 TT
1 TT
64859185 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:64859442 original size:23 final size:24
Alignment explanation
Indices: 64859378--64859494 Score: 143
Period size: 23 Copynumber: 5.0 Consensus size: 24
64859368 GCTTTATCAT
*
64859378 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
64859403 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64859427 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
64859449 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
64859472 ATAATTGGGGCATAAGCCATTTT
1 ATAACTGGGGCATAAGCCCTTTT
64859495 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
22 10 0.12
23 44 0.53
24 18 0.22
25 11 0.13
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:64859569 original size:20 final size:20
Alignment explanation
Indices: 64859544--64859610 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
64859534 TTATGATTAC
*
64859544 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
64859564 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64859584 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64859604 ACCATGT
1 ATCATGT
64859611 CTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64859679 original size:25 final size:25
Alignment explanation
Indices: 64859647--64859694 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
64859637 ATACATAAAC
* *
64859647 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
64859672 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
64859695 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:64864009 original size:25 final size:25
Alignment explanation
Indices: 64863980--64864027 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
64863970 TTATAACATG
* *
64863980 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
64864005 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
64864028 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:64864111 original size:11 final size:11
Alignment explanation
Indices: 64864075--64864130 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64864065 CATGGTATGT
64864075 ATGATATGCAC
1 ATGATATGCAC
* *
64864086 ATGACATG--T
1 ATGATATGCAC
64864095 ATGATATGCAC
1 ATGATATGCAC
64864106 ATGATATG--C
1 ATGATATGCAC
*
64864115 ATGATATACAC
1 ATGATATGCAC
64864126 ATGAT
1 ATGAT
64864131 GTAATCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64864130 original size:20 final size:20
Alignment explanation
Indices: 64864064--64864130 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
64864054 ATTTCGATAG
*
64864064 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
64864084 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
64864104 ACATGATATGCATGATATAC
1 ACATGATATGTATGATATGC
64864124 ACATGAT
1 ACATGAT
64864131 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64864266 original size:24 final size:24
Alignment explanation
Indices: 64864175--64864291 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
64864165 GAATGGAGGA
64864175 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64864199 -AAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
64864222 AAAA-GGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
64864244 AAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64864268 AAAAGAGGC-TAAGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64864292 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
22 13 0.16
23 36 0.44
24 21 0.26
25 11 0.14
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:64864520 original size:31 final size:31
Alignment explanation
Indices: 64864484--64864547 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
64864474 CGTTTACAGT
* *
64864484 AAAGGCTTCGGCCTAGTAATCTGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
64864515 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
64864546 AA
1 AA
64864548 TATAAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:64866232 original size:17 final size:18
Alignment explanation
Indices: 64866210--64866243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64866200 CATATTGAAG
64866210 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
64866227 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
64866244 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:64867420 original size:29 final size:29
Alignment explanation
Indices: 64867359--64867442 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
64867349 TACATGCATT
*
64867359 TGGCCCATTAGGCCC-AATCTTATTCACA
1 TGGCCCATTAGGCCCAAATCATATTCACA
* * **
64867387 CGGCCCATTAGGCCCAAATCACATTCGTA
1 TGGCCCATTAGGCCCAAATCATATTCACA
64867416 TGGCCCATTAGGCCCAAATCATATTCA
1 TGGCCCATTAGGCCCAAATCATATTCA
64867443 TATACATGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 14 0.30
29 33 0.70
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTCACA
Found at i:64867682 original size:16 final size:16
Alignment explanation
Indices: 64867661--64867697 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
64867651 CAAACTTTCA
64867661 GCTTTTCAGCATTTTG
1 GCTTTTCAGCATTTTG
*
64867677 GCTTTTCGGCATTTTG
1 GCTTTTCAGCATTTTG
64867693 G-TTTT
1 GCTTTT
64867698 GCCTATCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.08, C:0.16, G:0.22, T:0.54
Consensus pattern (16 bp):
GCTTTTCAGCATTTTG
Found at i:64871929 original size:29 final size:29
Alignment explanation
Indices: 64871866--64871950 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 29
64871856 ATACATGTAT
* * *
64871866 ATGGCCCACTAGGCCC-AATCTCATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAG
* * *
64871894 ATAGCCCATTTGGCCCAAATCACATTCGG
1 ATGGCCCATTAGGCCCAAATCACATTCAG
64871923 ATGGCCCATTAGGCCCAAATCACATTCA
1 ATGGCCCATTAGGCCCAAATCACATTCA
64871951 TATACATGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 13 0.28
29 34 0.72
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAG
Found at i:64873612 original size:42 final size:43
Alignment explanation
Indices: 64873565--64873646 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
64873555 TAAGACTATG
** *
64873565 TCTGGGACATCGGCATCG-TATCCGAATT-CGTGTAAGACCCTA
1 TCTGGGACAGAGGCATCGATAT-CGAATTACATGTAAGACCCTA
*
64873607 TCTGGGACAGAGGCATCGATATTGAATTACATGTAAGACC
1 TCTGGGACAGAGGCATCGATATCGAATTACATGTAAGACC
64873647 ACGTCTGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
TCTGGGACAGAGGCATCGATATCGAATTACATGTAAGACCCTA
Found at i:64880923 original size:42 final size:43
Alignment explanation
Indices: 64880876--64880978 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
64880866 GATTTACGTA
** * *
64880876 TAAGACCATGTCTGGGACATTGGCATCG-TGTCT-AATTTCAAG
1 TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACAAG
* * *
64880918 TAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACAAG
*
64880961 TAAGACCACGTCTGGGAC
1 TAAGACCATGTCTGGGAC
64880979 GTCAGTATTG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 25 0.51
43 24 0.49
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACAAG
Found at i:64885512 original size:21 final size:21
Alignment explanation
Indices: 64885486--64885526 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
64885476 TGCATATTCT
64885486 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
64885507 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
64885527 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:64895627 original size:15 final size:15
Alignment explanation
Indices: 64895604--64895635 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64895594 TCAAAAATTC
64895604 CAATACAAAACATAT
1 CAATACAAAACATAT
*
64895619 CAATCCAAAACATAT
1 CAATACAAAACATAT
64895634 CA
1 CA
64895636 TTCATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:64900560 original size:16 final size:16
Alignment explanation
Indices: 64900541--64900572 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64900531 AATTGTTTTA
