Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 212 of 255
Found at i:70941533 original size:41 final size:41
Alignment explanation
Indices: 70941469--70941661 Score: 230
Period size: 41 Copynumber: 4.7 Consensus size: 41
70941459 TTTTAAACCT
*
70941469 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
70941510 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
70941551 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
70941592 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
70941633 TTAGCGGCATTTTT-TCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAA
70941662 AGTTCGTGTT
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
40 15 0.12
41 108 0.85
42 4 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:70941604 original size:82 final size:82
Alignment explanation
Indices: 70941467--70941661 Score: 374
Period size: 82 Copynumber: 2.4 Consensus size: 82
70941457 TTTTTTAAAC
70941467 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
70941532 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
70941549 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
70941614 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
*
70941631 CTTTAGCGGCATTTTT-TCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA
70941662 AGTTCGTGTT
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 15 0.13
82 97 0.87
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
GCCACTAATTCTCTGTT
Found at i:70941897 original size:82 final size:82
Alignment explanation
Indices: 70941801--70941977 Score: 318
Period size: 82 Copynumber: 2.2 Consensus size: 82
70941791 GTGTACTCTA
*
70941801 TTAGTGGCGTTTTAAGGGAAAACGCCGTAAATATGTCTACAAATTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAAATTTGTGAAAACGTCACCGTTTC
*
70941866 TTTCTGTAATTGAAAAT
66 TTTCTGTAATTGAAAAG
* *
70941883 TTAGTGGCGTTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAAATTTGTGAAAACGTCACCGTTTC
70941948 TTTCTGTAATTGAAAAG
66 TTTCTGTAATTGAAAAG
70941965 TTAGTGGCGTTTT
1 TTAGTGGCGTTTT
70941978 TTCCGGTAGC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (82 bp):
TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAAATTTGTGAAAACGTCACCGTTTC
TTTCTGTAATTGAAAAG
Found at i:70942900 original size:8 final size:10
Alignment explanation
Indices: 70942878--70942914 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
70942868 TATTTTTACT
70942878 TATATATGGA
1 TATATATGGA
*
70942888 TATATATGAA
1 TATATATGGA
70942898 TATATATGGA
1 TATATATGGA
70942908 TATATAT
1 TATATAT
70942915 ATATAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:70943025 original size:27 final size:27
Alignment explanation
Indices: 70942984--70943035 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
70942974 AATAAACAAA
* *
70942984 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
70943011 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
70943036 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:70944368 original size:14 final size:14
Alignment explanation
Indices: 70944349--70944378 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
70944339 ATAAAAGGTT
70944349 TTTAGTTAATCATC
1 TTTAGTTAATCATC
70944363 TTTAGTTAATCATC
1 TTTAGTTAATCATC
70944377 TT
1 TT
70944379 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:70944942 original size:11 final size:11
Alignment explanation
Indices: 70944905--70944944 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
70944895 GAATATCTCA
70944905 AACT-ATGGGT
1 AACTAATGGGT
*
70944915 AACTAGTGGGT
1 AACTAATGGGT
70944926 AACTAATGGGT
1 AACTAATGGGT
70944937 AACTAATG
1 AACTAATG
70944945 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:70945165 original size:11 final size:11
Alignment explanation
Indices: 70945138--70945170 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
70945128 TTAAACAACC
70945138 TGATTATTTTG
1 TGATTATTTTG
*
70945149 -GATTATATTG
1 TGATTATTTTG
70945159 TGATTATTTTG
1 TGATTATTTTG
70945170 T
1 T
70945171 TTAGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TGATTATTTTG
Found at i:70945834 original size:17 final size:17
Alignment explanation
Indices: 70945812--70946110 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
70945802 GTTAAATTTA
70945812 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
70945829 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
70945846 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
70945869 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
70945886 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
70945903 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
70945926 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
70945943 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
70945966 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
70945983 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
70946000 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
70946013 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
70946027 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
70946044 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
70946067 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
70946084 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
70946101 TTACTAAAAT
1 TTACTAAAAT
70946111 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:70945885 original size:40 final size:40
Alignment explanation
Indices: 70945829--70945992 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
70945819 AATACATTAC
*
70945829 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
70945869 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
70945922 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
70945966 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
70945993 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:70945891 original size:57 final size:57
Alignment explanation
Indices: 70945803--70945952 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
70945793 CGATTGAATG
70945803 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
70945860 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
70945917 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
70945953 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:70945948 original size:97 final size:97
Alignment explanation
Indices: 70945832--70946143 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
70945822 ACATTACTTA
*
70945832 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
70945897 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
70945929 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
70945994 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
70946029 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
70946094 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
70946127 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
70946144 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:70945990 original size:57 final size:60
Alignment explanation
Indices: 70945929--70946053 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
70945919 AAATTTATTT
70945929 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
70945986 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
70946047 CTAAAAT
1 CTAAAAT
70946054 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:70946061 original size:101 final size:100
Alignment explanation
Indices: 70945824--70946126 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
70945814 ACTAAAATAC
*
70945824 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
70945889 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
70945925 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
70945987 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
70946022 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
70946087 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
70946123 ATTA
1 ATTA
70946127 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:70946070 original size:40 final size:43
Alignment explanation
Indices: 70945978--70946093 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
70945968 ACTAAAATAC
*
70945978 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
70946022 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
70946064 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
70946094 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:70946097 original size:57 final size:57
Alignment explanation
Indices: 70946022--70946143 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
70946012 GTTTAAATTT
* *
70946022 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
70946079 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
70946136 GTTACTTA
1 ATTACTTA
70946144 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:70946133 original size:13 final size:13
Alignment explanation
Indices: 70946115--70946185 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
70946105 TAAAATTTGT
70946115 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
70946128 TTAAATATGTTAC
1 TTAAATTTATTAC
70946141 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
