Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 167 of 316
Found at i:53186909 original size:40 final size:40
Alignment explanation
Indices: 53186861--53187088 Score: 420
Period size: 40 Copynumber: 5.7 Consensus size: 40
53186851 GCAAACACAT
* * *
53186861 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53186901 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53186941 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
53186981 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53187021 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53187061 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
53187089 TCCAATGCTC
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:53195556 original size:40 final size:40
Alignment explanation
Indices: 53195508--53195655 Score: 269
Period size: 40 Copynumber: 3.7 Consensus size: 40
53195498 ACAAACACAT
* * *
53195508 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53195548 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53195588 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53195628 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
53195656 TCCAATGCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:53203088 original size:30 final size:30
Alignment explanation
Indices: 53203054--53203112 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
53203044 CACTATGAAT
53203054 ATGTTTCTTGGATTATTATGTAATTGTCAA
1 ATGTTTCTTGGATTATTATGTAATTGTCAA
53203084 ATGTTTCTTGGATTATTATGTAATTGTCA
1 ATGTTTCTTGGATTATTATGTAATTGTCA
53203113 CAACATTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (30 bp):
ATGTTTCTTGGATTATTATGTAATTGTCAA
Found at i:53208681 original size:14 final size:14
Alignment explanation
Indices: 53208662--53208690 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53208652 ATAGAATCAT
53208662 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
53208676 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
53208690 T
1 T
53208691 AAAGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TCAATCTAGAAAAA
Found at i:53211991 original size:28 final size:28
Alignment explanation
Indices: 53211946--53212035 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
53211936 TATATACGTG
53211946 CATATAGCCCACTT-GGCCCAATCTCATT
1 CATATAGCCCA-TTAGGCCCAATCTCATT
*
53211974 CATATGGCCCATTAGGCCCAAT-TCATATT
1 CATATAGCCCATTAGGCCCAATCTC--ATT
53212003 CATATAGCCCATTAGGCCCAATCTCATT
1 CATATAGCCCATTAGGCCCAATCTCATT
53212031 CATAT
1 CATAT
53212036 GTGCATATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
27 4 0.07
28 26 0.46
29 24 0.43
30 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (28 bp):
CATATAGCCCATTAGGCCCAATCTCATT
Found at i:53215580 original size:16 final size:16
Alignment explanation
Indices: 53215559--53215617 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
53215549 GTAGATCGGT
53215559 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
*
53215575 AAAAGCTGAAATACCG
1 AAAAGCTGAAATGCCG
*
53215591 AAAAGCTGAAATGCTG
1 AAAAGCTGAAATGCCG
*
53215607 AAAAGTTGAAA
1 AAAAGCTGAAA
53215618 GTTTGGATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:53215585 original size:8 final size:8
Alignment explanation
Indices: 53215559--53215617 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
53215549 GTAGATCGGT
53215559 AAAAGCTG
1 AAAAGCTG
* *
53215567 AAATGCCG
1 AAAAGCTG
53215575 AAAAGCTG
1 AAAAGCTG
*
53215583 AAATA-CCG
1 AAA-AGCTG
53215591 AAAAGCTG
1 AAAAGCTG
*
53215599 AAATGCTG
1 AAAAGCTG
*
53215607 AAAAGTTG
1 AAAAGCTG
53215615 AAA
1 AAA
53215618 GTTTGGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
7 1 0.03
8 38 0.95
9 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (8 bp):
AAAAGCTG
Found at i:53215738 original size:19 final size:19
Alignment explanation
Indices: 53215714--53215750 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53215704 ACTTTGGTTG
53215714 TGAATAGGCCAAATGGGCA
1 TGAATAGGCCAAATGGGCA
*
53215733 TGAATAGGCTAAATGGGC
1 TGAATAGGCCAAATGGGC
53215751 CCGAGGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (19 bp):
TGAATAGGCCAAATGGGCA
Found at i:53215861 original size:28 final size:30
Alignment explanation
Indices: 53215829--53215945 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 30
53215819 GTGAGCATGA
*
53215829 ATAT-AATGTGATTTGGG-CTGGATGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
*
53215857 ATAT-AAT-TGAGATTGGGCCT-AATGGGCC
1 ATATAAATGTGA-ATTGGGCCTGGATGGGCC
* *
53215885 ATATGAACGTGAATTGGGCC-GGATGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
* *
53215914 ATATAAATGAG-ATTGGGCCTAG-TGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
53215942 ATAT
1 ATAT
53215946 GCCTGTATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.04
28 41 0.55
29 28 0.37
30 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (30 bp):
ATATAAATGTGAATTGGGCCTGGATGGGCC
Found at i:53215929 original size:57 final size:57
Alignment explanation
Indices: 53215836--53215946 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
53215826 TGAATATAAT
* * *
53215836 GTGATTTGGGCTGGATGGGCCATATAATTGAGATTGGGCCTAATGGGCCATATGAAC
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAAC
*
53215893 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAGTGGGCCATATG
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATG
53215947 CCTGTATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.26
Consensus pattern (57 bp):
GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAAC
Found at i:53219763 original size:40 final size:40
Alignment explanation
Indices: 53219708--53219935 Score: 420
Period size: 40 Copynumber: 5.7 Consensus size: 40
53219698 GAGCATTGGA
53219708 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53219748 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53219788 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53219828 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53219868 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
53219908 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
53219936 ATGTGTTTGC
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:53224112 original size:19 final size:19
Alignment explanation
Indices: 53224088--53224124 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53224078 CTTGGGTTGT
*
53224088 GAATAGGCCAAATGGGCCG
1 GAATAGGCAAAATGGGCCG
53224107 GAATAGGCAAAATGGGCC
1 GAATAGGCAAAATGGGCC
53224125 CGAGGGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.35, T:0.11
Consensus pattern (19 bp):
GAATAGGCAAAATGGGCCG
Found at i:53224283 original size:29 final size:29
Alignment explanation
Indices: 53224214--53224348 Score: 172
Period size: 29 Copynumber: 4.7 Consensus size: 29
53224204 ATAATTTGAT
*
53224214 TTGGGCCGGATGGGCCATAT-AAATGAGA
1 TTGGGCCTGATGGGCCATATGAAATGAGA
*
53224242 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
*
53224271 TTGGGCCTGATGGGCCATATGAACGTGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
*
53224300 TTGGGCCGGATGGGCCATAT-AAATGAGA
1 TTGGGCCTGATGGGCCATATGAAATGAGA
53224328 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
53224349 CATGTATGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
27 4 0.04
28 38 0.40
29 48 0.51
30 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAAATGAGA
Found at i:53224331 original size:57 final size:58
Alignment explanation
Indices: 53224214--53224348 Score: 172
Period size: 57 Copynumber: 2.4 Consensus size: 58
53224204 ATAATTTGAT
* *
53224214 TTGGGCCGGATGGGCCATAT-AAATGAGATTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAATGGGCCATATGAATATGAA
* *
53224271 TTGGGCCTGATGGGCCATATGAACGTGA-ATTGGGCCGGATGGGCCATAT-AA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAA-ATGAGATTGGGCCGAATGGGCCATATGAATATGA-A
53224328 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
53224349 CATGTATGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.07
57 41 0.59
58 21 0.30
59 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (58 bp):
TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAATGGGCCATATGAATATGAA
Found at i:53229591 original size:46 final size:45
Alignment explanation
Indices: 53229541--53229713 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
53229531 TCGGGCATCC
53229541 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
*** * * *
53229587 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCT
* *
53229634 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
* *
53229680 GAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53229714 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCT
Found at i:53229693 original size:93 final size:93
Alignment explanation
Indices: 53229534--53229705 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53229524 AGGATGTTCG
* *
53229534 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
53229599 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
53229627 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
53229692 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53229706 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:53235395 original size:24 final size:24
Alignment explanation
Indices: 53235345--53235398 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53235335 AATCGAATTT
*
53235345 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53235369 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53235393 GCACAC
1 GCACAC
53235399 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53242307 original size:40 final size:40
Alignment explanation
Indices: 53242207--53242431 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