64900541 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
64900557 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
64900573 ACTCTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:64900893 original size:50 final size:50
Alignment explanation
Indices: 64900771--64901315 Score: 471
Period size: 50 Copynumber: 10.9 Consensus size: 50
64900761 ACCAAAGTTC
* * * * *
64900771 TCTGGTACGCATAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTA-ACAA
* * * * *
64900820 TCTGGTACACGTAGTAGCTTGCACTTGGTACTACACACATGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * * *
64900870 TCTGATACACGTAGTAGCCTGCACTTAGTACTACA-ACGTGA-TCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAA
* * * * * *
64900921 T-GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* *
64900970 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * * * *
64901020 TCTGATACACATAGTAGCCGGCACTTAGTACTACACATGTGA-TCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAA
* * * *
64901072 -C-GGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
** * *
64901121 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* * * * * *
64901171 TCTGATACACATAGTAGCCTACACTTTGTAGTACACACGTGA-TCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAA
* * * * * * *
64901223 -CGGGTACGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
* *
64901272 TCTGGTATACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACT
64901316 CACAACGAAT
Statistics
Matches: 392, Mismatches: 84, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.00
49 47 0.12
50 263 0.67
51 79 0.20
52 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAA
Found at i:64901104 original size:101 final size:101
Alignment explanation
Indices: 64900771--64901315 Score: 465
Period size: 101 Copynumber: 5.4 Consensus size: 101
64900761 ACCAAAGTTC
* * * * * *
64900771 TCTGG-TACGCATAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATA-AATCTGGTACACGTA
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTA-ACAATCTGGTACACATA
* * *** * *
64900833 GTAGCTTGCACTTGGTACTACACACATGACTTAA-CCA
65 GTAGCCTGCACTTAGTACTACACATGCGAC-CAATCAA
* * * * *
64900870 TCT-GATACACGTAGTAGCCTGCACTTAGTACTACA-ACGTGA-TCGAAGTTAAT-GGGTACGCA
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGGTACACA
*
64900931 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
63 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATCAA
* * *
64900970 TCTGG-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAG
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGGTACACATAG
* * * *
64901034 TAGCCGGCACTTAGTACTACACATGTGATCGAAGTTAA
66 TAGCCTGCACTTAGTACTACACATGCGA-CCAA-TCAA
* * * * **
64901072 -C-GGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAG
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGGTACACATAG
* * *
64901135 TAGCCTGCACTTAGTACTACACATGTGACTTAA-CCA
66 TAGCCTGCACTTAGTACTACACATGCGAC-CAATCAA
* * * * * * *
64901171 TCT-GATACACATAGTAGCCTACACTTTGTAGTACACACGTGA-TCGAAGTTAA-CGGGTACGCA
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGGTACACA
* *
64901233 TAGTAGCCTGCACTTAGTACTGCACATGCGACCTATCAA
63 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATCAA
* *
64901272 TCTGG-TATACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACT
64901316 CACAACGAAT
Statistics
Matches: 358, Mismatches: 65, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
98 2 0.01
99 37 0.10
100 144 0.40
101 167 0.47
102 8 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TCTGGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGGTACACATAG
TAGCCTGCACTTAGTACTACACATGCGACCAATCAA
Found at i:64901137 original size:151 final size:151
Alignment explanation
Indices: 64900774--64901315 Score: 908
Period size: 151 Copynumber: 3.6 Consensus size: 151
64900764 AAAGTTCTCT
* *
64900774 GGTACGCATAGTAGCTTGCACTTAGTACTA-ACATGCGACCTATAAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
64900838 TTGCACTTGGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
*
64900903 CA-ACGTGATCGAAGTTAATG
131 CACACGTGATCGAAGTTAACG
64900923 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
64900988 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCGGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
*
64901053 CACATGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* * *
64901074 GATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
64901139 CTGCACTTAGTACTACACATGTGACTTAACCATCTGATACACATAGTAGCCTACACTTTGTAGTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
64901204 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
* *
64901225 GGTACGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCTATCAATCTGGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
64901290 CTGCACTTAGTACTACACACGTGACT
66 CTGCACTTAGTACTACACACGTGACT
64901316 CACAACGAAT
Statistics
Matches: 367, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
149 29 0.08
150 95 0.26
151 243 0.66
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:64904654 original size:43 final size:43
Alignment explanation
Indices: 64904599--64904770 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
64904589 ACATATGATC
* * *
64904599 CGATATGTGTTTTTGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATCTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
* * * * *
64904642 CGACT-TCTGTTTTACGTGCAAGACCATGTCTAGGACATCGGCAT
1 CGA-TATCTGATTT-CGTGTAAGACCACGTCTGGGACATTGGCAT
*
64904686 C-ATATCTGATTTCGTGTAAGACC-C-TACTTGGGACAGTGGCAT
1 CGATATCTGATTTCGTGTAAGACCACGT-C-TGGGACATTGGCAT
* * * * * *
64904728 CGATGTTTGATTGCATGTAAGACTACGTCTGGGACGTTGGCAT
1 CGATATCTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
64904771 TGTATATGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 23 0.23
43 47 0.46
44 29 0.28
45 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
CGATATCTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:64907263 original size:46 final size:46
Alignment explanation
Indices: 64907205--64907297 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
64907195 AATCTTAAGT
* *
64907205 TCTTACAATCATTTTTTCTTATTAAACATGAATATTTATTTACAAA
1 TCTTACAATCATTCTTTCTTATTAAACATGAATATTTATGTACAAA
*
64907251 TCTTACAGTCATTCTTTCTTATTAAACATGAATATTTATGTACAAA
1 TCTTACAATCATTCTTTCTTATTAAACATGAATATTTATGTACAAA
64907297 T
1 T
64907298 GGGAACTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.46
Consensus pattern (46 bp):
TCTTACAATCATTCTTTCTTATTAAACATGAATATTTATGTACAAA
Found at i:64908838 original size:12 final size:12
Alignment explanation
Indices: 64908801--64908839 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
64908791 GTGTTCTGTT
64908801 GAGGGATTTGAG
1 GAGGGATTTGAG
64908813 GAGAGGA-TTGAG
1 GAG-GGATTTGAG
*
64908825 GAGGGATTTTAG
1 GAGGGATTTGAG
64908837 GAG
1 GAG
64908840 AAAATCAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.49, T:0.23
Consensus pattern (12 bp):
GAGGGATTTGAG
Found at i:64910494 original size:27 final size:27
Alignment explanation
Indices: 64910464--64910738 Score: 347
Period size: 27 Copynumber: 10.2 Consensus size: 27
64910454 AAAGTACTCC
64910464 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
64910491 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
64910518 CAATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
64910545 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
64910572 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
64910599 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
64910626 CGATTTGTAAAATTACTGTTTGACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
64910653 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
64910680 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
64910707 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
64910734 TGATT