70946154 TTAAATATGTTAC
1 TTAAATTTATTAC
70946167 TTAAATTTATTAC
1 TTAAATTTATTAC
70946180 TTAAAT
1 TTAAAT
70946186 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:70946151 original size:26 final size:26
Alignment explanation
Indices: 70946115--70946186 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
70946105 TAAAATTTGT
70946115 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
70946141 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
70946167 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
70946187 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:70946415 original size:73 final size:73
Alignment explanation
Indices: 70946332--70946554 Score: 446
Period size: 73 Copynumber: 3.1 Consensus size: 73
70946322 TAAAATAAAA
70946332 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
70946397 TTAATAAT
66 TTAATAAT
70946405 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
70946470 TTAATAAT
66 TTAATAAT
70946478 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
70946543 TTAATAAT
66 TTAATAAT
70946551 TATA
1 TATA
70946555 TTAGTAATGT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 150 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:70946448 original size:38 final size:38
Alignment explanation
Indices: 70946333--70946522 Score: 148
Period size: 38 Copynumber: 5.2 Consensus size: 38
70946323 AAAATAAAAT
70946333 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
70946371 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
70946406 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
70946444 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
70946479 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
70946517 ATAAAA
1 ATAAAA
70946523 TGTTATTTTA
Statistics
Matches: 110, Mismatches: 28, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 26 0.24
35 24 0.22
36 2 0.02
37 2 0.02
38 30 0.27
39 26 0.24
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:70946674 original size:26 final size:26
Alignment explanation
Indices: 70946591--70946796 Score: 261
Period size: 26 Copynumber: 8.2 Consensus size: 26
70946581 ATTTTATTAA
70946591 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70946617 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
70946644 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
70946670 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
70946696 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
70946714 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70946739 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70946765 ATAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70946791 ACAATA
1 ATAATA
70946797 ATTATAAATA
Statistics
Matches: 157, Mismatches: 11, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
18 12 0.08
20 3 0.02
23 4 0.03
25 22 0.14
26 92 0.59
27 15 0.10
28 9 0.06
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:70946685 original size:19 final size:19
Alignment explanation
Indices: 70946610--70946689 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
70946600 AATAACTTAC
*
70946610 AACTTACATAATACAT-TT
1 AACTTACATAATACATAAT
*
70946628 AACTTACAT--TACTTACAT
1 AACTTACATAATACATA-AT
* *
70946646 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TAAT
70946663 AACTTACATAATACATAAT
1 AACTTACATAATACATAAT
70946682 AACTTACA
1 AACTTACA
70946690 ACTTACATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 15
0.68 0.10 0.22
Matches are distributed among these distances:
16 9 0.19
17 3 0.06
18 15 0.32
19 19 0.40
20 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (19 bp):
AACTTACATAATACATAAT
Found at i:70946701 original size:19 final size:19
Alignment explanation
Indices: 70946595--70946675 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
70946585 TATTAAATAA
70946595 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
70946614 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
70946632 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
70946648 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
70946667 TACATAATA
1 TACATAATA
70946676 CATAATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
15 2 0.04
16 9 0.18
17 1 0.02
18 13 0.25
19 26 0.51
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:70946746 original size:69 final size:70
Alignment explanation
Indices: 70946642--70946773 Score: 239
Period size: 69 Copynumber: 1.9 Consensus size: 70
70946632 TACATTACTT
*
70946642 ACATAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATTT
70946707 GACTG
66 GACTG
*
70946712 ACATAATACAT-TTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACAT
1 ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACAT
70946774 AATAACTTGC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 49 0.82
70 11 0.18
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (70 bp):
ACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATTT
GACTG
Found at i:70946761 original size:95 final size:96
Alignment explanation
Indices: 70946615--70946796 Score: 321
Period size: 95 Copynumber: 1.9 Consensus size: 96
70946605 CTTACAACTT
*
70946615 ACATAATACATTTAACTTACATTACTTACATAATACATAATAACTTACAACTTACATAATACATA
1 ACATAATACATTTAACTTACA-TACTTACACAATACATAATAACTTACAACTTACATAATACATA
*
70946680 ATAACTTACAACTTACATAATACATTTGACTG
65 ATAACTTACAACTTACACAATACATTTGACTG
70946712 ACATAATACATTTAACTTACA-ACTTACACAATACATAATAACTTACAACTTACATAATACATAA
1 ACATAATACATTTAACTTACATACTTACACAATACATAATAACTTACAACTTACATAATACATAA
*
70946776 TAACTTGCAACTTACACAATA
66 TAACTTACAACTTACACAATA
70946797 ATTATAAATA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
95 61 0.74
97 21 0.26
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (96 bp):
ACATAATACATTTAACTTACATACTTACACAATACATAATAACTTACAACTTACATAATACATAA
TAACTTACAACTTACACAATACATTTGACTG
Found at i:70947025 original size:74 final size:74
Alignment explanation
Indices: 70946945--70947092 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
70946935 AATAAAATAT
70946945 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
70947010 ATAATTATA
66 ATAATTATA
70947019 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
70947084 ATAATTATA
66 ATAATTATA
70947093 TTAGTAATGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (74 bp):
AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
ATAATTATA
Found at i:70947165 original size:26 final size:26
Alignment explanation
Indices: 70947129--70947432 Score: 407
Period size: 26 Copynumber: 12.1 Consensus size: 26
70947119 ATTTTATTAA
70947129 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
70947155 ATAATACATAA-AACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
70947182 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
70947208 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
70947234 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
70947252 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70947277 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
70947303 ATAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
70947329 ACAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
70947355 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
70947380 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
70947405 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
70947431 AT
1 AT
70947433 TTAACTTACA
Statistics
Matches: 252, Mismatches: 13, Indels: 26
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.05
20 3 0.01
23 4 0.02
25 68 0.27
26 140 0.56
27 17 0.07
28 8 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:70947223 original size:19 final size:19
Alignment explanation
Indices: 70947148--70947227 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
70947138 AATAACTTAC
70947148 AACTTACATAATACATAA-
1 AACTTACATAATACATAAT
*
70947166 AACTTACAT--TACTTACAT
1 AACTTACATAATACATA-AT
* *
70947184 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TAAT
70947201 AACTTACATAATACATAAT
1 AACTTACATAATACATAAT
70947220 AACTTACA
1 AACTTACA
70947228 ACTTACATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
16 10 0.21
17 4 0.08
18 14 0.29
19 19 0.40
20 1 0.02
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (19 bp):
AACTTACATAATACATAAT
Found at i:70947239 original size:19 final size:19
Alignment explanation
Indices: 70947133--70947213 Score: 91
Period size: 19 Copynumber: 4.5 Consensus size: 19
70947123 TATTAAATAA
70947133 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
70947152 TACATAAT-ACATAAAACT
1 TACATAATAACTTACAACT
*
70947170 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
70947186 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
70947205 TACATAATA
1 TACATAATA
70947214 CATAATAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
16 11 0.22
17 1 0.02
18 15 0.29
19 24 0.47
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:70947326 original size:33 final size:29
Alignment explanation
Indices: 70947305--70947431 Score: 102
Period size: 25 Copynumber: 4.9 Consensus size: 29
70947295 CAACTTACAT
70947305 AATACATAATAACTTGCAACTT---ACAC
1 AATACATAATAACTTGCAACTTACAACAC
70947331 AATACATAATAACTTGCAACTT---ACAC