53242197 GCTCCTCGTT
* * * *
53242207 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53242247 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53242286 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53242326 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53242366 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
53242407 CGAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53242432 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 104 0.66
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53250101 original size:40 final size:40
Alignment explanation
Indices: 53250001--53250225 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
53249991 GCTCCTCGTT
* * * *
53250001 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53250041 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53250080 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53250120 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53250160 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
53250201 CGAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53250226 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 104 0.66
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53254123 original size:24 final size:24
Alignment explanation
Indices: 53254073--53254126 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53254063 AATTGAATTT
*
53254073 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53254097 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53254121 GCACAC
1 GCACAC
53254127 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53260920 original size:32 final size:31
Alignment explanation
Indices: 53260860--53260921 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
53260850 GTAGTGAAAC
* *
53260860 AAAAAAATGGGAGTAAATAGAAGAAAATTCT
1 AAAAAAATGGGAGTAAACAAAAGAAAATTCT
*
53260891 AAAAAAGATGGGAGTAAACAAAAGCAAATTC
1 AAAAAA-ATGGGAGTAAACAAAAGAAAATTC
53260922 ATCTTGCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.16
Consensus pattern (31 bp):
AAAAAAATGGGAGTAAACAAAAGAAAATTCT
Found at i:53261581 original size:21 final size:20
Alignment explanation
Indices: 53261552--53261591 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53261542 CATGTATTTT
53261552 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
53261573 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
53261592 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:53261599 original size:20 final size:21
Alignment explanation
Indices: 53261557--53261599 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
53261547 ATTTTAATGA
*
53261557 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
53261578 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
53261598 TT
1 TT
53261600 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:53278440 original size:43 final size:42
Alignment explanation
Indices: 53278355--53278476 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
53278345 AGGGTTACTA
* * * *
53278355 AGATTATGTGTAAGACCATATTTAGGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATTGATACG
* *
53278397 AGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATTGATACG
1 AGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATACG
*
53278440 AGATTACATGTAAGACCATATCTGGGATATGGCATTG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATTG
53278477 TATGGTATTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGGCATTGATACG
Found at i:53284059 original size:20 final size:21
Alignment explanation
Indices: 53284018--53284059 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
53284008 GTTTAATGAC
*
53284018 TGATGATAGATTATGAATGTT
1 TGATGATAGATTATGAAAGTT
53284039 TGATGATAG-TTAT-ACAAGTT
1 TGATGATAGATTATGA-AAGTT
53284059 T
1 T
53284060 TGTTAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 9 0.47
21 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (21 bp):
TGATGATAGATTATGAAAGTT
Found at i:53301999 original size:40 final size:40
Alignment explanation
Indices: 53301932--53302022 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
53301922 TATGTTTGGT
* * *
53301932 ACTTAGTGTGCGTATAGAGATAGCTTCGGCTATATAAAGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
* * **
53301972 ACTTAGTTTGCGAATCGAAATACCTTCGGCTATATATGGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
53302012 ACTTAGTGTGC
1 ACTTAGTGTGC
53302023 TAGACCTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (40 bp):
ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
Found at i:53302087 original size:41 final size:41
Alignment explanation
Indices: 53301951--53302080 Score: 115
Period size: 41 Copynumber: 3.2 Consensus size: 41
53301941 GCGTATAGAG
* * * * *
53301951 ATAGCTTCGGCTAT-ATAAAGCACTTAGTTTGCGA-ATCGAA
1 ATAGCTTCGTCTATGA-AAGGCACTTAGTGTGCGAGACCTAA
* * * * *
53301991 ATACCTTCGGCTAT-ATATGGCACTTAGTGTGCTAGACCTAG
1 ATAGCTTCGTCTATGA-AAGGCACTTAGTGTGCGAGACCTAA
53302032 ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGA-CTATA
1 ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGACCTA-A
53302073 ATAGCTTC
1 ATAGCTTC
53302081 AGCTATGCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
40 32 0.43
41 41 0.55
42 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGACCTAA
Found at i:53308117 original size:44 final size:44
Alignment explanation
Indices: 53307976--53308145 Score: 161
Period size: 44 Copynumber: 3.9 Consensus size: 44
53307966 TCATACAACA
* * *
53307976 CCAACGTCCTAAATATGGTCTTACA-TGT-AATCACATATCGATT
1 CCAACGTCCTAGACATGGTCTTACACT-TAAATCACATATCGATG
* * * * * *
53308019 CC-ACTGTCCCAGACAGGGTCTTACAC-GAACTTATATA-CGATG
1 CCAAC-GTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
* * *
53308061 CCGATGTCCTAGACATGGTCTTACACTTAAATCACAAATCGATG
1 CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
* *
53308105 CCAACGTCCTAGACGTGGTCTTACACATAAATCACATATCG
1 CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCG
53308146 GAACCCTATG
Statistics
Matches: 99, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
42 27 0.27
43 31 0.31
44 41 0.41
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
Found at i:53310187 original size:46 final size:46
Alignment explanation
Indices: 53310137--53310312 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
53310127 TGGTTGAGCA
53310137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53310183 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
53310228 CATCCGAACTCGTTGAGTTGTGTCCGAGTTTACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53310276 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53310313 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53310293 original size:93 final size:93
Alignment explanation
Indices: 53310134--53310305 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
53310124 GGATGGTTGA
* *
53310134 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
53310199 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53310227 GCATCCGAACTCGTTGAGTTGTGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53310292 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53310306 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53313330 original size:34 final size:34
Alignment explanation
Indices: 53313292--53313357 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
53313282 GTATTAGTTA
* * * * *
53313292 GGGTCGTAGTCCATTACAGTATCAGTATCAGTGT
1 GGGTCGTAGCCCAATACACTAACAGTAACAGTGT
*
53313326 GGGTCTTAGCCCAATACACTAACAGTAACAGT
1 GGGTCGTAGCCCAATACACTAACAGTAACAGT
53313358 AATACAATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (34 bp):
GGGTCGTAGCCCAATACACTAACAGTAACAGTGT
Found at i:53319597 original size:40 final size:40
Alignment explanation
Indices: 53319408--53319633 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
53319398 TTGAATGATG
* * * *
53319408 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
53319448 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
53319488 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
53319528 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53319568 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53319609 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53319634 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 155 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53327286 original size:40 final size:40
Alignment explanation
Indices: 53327198--53327423 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
53327188 TTGAATGATG
* * *
53327198 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* * *
53327238 TCCAGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
53327278 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
53327318 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
53327358 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
53327399 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53327424 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 151 0.92
41 11 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:53343119 original size:40 final size:40
Alignment explanation
Indices: 53343049--53343254 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
53343039 AAATCACGTA
* * * *
53343049 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATG
* *
53343088 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGTACAAATG
*
53343128 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
* *
53343168 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
** *
53343208 CCTTC-GGATCTTAGTCCAGATTTAGTAACTCGTACAAATG