1 CGATT
64910739 GTGAAATTAC
Statistics
Matches: 211, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 207 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:64910555 original size:81 final size:81
Alignment explanation
Indices: 64910464--64910738 Score: 383
Period size: 81 Copynumber: 3.4 Consensus size: 81
64910454 AAAGTACTCC
* * **
64910464 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTTTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAA
64910529 ATTA-CTGTTTTACCCT
66 ATTATC-GTTTTACCCT
* *
64910545 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATTTACAG
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCTCAATTTACAA
64910609 AATTATCGTTTTACCCT
65 AATTATCGTTTTACCCT
** * * * * * *
64910626 CGATTTGTAAAATTACTGTTTGACCCTTGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAA
64910691 ATTATCGTTTTACCCT
66 ATTATCGTTTTACCCT
*
64910707 CGATTTACAGAATTACCGTTTTACCCTTGATT
1 CGATTTACAGAATTACCGTTTTACCCTCGATT
64910739 GTGAAATTAC
Statistics
Matches: 170, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 167 0.98
82 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAAA
ATTATCGTTTTACCCT
Found at i:64910773 original size:27 final size:27
Alignment explanation
Indices: 64910743--64910938 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
64910733 TTGATTGTGA
*
64910743 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64910770 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
64910797 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64910824 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64910851 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64910878 AAATACCGAAATACCCGTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
64910905 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
64910932 AATTACC
1 AATTACC
64910939 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:64911175 original size:27 final size:26
Alignment explanation
Indices: 64911137--64911219 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
64911127 CGGAGGAAGC
*
64911137 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
64911164 GTTCTGGTGGCTCTACCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
64911190 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
64911217 GTT
1 GTT
64911220 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:64911339 original size:22 final size:22
Alignment explanation
Indices: 64911307--64911365 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
64911297 CCCGTTATTA
*
64911307 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
64911329 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
64911351 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
64911366 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:64911552 original size:27 final size:27
Alignment explanation
Indices: 64911522--64911603 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
64911512 TATTCTGTTA
* *
64911522 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
64911549 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
64911576 GGTGACTCTGTCACGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
64911602 GG
1 GG
64911604 CAGCCATGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 43 0.88
28 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:64911761 original size:6 final size:6
Alignment explanation
Indices: 64911750--64911907 Score: 139
Period size: 6 Copynumber: 26.2 Consensus size: 6
64911740 CACCTAATTT
* *
64911750 TGATTC TGATTC TGATTC TG-TTAC TAATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC
* * * *
64911798 TG-TTAC TGATTC TGATTC TTATTC TG-TCACC TAATTC TGATTT TGATTC
1 TGATT-C TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
*
64911847 TGATTC TG-TTAC TAATAT- TGATTC TGATTC TGATTC T-ATTAC TGATTC
1 TGATTC TGATT-C TGAT-TC TGATTC TGATTC TGATTC TGATT-C TGATTC
*
64911895 TGATTT TGATTC T
1 TGATTC TGATTC T
64911908 CATTTTGGTT
Statistics
Matches: 123, Mismatches: 16, Indels: 26
0.75 0.10 0.16
Matches are distributed among these distances:
5 11 0.09
6 101 0.82
7 9 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (6 bp):
TGATTC
Found at i:64911784 original size:30 final size:30
Alignment explanation
Indices: 64911725--64911907 Score: 198
Period size: 30 Copynumber: 6.2 Consensus size: 30
64911715 ATTCACATTT
* **
64911725 TGATTCTGATTCTGTCACCTAATTTTGATTC
1 TGATTCTGATTCTGTTA-CTAATACTGATTC
64911756 TGATTCTGATTCTGTTACTAATACTGATTC
1 TGATTCTGATTCTGTTACTAATACTGATTC
64911786 TGATTCTGATTCTG----T--TACTGATTC
1 TGATTCTGATTCTGTTACTAATACTGATTC
* * * *
64911810 TGATTCTTATTCTGTCACCTAATTCTGATTT
1 TGATTCTGATTCTGTTA-CTAATACTGATTC
*
64911841 TGATTCTGATTCTGTTACTAATATTGATTC
1 TGATTCTGATTCTGTTACTAATACTGATTC
* * * *
64911871 TGATTCTGATTCTATTACTGATTCTGATTT
1 TGATTCTGATTCTGTTACTAATACTGATTC
64911901 TGATTCT
1 TGATTCT
64911908 CATTTTGGTT
Statistics
Matches: 129, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
24 22 0.17
26 1 0.01
29 1 0.01
30 67 0.52
31 38 0.29
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTAATACTGATTC
Found at i:64911862 original size:85 final size:85
Alignment explanation
Indices: 64911725--64911907 Score: 305
Period size: 85 Copynumber: 2.2 Consensus size: 85
64911715 ATTCACATTT
* *
64911725 TGATTCTGATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
1 TGATTCTTATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
*
64911790 TCTGATTCTGTTACTGATTC
66 TCTGATTCTATTACTGATTC
* *
64911810 TGATTCTTATTCTGTCACCTAATTCTGATTTTGATTCTGATTCTGTTACTAATATTGATTCTGAT
1 TGATTCTTATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
64911875 TCTGATTCTATTACTGATTC
66 TCTGATTCTATTACTGATTC
64911895 TGATT-TTGATTCT
1 TGATTCTT-ATTCT
64911908 CATTTTGGTT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 2 0.02
85 90 0.98
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (85 bp):
TGATTCTTATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGAT
TCTGATTCTATTACTGATTC
Found at i:64912611 original size:21 final size:22
Alignment explanation
Indices: 64912585--64912625 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
64912575 ATCTTAACAC
64912585 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
64912606 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
64912626 ACATTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:64915752 original size:40 final size:39
Alignment explanation
Indices: 64915587--64915770 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64915577 AAATTGAATG
* * *
64915587 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64915627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64915667 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64915707 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64915746 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64915771 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64915795 original size:80 final size:81
Alignment explanation
Indices: 64915627--64915815 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64915617 GCTGGAAATT
* * * *
64915627 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64915692 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64915708 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64915771 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64915787 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64915816 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64923868 original size:40 final size:39
Alignment explanation
Indices: 64923703--64923886 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64923693 AAATTGAATG
* * *