1 AATACATAATAACTTGCAACTTACAACAC
* *
70947357 AATACAT-TTAACTTACAACTT---ACAC
1 AATACATAATAACTTGCAACTTACAACAC
* * *
70947382 AATACAT-TTAACTTACAACTT---ACAT
1 AATACATAATAACTTGCAACTTACAACAC
*
70947407 AATACATAATAACTTACAACTTACA
1 AATACATAATAACTTGCAACTTACA
70947432 TTTAACTTAC
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
25 47 0.51
26 46 0.49
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (29 bp):
AATACATAATAACTTGCAACTTACAACAC
Found at i:70947345 original size:121 final size:122
Alignment explanation
Indices: 70947128--70947432 Score: 443
Period size: 121 Copynumber: 2.4 Consensus size: 122
70947118 TATTTTATTA
*
70947128 AATAATACATAATAACTTACAACTTACATAATACATAA-AACTTACATTACTTACATAATACATA
1 AATAATACAT-TTAACTTACAACTTACATAATACATAATAACTTACA--ACTTACATAATACATA
* * *
70947192 ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTGACTGAC
63 ATAACTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
*
70947252 -ATAATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATA
1 AATAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATAATA
* * *
70947316 ACTTGCAACTTACACAATACATAATAACTTGCAACTTACACAATACATTTAACTTAC
66 ACTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
70947373 AACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AA--T----AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
70947433 TTAACTTACA
Statistics
Matches: 164, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
121 70 0.43
122 26 0.16
123 17 0.10
124 1 0.01
128 50 0.30
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.31
Consensus pattern (122 bp):
AATAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATAATA
ACTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
Found at i:70947394 original size:18 final size:18
Alignment explanation
Indices: 70947373--70947460 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
70947363 TTTAACTTAC
70947373 AACTTACACAATACATTT
1 AACTTACACAATACATTT
*
70947391 AACTTACAACTTACATAATACATAAT
1 AACTT---AC--AC--AATACAT-TT
*
70947417 AACTTACA-ACTTACATTT
1 AACTTACACA-ATACATTT
*
70947435 AACTTACATAATACATTT
1 AACTTACACAATACATTT
70947453 AACTTACA
1 AACTTACA
70947461 TAACTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
18 30 0.54
19 6 0.11
21 3 0.05
23 4 0.07
25 7 0.12
26 6 0.11
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACACAATACATTT
Found at i:70947443 original size:610 final size:596
Alignment explanation
Indices: 70946183--70947418 Score: 1670
Period size: 610 Copynumber: 2.0 Consensus size: 596
70946173 TTATTACTTA
* * *
70946183 AATAATTATAAATAAGATGCATAAAAGTGCTATACTTACATCATACATATCTTACGTAACCAAAA
1 AATAATAATAAATAACATACATAAAAGTGCTATACTTACATCATACATATCTTACGTAACCAAAA
70946248 GATTGCTATAAATAAACCATTTATTAAAGAGTATACCTTATAATTAAATTTTGTTATCATGTTAT
66 GATTGCTATAAATAAACCATTTATTAAAGAGTATACCTTATAATTAAATTTTGTTATCATGTTAT
70946313 CATAAAAGATAAAATAAAATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAAT
131 CATAAAAGATAAAATAAAATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAAT
70946378 GTTATTTTATTAAATATTATTAATAATTATAAAAAAATATGTGGAATATTAAAATTGACTATTAA
196 GTTATTTTATTAAATATTATTAATAATTATAAAAAAATATGTGGAATATTAAAATTGACTATTAA
70946443 AATAAAATGTTATTTTATTAAATATTATTAATAATTATAAAAAAATATGTGGAATATTAAAATTG
261 AATAAAATGTTATTTTATTAAATATTATTAATAATTAT----AAATATGT-GAATATT--AATTG
* * * * * * ** * *
70946508 ACTATTAAAATAAAATGTTATTTTATTAAATATTATTAATAATTATATTAGTAATGTTATTAAAT
319 ACAATT--AAT--AATATTATTTTATTAAATAATAATAATAATTAAATTAATAATGACATAAAAC
* *
70946573 TATATATTATTTTATTAAATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATT
380 TATACATTA---TATTAAATAATACATAATAACTTACAACTTACATAATACATATAACTTACATT
*
70946638 ACTTACATAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATAC
442 ACTTACATAATACATAATAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATAC
* * *
70946703 ATTTGACTGACATAATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATA
507 ATTTGACTGACACAATACATATAACTTACAACTTACACAATACATAATAACTTACAACTTACACA
*
70946768 ATACATAATAACTTGCAACTTACAC
572 ATACATAATAACTTACAACTTACAC
* * *
70946793 AATAATTATAAATAAGATGCATAAAAGTGCTATACTTACATCATACATATCTTACGTAACCAAAA
1 AATAATAATAAATAACATACATAAAAGTGCTATACTTACATCATACATATCTTACGTAACCAAAA
70946858 GATTGCTATAAATAAACCATTTATTAAAGAGTATACCTTATAATTAAATTTTGTTATCATGTTAT
66 GATTGCTATAAATAAACCATTTATTAAAGAGTATACCTTATAATTAAATTTTGTTATCATGTTAT
70946923 CATAAAAGATAAAATAAAATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAAT
131 CATAAAAGATAAAATAAAATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAAT
70946988 GTTATTTTATTAAATATTATTAATAATTATAAAAAAAATATGTGGAATATTAAAATTGACTATTA
196 GTTATTTTATTAAATATTATTAATAATTAT-AAAAAAATATGTGGAATATTAAAATTGACTATTA
* *
70947053 AAATAAAATGTTATTTTATTAAATATTATTAATAATTAT-ATTA-GT-AATGTT-ATT-A-AATT
260 AAATAAAATGTTATTTTATTAAATATTATTAATAATTATAAATATGTGAATATTAATTGACAATT
70947112 -AT-ATATTATTTTATTAAATAATACATAATAACTTACAACTTACATAAT-ACATAAAACT-TAC
325 AATAATATTATTTTATTAAATAATA-ATAATAA-TTA-AA-TTA-ATAATGACATAAAACTATAC
* *
70947173 ATTA-CTTACATAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATA
385 ATTATATTAAATAATACATAATAACTTACAACTTACATAATACAT-ATAACTTAC-A-TTAC-T-
*
70947237 ATACATTTGACTGACATAATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTA
445 -TACA--T-AAT-AC---ATA-A--TAACTTACAACTTACACAATACATAATAACTTACAACTTA
* * *
70947302 CATAATACATAATAACTTGCAACTTACACAATACATAATAACTTGCAACTTACACAATACAT-TT
499 CATAATAC---AT---TTG--ACTGACACAATACAT-ATAACTTACAACTTACACAATACATAAT
* *
70947366 AACTTACAACTTACACAATACAT-TTAACTTACAACTTACAT
555 AACTTACAACTTACACAATACATAATAACTTACAACTTACAC
70947407 AATACATAATAA
1 AATA-ATAATAA
70947419 CTTACAACTT
Statistics
Matches: 566, Mismatches: 28, Indels: 59
0.87 0.04 0.09
Matches are distributed among these distances:
591 38 0.07
592 27 0.05
593 7 0.01
594 7 0.01
595 10 0.02
596 9 0.02
597 8 0.01
598 3 0.01
599 2 0.00
600 5 0.01
601 2 0.00
603 5 0.01
604 3 0.01
605 3 0.01
606 3 0.01
607 47 0.08
610 227 0.40
611 73 0.13
613 3 0.01
614 19 0.03
615 42 0.07
616 23 0.04
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (596 bp):
AATAATAATAAATAACATACATAAAAGTGCTATACTTACATCATACATATCTTACGTAACCAAAA
GATTGCTATAAATAAACCATTTATTAAAGAGTATACCTTATAATTAAATTTTGTTATCATGTTAT
CATAAAAGATAAAATAAAATATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAAT
GTTATTTTATTAAATATTATTAATAATTATAAAAAAATATGTGGAATATTAAAATTGACTATTAA
AATAAAATGTTATTTTATTAAATATTATTAATAATTATAAATATGTGAATATTAATTGACAATTA
ATAATATTATTTTATTAAATAATAATAATAATTAAATTAATAATGACATAAAACTATACATTATA
TTAAATAATACATAATAACTTACAACTTACATAATACATATAACTTACATTACTTACATAATACA
TAATAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATTTGACTGACACA
ATACATATAACTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATAATAACTT
ACAACTTACAC
Found at i:70947461 original size:18 final size:18
Alignment explanation
Indices: 70947398--70947463 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
70947388 TTTAACTTAC
*
70947398 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
70947417 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
70947435 AACTTACATAATACATTT
1 AACTTACATAATACATTT
70947453 AACTTACATAA
1 AACTTACATAA
70947464 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:70947466 original size:9 final size:9
Alignment explanation
Indices: 70947390--70947477 Score: 64
Period size: 9 Copynumber: 9.9 Consensus size: 9
70947380 ACAATACATT
70947390 TAACTTAC-
1 TAACTTACA
70947398 -AACTTACA
1 TAACTTACA
*
70947406 TAATACATA-A
1 T-A-ACTTACA
70947416 TAACTTAC-
1 TAACTTACA
70947424 -AACTTACA
1 TAACTTACA
70947432 TTTAACTTACA
1 --TAACTTACA
70947443 TAA--TACA
1 TAACTTACA
70947450 TTTAACTTACA
1 --TAACTTACA
70947461 TAACTTACA
1 TAACTTACA
70947470 TAACTTAC
1 TAACTTAC
70947478 CATTGCAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 25
0.71 0.02 0.27
Matches are distributed among these distances:
7 18 0.28
8 4 0.06
9 24 0.37
10 3 0.05
11 16 0.25
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.35
Consensus pattern (9 bp):
TAACTTACA
Found at i:70952951 original size:21 final size:21
Alignment explanation
Indices: 70952925--70952995 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
70952915 CTACAACTTA
* *
70952925 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
70952946 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
70952967 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
70952988 AAGCAGAG
1 AAGCAGAG
70952996 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:70953238 original size:14 final size:14
Alignment explanation
Indices: 70953219--70953252 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
70953209 ATTGCTATTG
70953219 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
70953233 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
70953247 TTTGCT
1 GTTGCT
70953253 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:70953418 original size:43 final size:42
Alignment explanation
Indices: 70953304--70953691 Score: 388
Period size: 42 Copynumber: 9.2 Consensus size: 42
70953294 CAAAAATAGT
* * *
70953304 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
70953348 GGCG--TTTGTAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