1 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGTACAAATG
53343248 CCTTCGG
1 CCTTCGG
53343255 ATCTTAGTCC
Statistics
Matches: 146, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 15 0.10
40 128 0.88
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATG
Found at i:53343255 original size:40 final size:40
Alignment explanation
Indices: 53343075--53343307 Score: 258
Period size: 40 Copynumber: 5.8 Consensus size: 40
53343065 GGATATAGCT
* *
53343075 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
53343115 ACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
53343155 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
53343195 ACTCGCACAAATACCTTC-GGATCTTAGTCCAGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
53343235 ACTCGTACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-A
* * * *
53343276 CCTAGCACAAA-GCCTTCGCGACTTAGCCCGGA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGA
53343308 CATCATTCAA
Statistics
Matches: 171, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:53350950 original size:40 final size:40
Alignment explanation
Indices: 53350913--53351138 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
53350903 GCTACTCGTT
** *
53350913 CAAATGCCTTCGGGACAGAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
53350953 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
53350993 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * *
53351033 CAAATACCTTC-GGATCTTAGTCCAGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
53351073 TAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
* *
53351114 CAAA-GCCTTCGCGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53351139 CATCATTCAA
Statistics
Matches: 163, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53359194 original size:39 final size:39
Alignment explanation
Indices: 53359151--53359230 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
53359141 TGAAGCTAGA
*
53359151 GATGTTTGAAAGAGATCTTCTGGTAGAGCATCTCAATCT
1 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
53359190 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
1 GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
53359229 GA
1 GA
53359231 GTCAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (39 bp):
GATGTTTGAAAGAGATCTTCGGGTAGAGCATCTCAATCT
Found at i:53365355 original size:19 final size:19
Alignment explanation
Indices: 53365326--53365368 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
53365316 CGTTATGGGC
53365326 CTCGT-TGGGCCAAGATAGG
1 CTCGTGTGGGCCAA-ATAGG
*
53365345 C-CGTGTGGGCCCAATAGG
1 CTCGTGTGGGCCAAATAGG
53365363 CTCGTG
1 CTCGTG
53365369 GGCCCTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (19 bp):
CTCGTGTGGGCCAAATAGG
Found at i:53366038 original size:28 final size:28
Alignment explanation
Indices: 53365985--53366038 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
53365975 CTGCACTGTT
* *
53365985 CTGATACTGAATTGGGCTTAGACCCATG
1 CTGATACTGAATAGGGCTAAGACCCATG
*
53366013 CTGATACTGAATAGGGCTAAGTCCCA
1 CTGATACTGAATAGGGCTAAGACCCA
53366039 GACTGTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (28 bp):
CTGATACTGAATAGGGCTAAGACCCATG
Found at i:53366056 original size:33 final size:33
Alignment explanation
Indices: 53366014--53366077 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
53366004 AGACCCATGC
*
53366014 TGATACTGAATAGGGCTAAGTCCCAGACTGTAT
1 TGATACTGAATAGGGCTAAGGCCCAGACTGTAT
* *
53366047 TGATACTGAATAGGGCTCAGGCCTAGACTGT
1 TGATACTGAATAGGGCTAAGGCCCAGACTGT
53366078 TACTGCATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (33 bp):
TGATACTGAATAGGGCTAAGGCCCAGACTGTAT
Found at i:53373724 original size:28 final size:29
Alignment explanation
Indices: 53373692--53373771 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 29
53373682 TTGGAGGAAG
53373692 TACTG-TATTAGTGGCTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * *
53373720 TACTGCT-CTGGTGGCTTTGCCAC--ATT
1 TACTGCTATTAGTGGCTTTGCCACGTAAT
* * *
53373746 TACTGTTATTAGTAGCTTTGCTACGT
1 TACTGCTATTAGTGGCTTTGCCACGT
53373772 TATTGTTAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
26 8 0.20
27 12 0.30
28 19 0.47
29 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.41
Consensus pattern (29 bp):
TACTGCTATTAGTGGCTTTGCCACGTAAT
Found at i:53373975 original size:33 final size:34
Alignment explanation
Indices: 53373933--53374002 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
53373923 TAGACCCACG
53373933 CTGATACTGAATAGGGCTAAGGCCCAGACTG-TA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
*
53373966 CTGATACTGAATAGGGCTCAGGCCCAGACTGTTA
1 CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
53374000 CTG
1 CTG
53374003 CATGCACGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (34 bp):
CTGATACTGAATAGGGCTAAGGCCCAGACTGTTA
Found at i:53374886 original size:16 final size:15
Alignment explanation
Indices: 53374862--53374891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
53374852 AACTGTTCTA
53374862 TTACAAATTTCACTC
1 TTACAAATTTCACTC
53374877 TTACATAATTTCACT
1 TTACA-AATTTCACT
53374892 TACTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:53375160 original size:49 final size:49
Alignment explanation
Indices: 53375092--53375375 Score: 230
Period size: 49 Copynumber: 5.7 Consensus size: 49
53375082 ACCGAAGCTC
*
53375092 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
* * * * * *
53375141 TCCGGTTCACGTAGTAGCCTGCACTTACTACTACACATGTGACTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
* * * * * *
53375190 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGACATTG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACA--A
* ** * * *
53375241 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATAC-ATCCTAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CC-AACAA
* * * * * *
53375291 TCTGGTACACGTATTAGCCTGTACTTGGTACTACACCTGACCTA-CAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG--CGACCAACAA
*** * *
53375341 TCTTAAACACATAGTAGCCTGCACATAGTACTACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACA
53375376 TATGTTTTCT
Statistics
Matches: 181, Mismatches: 47, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
49 81 0.45
50 62 0.34
51 34 0.19
52 3 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAA
Found at i:53378439 original size:20 final size:23
Alignment explanation
Indices: 53378390--53378440 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
53378380 GCTAAATTCA
53378390 TGAACCATTTTTAATGTATTAGTG
1 TGAA-CATTTTTAATGTATTAGTG
*
53378414 TAAACATTTTT-AT-TATT-GTG
1 TGAACATTTTTAATGTATTAGTG
53378434 TGAACAT
1 TGAACAT
53378441 ATAGATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 9 0.36
21 4 0.16
22 2 0.08
23 7 0.28
24 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (23 bp):
TGAACATTTTTAATGTATTAGTG
Found at i:53382158 original size:19 final size:21
Alignment explanation
Indices: 53382136--53382182 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
53382126 CTAAAACTAT
53382136 CAAAACTTA-ATAAA-GAAAA
1 CAAAACTTATATAAAGGAAAA
*
53382155 CAAAACTAATATAAAGGAAAA
1 CAAAACTTATATAAAGGAAAA
53382176 -AAAACTT
1 CAAAACTT
53382183 GGTGAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 11 0.46
21 5 0.21
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (21 bp):
CAAAACTTATATAAAGGAAAA
Found at i:53384555 original size:81 final size:81
Alignment explanation
Indices: 53384409--53384585 Score: 327
Period size: 81 Copynumber: 2.2 Consensus size: 81
53384399 TTTGTGTAAA
*
53384409 TGATCTTATGATATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGG
1 TGATGTTATG-TATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGG
53384474 CCAATCTAAGTCATATT
65 CCAATCTAAGTCATATT
*
53384491 TGATGTTATGTATGGCTGTGGTTTGGCACGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
1 TGATGTTATGTATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
53384556 CAATCTAAGTCATATT
66 CAATCTAAGTCATATT
53384572 TGATGTTATGTATG
1 TGATGTTATGTATG
53384586 TTTAAAATGC
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
81 84 0.90
82 9 0.10
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (81 bp):
TGATGTTATGTATGGCTGTGGTTTGGCAAGAAAAGGGTTTGTAAATGATTAGCCATTGGAATGGC
CAATCTAAGTCATATT
Found at i:53396890 original size:43 final size:43
Alignment explanation
Indices: 53396814--53396956 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
53396804 CCAGATATGT
* * * * * * *
53396814 TCTTACATGTTATCAC-ATATCGATTCCATTGTCCTAAATAGGG
1 TCTTACATGTAATCGCAATA-CGATGCCAATGTCCCAAACATGG
* *
53396857 TCTTACATGTAATTG-ATTAACGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCGCAAT-ACGATGCCAATGTCCCAAACATGG
* * *
53396900 TCTTACACGTAATCGCAATACAATGCCAATGTCCCAGACATGG
1 TCTTACATGTAATCGCAATACGATGCCAATGTCCCAAACATGG
53396943 TCTTACATGTAATC
1 TCTTACATGTAATC
53396957 ACATCTCGGT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
43 79 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
TCTTACATGTAATCGCAATACGATGCCAATGTCCCAAACATGG
Found at i:53399588 original size:13 final size:13
Alignment explanation
Indices: 53399570--53399594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53399560 CATTGCTCGT
53399570 TGACTACATTCGG
1 TGACTACATTCGG
53399583 TGACTACATTCG
1 TGACTACATTCG
53399595 CCTTTCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGACTACATTCGG
Found at i:53405321 original size:8 final size:8
Alignment explanation
Indices: 53405308--53405341 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
53405298 CTTGTTCTTA
53405308 AAAAAAAT
1 AAAAAAAT
53405316 AAAAAAAT
1 AAAAAAAT
*
53405324 ATAAAAAT
1 AAAAAAAT
*
53405332 ATAAAAAT
1 AAAAAAAT
53405340 AA
1 AA