64923703 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64923743 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64923783 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64923823 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64923862 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64923887 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64923911 original size:80 final size:81
Alignment explanation
Indices: 64923743--64923931 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64923733 GCTGGAAATT
* * * *
64923743 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64923808 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64923824 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64923887 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64923903 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64923932 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64926300 original size:46 final size:46
Alignment explanation
Indices: 64926149--64926320 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
64926139 TCACTTGTGT
* * * *
64926149 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATTAGCCTCGA-GACGA
* * * * * *
64926195 GAGCCAGTGTAAGACCATGTCT-GAGATACGACATCAGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTAG-GACATG-CATTAGCCTCGAGACGA
* *
64926243 GTGCTAATGTAAGACATGTCTAGGACATGCATTAGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATTAGCCTCGAGACG-A
*
64926290 -AGCTAGTGTAAGACATGTCTATGACATGCAT
1 GAGCTAGTGTAAGACATGTCTAGGACATGCAT
64926321 CGGCTACGAG
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
46 55 0.55
47 23 0.23
48 21 0.21
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATTAGCCTCGAGACGA
Found at i:64926331 original size:46 final size:43
Alignment explanation
Indices: 64926243--64926370 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 43
64926233 ATTGAGACGA
* *
64926243 GTGCTAATGTAAGACATGTCTAGGACATGCATTAGCCTCGAGAC
1 GTGCTAATGTAAGACATGTCTAGGACATGCA-TCGGCTCGAGAC
* * *
64926287 GTAAGCTAGTGTAAGACATGTCTATGACATGCATCGGCTACGAGAT
1 GT--GCTAATGTAAGACATGTCTAGGACATGCATCGGCT-CGAGAC
64926333 GTG-TCAATGTAAGACCATGTCTAGGACATGGCATCGGC
1 GTGCT-AATGTAAGA-CATGTCTAGGACAT-GCATCGGC
64926371 ACAAACATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 11 0.15
45 17 0.24
46 42 0.59
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (43 bp):
GTGCTAATGTAAGACATGTCTAGGACATGCATCGGCTCGAGAC
Found at i:64933775 original size:64 final size:64
Alignment explanation
Indices: 64933674--64933803 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
64933664 GCCCACATGG
*
64933674 CCTAGTTCGACCTAGTTCTGTTCTAGCCCATGAGACGCTCATGGCCATCTTGTCGACCATATGA
1 CCTAGTTCGACCCAGTTCTGTTCTAGCCCATGAGACGCTCATGGCCATCTTGTCGACCATATGA
64933738 CCTAGTTCGACCCAGTTCTGTTCTAGCCCATGAGACGCTCATGGCCATCTTGTCGACCATATGA
1 CCTAGTTCGACCCAGTTCTGTTCTAGCCCATGAGACGCTCATGGCCATCTTGTCGACCATATGA
64933802 CC
1 CC
64933804 ATGTTTCGTA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (64 bp):
CCTAGTTCGACCCAGTTCTGTTCTAGCCCATGAGACGCTCATGGCCATCTTGTCGACCATATGA
Found at i:64942021 original size:27 final size:27
Alignment explanation
Indices: 64941982--64942039 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
64941972 TATTACAATA
*
64941982 ATTTCCATTTCTTTTGAACTATCTTCC
1 ATTTCCATCTCTTTTGAACTATCTTCC
64942009 ATTTCCATCTCTTTTGAACTATCTTCC
1 ATTTCCATCTCTTTTGAACTATCTTCC
64942036 ATTT
1 ATTT
64942040 TTGTTCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTCCATCTCTTTTGAACTATCTTCC
Found at i:64946958 original size:40 final size:40
Alignment explanation
Indices: 64946903--64947112 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64946893 AACATTGGAA
64946903 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64946943 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64946983 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64947023 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64947062 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64947103 CTATATCCGG
1 ATATATCCGG
64947113 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64954321 original size:40 final size:40
Alignment explanation
Indices: 64954277--64954466 Score: 302
Period size: 40 Copynumber: 4.9 Consensus size: 40
64954267 GCCTATAGCT
*
64954277 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
64954317 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
64954357 ACTCGCAC-AATGCCTTCGGGACTTGGCCCGGTTATA-TA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
64954395 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
64954434 ACTCGCAC-AATGCCTTC-GG-CTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
64954467 CAATCCGAAT
Statistics
Matches: 141, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
37 13 0.09
38 37 0.26
39 45 0.32
40 46 0.33
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:64954386 original size:39 final size:39
Alignment explanation
Indices: 64954277--64954466 Score: 298
Period size: 39 Copynumber: 4.9 Consensus size: 39
64954267 GCCTATAGCT
*
64954277 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGTTATAGTA
64954317 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAA-TGCCTTCGGGACTTAGCCCGGTTATAGTA
*
64954357 ACTCGCACAATGCCTTCGGGACTTGGCCCGGTTATA-TA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
64954395 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGTTATAGTA
64954434 ACTCGCACAATGCCTTC-GG-CTTAGCCCGGTTAT
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTAT
64954467 CAATCCGAAT
Statistics
Matches: 142, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
37 13 0.09
38 37 0.26
39 46 0.32
40 46 0.32
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:64954440 original size:77 final size:79
Alignment explanation
Indices: 64954277--64954466 Score: 307
Period size: 77 Copynumber: 2.4 Consensus size: 79
64954267 GCCTATAGCT
* *
64954277 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTT
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
*
64954342 AGCCCGGTTATAGTA
65 AGCCCGGATATAGTA
*
64954357 ACTCGCACAATGCCTTCGGGACTTGGCCCGGTTATA-TAACTCGCACAAATGCCTTC-GGACTTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
64954420 GCCCGGATATAGTA
66 GCCCGGATATAGTA
64954434 ACTCGCACAATGCCTTC-GG-CTTAGCCCGGTTAT
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTAT
64954467 CAATCCGAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
75 13 0.12
76 2 0.02
77 37 0.35
78 19 0.18
79 27 0.26
80 7 0.07
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (79 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGTA
Found at i:64962430 original size:40 final size:40
Alignment explanation
Indices: 64962349--64962569 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
64962339 AAACCAAGTA
** * *
64962349 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
64962388 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64962428 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64962468 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
64962508 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
64962548 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
64962570 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:64972447 original size:46 final size:45
Alignment explanation
Indices: 64972300--64972567 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 45
64972290 TGGGGTCAGG
* * * *
64972300 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATCTG-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACAC-TG-GCT-TCATCTC-GA
* *
64972350 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTC-A
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGA
*
64972395 TAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGA
* * * * *
64972442 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGA
* * * *
64972488 TACCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGA
*