***** *
70953388 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
70953431 GGCGTTTTCCCTT--AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTT--TTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
70953473 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
70953515 GGCATTTTTTTACAAACACCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
70953557 GGCGTTTTTTTTTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
70953599 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
70953641 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
70953683 GGCGTTTTT
1 GGCGTTTTT
70953692 GTTTGTAAAC
Statistics
Matches: 299, Mismatches: 38, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
40 35 0.12
42 228 0.76
43 32 0.11
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
Found at i:70953469 original size:42 final size:42
Alignment explanation
Indices: 70953405--70953691 Score: 434
Period size: 42 Copynumber: 6.8 Consensus size: 42
70953395 AGAAAAAAAA
**
70953405 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
70953447 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
70953489 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
* * *
70953531 CACCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
70953573 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
70953615 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
70953657 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
70953692 GTTTGTAAAC
Statistics
Matches: 224, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
42 218 0.97
43 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:70953537 original size:84 final size:83
Alignment explanation
Indices: 70953319--70953691 Score: 444
Period size: 84 Copynumber: 4.5 Consensus size: 83
70953309 TTTTGTATAA
* * * * ** ** *
70953319 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAGCGCCGCTAAAGAACATGTTCT
*******
70953383 TTAGCGGCGATTAGAAAAA
66 TTAGCGGCG-TTTTTTTCT
* *
70953402 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT-AAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTCAAGCGCCGCTAAAGAACATGTT
70953466 CTTTAGCGGCGTTTTTTTCT
64 CTTTAGCGGCGTTTTTTTCT
* * * * *
70953486 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACACCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CAAGCGCCGCTAAAGAACATGTTC
*
70953551 TTTAGCGGCGTTTTTTTTT
65 TTTAGCGGCGTTTTTTTCT
*
70953570 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-AAGCGCCGCTAAAGAACATGTTC
70953635 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTTCT
* *
70953654 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
70953692 GTTTGTAAAC
Statistics
Matches: 251, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
82 2 0.01
83 30 0.12
84 188 0.75
85 30 0.12
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCAAGCGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTTCT
Found at i:70955264 original size:24 final size:23
Alignment explanation
Indices: 70955228--70955282 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
70955218 TAGATACTAA
* *
70955228 ATATATATTTTTTAATTTTTAATT
1 ATATATATATTTT-ATTTTCAATT
*
70955252 ATATTTATATTTTATTTTCAATT
1 ATATATATATTTTATTTTCAATT
*
70955275 TTA-ATATA
1 ATATATATA
70955283 ATCACTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 4 0.15
23 11 0.42
24 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATATATTTTATTTTCAATT
Found at i:70964877 original size:7 final size:7
Alignment explanation
Indices: 70964867--70964893 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
70964857 AAAGTAAATA
70964867 ATATGTG
1 ATATGTG
70964874 ATATGTG
1 ATATGTG
70964881 ATATGTG
1 ATATGTG
70964888 ATATGT
1 ATATGT
70964894 TTACATTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
ATATGTG
Found at i:70967645 original size:5 final size:5
Alignment explanation
Indices: 70967635--70967663 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
70967625 CTGTGTGTTC
70967635 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
70967664 ACATATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:70971244 original size:8 final size:8
Alignment explanation
Indices: 70971231--70971259 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
70971221 TTATGTTTAA
70971231 TATATTAT
1 TATATTAT
70971239 TATATTAT
1 TATATTAT
70971247 TATATTAT
1 TATATTAT
70971255 TATAT
1 TATAT
70971260 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:70971292 original size:5 final size:5
Alignment explanation
Indices: 70971282--70971333 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
70971272 TTATGTTTTA
70971282 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
70971332 AT
1 AT
70971334 AAACTAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:70971410 original size:14 final size:15
Alignment explanation
Indices: 70971391--70971419 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70971381 CAGAGAGCAG
70971391 GGGAGAAAA-AGAAA
1 GGGAGAAAAGAGAAA
70971405 GGGAGAAAAGAGAAA
1 GGGAGAAAAGAGAAA
70971420 ATTGAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
GGGAGAAAAGAGAAA
Found at i:70973015 original size:6 final size:6
Alignment explanation
Indices: 70973004--70973029 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
70972994 TGTGCCAACC
70973004 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
70973030 CGATTCTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:70973073 original size:6 final size:6
Alignment explanation
Indices: 70973054--70973084 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
70973044 GTGTGTCGAA
*
70973054 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
70973085 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:70975859 original size:202 final size:205
Alignment explanation
Indices: 70975524--70975916 Score: 465
Period size: 202 Copynumber: 1.9 Consensus size: 205
70975514 AATTTACCTG
* * **
70975524 GTGCCACCATATCTAGAGTATGGACCAGGAAAAATGAATTTTACTCATTCTGGTGACTCCACATT
1 GTGCCACCACATCTAGAGTAAGGACCA-GAAAAAAAAATTTTACTCATTCTGGTGACTCCACATT
* *
70975589 GAAGTAGCGAGACCGAAAAATTTTAAAAAAAAAATTTACTGGTGCTGCCATATCTAGAGAAAGGA
65 GAAGTAGCGAGACCGAAAAAATTTAAAAAAAAAACTTACTGGTGCTGCCATATCTAGAGAAAGGA
* *** **
70975654 CCAGGGAATTT-TTTTTTTACTATTTTGGTGACTTTGTGTGAAGTGGCGGCATTGAAAAATTTTT
130 CCA-GGAATTTCTTTTTTTACTATTTTAGTGACTCCATGTGAAGTGGCGGCACCGAAAAATTTTT
70975718 AAAAAAATACTA
194 AAAAAAATACTA
* * * * * *
70975730 GTGCCACCACATTTGGAGTAAGGACCA-AAAAAAAAATTTTATTTATTTTGGTGACTCCATA-TG
1 GTGCCACCACATCTAGAGTAAGGACCAGAAAAAAAAATTTTACTCATTCTGGTGACTCCACATTG
* * * * * *
70975793 AAGT-GACGGGACC-AAAAAATTTAAAAAAAAAACTTATTGGTG-TCGTCATATCTAGGGTAGGG
66 AAGTAG-CGAGACCGAAAAAATTTAAAAAAAAAACTTACTGGTGCT-GCCATATCTAGAGAAAGG
* * *
70975855 ACCAGGAGTTTCTTTTTTTACTTTTTTAGTGACTCCATGTGAAGTGGTGGCACCGAAAAATT
129 ACCAGGAATTTCTTTTTTTACTATTTTAGTGACTCCATGTGAAGTGGCGGCACCGAAAAATT
70975917 CAAAAAAGAC
Statistics
Matches: 157, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
201 7 0.04
202 87 0.55
203 12 0.08
204 28 0.18
206 23 0.15
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (205 bp):
GTGCCACCACATCTAGAGTAAGGACCAGAAAAAAAAATTTTACTCATTCTGGTGACTCCACATTG
AAGTAGCGAGACCGAAAAAATTTAAAAAAAAAACTTACTGGTGCTGCCATATCTAGAGAAAGGAC
CAGGAATTTCTTTTTTTACTATTTTAGTGACTCCATGTGAAGTGGCGGCACCGAAAAATTTTTAA
AAAAATACTA
Found at i:70981113 original size:26 final size:26
Alignment explanation
Indices: 70981084--70981153 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
70981074 CATAATATTT
70981084 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
70981110 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
70981139 AATTATTTAATATTT
1 AATTATTT-ATATTT
70981154 CAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:70981123 original size:16 final size:16
Alignment explanation
Indices: 70981102--70981151 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
70981092 ATATTTAGTC
70981102 ATATAATAAATTATTA
1 ATATAATAAATTATTA
70981118 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
70981131 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
70981148 ATAT
1 ATAT
70981152 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:70981126 original size:29 final size:30
Alignment explanation
Indices: 70981094--70981151 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
70981084 AATTATTTAT
70981094 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
70981123 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
70981152 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:70981187 original size:16 final size:16
Alignment explanation
Indices: 70981165--70981201 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
70981155 AATTTTATTT
70981165 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
70981182 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
70981197 TAATA
1 TAATA
70981202 GTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:70981286 original size:15 final size:15
Alignment explanation
Indices: 70981235--70981286 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
70981225 ATTCAATATT
70981235 AATATATTAATAATA
1 AATATATTAATAATA
*
70981250 AATATTTATTACAATTATA
1 AATA--TATT--AATAATA