53405342 TTATATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:53410166 original size:21 final size:21
Alignment explanation
Indices: 53410142--53410181 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
53410132 TTAAATTTCA
53410142 AACTAAATTAGAAAATTTAGT
1 AACTAAATTAGAAAATTTAGT
53410163 AACTAAATTAGAAAATTTA
1 AACTAAATTAGAAAATTTA
53410182 ATTGTTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTAAATTAGAAAATTTAGT
Found at i:53410287 original size:15 final size:17
Alignment explanation
Indices: 53410269--53410300 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53410259 TTAATGTTAC
53410269 TTTTAT-TA-AATTATT
1 TTTTATCTAGAATTATT
53410284 TTTTATCTAGAATTATT
1 TTTTATCTAGAATTATT
53410301 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTATCTAGAATTATT
Found at i:53422603 original size:39 final size:39
Alignment explanation
Indices: 53422549--53422812 Score: 429
Period size: 39 Copynumber: 6.8 Consensus size: 39
53422539 TTTCCAACAA
53422549 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
*
53422588 GAATGCCTTCAGGACTTAGCCCGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* * * *
53422627 AAATACCTTCGAGACTTAGCCTGGATATAACACCAGCAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
*
53422666 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAT
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
* *
53422705 GAATGCCTTCGGGACTTAGCCCGGACATAACACCAGAAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
** *
53422744 GAATGCCTTCAAGACTTAGCCCGGATATAACACCAGTAC
1 GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
53422783 GAATGCCTTCGGGACTTAGCCCGGATATAA
1 GAATGCCTTCGGGACTTAGCCCGGATATAA
53422813 ATCTTACACA
Statistics
Matches: 205, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 205 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
GAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCAC
Found at i:53426238 original size:55 final size:54
Alignment explanation
Indices: 53426151--53426407 Score: 196
Period size: 55 Copynumber: 4.8 Consensus size: 54
53426141 ATTAGGGTTT
*
53426151 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTTTCTAAGGC
* * * *
53426206 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAA-GTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTT--TCTAAGGC
* * * *
53426261 AAAGG-T-CCAATGTAAGACCATACCAAGGCATGGCATTGGTGA-G-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTC-TAAGGC
* * * * *
53426314 AAGGATACCATGTAAAACCATGTCGAGACAT-GACAATGCT-AGGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGGTTTCTAAGGC
* * * *
53426363 AAGGATACCAAGTATGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGT
53426408 ACTCGTGTAT
Statistics
Matches: 163, Mismatches: 26, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
49 28 0.17
50 6 0.04
51 1 0.01
52 9 0.06
53 32 0.20
54 15 0.09
55 68 0.42
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTCTAAGGC
Found at i:53430100 original size:45 final size:45
Alignment explanation
Indices: 53430046--53430407 Score: 336
Period size: 45 Copynumber: 7.7 Consensus size: 45
53430036 ATGAGAGCTG
53430046 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
* * * *
53430091 GTGTAAGACCATGTCAT-GGACATGGCATCGGCACTGATAGATGAGAGCTA
1 GTGTAAGACCATGTC-TGGGACATGGCATCGG--CTTA-ATATGTG-TC-A
* * * *
53430141 GTGTAAGACCTTGTCTGGGACATGGCATCAGCTTGATATGTGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
* * *
53430186 GTGTAAGACCATGTCTGGGGCATGGTATCGGCACTGATAGATGA-GAGCTC-
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--CT--TA-AT-ATGTG-TCA
* *
53430236 GTGTAAGACCATGTCTAGGG-CATGGCATCGGCTTGATATGTATCA
1 GTGTAAGACCATGTCT-GGGACATGGCATCGGCTTAATATGTGTCA
* * * *
53430281 GTGTAAGACCATGTCTGGGACATGGCATCGACACTGATAGATGAGATCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCG--GCTTA-ATATGTG-TC-A
* * *
53430331 GTGTAAGACCATGTCTAGGACATGGAATCGGCTTGATATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
*
53430376 ATGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
53430408 CTGGATATAC
Statistics
Matches: 255, Mismatches: 39, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
44 6 0.02
45 116 0.45
46 4 0.02
47 17 0.07
48 15 0.06
49 5 0.02
50 87 0.34
51 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (45 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCA
Found at i:53430199 original size:95 final size:95
Alignment explanation
Indices: 53430031--53430506 Score: 611
Period size: 95 Copynumber: 5.0 Consensus size: 95
53430021 TGATGCTAGG
* * *
53430031 GATATATGAGAGCTGGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAATATGTGTCAGTGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
53430096 AGACCATGTCAT-GGACATGGCATCGGCACT
66 AGACCATGTC-TGGGACATGGCATCGGCACT
* * *
53430126 GATAGATGAGAGCTAGTGTAAGACCTTGTCTGGGACATGGCATCAGCTTGATATGTGTTAGTGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
* *
53430191 AGACCATGTCTGGGGCATGGTATCGGCACT
66 AGACCATGTCTGGGACATGGCATCGGCACT
* *
53430221 GATAGATGAGAGCTCGTGTAAGACCATGTCTAGGG-CATGGCATCGGCTTGATATGTATCAGTGT
1 GATAGATGAGAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCTTGATATGTGTCAGTGT
*
53430285 AAGACCATGTCTGGGACATGGCATCGACACT
65 AAGACCATGTCTGGGACATGGCATCGGCACT
* * * *
53430316 GATAGATGAGATCTAGTGTAAGACCATGTCTAGGACATGGAATCGGCTTGATATGTGTCAATGTA
1 GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
53430381 AGACCATGTCTGGGACATGGCATCGGC-CT
66 AGACCATGTCTGGGACATGGCATCGGCACT
* * * * * * * * *
53430410 GGATATACGAGAGGC-AGTGTAAG-CCATGTTTGGGACATGGTATCGACATTGGTGGGTGAGCCA
1 -GATAGATGAGA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT--ATGTGTCA
* * *
53430473 ATGTAAGACCATGTCTGAGACATGGCGTCGGCAC
61 GTGTAAGACCATGTCTGGGACATGGCATCGGCAC
53430507 CTTACCCTAT
Statistics
Matches: 336, Mismatches: 36, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
94 25 0.07
95 271 0.81
96 4 0.01
97 35 0.10
98 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (95 bp):
GATAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
AGACCATGTCTGGGACATGGCATCGGCACT
Found at i:53436646 original size:23 final size:24
Alignment explanation
Indices: 53436617--53436662 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
53436607 TATATAACAC
53436617 ATCATTCATT-T-ATATATATTCAT
1 ATCATTCATTGTCATATAT-TTCAT
53436640 ATCATTCATTGTCATATATTTCA
1 ATCATTCATTGTCATATATTTCA
53436663 CATGTGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 5 0.24
25 6 0.29
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (24 bp):
ATCATTCATTGTCATATATTTCAT
Found at i:53436921 original size:42 final size:44
Alignment explanation
Indices: 53436867--53436967 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 44
53436857 AACAAATATT
* * *
53436867 GATGCCACTGTCCCAAAAAAGGGCTTACACG-AAATCATATA-C
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
* * * * *
53436909 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
53436953 GATGCCAATGTCCCA
1 GATGCCAATGTCCCA
53436968 GATGTGGTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 25 0.52
43 8 0.17
44 15 0.31
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (44 bp):
GATGCCAATGTCCCAAAAAAGGGCTTACACGTAAATCACAAATC
Found at i:53436963 original size:44 final size:42
Alignment explanation
Indices: 53436867--53436982 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
53436857 AACAAATATT
* * * * * * *
53436867 GATGCCACTGTCCCAAAAAAGGGCTTACACGAAATCATATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
*
53436909 GATGCCAATGTCCTAGACATGGTCTTACACGTAAATCACAAATC
1 GATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACAAA-C
**
53436953 GATGCCAATGTCCCAGATGTGGTCTTACAC
1 GATGCCAATGTCCCAGACATGGTCTTACAC
53436983 AATAACACAT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 25 0.41
43 8 0.13
44 28 0.46
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAAC
Found at i:53440728 original size:50 final size:50
Alignment explanation
Indices: 53440613--53440891 Score: 301
Period size: 50 Copynumber: 5.5 Consensus size: 50
53440603 TGAGAACACA
* * *** *
53440613 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACG
* * * *
53440665 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* * * * *
53440715 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAGTT-AGGTCACG
* * *
53440766 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
* ** *
53440816 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
53440866 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53440892 TGCCTACCCG
Statistics
Matches: 187, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 114 0.61
51 39 0.21
52 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACG
Found at i:53440803 original size:101 final size:101
Alignment explanation
Indices: 53440660--53440841 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
53440650 TGGTTTTAGG
* * *
53440660 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
53440725 TAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
66 AAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
* * * *
53440761 TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
53440826 AAAGTGCAGGCTACTA
66 AAAGTGCAGGCTACTA
53440842 CGTGTACCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAACTGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
AAAGTGCAGGCTACTATGCGTACCCAACAACTTCAA
Found at i:53440889 original size:151 final size:152
Alignment explanation
Indices: 53440613--53440905 Score: 471
Period size: 151 Copynumber: 1.9 Consensus size: 152
53440603 TGAGAACACA
** * * *
53440613 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACAAA
*
53440678 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