64972536 TGCCGATGCATGTCCTAGACATGTCTTACACT
1 TGCCGATGCATGTCCCAGACATGTCTTACACT
64972568 AGCTCACACA
Statistics
Matches: 185, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.06
45 15 0.08
46 73 0.39
47 27 0.15
48 23 0.12
49 2 0.01
50 33 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGA
Found at i:64972542 original size:94 final size:94
Alignment explanation
Indices: 64972301--64972575 Score: 321
Period size: 94 Copynumber: 2.9 Consensus size: 94
64972291 GGGGTCAGGT
** * *
64972301 GCCGATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCATATCTGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATGT-TGCCGATG-CATGTCC
64972366 CAGACATGGTCTTACACT-G-ACACATCTCATA
63 CAGACAT-GTCTTACACTAGCACACATCTCATA
* * **
64972397 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAT-GTTGCCGATGCATGTCCCA
* *
64972459 GACATGTCTTACACTAGCACTCGTCTCAATA
65 GACATGTCTTACACTAGCACACATCTC-ATA
* *
64972490 -CCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATGTTGCCGATGCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATGTTGCCGATGCATGTCCCA
*
64972553 GACATGTCTTACACTAGCTCACA
65 GACATGTCTTACACTAGCACACA
64972576 CAAGTGACCC
Statistics
Matches: 152, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
90 10 0.07
91 15 0.10
92 23 0.15
93 18 0.12
94 63 0.41
95 16 0.11
96 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATGTTGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACACATCTCATA
Found at i:64975148 original size:29 final size:29
Alignment explanation
Indices: 64975106--64975236 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
64975096 GTGACGAGAT
64975106 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
64975135 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
** * ***
64975164 TGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
64975193 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
64975222 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
64975237 GAAATCGAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.02
29 81 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:64978171 original size:48 final size:49
Alignment explanation
Indices: 64978046--64978327 Score: 263
Period size: 48 Copynumber: 5.8 Consensus size: 49
64978036 GTAAGATGCT
* * * *
64978046 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAT--ATCGGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAT--G-GCC
* * * *
64978096 GATGCCATGTTCCA-AAACTGATATTACACTAGCTCACATATC-ATGGCC
1 GATGCCATGTCCCAGACA-TGGTCTTACACTAGCTCACATATCAATGGCC
* *
64978144 GATGCCATGTCCCAGACATGGTCTTACACTAGTTCTCATATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
* * * *
64978192 GATGCCATGTTCCAAACATGATCTTACACTAGCTCACATATCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
* * * * *
64978240 GATGCCATGTCCCAGACATGTTCTTACACTAACTCTCACATCAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
** * * *
64978288 GATGCCATGTTGCAAACATGGTCTTATACTAGCTTACATA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
64978328 ACCCTAGTAT
Statistics
Matches: 189, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
48 149 0.79
49 7 0.04
50 31 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGGCC
Found at i:64978228 original size:96 final size:96
Alignment explanation
Indices: 64978046--64978327 Score: 379
Period size: 96 Copynumber: 2.9 Consensus size: 96
64978036 GTAAGATGCT
* * ** *
64978046 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATATCGGTGTCGATGCCATGTTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGCCGATGCCATGTTCCAA
*
64978111 A-ACTGATATTACACTAGCTCACATATC-ATGGCC
64 ACA-TGATCTTACACTAGCTCACATATCGA-GGCC
*
64978144 GATGCCATGTCCCAGACATGGTCTTACACTAGTTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
64978209 ATGATCTTACACTAGCTCACATATCGAGGCC
66 ATGATCTTACACTAGCTCACATATCGAGGCC
* * * * *
64978240 GATGCCATGTCCCAGACATGTTCTTACACTAACTCTCACATCAATGCTGATGCCATGTTGCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
* * *
64978305 ATGGTCTTATACTAGCTTACATA
66 ATGATCTTACACTAGCTCACATA
64978328 ACCCTAGTAT
Statistics
Matches: 166, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
96 130 0.78
97 2 0.01
98 34 0.20
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
ATGATCTTACACTAGCTCACATATCGAGGCC
Found at i:64984521 original size:17 final size:17
Alignment explanation
Indices: 64984483--64984521 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
64984473 GGCATGTATA
* *
64984483 GCTAGATTCATACACAT
1 GCTAGACTCATACACAC
*
64984500 ACTAGACTCATACACAC
1 GCTAGACTCATACACAC
64984517 GCTAG
1 GCTAG
64984522 GTTAGTTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (17 bp):
GCTAGACTCATACACAC
Found at i:64984821 original size:20 final size:21
Alignment explanation
Indices: 64984796--64984835 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64984786 TAATGCAAAC
* *
64984796 AAGGGC-ACACGCTTGTGTGG
1 AAGGGCGAAACGCCTGTGTGG
64984816 AAGGGCGAAACGCCTGTGTG
1 AAGGGCGAAACGCCTGTGTG
64984836 TCCTCTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.20, G:0.40, T:0.17
Consensus pattern (21 bp):
AAGGGCGAAACGCCTGTGTGG
Found at i:64986149 original size:48 final size:48
Alignment explanation
Indices: 64986066--64986234 Score: 184
Period size: 48 Copynumber: 3.5 Consensus size: 48
64986056 CATGTCCTAG
* ** *
64986066 ACATGGTCTTACACTAGCTCCCATATCAATACCGATGCTATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTTCCAA
* * *
64986114 ACATTGTCTTACACTAGCT-T-ACTAAT-AGAGGCCGATGCCAT-ATCCTAG
1 ACATGGTCTTACACTAGCTCTCA-T-ATCA-AGGCCGATGCCATGTTCC-AA
*
64986162 ACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTTCCAA
* *
64986210 ACATGGTCTTACACTGGCTCACATA
1 ACATGGTCTTACACTAGCTCTCATA
64986235 ACCCTAGTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
46 1 0.01
47 5 0.05
48 87 0.87
49 6 0.06
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTTCCAA
Found at i:64986224 original size:96 final size:96
Alignment explanation
Indices: 64986050--64986224 Score: 296
Period size: 96 Copynumber: 1.8 Consensus size: 96
64986040 GGTAAGATGT
* *
64986050 CGATACCATGTCCTAGACATGGTCTTACACTAGCTCCCATATCAATACCGATGCTATGTTCCAAA
1 CGATACCATATCCTAGACATGGTCTTACACTAGCTCCCATATCAATACCGATGCCATGTTCCAAA
*
64986115 CATTGTCTTACACTAGCTTACTAATAGAGGC
66 CATGGTCTTACACTAGCTTACTAATAGAGGC
* * *
64986146 CGATGCCATATCCTAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAA
1 CGATACCATATCCTAGACATGGTCTTACACTAGCTCCCATATCAATACCGATGCCATGTTCCAAA
64986211 CATGGTCTTACACT
66 CATGGTCTTACACT
64986225 GGCTCACATA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (96 bp):
CGATACCATATCCTAGACATGGTCTTACACTAGCTCCCATATCAATACCGATGCCATGTTCCAAA
CATGGTCTTACACTAGCTTACTAATAGAGGC
Found at i:64987875 original size:24 final size:24
Alignment explanation
Indices: 64987830--64987875 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
64987820 CCGTAAATCC
***
64987830 TGAAATGCCGAAAAGTTGAAATAT
1 TGAAATGCCGAAAAGCCAAAATAT
*
64987854 TGAAATGCCGAAATGCCAAAAT
1 TGAAATGCCGAAAAGCCAAAAT
64987876 GTCGAAAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (24 bp):
TGAAATGCCGAAAAGCCAAAATAT
Found at i:64988142 original size:29 final size:29
Alignment explanation
Indices: 64988100--64988224 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
64988090 GAAAGCATGT
*
64988100 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
64988129 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
64988158 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * * *
64988187 ATGTGAATGAGA-TTAGGCCTAGTCGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
64988215 ATATGCATGT
1 ATATGAATGT
64988225 ATGTAGACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 20 0.24
29 65 0.76
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:64993356 original size:23 final size:23
Alignment explanation