70981269 AATATATTAATAATA
1 AATATATTAATAATA
70981284 AAT
1 AAT
70981287 GTTGTGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 13 0.42
17 8 0.26
19 10 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:70982044 original size:7 final size:7
Alignment explanation
Indices: 70982032--70982062 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
70982022 AGAAGGCCTT
70982032 CAAAAAA
1 CAAAAAA
70982039 CAAAAAA
1 CAAAAAA
70982046 CAAAAAA
1 CAAAAAA
*
70982053 AAAAAAA
1 CAAAAAA
70982060 CAA
1 CAA
70982063 TTAGAACATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:70994386 original size:18 final size:18
Alignment explanation
Indices: 70994363--70994397 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70994353 AATAAACATG
*
70994363 AAAAAAATAAAAATAAAC
1 AAAAAAAGAAAAATAAAC
*
70994381 AAAAAAGGAAAAATAAA
1 AAAAAAAGAAAAATAAA
70994398 AAAGTTGACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.03, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAAAGAAAAATAAAC
Found at i:70998086 original size:16 final size:19
Alignment explanation
Indices: 70998051--70998088 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
70998041 GTGTGAGTTC
70998051 ATTTAGCCTAGATATAATT
1 ATTTAGCCTAGATATAATT
70998070 ATTTA-CCT-GAT-TAATT
1 ATTTAGCCTAGATATAATT
70998086 ATT
1 ATT
70998089 GGTGTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 3 0.16
19 5 0.26
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
ATTTAGCCTAGATATAATT
Found at i:70999423 original size:21 final size:21
Alignment explanation
Indices: 70999397--70999436 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
70999387 CATTAACTTT
70999397 ATATATAATATTAA-CATATTC
1 ATATATAA-ATTAATCATATTC
70999418 ATATATAAATTAATCATAT
1 ATATATAAATTAATCATAT
70999437 AACCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAATTAATCATATTC
Found at i:71003979 original size:29 final size:29
Alignment explanation
Indices: 71003937--71003995 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
71003927 TTGTCGATGA
* *
71003937 GGTGGAGAAATTGTTCGTTGAGAGTTCGT
1 GGTGAAGAAATTGTTCGTTGAGAATTCGT
*
71003966 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAAATTGTTCGTTGAGAATTCGT
71003995 G
1 G
71003996 TCAAGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.36, T:0.34
Consensus pattern (29 bp):
GGTGAAGAAATTGTTCGTTGAGAATTCGT
Found at i:71027606 original size:34 final size:36
Alignment explanation
Indices: 71027553--71027622 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
71027543 ATTTTATATA
*
71027553 TTTATATGATTTAAAATTTTAAAGTTTTTTAGTTTT
1 TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTT
* * *
71027589 TTTATAT-ATTT-ATATTTTTAATTTTTTTAATTTT
1 TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTT
71027623 CTATAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 19 0.63
35 4 0.13
36 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (36 bp):
TTTATATGATTTAAAATTTTAAAGTTTTTTAATTTT
Found at i:71029615 original size:18 final size:18
Alignment explanation
Indices: 71029592--71029659 Score: 81
Period size: 18 Copynumber: 4.0 Consensus size: 18
71029582 AACATTGTTT
* *
71029592 ATAAAAAATATTTTTGAG
1 ATAAAAAATATTTTTAAA
71029610 ATAAAAAATATTTTTAAA
1 ATAAAAAATATTTTTAAA
*
71029628 AT-AAAAATATTGTT-AA
1 ATAAAAAATATTTTTAAA
71029644 AT--AAAATATTTTTAAA
1 ATAAAAAATATTTTTAAA
71029660 TTTTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.22
16 6 0.13
17 11 0.24
18 18 0.40
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
ATAAAAAATATTTTTAAA
Found at i:71040614 original size:4 final size:4
Alignment explanation
Indices: 71040605--71040681 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
71040595 CCCTTTTCTA
** * * * **
71040605 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
71040655 TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
71040682 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:71041777 original size:13 final size:14
Alignment explanation
Indices: 71041748--71041780 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
71041738 AAATGAAACA
*
71041748 GAGAAGGAAAAAGG
1 GAGAAAGAAAAAGG
71041762 GAGAAAGAAAAA-G
1 GAGAAAGAAAAAGG
71041775 GAGAAA
1 GAGAAA
71041781 AACTTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
GAGAAAGAAAAAGG
Found at i:71046058 original size:43 final size:43
Alignment explanation
Indices: 71046000--71046170 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 43
71045990 TATCGAAATG
* * *
71046000 TGATATACGGGCTTCGGGCCTAGCAGGCTAGAATGTCAGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
*
71046044 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
71046087 TAATATCGGGCCTCGGGCCTAGCAAGCTATAATGCCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** *
71046130 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
71046171 TGAATTCAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 12 0.11
43 95 0.84
44 6 0.05
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:71046218 original size:13 final size:13
Alignment explanation
Indices: 71046200--71046265 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
71046190 AGTTTGGCAA
*
71046200 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
71046213 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
71046226 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
71046239 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
71046252 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
71046265 T
1 T
71046266 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:71053598 original size:24 final size:24
Alignment explanation
Indices: 71053571--71053617 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71053561 ATTTAAACGG
71053571 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
71053595 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
71053618 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:71054925 original size:19 final size:20
Alignment explanation
Indices: 71054888--71054925 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
71054878 TTTGGGACAA
*
71054888 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
71054908 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
71054926 AATGTTCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:71056854 original size:41 final size:41
Alignment explanation
Indices: 71056807--71056898 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 41
71056797 TATAAACACT
*
71056807 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAATGTC
1 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGTC
* *
71056848 GCAAAAGGTCAAGCAGTAGTGGTGTTTATGATAAAAAAGTC
1 GCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGTC
71056889 GCAAAAGGTC
1 GCAAAAGGTC
71056899 TGGTAGTGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (41 bp):
GCAAAAGGTCAAGCAGTAGCGGCGTTTATGATAAAAAAGTC
Found at i:71057707 original size:20 final size:20
Alignment explanation
Indices: 71057682--71057720 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71057672 ATATGATTTA
*
71057682 GGGTTAGGGTTTATAGTTTG
1 GGGTTAGGGTTTAGAGTTTG
*
71057702 GGGTTATGGTTTAGAGTTT
1 GGGTTAGGGTTTAGAGTTT
71057721 ATGATTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (20 bp):
GGGTTAGGGTTTAGAGTTTG
Found at i:71058592 original size:28 final size:25
Alignment explanation
Indices: 71058538--71058595 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 25
71058528 ATTCCCCAAA
* *
71058538 TCGGCAGCCCTCTGCTGCTTCTTCG
1 TCGGCAGCCCTCTGCTGCATCTCCG
71058563 TCGGCAGCCCGCTGCTGCTGCATCTCCG
1 TCGGCAG-CC-CT-CTGCTGCATCTCCG
71058591 TCGGC
1 TCGGC
71058596 GGCCTCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.25
26 2 0.07
27 2 0.07
28 17 0.61
ACGTcount: A:0.05, C:0.41, G:0.28, T:0.26
Consensus pattern (25 bp):
TCGGCAGCCCTCTGCTGCATCTCCG
Found at i:71059296 original size:203 final size:209
Alignment explanation
Indices: 71058954--71059362 Score: 541
Period size: 203 Copynumber: 2.0 Consensus size: 209
71058944 TTGGCATTTC
* * *
71058954 ATGGAATTAAGATGTTGGCTTAAATTGTTTATTCATTAAAAACCACAGAATGTATGTTTCTGAAG
1 ATGGAATTAAGATGTTGGCTTAAATAGTTCATTCATTAAAAACCACAGAATATATGTTTCTGAAG
71059019 TCTTATTGTCATATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCATGGAG
66 TCTTATTG----ATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCATGGAG
* *
71059084 TGGCTGCATATTGTTAAGTGTGCTTATT-A-T-CTATGCAATGTGATGATCCTGTTGATTATTGG
127 TGACTGCATATTGTTAAGTGTGCTTATTGATTCCT-TGCAAGGTGATGATCCTGTTGATTATTGG
*
71059146 CATTTTATGTCTTCTCTAA
191 CATTTCATGTCTTCTCTAA
* * *
71059165 ATGG-ATTTAGATGTTGGCTTACATAGTTCGTTCATTAAAAACCACAGTACATATA-GTTT-TGA
1 ATGGAATTAAGATGTTGGCTTAAATAGTTCATTCATTAAAAACCACAG-A-ATATATGTTTCTGA
* *
71059227 AGTCTTATTG-TTTGGTC-T-TGTTATGGTGTTAAAGG-CGTTTGATTAGTATGGTCCATGGAGT
64 AGTCTTATTGATTTGGTCATAGGCTATGGTGTTAAAGGAC-TTTGATTAGTATGGTCCATGGAGT
* *
71059288 GACTGCATATTGTTAAGTGTGCTTATTGATTGTCCTTGCAAGGTGCTGATCTTGTTGATTATTGG
128 GACTGCATATTGTTAAGTGTGCTTATTGA-T-TCCTTGCAAGGTGATGATCCTGTTGATTATTGG
71059353 CATTTCATGT
191 CATTTCATGT
71059363 TGATTATTGG
Statistics
Matches: 177, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
202 1 0.01
203 65 0.37
204 2 0.01
205 7 0.04
207 36 0.20
208 2 0.01