53440743 CGTACCCAACAACTTCAATCACG
130 CCTACCCAACAACTTCAATCACG
*
53440766 TGTGTAGTACTAACTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACAAAG
1 TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
* *
53440830 TGCAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
*
53440895 CTACCCGACAA
131 CTACCCAACAA
53440906 GGTACGGACA
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
151 94 0.73
153 35 0.27
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (152 bp):
TGTGTAGTACTAACTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACAAAG
TGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
CTACCCAACAACTTCAATCACG
Found at i:53442252 original size:133 final size:132
Alignment explanation
Indices: 53442011--53442275 Score: 467
Period size: 133 Copynumber: 2.0 Consensus size: 132
53442001 TAACAAAACA
*
53442011 TGTAACTTGTGTTCATTTTGTTCTTGGTTGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
1 TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
*
53442076 TTAGATATTCACCTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
66 TTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
53442141 AC
131 AC
* *
53442143 TGTAATTTGTGTTCATTTTGTTCTTGGTCGCTGAAATTAAAGAAAGAAAAGCTAAGGTTCTTGTG
1 TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCT-AGGTTCTTGTG
* *
53442208 TTTAGATATTCAACTACTTCGAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAATTTC
65 TTTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTC
53442273 TAC
130 TAC
53442276 GTTTTTCTAA
Statistics
Matches: 126, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
132 50 0.40
133 76 0.60
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (132 bp):
TGTAACTTGTGTTCATTTTGTTCTTGGTCGCCGAAATTAAAGAAAGAAAAGCTAGGTTCTTGTGT
TTAGATATTCAACTACTTCCAAGCTTGATTAAGGTATGGTTTTGACTCAGTTTTTGATAACTTCT
AC
Found at i:53443155 original size:43 final size:43
Alignment explanation
Indices: 53442985--53443156 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
53442975 ACATAAGATC
* *
53442985 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
**
53443028 CGACT-TACGATTTACGTGTAAGACCACG-CTTGGGACGTTGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGTC-TGGGACGTTGGCAT
** * *
53443072 CG-TATTTGATTTTGTGTAAGATCC-TGTCTAGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGA-CCACGTCTGGGAC-GTTGGCAT
* * *
53443114 CGATATTTTATTACGAGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
53443157 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
42 28 0.27
43 41 0.40
44 30 0.29
45 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:53443310 original size:33 final size:33
Alignment explanation
Indices: 53443268--53443340 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
53443258 GTAAATTTGA
53443268 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
1 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
53443301 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
1 ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
53443334 ATATGTA
1 AT-TGTA
53443341 CCTTGATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 35 0.90
34 4 0.10
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (33 bp):
ATTGTATACCATCTTTGAGGTTGAAAGGTAAGT
Found at i:53457038 original size:19 final size:19
Alignment explanation
Indices: 53457005--53457044 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53456995 TTAAAAATGA
* *
53457005 AAAATAAATGGAAAGAAGC
1 AAAATAAAAGCAAAGAAGC
*
53457024 AAAATAAAAGCAAAGAGGC
1 AAAATAAAAGCAAAGAAGC
53457043 AA
1 AA
53457045 TGGGTGTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAATAAAAGCAAAGAAGC
Found at i:53457419 original size:65 final size:65
Alignment explanation
Indices: 53457338--53457468 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
53457328 AAAATTCGAT
*
53457338 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACTCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
53457403 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
1 TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
53457468 T
1 T
53457469 ATCCAAATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (65 bp):
TTTTCTCTCAAACCCATAATCTAATGTCCAATTCTACTAACCCGATTTTCGAGATGTGACATTTG
Found at i:53458113 original size:51 final size:51
Alignment explanation
Indices: 53458057--53458164 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
53458047 CCAAACATCT
* * *
53458057 ATTCATATGAAATAAT-AGTTCTTACCAAATGAC-ATCTCATTCAAAATAATA
1 ATTCATATGAAAT-ATCAGTTCATACCAAATAACAAT-TCATGCAAAATAATA
*
53458108 GTTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
1 ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
53458159 ATTCAT
1 ATTCAT
53458165 GCTCCATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.04
51 46 0.92
52 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (51 bp):
ATTCATATGAAATATCAGTTCATACCAAATAACAATTCATGCAAAATAATA
Found at i:53458165 original size:17 final size:17
Alignment explanation
Indices: 53458134--53458166 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53458124 AGTTCATACC
53458134 AAATAACAATTCATGCA
1 AAATAACAATTCATGCA
*
53458151 AAATAATAATTCATGC
1 AAATAACAATTCATGC
53458167 TCCATCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (17 bp):
AAATAACAATTCATGCA
Found at i:53463280 original size:23 final size:21
Alignment explanation
Indices: 53463244--53463288 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
53463234 ATTTTAATAT
53463244 TTTAATTAATTAATTCCTAATTA
1 TTTAATTAATTAA-T-CTAATTA
53463267 TTTAATT-ATATAATCTAATTA
1 TTTAATTAAT-TAATCTAATTA
53463288 T
1 T
53463289 AGTTTTCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 10 0.48
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAATTAATTAATCTAATTA
Found at i:53463286 original size:32 final size:31
Alignment explanation
Indices: 53463217--53463287 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
53463207 TCCTAATAAA
*
53463217 AATT-ATTAATTCTAATTATTTTAATATTTT
1 AATTAATTAATTCTAATTATTTTAATATTAT
53463247 AATTAATTAATTCCTAATTA-TTTAAT-TATAT
1 AATTAATTAATT-CTAATTATTTTAATAT-TAT
53463278 AATCTAATTA
1 AAT-TAATTA
53463288 TAGTTTTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 5 0.14
31 18 0.50
32 13 0.36
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTAATTAATTCTAATTATTTTAATATTAT
Found at i:53465265 original size:28 final size:28
Alignment explanation
Indices: 53465219--53465292 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
53465209 TGGCCCCTTT
*
53465219 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
53465247 -GGCCCTAATCACATTCATATGGCCCATC
1 AGGCCC-AATCACATTCATATGGCCCATC
53465275 AGGCCCAATCACATTCAT
1 AGGCCCAATCACATTCAT
53465293 GGTCATGCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 5 0.12
28 33 0.77
29 5 0.12
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:53488492 original size:46 final size:47
Alignment explanation
Indices: 53488416--53488617 Score: 217
Period size: 47 Copynumber: 4.3 Consensus size: 47
53488406 TTGCACATAG
* **
53488416 TCACATATCACACACTGAAGCCATAGCCCAGCCATGGTCTTACACGG-A
1 TCACATATCACAC-C-GATGCCATAGCCCAGATATGGTCTTACACGGAA
* * * *
53488464 TCACATATCACACTGATGCTATATCCCAGATATGGTCTTACACAGAA
1 TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
* * * * *
53488511 GCACATATCATACCGATGTCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
* * * * *
53488558 GCTCATATCACACCGATGCCATAGCCTAGCTATGGTCTTATACGGAAA
1 TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGG-AA
53488606 TCACATATCACA
1 TCACATATCACA
53488618 TGTTGCCATG
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 25 0.19
47 80 0.62
48 25 0.19
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (47 bp):
TCACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGGAA
Found at i:53488710 original size:18 final size:18
Alignment explanation
Indices: 53488689--53488725 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
53488679 CTAAATCCGT
53488689 CGTTCCATCTAATTTGTA
1 CGTTCCATCTAATTTGTA
53488707 CGTTCCATCTAATTTGTA
1 CGTTCCATCTAATTTGTA
53488725 C
1 C
53488726 TTTTACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (18 bp):
CGTTCCATCTAATTTGTA
Found at i:53489227 original size:16 final size:16
Alignment explanation
Indices: 53489208--53489238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53489198 TTCTATCAAA
*
53489208 ATCACTTAATAAAATC
1 ATCACATAATAAAATC
53489224 ATCACATAATAAAAT
1 ATCACATAATAAAAT
53489239 AAGAACTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (16 bp):
ATCACATAATAAAATC
Found at i:53491876 original size:16 final size:16
Alignment explanation
Indices: 53491855--53491887 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53491845 GTTTACATTA
53491855 TACT-AATATTATATAT
1 TACTAAATATT-TATAT
53491871 TACTAAATATTTATAT
1 TACTAAATATTTATAT
53491887 T
1 T
53491888 TTGTGTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TACTAAATATTTATAT
Found at i:53492163 original size:5 final size:5
Alignment explanation
Indices: 53492153--53492183 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
53492143 TATAAAAAAA
53492153 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
53492184 TTAATTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:53498940 original size:19 final size:22
Alignment explanation
Indices: 53498894--53498939 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
53498884 AAGTAGGTTG
53498894 TATATTATTTTTTGTAATATTA
1 TATATTATTTTTTGTAATATTA
53498916 TATATTATTTTTAT-TAAT-TTA
1 TATATTATTTTT-TGTAATATTA
53498937 TAT
1 TAT
53498940 TTTAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 16 0.70
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTTGTAATATTA
Found at i:53498992 original size:21 final size:20
Alignment explanation
Indices: 53498963--53499002 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53498953 ATATTAAGAA
53498963 TATTATTAAATTATATATTAT
1 TATTATTAAATTATA-ATTAT
*
53498984 TATTGTTAAATTATAATTA
1 TATTATTAAATTATAATTA
53499003 ATAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTATTAAATTATAATTAT
Found at i:53499065 original size:61 final size:59
Alignment explanation
Indices: 53498912--53499070 Score: 185
Period size: 61 Copynumber: 2.6 Consensus size: 59
53498902 TTTTTGTAAT
* *** **
53498912 ATTATATATTATTTTTATTAATTTATATTTTAATAATTGCTATATTAAGAATATTATTAA
1 ATTATATATTATTTTTATTAAATTATA-TTTAATAATAAATATATTAAGAATAGGATTAA
* * * *
53498972 ATTATATATTATTATTGTTAAATTATAATTAATAATAAATTTATTAA-AATAGGATTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAAATATATTAAGAATAGGATTAA
53499030 ATTATGTATTATTATTTTTATTAAATTATATTTAATAATAA
1 ATTA--TA-TATTATTTTTATTAAATTATATTTAATAATAA
53499071 TCCTATTAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 13 0.16
59 15 0.18
60 26 0.31
61 29 0.35
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (59 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAAATATATTAAGAATAGGATTAA
Found at i:53499262 original size:16 final size:16
Alignment explanation
Indices: 53499241--53499288 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
53499231 AATTAATTTG
53499241 CTATTACAGTTCTATT
1 CTATTACAGTTCTATT
**
53499257 CTATTACAACTCTATT
1 CTATTACAGTTCTATT
* *
53499273 CCATTATAGTTCTATT
1 CTATTACAGTTCTATT
53499289 ACATTACAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.04, T:0.48
Consensus pattern (16 bp):
CTATTACAGTTCTATT
Found at i:53499295 original size:32 final size:32
Alignment explanation
Indices: 53499243--53499312 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
53499233 TTAATTTGCT
*
53499243 ATTACAGTTCTATTCTATTACAACTCTATTCC
1 ATTACAGTTCTATTCTATTACAACCCTATTCC
*
53499275 ATTATAGTTCTATTAC-ATTACAACCCTATTCC
1 ATTACAGTTCTATT-CTATTACAACCCTATTCC
53499307 ATTACA
1 ATTACA
53499313 CTGAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (32 bp):
ATTACAGTTCTATTCTATTACAACCCTATTCC
Found at i:53502983 original size:14 final size:15
Alignment explanation
Indices: 53502953--53502990 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
53502943 GCCTCTTTTG
53502953 CATTT-CATTTCATT
1 CATTTGCATTTCATT
53502967 CATTTGCATTTCA-T
1 CATTTGCATTTCATT
*
53502981 CATATGCATT
1 CATTTGCATT
53502991 AAGTTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (15 bp):
CATTTGCATTTCATT
Found at i:53508531 original size:189 final size:186
Alignment explanation
Indices: 53508105--53508661 Score: 611
Period size: 189 Copynumber: 3.0 Consensus size: 186
53508095 AGAAATCAAA
** * *
53508105 AATCCTATACAGCTGAAGTTGCAGTAGGTCGAATCAAATCTACCATGGCGAATCTTTTCTCCCTG
1 AATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCGAATCTTATCTCCCTG
* ** * * * * * * *
53508170 AAGTTGTAGTGGAGCAGATTGAAGCCGCGAACCTTATCTACCTGAAGTTTCAGTGGAGCAGGCTA
66 AAGTTGCAGAAGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTG
* *
53508235 AAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTACGAGTTAC
131 AAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTA--AG-TAC
* * * * * *
53508294 AAGTCCTATACCTCTGAAGTTGTAATAGGTCAGATCAAATCGACCATGGTGAATCTTATCTCTCT
1 AA-TCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCGAATCTTATCTCCCT
* * *
53508359 AAAGTTGCAGAAGAGCAGATTAAAGCCACAAACAACAAATCTCATCTCCCTAAAGTTGCAGTGGA
65 GAAGTTGCAGAAGAGCAGATTGAAGCCACAAAC--C---T-T-ATCTCCCTGAAGTTGCAGTGGA
* * * * *
53508424 GCAAGTTGAAGTTA-CAAGTCTTATATCTCTGAAGTTGCAGTAAAATAGATTAAAGCT-A-T-G
123 GCAAGTTGAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTAAGTAC
* *
53508484 AATCCTATACCTCTGAAGTTGCAGCAGGTTGGATCAAATCTACCATGGCGAATCTTATCTCCCTG
1 AATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCGAATCTTATCTCCCTG
* * * * *
53508549 AAGTTACAGTAA-AGCAGATTGAAGCCCCAAACCTTATCTCCCTGAAGTTGCAGTGAAGTAAATT
66 AAGTTGCAG-AAGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTT
* * *
53508613 GAAGATAGCAAATATTATTTCCCTGAAGTTGCAGTAGAATAGACTAAAG
130 GAAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAATAGATTAAAG
53508662 GTACAGATTA
Statistics
Matches: 305, Mismatches: 53, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
182 31 0.10
183 36 0.12
184 1 0.00
187 1 0.00
189 82 0.27
190 82 0.27
191 1 0.00
192 1 0.00
193 1 0.00
195 1 0.00
196 39 0.13
197 29 0.10
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (186 bp):
AATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGCGAATCTTATCTCCCTG
AAGTTGCAGAAGAGCAGATTGAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTG
AAGATAGCAAATCTTATTTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTAAGTAC
Found at i:53510541 original size:26 final size:25
Alignment explanation
Indices: 53510465--53510541 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 25
53510455 ATTTAGACGG
53510465 TTTTTATACATTATTTATTTCAAATTTA
1 TTTTTATAC-TTATTTATTT-AAA-TTA
53510493 TTTTTCATA-TTATTTATTCTAAA-TA
1 TTTTT-ATACTTATTTATT-TAAATTA
53510518 TTTTTATACGTTATTTATGTTAAA
1 TTTTTATAC-TTATTTAT-TTAAA
53510542 CCATTATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
24 3 0.07
25 7 0.16
26 12 0.27
27 13 0.30
28 6 0.14
29 3 0.07
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTTTATACTTATTTATTTAAATTA
Found at i:53510856 original size:46 final size:47
Alignment explanation
Indices: 53510739--53510862 Score: 121
Period size: 46 Copynumber: 2.7 Consensus size: 47
53510729 ATTTTTCACA
* * *
53510739 TATTATTTATTTTAGACTTTCTA-TGTTTTCTTTTAAATTGTTATATG
1 TATTAATTATTTTAGACTTT-TATTATTTTATTTTAAATTGTTATATG
* ** * *
53510786 TATT-ATTCATTTTA-AGTTGCATTATTTTATTTTAAATTGTTTTGTG
1 TATTAATT-ATTTTAGACTTTTATTATTTTATTTTAAATTGTTATATG
*
53510832 TATTAATTATTTTAGA-TTTTATTATATTATT
1 TATTAATTATTTTAGACTTTTATTATTTTATT
53510863 CCCTTTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.02
46 47 0.76
47 14 0.23
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (47 bp):
TATTAATTATTTTAGACTTTTATTATTTTATTTTAAATTGTTATATG
Found at i:53515227 original size:34 final size:34
Alignment explanation
Indices: 53515188--53515257 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
53515178 TCAAATAAAC
53515188 ACCAAAATTAATACATTTCAAAGCCAAAACACTA
1 ACCAAAATTAATACATTTCAAAGCCAAAACACTA
53515222 ACCAAAATTAATACATTTCAAAGCCAAAACACTA
1 ACCAAAATTAATACATTTCAAAGCCAAAACACTA
53515256 AC
1 AC
53515258 TCACATAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.20
Consensus pattern (34 bp):
ACCAAAATTAATACATTTCAAAGCCAAAACACTA
Found at i:53516246 original size:21 final size:21
Alignment explanation
Indices: 53516220--53516259 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
53516210 CCGTGTGTCA
53516220 CACACGGTCTAGACACATGCC
1 CACACGGTCTAGACACATGCC
53516241 CACACGGTCTAGACACATG
1 CACACGGTCTAGACACATG
53516260 TCTGTGTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (21 bp):
CACACGGTCTAGACACATGCC
Found at i:53521059 original size:17 final size:18
Alignment explanation
Indices: 53521037--53521071 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53521027 CATAACAGCC
53521037 CACATTTTCCT-TCCTTT
1 CACATTTTCCTATCCTTT
*
53521054 CACATTTTTCTATCCTTT
1 CACATTTTCCTATCCTTT
53521072 TCTACAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.54
Consensus pattern (18 bp):
CACATTTTCCTATCCTTT
Found at i:53524069 original size:28 final size:28
Alignment explanation
Indices: 53524006--53524159 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
53523996 AAATTAAGTC
* *
53524006 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
53524033 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
53524061 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
53524089 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
53524117 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
53524145 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53524160 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.18
28 99 0.82
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:53524096 original size:56 final size:56
Alignment explanation
Indices: 53524006--53524184 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
53523996 AAATTAAGTC
* *
53524006 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* *
53524061 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
53524117 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACT
53524174 CGCACACTTAG
1 CGCACACTTAG
53524185 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
55 21 0.19
56 75 0.68
57 15 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:53532273 original size:27 final size:27
Alignment explanation
Indices: 53532229--53532378 Score: 232
Period size: 28 Copynumber: 5.6 Consensus size: 27
53532219 TAATTAAGTC
* *
53532229 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
53532256 CGCA-ACTTAGTGC-ATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
53532281 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
53532309 CGCACACTTAGTGCTACATAATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
53532336 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAA-CT
53532364 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53532379 GTACAATTTA
Statistics
Matches: 115, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
25 16 0.14
26 17 0.15
27 39 0.34
28 43 0.37
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53532341 original size:55 final size:55
Alignment explanation
Indices: 53532229--53532378 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