Indices: 64993283--64993358 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 23
64993273 GTGTGCGAGA
64993283 CATGGCCGTGTGGTTGATGAAGG
1 CATGGCCGTGTGGTTGATGAAGG
* *
64993306 CATAGCC-----G-T-ATGCAAGA
1 CATGGCCGTGTGGTTGATG-AAGG
*
64993323 CACGGCCGTGTGGTTGATGAAGG
1 CATGGCCGTGTGGTTGATGAAGG
64993346 CATGGCCGTGTGG
1 CATGGCCGTGTGG
64993359 GCCATATAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
16 3 0.08
17 9 0.23
18 1 0.03
22 1 0.03
23 22 0.56
24 3 0.08
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.22
Consensus pattern (23 bp):
CATGGCCGTGTGGTTGATGAAGG
Found at i:64993956 original size:13 final size:13
Alignment explanation
Indices: 64993924--64993971 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
64993914 GTAGGACTCA
*
64993924 CTGTATCTGTTCT
1 CTGTATCTGTTAT
* *
64993937 GTTTATCTGTTAT
1 CTGTATCTGTTAT
64993950 CTGTATCTG-TAT
1 CTGTATCTGTTAT
64993962 CTGTATCTGT
1 CTGTATCTGT
64993972 AAAGGATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.12, C:0.17, G:0.17, T:0.54
Consensus pattern (13 bp):
CTGTATCTGTTAT
Found at i:64993958 original size:6 final size:6
Alignment explanation
Indices: 64993924--64993972 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
64993914 GTAGGACTCA
64993924 CTGTAT CTGT-T CTGTTTAT CTGTTAT CTGTAT CTGTAT CTGTAT CTGTA
1 CTGTAT CTGTAT CTG--TAT CTG-TAT CTGTAT CTGTAT CTGTAT CTGTA
64993973 AAGGATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 8 0.20
8 4 0.10
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (6 bp):
CTGTAT
Found at i:65002070 original size:7 final size:7
Alignment explanation
Indices: 65002058--65002083 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65002048 AAGTAACATT
65002058 TTTATCA
1 TTTATCA
65002065 TTTATCA
1 TTTATCA
65002072 TTTATCA
1 TTTATCA
65002079 TTTAT
1 TTTAT
65002084 TGGGTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTATCA
Found at i:65003829 original size:631 final size:629
Alignment explanation
Indices: 65002627--65003765 Score: 1348
Period size: 631 Copynumber: 1.8 Consensus size: 629
65002617 TATTAAGAAC
* * ** * **
65002627 AGTGGTTTCGGGACCACAAATCTGACTTAGAAAAATTTATTTTTATTATATTTTTATGGTTTACA
1 AGTGGTTTCGGGAACACAAATCTGACGTAGAAAAATCCATTTTTATTATATTTTGATGGCCTACA
* *
65002692 ATTTTATGGAATGATTTCGTGAAAATTTCGTTCGAAAATTTTGACATTTGGGCACTCAATTTAGT
66 ATTTTATGGAATGATTTCGAGAAAATCTCGTTCGAAAATTTTGACATTTGGGCACTCAATTTAGT
* * *
65002757 CAAAAGGACTAAATTGTAAAAAGTACAAAAGTTGAGTTCTACATTCTAGAGGTGTCTAATTGCTA
131 AAAAAGGACTAAATTGTAAAAAGTACAAAAGTTGAGTTCTACATTCTAAAGGTGTCCAATTGCTA
* * * * *
65002822 TGAAATTTTAAATTGGAGATCCTTAAATGGTAGTTAGACCATTGGTTAAGTTGGTGGACAAAAAT
196 GGAAATTTTAAATTAGAGATCCTTAAATGATAATTAGACCATTGGTTAAGTTAGTGGACAAAAAT
* * * ** ** * *
65002887 GGACATGGTTAGGTATGTTTCTAAAGTTTTTCATTAAGGGCATTTTAGTAATTTGGTAATTAAAT
261 GGACATGGTGAGATAAGTTTCTAAAGTTTGGCAAAAAGGGCATTTTAGTAATTTGGTAAATAAAA
*** * *
65002952 GAATTAAAAAGCCAAAACAAAAGCCAATTTTTTGTCCATCTTCCTCCCATGGCCGAATGTACCAA
326 GAATTAAAAAGCCAAAACAAAAGCCAATAAATTGTCCATCTTCCACCCATGGCCAAATGTA-CAA
* * * * * *
65003017 GAAGAAACCATGGCTAGGGTTTTCAAGCTTCCAAGCTCGATTGTAAGTCCGTTCTAGCCCCGTTT
390 G-ACAAACCATAGCTAGGGTTTTCAACCTTCCAAGCTCGATTGTAAGTACATCCTAGCCCCGTTT
** * * *
65003082 TTAATGATTTTTATGTTTTTGAAATCCTTGTAACATGATCTATCTATTTCTACAACTAATTTAAG
454 TTAATGATTTTTACATTTTTGAAATCCTTATAACACGATCTACCTATTTCTACAACTAATTTAAG
* * * * ***
65003147 AAATAACCAAAGTCTAAAATTTTACCTATGATGGATATTTGTGAATTTTGATGTCTAATGGTAGA
519 AAAGAACCAAAGTCTAAAAATTTACCCATGATGGAAATGCATGAATTTTGATGTCTAATGGTAGA
65003212 AAATGTATGTTTGGTGTAACAGTTCGATTTTGGGGCTCGTCAAAAA
584 AAATGTATGTTTGGTGTAACAGTTCGATTTTGGGGCTCGTCAAAAA
* * *
65003258 AGTGGTTTCGGGAATACGAATCTGTCGTAGAAAAATCCATTTTTATTATATTTTGATGGCCTA-A
1 AGTGGTTTCGGGAACACAAATCTGACGTAGAAAAATCCATTTTTATTATATTTTGATGGCCTACA
* * *
65003322 AGTTTTATGGAACT-A-TTCTGAGAAAATCTCGTTTGAAAATTTTGGCGTTTGGGCACTCAATTT
66 A-TTTTATGGAA-TGATTTC-GAGAAAATCTCGTTCGAAAATTTTGACATTTGGGCACTCAATTT
* *
65003385 AGTAAAAAGGACTAAATTGTAAAAAGTGCAAAAGTTGAGTTCTAC-TTGTTAAAGGTGTCCAATT
128 AGTAAAAAGGACTAAATTGTAAAAAGTACAAAAGTTGAGTTCTACATT-CTAAAGGTGTCCAATT
* * * *
65003449 GCTAGGAGATTTTAAATTAGAGGTCCTTATATGATAATTAGACCATTTGTTAAGTTAGTGGACAA
192 GCTAGGAAATTTTAAATTAGAGATCCTTAAATGATAATTAGACCATTGGTTAAGTTAGTGGACAA
* *
65003514 AAATGGACATGGTGAGATAAAGTTT-TAAAGTTTGGCAAAAAGGGCATTTTGGTCATTTGGTAAA
257 AAATGGACATGGTGAGAT-AAGTTTCTAAAGTTTGGCAAAAAGGGCATTTTAGTAATTTGGTAAA
** * * *
65003578 TAAAAGAA-TAAAAAGGGAAAA-TAAAGCCAA-AAATTGTCCATCTTCTCCAACCCTTTGCCAAA
321 TAAAAGAATTAAAAAGCCAAAACAAAAGCCAATAAATTGTCCATC-T-TCC-ACCCATGGCC-AA
* *** * * *
65003640 ATTTTA-AAG-CTCTCCATATCTAGGGTTTTGTC-ACCTTTCAAGCTTGATTGTAAGTACATCCT
382 A-TGTACAAGACAAACCATAGCTAGGG-TTT-TCAACCTTCCAAGCTCGATTGTAAGTACATCCT
* * *
65003702 AGCCCCCGTTTTTAATG-TTCTTTACATTTTTGAAGTCCTTATAACCCGATTTACCTATTTCTAC
444 AG-CCCCGTTTTTAATGATT-TTTACATTTTTGAAATCCTTATAACACGATCTACCTATTTCTAC
65003766 CATTATTTTT
Statistics
Matches: 423, Mismatches: 71, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
628 9 0.02
629 19 0.04
630 52 0.12
631 332 0.78
632 8 0.02
633 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (629 bp):
AGTGGTTTCGGGAACACAAATCTGACGTAGAAAAATCCATTTTTATTATATTTTGATGGCCTACA
ATTTTATGGAATGATTTCGAGAAAATCTCGTTCGAAAATTTTGACATTTGGGCACTCAATTTAGT
AAAAAGGACTAAATTGTAAAAAGTACAAAAGTTGAGTTCTACATTCTAAAGGTGTCCAATTGCTA
GGAAATTTTAAATTAGAGATCCTTAAATGATAATTAGACCATTGGTTAAGTTAGTGGACAAAAAT
GGACATGGTGAGATAAGTTTCTAAAGTTTGGCAAAAAGGGCATTTTAGTAATTTGGTAAATAAAA
GAATTAAAAAGCCAAAACAAAAGCCAATAAATTGTCCATCTTCCACCCATGGCCAAATGTACAAG
ACAAACCATAGCTAGGGTTTTCAACCTTCCAAGCTCGATTGTAAGTACATCCTAGCCCCGTTTTT
AATGATTTTTACATTTTTGAAATCCTTATAACACGATCTACCTATTTCTACAACTAATTTAAGAA
AGAACCAAAGTCTAAAAATTTACCCATGATGGAAATGCATGAATTTTGATGTCTAATGGTAGAAA
ATGTATGTTTGGTGTAACAGTTCGATTTTGGGGCTCGTCAAAAA
Found at i:65006779 original size:31 final size:31
Alignment explanation
Indices: 65006741--65006803 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
65006731 TTACACATAG
65006741 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
1 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
65006772 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
1 TCCCTTATTTGAGTCTACGGAGCCCAAAACA
65006803 T
1 T
65006804 ACTTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (31 bp):
TCCCTTATTTGAGTCTACGGAGCCCAAAACA
Found at i:65008546 original size:50 final size:49
Alignment explanation
Indices: 65008409--65008595 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 49
65008399 TATGTAGCCA
* * * * *
65008409 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACC
1 AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
*
65008458 AATTAT-TCGGTACACGTAGTAGCCTG-ACTTAGTACTACACACGTGACC
1 AACTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
* * *
65008506 TAACTATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCG
1 -AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CC
* * ** *
65008557 AAGTTATCGGGTATGCATAGTAGCCTGCACTTAGTACTA
1 AA-CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTA
65008596 TACATGCGAC
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
48 20 0.17
49 42 0.37
50 23 0.20
51 30 0.26
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
AACTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
Found at i:65009448 original size:30 final size:30
Alignment explanation
Indices: 65009414--65009474 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
65009404 TCCTTAACTC
*
65009414 AAACTTTTACAAATTTATAATTTTGCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
* * *
65009444 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTACAAATTTACAATTTTGCCCCT
65009474 A
1 A
65009475 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTACAAATTTACAATTTTGCCCCT
Found at i:65010920 original size:20 final size:20
Alignment explanation