210 51 0.29
211 9 0.05
212 4 0.02
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.42
Consensus pattern (209 bp):
ATGGAATTAAGATGTTGGCTTAAATAGTTCATTCATTAAAAACCACAGAATATATGTTTCTGAAG
TCTTATTGATTTGGTCATAGGCTATGGTGTTAAAGGACTTTGATTAGTATGGTCCATGGAGTGAC
TGCATATTGTTAAGTGTGCTTATTGATTCCTTGCAAGGTGATGATCCTGTTGATTATTGGCATTT
CATGTCTTCTCTAA
Found at i:71059365 original size:20 final size:20
Alignment explanation
Indices: 71059340--71059382 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
71059330 GTGCTGATCT
71059340 TGTTGATTATTGGCATTTCA
1 TGTTGATTATTGGCATTTCA
71059360 TGTTGATTATTGGCATTTCA
1 TGTTGATTATTGGCATTTCA
71059380 TGT
1 TGT
71059383 GTTCTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.21, T:0.51
Consensus pattern (20 bp):
TGTTGATTATTGGCATTTCA
Found at i:71060011 original size:20 final size:20
Alignment explanation
Indices: 71059986--71060033 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
71059976 CATTATTATT
71059986 ATTTTAATTACTTAAATATC
1 ATTTTAATTACTTAAATATC
*
71060006 ATTTTAATTACTTAAATATT
1 ATTTTAATTACTTAAATATC
71060026 ATTTTAAT
1 ATTTTAAT
71060034 ATTTTGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTAATTACTTAAATATC
Found at i:71063648 original size:15 final size:15
Alignment explanation
Indices: 71063628--71063666 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
71063618 CTTCATTCCT
*
71063628 TTTAGTCATGGTAAC
1 TTTAGTCATGATAAC
*
71063643 TTTAGTAATGATAAC
1 TTTAGTCATGATAAC
71063658 TTTAGTCAT
1 TTTAGTCAT
71063667 ACATGTGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (15 bp):
TTTAGTCATGATAAC
Found at i:71064466 original size:16 final size:17
Alignment explanation
Indices: 71064445--71064484 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
71064435 ACAAGAGGAT
*
71064445 TAAGAATTTC-GGAAGG
1 TAAGAATTTCTGAAAGG
71064461 TAAGAA-TTCTGAAAGG
1 TAAGAATTTCTGAAAGG
71064477 TAAGAATT
1 TAAGAATT
71064485 ATAAAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (17 bp):
TAAGAATTTCTGAAAGG
Found at i:71066243 original size:13 final size:13
Alignment explanation
Indices: 71066225--71066249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71066215 TACGGTTTTT
71066225 TTAAAAAAAATTA
1 TTAAAAAAAATTA
71066238 TTAAAAAAAATT
1 TTAAAAAAAATT
71066250 GAAATTTTTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAAAAATTA
Found at i:71066325 original size:55 final size:56
Alignment explanation
Indices: 71066255--71066469 Score: 187
Period size: 55 Copynumber: 3.9 Consensus size: 56
71066245 AAATTGAAAT
* *
71066255 TTTTTTGGTGCTGGCTTGCTACTGGCCGGCACCAAAATACGAGTTTTCAAAAAAAA
1 TTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAAAAA
* * * * ***
71066311 TTTTTT-GTGCTGGCTTGTTAATGGCCGGCATC--AGT---A-TTAAAAAAAATTTGAAA
1 TTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAA----AAA
*
71066364 TTTTTTTGGTGCTGGCCTGCTATTGGCCGGCACCAAAATACGAGTTTTCAAAAAAAA
1 -TTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAAAAA
** * *
71066421 AGTTTT-GTGCTAGCCTG-TCAATGGCCGGTACCAAAATACGAGTTTTCAA
1 TTTTTTGGTGCTGGCCTGCT-AATGGCCGGCACCAAAATACGAGTTTTCAA
71066470 TTTTTTTTTT
Statistics
Matches: 126, Mismatches: 20, Indels: 27
0.73 0.12 0.16
Matches are distributed among these distances:
49 7 0.06
50 1 0.01
53 5 0.04
54 7 0.06
55 83 0.66
56 10 0.08
57 5 0.04
60 1 0.01
61 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (56 bp):
TTTTTTGGTGCTGGCCTGCTAATGGCCGGCACCAAAATACGAGTTTTCAAAAAAAA
Found at i:71066364 original size:110 final size:109
Alignment explanation
Indices: 71066236--71066448 Score: 354
Period size: 110 Copynumber: 1.9 Consensus size: 109
71066226 TAAAAAAAAT
*
71066236 TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCTTGCTACTGGCCGGCACCAAAATACGAGTTT
1 TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTTT
** * * *
71066301 TCAAAAAAAATTTTTTGTGCTGGCTTGTTAATGGCCGGCATCAG
66 TCAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGGCATCAG
*
71066345 TATTAAAAAAAATTTGAAATTTTTTTGGTGCTGGCCTGCTATTGGCCGGCACCAAAATACGAGTT
1 TATTAAAAAAAA-TTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTT
71066410 TTCAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGG
65 TTCAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGG
71066449 TACCAAAATA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
109 12 0.12
110 84 0.88
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (109 bp):
TATTAAAAAAAATTGAAATTTTTTTGGTGCTGGCCTGCTACTGGCCGGCACCAAAATACGAGTTT
TCAAAAAAAAAGTTTTGTGCTAGCCTGTCAATGGCCGGCATCAG
Found at i:71066604 original size:111 final size:109
Alignment explanation
Indices: 71066468--71066712 Score: 370
Period size: 111 Copynumber: 2.2 Consensus size: 109
71066458 ACGAGTTTTC
*
71066468 AATTTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCA-TTGATAGGCCAGCACCAAAAAAATTTC
1 AATTTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCAGTAG-TAGGCCAGCACCAAAAAAATTTC
* * *
71066532 AACTTTTTTTTTAATACTGGT-CCGGCCATTGACAGGCCAGCACTA
65 AAATTTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCAC-A
*
71066577 AATTTTTTTTTTTGAAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACTAAAAAAATTT
1 AA-TTTTTTTTTT-AAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACCAAAAAAATTT
* *
71066642 CAAATTTTTTTTTAATACTGGTGATGGCCATTGACAAGCCAGCACC
64 CAAATTTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCACA
71066688 AA-TTTTTTTTTAAAACTCGTATTTT
1 AATTTTTTTTTTAAAACTCGTATTTT
71066713 TTATATACCA
Statistics
Matches: 125, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
108 14 0.11
109 11 0.09
110 10 0.08
111 69 0.55
112 21 0.17
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (109 bp):
AATTTTTTTTTTAAAACTCGTATTTTGGTGCCGGCCAGTAGTAGGCCAGCACCAAAAAAATTTCA
AATTTTTTTTTAATACTGGTGACGGCCATTGACAAGCCAGCACA
Found at i:71067384 original size:19 final size:20
Alignment explanation
Indices: 71067360--71067401 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
71067350 TAAACACAAG
71067360 AAAAGTAAA-CTATTTTC-AA
1 AAAAGTAAATC-ATTTTCTAA
71067379 AAAAGTAAATCATTTTCTAA
1 AAAAGTAAATCATTTTCTAA
71067399 AAA
1 AAA
71067402 TTATCTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCTAA
Found at i:71068379 original size:23 final size:24
Alignment explanation
Indices: 71068343--71068388 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
71068333 TATATACTAA
71068343 ATATATATATTTTTATTTTTAATC
1 ATATATATATTTTTATTTTTAATC
*
71068367 ATATTTATA-TTTTATTTTTAAT
1 ATATATATATTTTTATTTTTAAT
71068389 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATATATTTTTATTTTTAATC
Found at i:71084063 original size:40 final size:41
Alignment explanation
Indices: 71084008--71084104 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
71083998 CGACTATGCT
* *
71084008 TGGCACTAAGTGTGCG-GTTTAATATAACTTCGGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTGAA-ATAACTTCGGATACATAA
* * *
71084048 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGGATATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAACTTCGGATACATAA
71084089 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71084105 TACCAACTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.88
41 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAACTTCGGATACATAA
Found at i:71087228 original size:13 final size:13
Alignment explanation
Indices: 71087210--71087240 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
71087200 CCAATCCAAC
71087210 CATACCATTTGGA
1 CATACCATTTGGA
71087223 CATACCATTTGGA
1 CATACCATTTGGA
71087236 CATAC
1 CATAC
71087241 ATTCAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (13 bp):
CATACCATTTGGA
Found at i:71087912 original size:76 final size:76
Alignment explanation
Indices: 71087786--71087928 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
71087776 ATCATTTACT
* * * *
71087786 ACACCGGTATCAAGCCTTCTAGGCATTAAGCTTAAATAACAATGGCACTAAGCTTGCTAGGCACT
1 ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAATGGCACTAAGCTTGCTAGGCACT
71087851 AAACCTGATTA
66 AAACCTGATTA
* * *
71087862 ACACCGGCATTAAGCCTACTAGGCACTAAGCCTGAATAA-AATCGGCACTAAGTTTGCTAGGCAC
1 ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAAT-GGCACTAAGCTTGCTAGGCAC
71087926 TAA
65 TAA
71087929 GCTTGAATCT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 3 0.05
76 56 0.95
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (76 bp):
ACACCGGCATCAAGCCTACTAGGCACTAAGCCTAAATAACAATGGCACTAAGCTTGCTAGGCACT
AAACCTGATTA
Found at i:71087929 original size:38 final size:38
Alignment explanation
Indices: 71087804--71087936 Score: 142
Period size: 38 Copynumber: 3.5 Consensus size: 38
71087794 ATCAAGCCTT
* * *
71087804 CTAGGCATTAAGCTTAAATAACAAT-GGCACTAAGCTTG
1 CTAGGCACTAAGCCTGAATAA-AATCGGCACTAAGCTTG
* * * * * * *
71087842 CTAGGCACTAAACCTGATTAACACCGGCATTAAGCCTA
1 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
*
71087880 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGTTTG
1 CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
*
71087918 CTAGGCACTAAGCTTGAAT
1 CTAGGCACTAAGCCTGAAT
71087937 CTAAACCTGC
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
37 1 0.01
38 74 0.99
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (38 bp):
CTAGGCACTAAGCCTGAATAAAATCGGCACTAAGCTTG