53532219 TAATTAAGTC
* * *
53532229 CGCACACTCAGTGCTATATAATC-AACTCGCA-ACTTAGTGC-ATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
*
53532281 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
*
53532336 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCT
53532379 GTACAATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 21 0.23
53 8 0.09
54 9 0.10
55 52 0.58
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:53548671 original size:13 final size:13
Alignment explanation
Indices: 53548653--53548681 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
53548643 GGTTGTTTAT
53548653 TAAACTAATTAAC
1 TAAACTAATTAAC
53548666 TAAACTAATTAAC
1 TAAACTAATTAAC
53548679 TAA
1 TAA
53548682 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:53558022 original size:22 final size:22
Alignment explanation
Indices: 53557996--53558039 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53557986 AAAAACTAGC
53557996 AAATTAAAATAAAAAGAAAAAT
1 AAATTAAAATAAAAAGAAAAAT
* *
53558018 AAATTACAATAAAAATAAAAAT
1 AAATTAAAATAAAAAGAAAAAT
53558040 GGCTAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATTAAAATAAAAAGAAAAAT
Found at i:53560770 original size:39 final size:41
Alignment explanation
Indices: 53560725--53560811 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
53560715 TAAGCCTCTT
* * * *
53560725 TCAGTATC-AATAACTATTTGGGCCTTAGCCCATCTCAGTA
1 TCAGTATCAAATAACTAGTAGGGACTTAGCCCATCACAGTA
**
53560765 -CAGTATCAAATATGTAGTAGGGACTTAGCCCATCACAGTA
1 TCAGTATCAAATAACTAGTAGGGACTTAGCCCATCACAGTA
53560805 TCAGTAT
1 TCAGTAT
53560812 GCATTAGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
39 7 0.18
40 26 0.67
41 6 0.15
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (41 bp):
TCAGTATCAAATAACTAGTAGGGACTTAGCCCATCACAGTA
Found at i:53560831 original size:34 final size:34
Alignment explanation
Indices: 53560764--53560849 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
53560754 CCATCTCAGT
* * *
53560764 ACAGTATCAAATATGTAGTAGGGACTTAGCCCATC
1 ACAGTATC-AGTATGCAGTAGGGACTTAACCCATC
* *
53560799 ACAGTATCAGTATGCATTAGGGCCTTAACCCATC
1 ACAGTATCAGTATGCAGTAGGGACTTAACCCATC
*
53560833 ACAGTATTAGTA-GCAGT
1 ACAGTATCAGTATGCAGT
53560850 CATGCAGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 4 0.09
34 32 0.73
35 8 0.18
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGACTTAACCCATC
Found at i:53567563 original size:23 final size:24
Alignment explanation
Indices: 53567512--53567564 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
53567502 GCAAGAGAAT
53567512 AAAGA-AAAATGGATGAGAAATGA
1 AAAGAGAAAATGGATGAGAAATGA
* *
53567535 AGAGAGAAAATTGA-GAGAGAA-GA
1 AAAGAGAAAATGGATGAGA-AATGA
53567558 AAAGAGA
1 AAAGAGA
53567565 TGAGAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.09
Consensus pattern (24 bp):
AAAGAGAAAATGGATGAGAAATGA
Found at i:53569240 original size:41 final size:40
Alignment explanation
Indices: 53569187--53569356 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
53569177 AGTCCGACTC
*
53569187 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * **
53569226 TTAGACTACTGGCTCGAAGGCCCTTCG-GAATTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
53569266 TTATGTCACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
53569311 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
53569350 TTTAGAC
1 -TTAGAC
53569357 CCCGATTAGC
Statistics
Matches: 104, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 49 0.47
42 18 0.17
43 10 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:53575292 original size:40 final size:39
Alignment explanation
Indices: 53575248--53575374 Score: 191
Period size: 40 Copynumber: 3.2 Consensus size: 39
53575238 GCTCCTCGTT
* * *
53575248 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
53575288 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCGCA
53575328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
53575368 CAAATGC
1 CAAATGC
53575375 GTAACTCACA
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.95
41 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:53575380 original size:17 final size:17
Alignment explanation
Indices: 53575358--53575391 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53575348 CCCGGATTTA
*
53575358 GTAACTCGCACAAATGC
1 GTAACTCACACAAATGC
53575375 GTAACTCACACAAATGC
1 GTAACTCACACAAATGC
53575392 CTTCGGGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (17 bp):
GTAACTCACACAAATGC
Found at i:53575406 original size:57 final size:57
Alignment explanation
Indices: 53575318--53575431 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
53575308 CCCAGATTTA
*
53575318 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 GTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
53575375 GTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 GTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
53575432 CTTCGGGCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (57 bp):
GTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:53575462 original size:39 final size:40
Alignment explanation
Indices: 53575375--53575476 Score: 161
Period size: 39 Copynumber: 2.6 Consensus size: 40
53575365 GCACAAATGC
* *
53575375 GTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTA
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTA
*
53575415 GTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTA
1 GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTA
*
53575454 GTATCTCGCACAAATGCCTTCGG
1 GTAACTCGCACAAATGCCTTCGG
53575477 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.60
40 23 0.40
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTA
Found at i:53582674 original size:40 final size:40
Alignment explanation
Indices: 53582630--53582893 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
53582620 GCTCCTCGTT
* * *
53582630 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
53582670 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
53582710 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
53582750 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
53582790 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
53582829 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
53582870 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53582894 CAGCATTCAA
Statistics
Matches: 203, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 47 0.23
40 145 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53588158 original size:41 final size:40
Alignment explanation
Indices: 53588113--53588274 Score: 109
Period size: 41 Copynumber: 3.9 Consensus size: 40
53588103 TCTTGGCACC
53588113 GGCTCAAAAGCCCTTCAAGACCAAGCTCGGATTAGACTACT
1 GGCTCAAAAGCCCTTCAAGACCAAGCTCGGATTAGAC-ACT
* * * ** *
53588154 GGCTCGAAGGCCCTTC-GGAATTAAG-TCCGG-TTATGTCACT
1 GGCTCAAAAGCCCTTCAAG-ACCAAGCT-CGGATTA-GACACT
* * *
53588194 GGCTCTAAAAAGCCCTTCGAA-ACTAAGTTCAGTTATTAG-CACT
1 GGCTC--AAAAGCCCTTC-AAGACCAAGCTC-G-GATTAGACACT
*
53588237 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGAC
1 GGCTCAAAAGCCCTTCAAGACCAAGCTCGGA-TTAGAC
53588275 CCCGATTAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
39 1 0.01
40 19 0.21
41 42 0.46
42 15 0.16
43 11 0.12
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GGCTCAAAAGCCCTTCAAGACCAAGCTCGGATTAGACACT
Found at i:53588212 original size:42 final size:40
Alignment explanation
Indices: 53588151--53588254 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 40
53588141 GGATTAGACT
* * * * *
53588151 ACTGGCTCGAAGGCCCTTCGGAATTAAGTCCGGTTATGT-C
1 ACTGGCTCAAAAGCCCTTCGAAACTAAGTCCAGTTAT-TAC
*
53588191 ACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCAGTTATTAGC
1 ACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCAGTTATTA-C
53588234 ACTGGCTCAAAAGCCCTTCGA
1 ACTGGCTCAAAAGCCCTTCGA
53588255 GACCAAGCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
40 8 0.15
41 14 0.26
42 23 0.43
43 9 0.17
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTGGCTCAAAAGCCCTTCGAAACTAAGTCCAGTTATTAC
Found at i:53590551 original size:10 final size:10
Alignment explanation
Indices: 53590532--53590580 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
53590522 GCAAATCTGC
*
53590532 CAAAAATAAT
1 CAAAATTAAT
53590542 CAAAATTAAT
1 CAAAATTAAT
53590552 CAAAATTAATT
1 CAAAATTAA-T
*
53590563 ATAAAATTAAT
1 -CAAAATTAAT
*
53590574 TAAAATT
1 CAAAATT
53590581 CATTATGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 25 0.71
11 2 0.06
12 8 0.23
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (10 bp):
CAAAATTAAT
Found at i:53590571 original size:22 final size:22
Alignment explanation
Indices: 53590543--53590586 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53590533 AAAAATAATC
53590543 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
53590565 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
53590587 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:53593515 original size:26 final size:27
Alignment explanation
Indices: 53593465--53593515 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
53593455 AGTTCATAAA
*
53593465 TTCTCTTCGAGTTTTCTTTTTAAGAAT
1 TTCTCTTCGAGTTTTCTTTTGAAGAAT
53593492 TTCTCTT-GAG-TTTCTTTTAGAAGA
1 TTCTCTTCGAGTTTTCTTTT-GAAGA
53593516 GTTTTAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 7 0.32
27 7 0.32
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (27 bp):
TTCTCTTCGAGTTTTCTTTTGAAGAAT
Found at i:53595929 original size:49 final size:49
Alignment explanation
Indices: 53595853--53596041 Score: 211
Period size: 49 Copynumber: 3.9 Consensus size: 49
53595843 ATCATAGTTA