Indices: 65010895--65010950 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
65010885 AGATAGGGGC
*
65010895 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGCGGCCTGGG
*
65010915 ACATGCCCGTGCGGCTTGGG
1 ACATGCCCGTGCGGCCTGGG
* *
65010935 ACATGGCCGTGGGGCC
1 ACATGCCCGTGCGGCC
65010951 AAGCCGTGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.30, G:0.41, T:0.18
Consensus pattern (20 bp):
ACATGCCCGTGCGGCCTGGG
Found at i:65012853 original size:16 final size:17
Alignment explanation
Indices: 65012832--65012863 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65012822 TAACATATAT
65012832 ATTATTAT-ATTATTAA
1 ATTATTATAATTATTAA
65012848 ATTATTATAATTATTA
1 ATTATTATAATTATTA
65012864 TTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATAATTATTAA
Found at i:65018473 original size:92 final size:94
Alignment explanation
Indices: 65018305--65018474 Score: 256
Period size: 92 Copynumber: 1.8 Consensus size: 94
65018295 ACTTGTGTGA
* **
65018305 GCTAGTGTAAGACATGTCTTGGACATGCATAAGCCATATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCATACGATGAGAGCCAGTGTAAGACCATGTT
65018370 TGGGACATGGCATCGACATTGTGACGAGT
66 TGGGACATGGCATCGACATTGTGACGAGT
* * *
65018399 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-TACGA-GATGTGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCATACGATGA-GAGCCAGTGTAAGACCATGT
65018461 TTGGGACATGGCAT
65 TTGGGACATGGCAT
65018475 TGGCACCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.51
93 1 0.01
94 31 0.45
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCATACGATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGACATTGTGACGAGT
Found at i:65021464 original size:47 final size:46
Alignment explanation
Indices: 65021356--65021466 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 46
65021346 TATTGTGGGA
* *
65021356 TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGC
* ** *
65021402 TAATGTAAGACCATGTCTGGGACATGGCATC-GGTATCGA-GACGAGTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATGACGAGAGC
65021450 TAGTGTAAGACATGTCT
1 TAGTGTAAGACATGTCT
65021467 AGTGTCATGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
46 9 0.17
47 23 0.43
48 21 0.39
49 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGACGAGAGC
Found at i:65027842 original size:24 final size:25
Alignment explanation
Indices: 65027808--65027859 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
65027798 TGTTATGTTC
*
65027808 ATGGATAAGTAAAATGCACAAAT-A
1 ATGGATAAGTAAAATACACAAATGA
* *
65027832 ATGGATGAGTAAGATACACAAATGA
1 ATGGATAAGTAAAATACACAAATGA
65027857 ATG
1 ATG
65027860 TTGTCTATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (25 bp):
ATGGATAAGTAAAATACACAAATGA
Found at i:65034229 original size:30 final size:30
Alignment explanation
Indices: 65034171--65034229 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
65034161 ATTTTCAAGC
* **
65034171 CTAGGGGTAAAATGGTCATTTTGTTAAAAT
1 CTAGGGGCAAAATGGTCATTTTACTAAAAT
*
65034201 CTAGGGGCAAAATGTTCATTTTACTAAAA
1 CTAGGGGCAAAATGGTCATTTTACTAAAA
65034230 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACTAAAAT
Found at i:65034701 original size:46 final size:46
Alignment explanation
Indices: 65034610--65034834 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 46
65034600 ACATTATGAG
*
65034610 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-A
1 AGCCAGAGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGTA
* * * * *
65034657 GTGCTAGAGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGTA
1 -AGCCAGAGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGTA
* * *
65034704 AGCCAGTGTAAGACATGCCTGGGACATGCATCGGC-TACGAGATG-A
1 AGCCAGAGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACGTA
* * * * ** *
65034749 TAGTCAGTGTAAGACCATGTCTGGGGCATGGCATCGACAT-GAGATATG
1 -AGCCAGAGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGTA
* * * *
65034797 AGCTAGTGTAAGACCATGTCCGGGACACAGCATCGGCA
1 AGCCAGAGTAAGA-CATGTCTGGGACA-TGCATCGGCA
65034835 CCTTACCCAC
Statistics
Matches: 144, Mismatches: 25, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 62 0.43
47 62 0.43
48 17 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (46 bp):
AGCCAGAGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGTA
Found at i:65034805 original size:47 final size:46
Alignment explanation
Indices: 65034565--65034834 Score: 196
Period size: 47 Copynumber: 5.8 Consensus size: 46
65034555 GTTATTGTGG
* * * *
65034565 GCTAGTGTAA-AACATGTATGGGACATGCATCAGC-T-ACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATGAGA-TAT--GA
* * *
65034611 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGA-GT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAT-GAGA-TATGA
* * * ** *
65034659 GCTAGAGTAAGA-CATGTCTAGGACATGCATCGGCCTTGAGACGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CATGAGATATGA
* * *
65034705 GCCAGTGTAAGA-CATGCCTGGGACATGCATCGGCTACGAGATGAT-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ATGAGAT-ATGA
* *
65034751 G-TCAGTGTAAGACCATGTCTGGGGCATGGCATCGACATGAGATATGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATGAGATATGA
* *
65034798 GCTAGTGTAAGACCATGTCCGGGACACAGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGCA
65034835 CCTTACCCAC
Statistics
Matches: 176, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
45 1 0.01
46 66 0.38
47 79 0.45
48 26 0.15
49 1 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATGAGATATGA
Found at i:65034823 original size:140 final size:141
Alignment explanation
Indices: 65034568--65034833 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 141
65034558 ATTGTGGGCT
* *
65034568 AGTGTAAAACATGTATGGGACATGCATCAGCTACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAAACATGCATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
65034633 GACATGGCATCGGCATCGAGACGAGTGCTAGAGTAAGACATGTCTAGGACA-TGCATCGGCCTTG
66 GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCCAGGACACAGCATCGGCCTTG
65034697 AGACGTAAGCC
131 AGACGTAAGCC
* * * * *
65034708 AGTGTAAGACATGCCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAAACATGCATGGGACATGCATCAGCTAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
* * * *
65034772 GGGCATGGCATCGACAT-GAGA-TATGAGCTAGTGTAAGACCATGTCCGGGACACAGCATCGGC
65 GGACATGGCATCGACATCGAGACGA-GAGCTAGAGTAAGA-CATGTCCAGGACACAGCATCGGC
65034834 ACCTTACCCA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 16 0.15
140 81 0.76
141 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (141 bp):
AGTGTAAAACATGCATGGGACATGCATCAGCTACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCGAGACGAGAGCTAGAGTAAGACATGTCCAGGACACAGCATCGGCCTTG
AGACGTAAGCC
Found at i:65042789 original size:29 final size:29
Alignment explanation
Indices: 65042750--65042828 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
65042740 CTTAATAATC
*
65042750 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
65042780 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
65042809 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65042829 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:65049404 original size:17 final size:19
Alignment explanation
Indices: 65049376--65049412 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
65049366 TGTAAAACCC
65049376 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
65049394 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
65049412 A
1 A
65049413 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:65056861 original size:17 final size:19
Alignment explanation
Indices: 65056836--65056870 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
65056826 GTAAAACCCA
65056836 TGAGTATGAACT-TTGGTG
1 TGAGTATGAACTCTTGGTG
65056854 TGAG-ATGAACTCTTGGT
1 TGAGTATGAACTCTTGGT
65056871 AAGAATGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.09, G:0.31, T:0.37
Consensus pattern (19 bp):