Found at i:71088036 original size:22 final size:22
Alignment explanation
Indices: 71087949--71088034 Score: 109
Period size: 22 Copynumber: 3.9 Consensus size: 22
71087939 AAACCTGCTA
71087949 AACACTAAGCCTGAATAACACC
1 AACACTAAGCCTGAATAACACC
** *
71087971 GGCACTAAGTCTGAATAACACC
1 AACACTAAGCCTGAATAACACC
* * * *
71087993 TACACTAAACTTGAATAACATC
1 AACACTAAGCCTGAATAACACC
71088015 AACACTAAGCCTGAATAACA
1 AACACTAAGCCTGAATAACA
71088035 TCGCATTTGA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (22 bp):
AACACTAAGCCTGAATAACACC
Found at i:71088815 original size:16 final size:15
Alignment explanation
Indices: 71088791--71088820 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71088781 AGATGATGAT
71088791 TTTTAGCTTATTTAA
1 TTTTAGCTTATTTAA
71088806 TTTTATGCTTATTTA
1 TTTTA-GCTTATTTA
71088821 CTATTTTTAC
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:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTTAGCTTATTTAA
Found at i:71096148 original size:22 final size:22
Alignment explanation
Indices: 71096123--71096168 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
71096113 CTAATTTCAA
*
71096123 ATTTAAATTTGTAT-TAACTATT
1 ATTT-AATTTATATCTAACTATT
*
71096145 ATTTATTTTATATCTAACTATT
1 ATTTAATTTATATCTAACTATT
71096167 AT
1 AT
71096169 ATTATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTAATTTATATCTAACTATT
Found at i:71099483 original size:15 final size:15
Alignment explanation
Indices: 71099463--71099492 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71099453 AAGTTACTTT
71099463 TTTTTATTCAGTTGA
1 TTTTTATTCAGTTGA
71099478 TTTTTATTCAGTTGA
1 TTTTTATTCAGTTGA
71099493 AGTGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTTATTCAGTTGA
Found at i:71111012 original size:18 final size:18
Alignment explanation
Indices: 71110989--71111040 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
71110979 AAAATATAAG
71110989 AGAAAAATAAACATAAAA
1 AGAAAAATAAACATAAAA
**
71111007 AGAAAAAGGAACATAAAA
1 AGAAAAATAAACATAAAA
* *
71111025 ATAAAAATAAAAATAA
1 AGAAAAATAAACATAA
71111041 CACAAGTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.12
Consensus pattern (18 bp):
AGAAAAATAAACATAAAA
Found at i:71111030 original size:5 final size:6
Alignment explanation
Indices: 71110991--71111040 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
71110981 AATATAAGAG
* * * * *
71110991 AAAAAT AAACAT AAAAAG AAAAAG GAACAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
71111039 AA
1 AA
71111041 CACAAGTGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:71113193 original size:20 final size:20
Alignment explanation
Indices: 71113159--71113198 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
71113149 TTTGTTGTTC
*
71113159 GTTTCTCCCACGCCCATGTG
1 GTTTCTCACACGCCCATGTG
* *
71113179 GTTTCTCACATGCCCGTGTG
1 GTTTCTCACACGCCCATGTG
71113199 TCTGAACACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.35, G:0.23, T:0.33
Consensus pattern (20 bp):
GTTTCTCACACGCCCATGTG
Found at i:71131088 original size:24 final size:24
Alignment explanation
Indices: 71131060--71131108 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
71131050 CAAAATGAGT
71131060 TAGAAATCACTTTAAAATTGAATC
1 TAGAAATCACTTTAAAATTGAATC
71131084 TAGAAATCACTTTAAAATTGAATC
1 TAGAAATCACTTTAAAATTGAATC
71131108 T
1 T
71131109 TATCTAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (24 bp):
TAGAAATCACTTTAAAATTGAATC
Found at i:71132285 original size:30 final size:30
Alignment explanation
Indices: 71132247--71132315 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
71132237 CAAAATGTGG
*
71132247 TATC-CCAATTTAACATTGTATGCCTTATC
1 TATCTCCAATTTAACATTGTATACCTTATC
71132276 TATCTCCAATTTAACATTGTATACCTTATC
1 TATCTCCAATTTAACATTGTATACCTTATC
71132306 TATCT-CAATT
1 TATCTCCAATT
71132316 CGTTGCAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 9 0.24
30 29 0.76
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.43
Consensus pattern (30 bp):
TATCTCCAATTTAACATTGTATACCTTATC
Found at i:71132882 original size:23 final size:23
Alignment explanation
Indices: 71132856--71132902 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
71132846 CCATTTCTTG
* *
71132856 TTTAGTTTTATTTCTATTTGTAA
1 TTTAGGTTTATTTCTAGTTGTAA
* *
71132879 TTTAGGTTTGTTTTTAGTTGTAA
1 TTTAGGTTTATTTCTAGTTGTAA
71132902 T
1 T
71132903 CGTAGTTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.64
Consensus pattern (23 bp):
TTTAGGTTTATTTCTAGTTGTAA
Found at i:71137614 original size:21 final size:23
Alignment explanation
Indices: 71137588--71137630 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
71137578 AGTAGCTAAA
71137588 AAAAAT-ACTC-CAAAAGCAACT
1 AAAAATAACTCACAAAAGCAACT
*
71137609 AAAAATAAGTCACAAAAGCAAC
1 AAAAATAACTCACAAAAGCAAC
71137631 ATATAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (23 bp):
AAAAATAACTCACAAAAGCAACT
Found at i:71153047 original size:15 final size:16
Alignment explanation
Indices: 71153027--71153061 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
71153017 TGTTAAGTGG
*
71153027 CATCAACTT-TCATGT
1 CATCAACTTATCATAT
71153042 CATCAACTTATCATAT
1 CATCAACTTATCATAT
71153058 CATC
1 CATC
71153062 CATCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.37
Consensus pattern (16 bp):
CATCAACTTATCATAT
Found at i:71155800 original size:41 final size:41
Alignment explanation
Indices: 71155735--71155816 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
71155725 CCGCTCCAAC
* *
71155735 CTCTTTATAACCTCCCACAGATAAGTACCACAAGGCAAATG
1 CTCTTTATAAACTCCCACAAATAAGTACCACAAGGCAAATG
*
71155776 CTCTTTATAAACTCCCTCAAATAAGTACCACAAGGCAAATG
1 CTCTTTATAAACTCCCACAAATAAGTACCACAAGGCAAATG
71155817 GTCGAGCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (41 bp):
CTCTTTATAAACTCCCACAAATAAGTACCACAAGGCAAATG
Found at i:71163892 original size:22 final size:23
Alignment explanation
Indices: 71163867--71163912 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71163857 CAACCAAATC
71163867 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71163889 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71163912 A
1 A
71163913 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71163918 original size:23 final size:23
Alignment explanation
Indices: 71163874--71163918 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71163864 ATCAATTCAA
*
71163874 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71163897 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71163919 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71178438 original size:181 final size:182
Alignment explanation
Indices: 71178134--71178500 Score: 576
Period size: 181 Copynumber: 2.0 Consensus size: 182
71178124 GAGGCTATCT
* * * * *
71178134 CTTTTCATGCAAAAATAAATCAGAATCGGATTTTTTTTGTGGCACGGGCACGCCTTGTGAAATTT
1 CTTTTCATGCAAAAATAAATCAAAATCGGATTTCTTTTGTGGCACGAGCACACCTTGTAAAATTT
71178199 CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACCC
66 CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACCC
* * *
71178264 AAACCACCCTCTGCTGAATTAAACATACA-TGGGAGTACACTTGACCCTTCC
131 AAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
*
71178315 CTTTTCATGCAAAAATAAATCAAAATGGGATTTCTTTTGTAGG-ACGAGCACACCTTGTAAAATT
1 CTTTTCATGCAAAAATAAATCAAAATCGGATTTCTTTTGT-GGCACGAGCACACCTTGTAAAATT
* ***
71178379 TCAGTGCTGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAGGTCCAACCCGAACTACC
65 TCAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACC
* *
71178444 CAAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGATCCTTCT
130 CAAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
71178497 CTTT
1 CTTT
71178501 CTTATTGATT
Statistics
Matches: 169, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
181 144 0.85
182 25 0.15
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (182 bp):
CTTTTCATGCAAAAATAAATCAAAATCGGATTTCTTTTGTGGCACGAGCACACCTTGTAAAATTT
CAGTGATGCCATTTGTTGAAACATACACCTAGGACCGAACCAACCAAAACCAACCCGAACTACCC
AAACCACCCTCTACCGAATTAAACATACACGGGGAGTACACTTGACCCTTCC
Found at i:71191575 original size:12 final size:12
Alignment explanation
Indices: 71191558--71191583 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71191548 TAAATTAAAA
71191558 AAGATTTTATTC
1 AAGATTTTATTC
71191570 AAGATTTTATTC
1 AAGATTTTATTC
71191582 AA
1 AA
71191584 TGGCAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
AAGATTTTATTC
Found at i:71194331 original size:16 final size:18
Alignment explanation
Indices: 71194305--71194339 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
71194295 CCTTGTGATA
71194305 TCCATAATCTTA-TAATT
1 TCCATAATCTTATTAATT
71194322 TCCA-AATCTTATTAATT
1 TCCATAATCTTATTAATT
71194339 T
1 T
71194340 TGAGGTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
TCCATAATCTTATTAATT
Found at i:71194825 original size:14 final size:14
Alignment explanation
Indices: 71194806--71194834 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
71194796 AAACCATCTC
71194806 TCTTTTTCTTTTTT
1 TCTTTTTCTTTTTT
71194820 TCTTTTTCTTTTTT
1 TCTTTTTCTTTTTT
71194834 T
1 T
71194835 TTTAAATGCA
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:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:71197752 original size:23 final size:23
Alignment explanation