* ** *
53595853 ATGAGATCCCGTGTAAGATTATGTCTGGGACATGGCATCGGCATTCGAG
1 ATGAGATCCCATGTAAGACCATATCTGGGACATGGCATCGGCATTCGAG
* * *
53595902 ATGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGACATCCGAG
1 ATGAGATCCCATGTAAGACCATATCTGGGACATGGCATCGGCATTCGAG
* ** * * *
53595951 ATGAGAGCCGGTGTAAGACCATATTTGGGACATGGCATCGGCGTT-GAT
1 ATGAGATCCCATGTAAGACCATATCTGGGACATGGCATCGGCATTCGAG
* * *
53595999 ATGTG-TGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCA
1 ATGAGATCCCA-TGTAAGACCATATCTGGGACATGGCATCGGCA
53596042 CCAATATGTC
Statistics
Matches: 116, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 36 0.31
49 79 0.68
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
ATGAGATCCCATGTAAGACCATATCTGGGACATGGCATCGGCATTCGAG
Found at i:53596049 original size:48 final size:48
Alignment explanation
Indices: 53595876--53596262 Score: 196
Period size: 48 Copynumber: 8.3 Consensus size: 48
53595866 TAAGATTATG
* * * *
53595876 TCTGGGACATGGCATCGGCATTCGAGATGAGATCCCA-TGTAAGACCATA
1 TCTGGGACATGGCATCGGCA-CCGATATGTGA-GCCAGTGTAAGACCATA
* * * * *
53595925 TCTGGGACATGGCATTGACATCCGAGATGAGAGCCGGTGTAAGACCATA
1 TCTGGGACATGGCATCGGCA-CCGATATGTGAGCCAGTGTAAGACCATA
* *** * *
53595974 TTTGGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATA
1 TCTGGGACATGGCATCGGCACCGATATGTGAGCCAGTGTAAGACCATA
* * * * *
53596022 TCTGGGACATGGCATCGGCACCAATATGTCATCCTGTATAAGACCATA
1 TCTGGGACATGGCATCGGCACCGATATGTGAGCCAGTGTAAGACCATA
** * * * * * **** * *
53596070 TCAAGGATATGGCTTCGGCATCGTTAAGTGATTTTGTATAAGACCATG
1 TCTGGGACATGGCATCGGCACCGATATGTGAGCCAGTGTAAGACCATA
* * * *
53596118 TCTGGGACATGGCAT---CA---ATATGAG-GTCCCGTATAAGACCATG
1 TCTGGGACATGGCATCGGCACCGATATGTGAG-CCAGTGTAAGACCATA
* * * *
53596160 TCTGGGATATGGCATCGGCACTGATATGAGA-CTTC-GTATAAGACCATA
1 TCTGGGACATGGCATCGGCACCGATATGTGAGC--CAGTGTAAGACCATA
* * *
53596208 TCTGGGATATGGCATC-G-A--TATACG-G-GCCCA-TGTAAGACCATA
1 TCTGGGACATGGCATCGGCACCGATATGTGAG-CCAGTGTAAGACCATA
53596250 TCTGGGACATGGC
1 TCTGGGACATGGC
53596263 TTTGGCACTC
Statistics
Matches: 268, Mismatches: 56, Indels: 35
0.75 0.16 0.10
Matches are distributed among these distances:
42 55 0.21
43 1 0.00
44 5 0.02
45 4 0.01
46 1 0.00
47 2 0.01
48 142 0.53
49 58 0.22
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
TCTGGGACATGGCATCGGCACCGATATGTGAGCCAGTGTAAGACCATA
Found at i:53596151 original size:42 final size:42
Alignment explanation
Indices: 53596105--53596262 Score: 140
Period size: 42 Copynumber: 3.6 Consensus size: 42
53596095 AAGTGATTTT
* *
53596105 GTATAAGACCATGTCTGGGACATGGCATCAATATGAGGTCCC
1 GTATAAGACCATATCTGGGACATGGCATCAATATGAGGACCC
* * *
53596147 GTATAAGACCATGTCTGGGATATGGCATCGGCACTGATATGA-GACTTC
1 GTATAAGACCATATCTGGGACATGGCAT---CA---ATATGAGGAC-CC
* * *
53596195 GTATAAGACCATATCTGGGATATGGCATCGATAT-ACGGGCCC
1 GTATAAGACCATATCTGGGACATGGCATCAATATGA-GGACCC
* *
53596237 ATGTAAGACCATATCTGGGACATGGC
1 GTATAAGACCATATCTGGGACATGGC
53596263 TTTGGCACTC
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 55 0.57
43 2 0.02
45 3 0.03
47 2 0.02
48 34 0.35
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (42 bp):
GTATAAGACCATATCTGGGACATGGCATCAATATGAGGACCC
Found at i:53596178 original size:90 final size:90
Alignment explanation
Indices: 53596057--53596271 Score: 236
Period size: 90 Copynumber: 2.4 Consensus size: 90
53596047 ATGTCATCCT
** * * * * * *
53596057 GTATAAGACCATATCAAGGATATGGCTTCGGCA-TCGTTAAGTGATTTTGTATAAGACCATGTCT
1 GTATAAGACCATATCTGGGATATGGCATCGGCACT-GATAAGAGACTTCGTATAAGACCATATCT
*
53596121 GGGACATGGCATCAATATGA-GGTCCC
65 GGGACATGGCATCAATAT-ACGGGCCC
* *
53596147 GTATAAGACCATGTCTGGGATATGGCATCGGCACTGATATGAGACTTCGTATAAGACCATATCTG
1 GTATAAGACCATATCTGGGATATGGCATCGGCACTGATAAGAGACTTCGTATAAGACCATATCTG
* *
53596212 GGATATGGCATCGATATACGGGCCC
66 GGACATGGCATCAATATACGGGCCC
* * * * *
53596237 ATGTAAGACCATATCTGGGACATGGCTTTGGCACT
1 GTATAAGACCATATCTGGGATATGGCATCGGCACT
53596272 CTATTTGGTG
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
89 1 0.01
90 102 0.98
91 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (90 bp):
GTATAAGACCATATCTGGGATATGGCATCGGCACTGATAAGAGACTTCGTATAAGACCATATCTG
GGACATGGCATCAATATACGGGCCC
Found at i:53604590 original size:18 final size:20
Alignment explanation
Indices: 53604569--53604611 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
53604559 AATTTTCCGG
*
53604569 AAATAT-TTTTTTTTCAAA-
1 AAATATGTTTTTATTCAAAC
53604587 AAAT-TGTTTTTATTCAAAC
1 AAATATGTTTTTATTCAAAC
53604606 AAATAT
1 AAATAT
53604612 AGTATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 4 0.19
20 1 0.05
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATATGTTTTTATTCAAAC
Found at i:53607111 original size:22 final size:23
Alignment explanation
Indices: 53607070--53607112 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
53607060 AATTAATAAC
53607070 ATATAATTGATATATCATATTTA
1 ATATAATTGATATATCATATTTA
53607093 ATAT-ATTAGATA-ATCATATT
1 ATATAATT-GATATATCATATT
53607113 GTTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (23 bp):
ATATAATTGATATATCATATTTA
Found at i:53615765 original size:20 final size:20
Alignment explanation
Indices: 53615740--53615779 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53615730 TGTATTTATA
* *
53615740 AAATTTTAGAATTTTTCATT
1 AAATTTTACAACTTTTCATT
53615760 AAATTTTACAACTTTTCATT
1 AAATTTTACAACTTTTCATT
53615780 TTAGTCCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (20 bp):
AAATTTTACAACTTTTCATT
Found at i:53618315 original size:27 final size:27
Alignment explanation
Indices: 53618277--53618535 Score: 338
Period size: 27 Copynumber: 9.6 Consensus size: 27
53618267 CGTACCTGAA
*
53618277 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
53618304 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
53618331 CCCTCATGTGATAAACTGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
53618358 CCCTCATGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * **
53618385 CCCTTAGGTGATAAAATGAAAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
53618412 CCCTTATGTGATAAAATGACGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
*
53618439 CCCTCATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* * * *
53618466 CCTTTAGGTGATAAAATGACAATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* ** *
53618493 CCCTTATGTGATAAAATGATAATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
53618520 CCCTTATGTGATAAAA
1 CCCTCATGTGATAAAA
53618536 AGACTGAAAT
Statistics
Matches: 207, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:53618421 original size:81 final size:81
Alignment explanation
Indices: 53618276--53618535 Score: 385
Period size: 81 Copynumber: 3.2 Consensus size: 81
53618266 GCGTACCTGA
* * * * *
53618276 ACCCTCATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAATGACGATTTTTCCCTCATGTG
1 ACCCTCATGTGATAAAATGATGATTTTGCCCTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
*
53618341 ATAAACTGACGATTTT
66 ATAAAATGACGATTTT
* ** *
53618357 GCCCTCATGTGATAAAATGACAATTTTGCCCTTAGGTGATAAAATGAAAATTTTGCCCTTATGTG
1 ACCCTCATGTGATAAAATGATGATTTTGCCCTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
53618422 ATAAAATGACGATTTT
66 ATAAAATGACGATTTT
*
53618438 ACCCTCATGTGATAAAATGATGATTTTGCCTTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
1 ACCCTCATGTGATAAAATGATGATTTTGCCCTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
**
53618503 ATAAAATGATAATTTT
66 ATAAAATGACGATTTT
* *
53618519 TCCCTTATGTGATAAAA
1 ACCCTCATGTGATAAAA
53618536 AGACTGAAAT
Statistics
Matches: 160, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 160 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (81 bp):
ACCCTCATGTGATAAAATGATGATTTTGCCCTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
ATAAAATGACGATTTT
Found at i:53618562 original size:81 final size:81
Alignment explanation
Indices: 53618276--53618565 Score: 243
Period size: 81 Copynumber: 3.6 Consensus size: 81
53618266 GCGTACCTGA
* * * * ** * *
53618276 ACCCTCATGTGATAAAATGATGATTTTGCCCTCAT--GTGATAAAATGACGATTTTTCCCTCATG
1 ACCCTCATGTGATAAAAAGATGAATATG-CCT-ATAGGAGATAAAATGAAAATTTTGCCCTTATG
* *
53618339 TGATAAACTGACGATTTT
64 TGATAAAATGACAATTTT
* * * * *
53618357 GCCCTCATGTGATAAAATGA-CAATTTTGCCCT-TAGGTGATAAAATGAAAATTTTGCCCTTATG
1 ACCCTCATGTGATAAAAAGATGAA-TATG-CCTATAGGAGATAAAATGAAAATTTTGCCCTTATG
*
53618420 TGATAAAATGACGATTTT
64 TGATAAAATGACAATTTT
* * * * * *
53618438 ACCCTCATGTGATAAAATGATGATTTTGCCTTTAGGTGATAAAATGACAATTTTGCCCTTATGTG
1 ACCCTCATGTGATAAAAAGATGAATATGCCTATAGGAGATAAAATGAAAATTTTGCCCTTATGTG
*
53618503 ATAAAATGATAATTTT
66 ATAAAATGACAATTTT
* *
53618519 TCCCTTATGTGATAAAAAGACTGAAATAT-CCTCATA-GAG-TAAAATGA
1 ACCCTCATGTGATAAAAAGA-TG-AATATGCCT-ATAGGAGATAAAATGA
53618566 TTGAAATACC
Statistics
Matches: 180, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
79 1 0.01
80 4 0.02
81 162 0.90
82 8 0.04
83 5 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (81 bp):
ACCCTCATGTGATAAAAAGATGAATATGCCTATAGGAGATAAAATGAAAATTTTGCCCTTATGTG
ATAAAATGACAATTTT
Found at i:53618627 original size:27 final size:27
Alignment explanation
Indices: 53618531--53618646 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
53618521 CCTTATGTGA
* * * *
53618531 TAAAAAGACTGAAATATCCTCATAGAG
1 TAAAATGACTGAAATACCCTCGTAGGG
* *
53618558 TAAAATGATTGAAATACCCTCATAGGG
1 TAAAATGACTGAAATACCCTCGTAGGG
* **
53618585 TAGAATGACCAAAATACCC-CTGTAGGG
1 TAAAATGACTGAAATACCCTC-GTAGGG
* * * *
53618612 TAAAATGACTGTAATACCTTGGTAAGG
1 TAAAATGACTGAAATACCCTCGTAGGG
53618639 TAAAATGA
1 TAAAATGA
53618647 TAGATTTGTT
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 70 0.99
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGTAGGG
Done.