TGAGTATGAACTCTTGGTG
Found at i:65058028 original size:24 final size:24
Alignment explanation
Indices: 65057995--65058095 Score: 150
Period size: 24 Copynumber: 4.2 Consensus size: 24
65057985 AAGGCTATCA
* *
65057995 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
65058019 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
65058043 GGA-AGGGATTTAGGAGTTGATAAG
1 GGAGA-GGATTTAGGAGCTGATAAG
*
65058067 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
65058091 GGAGA
1 GGAGA
65058096 ATGGTGTTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 1 0.01
24 68 0.97
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.43, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:65059537 original size:54 final size:53
Alignment explanation
Indices: 65059454--65059559 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
65059444 GGAAGCGTCC
* *
65059454 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACAT-TATCTGTTT
* * *
65059508 TGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTATCACATTATCTGTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCTGTT
65059560 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 8 0.17
54 39 0.83
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCTGTTT
Found at i:65059560 original size:26 final size:26
Alignment explanation
Indices: 65059453--65059563 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
65059443 AGGAAGCGTC
*
65059453 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGTT
65059480 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGTT
* *
65059507 TTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCAC-ATTATCTGTT
* **
65059534 CTGGTGACACTATCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGTT
65059560 CTGG
1 CTGG
65059564 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 17 0.23
27 54 0.74
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGTT
Found at i:65072507 original size:20 final size:20
Alignment explanation
Indices: 65072482--65072553 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
65072472 CGGGTTCGGG
*
65072482 ACACGGGTGTG-TCCTAAACC
1 ACACGGGCGTGTTCC-AAACC
* *
65072502 ACACGGGCTTGTTCCAAACA
1 ACACGGGCGTGTTCCAAACC
65072522 ACACGGGCGTGTTCCAAACC
1 ACACGGGCGTGTTCCAAACC
65072542 ACACGGGCGTGT
1 ACACGGGCGTGT
65072554 GACCCTTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (20 bp):
ACACGGGCGTGTTCCAAACC
Found at i:65075543 original size:29 final size:29
Alignment explanation
Indices: 65075510--65075670 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
65075500 GTGACGAGAT
65075510 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65075539 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65075568 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65075597 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
65075626 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
65075655 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
65075671 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65075686 original size:87 final size:87
Alignment explanation
Indices: 65075506--65075727 Score: 252
Period size: 87 Copynumber: 2.6 Consensus size: 87
65075496 TATGGTGACG
** * *
65075506 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATG
1 AGATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACG
*
65075570 GCACTAAGTGTGCGTGCTGGAA
66 GCACTAAGTGTGCGAGCTGGAA
* *
65075592 ATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACTAAGTGTGCAAGCTGGAAAAATACG
1 AGATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACG
** *
65075657 GCACTGGGTGTGCGAGTTCGG-A
66 GCACTAAGTGTGCGAGCT-GGAA
* * ** * * *
65075679 GGGTATGGCACTGTGTGTGCGAGCT-TAAATTATGTGGCACTAAGTGTGC
1 AGATATGGCACTAAGTGTGCGTGCTGGAAA-TATATGGCACTAAGTGTGC
65075728 GAAATCGAGT
Statistics
Matches: 115, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
86 6 0.05
87 107 0.93
88 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (87 bp):
AGATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACG
GCACTAAGTGTGCGAGCTGGAA
Found at i:65083511 original size:29 final size:29
Alignment explanation
Indices: 65083478--65083609 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
65083468 GTGACGAGAT
65083478 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65083507 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65083536 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
65083565 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
65083594 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
65083610 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65097131 original size:24 final size:24
Alignment explanation
Indices: 65097104--65097190 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
65097094 TGTTTCCTCA
65097104 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCTATATAATCTCG
* * * * *
65097128 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCTATATA-ATCTCG
** *
65097153 CACACATAGTG-TCGCATAACCTCG
1 CACACATAGTGCT-ATATAATCTCG
65097177 CACACATAGTGCTA
1 CACACATAGTGCTA
65097191 AAATTTCTTA
Statistics
Matches: 46, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (24 bp):
CACACATAGTGCTATATAATCTCG
Found at i:65097157 original size:49 final size:47
Alignment explanation
Indices: 65097053--65097188 Score: 125
Period size: 49 Copynumber: 2.8 Consensus size: 47
65097043 TTTAAAGGTC
* *
65097053 CGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGTGTTTCCT
1 CGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CT
*
65097102 CACACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-T
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCT
* ** *
65097151 TGCACACATAGTG-TCGCATAACCTCGCACACATAGTGC
1 CGCACACATAGTGCT-ATATAATCTCGCACACATAGTGC
65097189 TAAAATTTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
48 17 0.23
49 47 0.64
50 6 0.08
51 4 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCT
Found at i:65101437 original size:42 final size:42
Alignment explanation
Indices: 65101378--65101499 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
65101368 TTAGGGTTAC
*
65101378 TAAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
1 TAAGATTACATGTAAGACCATATATGGGATATGGCATCGATA
** * * *
65101420 TAAGACTT-CATGTAAGACCATAGCTAGGTTATTGACATCGATA
1 TAAGA-TTACATGTAAGACCATATATGGGATA-TGGCATCGATA
* * *
65101463 TGAGATTACATGTGAGACCATTTATGGGATATGGCAT
1 TAAGATTACATGTAAGACCATATATGGGATATGGCAT
65101500 TGGTACGGTA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGATTACATGTAAGACCATATATGGGATATGGCATCGATA
Found at i:65111222 original size:8 final size:8
Alignment explanation
Indices: 65111180--65111204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
65111170 ATATAGACTA
65111180 AATAAAAT
1 AATAAAAT
65111188 AATAAAAT
1 AATAAAAT
65111196 AATAAAAT
1 AATAAAAT
65111204 A
1 A
65111205 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:65111228 original size:29 final size:31
Alignment explanation
Indices: 65111177--65111245 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
65111167 TATATATAGA
*
65111177 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
65111206 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
65111237 CTAATTAAA
1 CTAATTAAA
65111246 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:65112745 original size:46 final size:46
Alignment explanation
Indices: 65112692--65112867 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
65112682 TATTTGGGCA
65112692 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
65112738 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
65112785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
65112831 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65112868 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Done.