Indices: 71197707--71197752 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
71197697 TACGAGAGTG
*
71197707 AAGAAACAAACAGAATTAAAAAC
1 AAGAAACAAACAGAATAAAAAAC
*
71197730 AAGAACCAAACA-AATAAATAAAC
1 AAGAAACAAACAGAATAAA-AAAC
71197753 TGAAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.09
Consensus pattern (23 bp):
AAGAAACAAACAGAATAAAAAAC
Found at i:71206320 original size:33 final size:34
Alignment explanation
Indices: 71206258--71206323 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
71206248 CAGTACTAGT
71206258 ATGCATTAGGGCCTTAACCCATCACAGTATCAGC
1 ATGCATTAGGGCCTTAACCCATCACAGTATCAGC
* *
71206292 ATGCATTAGGGCCTT-GCCCATCATAGTATCAG
1 ATGCATTAGGGCCTTAACCCATCACAGTATCAG
71206324 TAGCAGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (34 bp):
ATGCATTAGGGCCTTAACCCATCACAGTATCAGC
Found at i:71209942 original size:7 final size:6
Alignment explanation
Indices: 71209921--71209962 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
71209911 GAAAAATTTG
71209921 TTATAA TTATAA TTATTAA TTA-AA TT-TAA TTATAA TT-TAA TT
1 TTATAA TTATAA TTA-TAA TTATAA TTATAA TTATAA TTATAA TT
71209963 TTGACATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
5 13 0.39
6 14 0.42
7 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTATAA
Found at i:71209952 original size:17 final size:16
Alignment explanation
Indices: 71209925--71209963 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
71209915 AATTTGTTAT
71209925 AATTATAATTATTAATTA
1 AATT-TAATTA-TAATTA
*
71209943 AATTTAATTATAATTT
1 AATTTAATTATAATTA
71209959 AATTT
1 AATTT
71209964 TGACATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 6 0.30
18 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTAATTATAATTA
Found at i:71210748 original size:23 final size:22
Alignment explanation
Indices: 71210715--71210766 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
71210705 TAATTAGCGT
* *
71210715 AAATATATATTTGA-AATTGTAA
1 AAATATATATTTAATAAAT-TAA
71210737 AAATATATTATTTAATAAATTAA
1 AAATATA-TATTTAATAAATTAA
71210760 AAATATA
1 AAATATA
71210767 AAATCACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATATATATTTAATAAATTAA
Found at i:71220188 original size:24 final size:24
Alignment explanation
Indices: 71220156--71220203 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
71220146 TAATGCTTAG
71220156 TAAGTTCGTATAACAAGAAATTAA
1 TAAGTTCGTATAACAAGAAATTAA
*
71220180 TAAGTTCGTATAACGAGAAATTAA
1 TAAGTTCGTATAACAAGAAATTAA
71220204 CTTATCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (24 bp):
TAAGTTCGTATAACAAGAAATTAA
Found at i:71220514 original size:19 final size:19
Alignment explanation
Indices: 71220490--71220539 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
71220480 AAACTGTAAC
71220490 CCTTCAATTCATGTATTAT
1 CCTTCAATTCATGTATTAT
71220509 CCTTCAATTCATGTATTAT
1 CCTTCAATTCATGTATTAT
*
71220528 CCGTCAATTCAT
1 CCTTCAATTCAT
71220540 ATATAGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (19 bp):
CCTTCAATTCATGTATTAT
Found at i:71220660 original size:24 final size:24
Alignment explanation
Indices: 71220633--71220735 Score: 82
Period size: 25 Copynumber: 4.2 Consensus size: 24
71220623 AGTTCTAGCA
* *
71220633 AGCCAATATCGGGAAGCTCCAGAG
1 AGCCATTATCGGGAAGCTCCAAAG
* *
71220657 AGCCATTAAC-GGAAGCTCAAAAG
1 AGCCATTATCGGGAAGCTCCAAAG
* *
71220680 AGCTAGTTATCGGAAAGCTCCAAAG
1 AGCCA-TTATCGGGAAGCTCCAAAG
* * * * *
71220705 AACAAATTATTGGGAAGCTTCGAAG
1 AGC-CATTATCGGGAAGCTCCAAAG
71220730 AGCCAT
1 AGCCAT
71220736 AAAAGGGAAG
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 15 0.25
24 14 0.23
25 30 0.50
26 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.17
Consensus pattern (24 bp):
AGCCATTATCGGGAAGCTCCAAAG
Found at i:71220697 original size:25 final size:23
Alignment explanation
Indices: 71220633--71220705 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
71220623 AGTTCTAGCA
* *
71220633 AGCCAATATCGGGAAGCTCCAGAG
1 AGCCATTATC-GGAAGCTCCAAAG
* *
71220657 AGCCATTAACGGAAGCTCAAAAG
1 AGCCATTATCGGAAGCTCCAAAG
*
71220680 AGCTAGTTATCGGAAAGCTCCAAAG
1 AGCCA-TTATCGG-AAGCTCCAAAG
71220705 A
1 A
71220706 ACAAATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 15 0.38
24 14 0.35
25 11 0.28
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (23 bp):
AGCCATTATCGGAAGCTCCAAAG
Found at i:71228862 original size:40 final size:40
Alignment explanation
Indices: 71228779--71229081 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
71228769 TTGAATGCTG
* * * * * *
71228779 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
71228819 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
71228859 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
71228899 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
71228939 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
71228979 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
71229019 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
71229058 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
71229082 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:71236845 original size:40 final size:40
Alignment explanation
Indices: 71236762--71237063 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
71236752 TTGAATGCTG
* * * * * *
71236762 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
71236802 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
71236842 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
71236881 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
71236921 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
71236961 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
71237001 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
71237040 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
71237064 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
39 74 0.31
40 157 0.66
41 8 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:71236910 original size:79 final size:79
Alignment explanation
Indices: 71236762--71237063 Score: 376
Period size: 79 Copynumber: 3.8 Consensus size: 79
71236752 TTGAATGCTG
* * * * * * *
71236762 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTA-ATCCGGGTTAAG-TCCCGAAGGCAT
* * *
71236825 TTGTGCGAGATACTAAA
63 TCGTGCGAGTTATTAAA
71236842 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCATTCG
71236907 TGCGAGTTATTAAA
66 TGCGAGTTATTAAA
*
71236921 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AATCCGGGTTAAGTCCCGAAGGCATTC
*
71236986 GTGCGAGTTGTTAAA
65 GTGCGAGTTATTAAA
* * * * * *
71237001 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAATCCGGGTTAAGTCCCGAAGGCATT
71237064 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 101 0.51
80 91 0.46
81 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTATTAAA
Found at i:71236973 original size:119 final size:119
Alignment explanation
Indices: 71236762--71237063 Score: 392
Period size: 119 Copynumber: 2.5 Consensus size: 119
71236752 TTGAATGCTG
* * * * * * *
71236762 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCATT
*
71236826 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AA
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
71236881 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTC
* ** *
71236946 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * * *
71237001 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATT
71237064 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
118 1 0.01
119 131 0.81
120 29 0.18
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:71237083 original size:119 final size:119
Alignment explanation
Indices: 71236837--71237098 Score: 366
Period size: 119 Copynumber: 2.2 Consensus size: 119
71236827 GTGCGAGATA
71236837 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGC
* * * ** **
71236902 ATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG
66 ATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
* * *
71236956 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATT-AATCCGGGTTAAGTCCCGAAGG
* * *
71237021 CATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAG
65 CATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
* *
71237075 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
71237099 TACGTGATTT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
118 15 0.12
119 86 0.68
120 25 0.20
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGC
ATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAG
Found at i:71270195 original size:22 final size:23
Alignment explanation
Indices: 71270170--71270215 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71270160 CAACCAAATC
71270170 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71270192 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71270215 A
1 A
71270216 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71270221 original size:23 final size:23
Alignment explanation
Indices: 71270177--71270221 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71270167 ATCAATTCAA
*
71270177 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71270200 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71270222 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Done.