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 98 of 255
Found at i:30476591 original size:27 final size:28
Alignment explanation
Indices: 30476561--30476631 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
30476551 TATTTTAATG
30476561 CATGTTTTTAATATGTCATAGT-TAGTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
* * * * *
30476588 CATGTTATTAATTTGTCTTGGTCTATTA
1 CATGTTTTTAATATGTCATAGTCTAGTA
*
30476616 CATATTTTTAATATGT
1 CATGTTTTTAATATGT
30476632 TCTAGCTTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (28 bp):
CATGTTTTTAATATGTCATAGTCTAGTA
Found at i:30481058 original size:25 final size:25
Alignment explanation
Indices: 30481004--30481059 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
30480994 CATAATACAG
*
30481004 AATTTT-GATAATACACTCATCTAT
1 AATTTTAGAGAATACACTCATCTAT
** * *
30481028 CTTTTTAGAGAATAGACTCATTTAT
1 AATTTTAGAGAATACACTCATCTAT
30481053 AATTTTA
1 AATTTTA
30481060 ATAATATAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (25 bp):
AATTTTAGAGAATACACTCATCTAT
Found at i:30486854 original size:40 final size:40
Alignment explanation
Indices: 30486809--30487112 Score: 430
Period size: 40 Copynumber: 7.5 Consensus size: 40
30486799 CAAGCACTAT
* ** * *
30486809 TGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
30486849 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
30486889 TGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAA
* *
30486931 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
30486971 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
30487011 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * *
30487051 TGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAA
*
30487091 TGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGTCTTAGCCCGGA
30487113 AAAATTCAAA
Statistics
Matches: 242, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
40 201 0.83
41 4 0.02
42 37 0.15
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:30487106 original size:120 final size:121
Alignment explanation
Indices: 30486809--30487112 Score: 407
Period size: 122 Copynumber: 2.5 Consensus size: 121
30486799 CAAGCACTAT
* * ** * * * *
30486809 TGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTGCGGGTCTTAGCCCGGATAAATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * *
30486874 ATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAA
66 ATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGA-ATATATCAACTCGCACAAA
* *
30486931 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTGCGGGTCTTAGCCCGGATAT
1 TGCCTGCGGGTCTTAGCCCGGATAAATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
30486996 ATCAACTCGCATAAATGCCTGCGGGTCTTAGCCCGG-ATATATCAACTCGCACAAA
66 ATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGAATATATCAACTCGCACAAA
* * *
30487051 TGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT-AGCACAATTGCCTTCGGGACTTAGCCCGGA
1 TGCCTGCGGGTCTTAGCCCGGAT-AAATCAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGA
30487113 AAAATTCAAA
Statistics
Matches: 163, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.01
120 69 0.42
121 4 0.02
122 89 0.55
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (121 bp):
TGCCTGCGGGTCTTAGCCCGGATAAATCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGAATATATCAACTCGCACAAA
Found at i:30495493 original size:40 final size:40
Alignment explanation
Indices: 30495441--30495747 Score: 433
Period size: 40 Copynumber: 7.7 Consensus size: 40
30495431 ATTACCACAA
* * ** *
30495441 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
30495481 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30495521 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30495561 GCACAAATG-CTGC-GGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30495599 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30495639 GCATAAATG-CTTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTT-CGGGTCTTAGCCCGGATATATCAACTC
* *
30495679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
30495719 GCACAATTGCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA
30495748 AAAATTCAAA
Statistics
Matches: 243, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 34 0.14
39 9 0.04
40 193 0.79
41 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30495664 original size:118 final size:120
Alignment explanation
Indices: 30495441--30495747 Score: 424
Period size: 118 Copynumber: 2.6 Consensus size: 120
30495431 ATTACCACAA
* * * ** * *
30495441 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
30495506 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
30495561 GCACAAATG-CTGC-GGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
30495624 CGGATATATCAACTCGCATAAATG-CTTGCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTT-CGGGTCTTAGCCCGGATATATCAACTC
* * * * *
30495679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
30495743 CCGGA
65 CCGGA
30495748 AAAATTCAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
117 3 0.02
118 101 0.61
119 6 0.04
120 52 0.31
121 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:30495723 original size:158 final size:160
Alignment explanation
Indices: 30495441--30495747 Score: 433
Period size: 158 Copynumber: 1.9 Consensus size: 160
30495431 ATTACCACAA
* * * *
30495441 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * * *
30495506 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATG-
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
*
30495570 CTGC-GGTCTTAGCCCGGATATATCAACTC
131 CTGCGGGACTTAGCCCGGATATATCAACTC
* * * *
30495599 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCATAAATG-CTTGCGGGTCTTAGC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTT-CGGGTCTTAGC
*
30495663 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATT
65 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AAATCAACTAGCACAAAT
*
30495727 GCCTTCGGGACTTAGCCCGGA
129 GCCTGCGGGACTTAGCCCGGA
30495748 AAAATTCAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
157 3 0.02
158 107 0.82
159 7 0.05
160 13 0.10
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (160 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCAACTAGCACAAATGC
CTGCGGGACTTAGCCCGGATATATCAACTC
Found at i:30501354 original size:30 final size:30
Alignment explanation
Indices: 30501304--30501360 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
30501294 AAAATCATAT
*
30501304 TTTGGCAATATTACAATTTTGCCCCTAAAC
1 TTTGGCAAAATTACAATTTTGCCCCTAAAC
* *
30501334 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGGCAAAATTACAATTTTGCCCCTA
30501361 CACTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:30509370 original size:28 final size:28
Alignment explanation
Indices: 30509338--30509465 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
30509328 ATAGTAAGTC
*
30509338 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30509366 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
30509395 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
30509423 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30509452 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30509466 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30509428 original size:57 final size:57
Alignment explanation
Indices: 30509337--30509465 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
30509327 TATAGTAAGT
*
30509337 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
30509394 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
30509451 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
30509466 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:30521980 original size:19 final size:20
Alignment explanation
Indices: 30521953--30521997 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30521943 TGAAAGTGCT
* * *
30521953 AAAGAAAAGAAAATTGAGAA
1 AAAGAAAGGAAAAATGAAAA
30521973 AAAGAAAGGAAAAATGAAAA
1 AAAGAAAGGAAAAATGAAAA
30521993 AAAGA
1 AAAGA
30521998 GTGAAAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAGAAAGGAAAAATGAAAA
Found at i:30522032 original size:14 final size:14
Alignment explanation
Indices: 30521986--30522037 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
30521976 GAAAGGAAAA
30521986 ATGAAAA-AAAGAG
1 ATGAAAAGAAAGAG
** *
30521999 -TGAAAAGATCGTG
1 ATGAAAAGAAAGAG
30522012 A-GAAAAGAAAGAG
1 ATGAAAAGAAAGAG
30522025 ATGAAAAGAAAGA
1 ATGAAAAGAAAGA
30522038 AAAAGAGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
12 6 0.20
13 13 0.43
14 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.27, T:0.10
Consensus pattern (14 bp):
ATGAAAAGAAAGAG
Found at i:30523748 original size:27 final size:27
Alignment explanation
Indices: 30523718--30523895 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30523708 ATATTGAGTC
* * * *
30523718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30523745 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30523772 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
30523800 CGCAAACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30523827 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30523854 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30523881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30523896 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30523864 original size:82 final size:81
Alignment explanation
Indices: 30523739--30523894 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30523729 TGCTATATAA
* *
30523739 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30523804 AACTTAGTGCCGCATGG
65 AACTTAGTGCCGCATGG
* * **
30523821 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
30523885 CACTTAGTGC
65 AACTTAGTGC
30523895 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAA
ACTTAGTGCCGCATGG
Found at i:30523909 original size:82 final size:83
Alignment explanation
Indices: 30523718--30523909 Score: 207
Period size: 82 Copynumber: 2.3 Consensus size: 83
30523708 ATATTGAGTC
* * * * *
30523718 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
30523782 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * * **
30523800 CGCAAACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
30523861 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
30523881 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
30523910 CCGCGCACTT
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
79 1 0.01
81 16 0.18
82 69 0.78
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:30553640 original size:42 final size:43
Alignment explanation
Indices: 30553589--30553695 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 43
30553579 ACTGTAATTG
* *
30553589 AATATCGATGCCACTGTCCCAAAAAGGGTCTTACACG-AAATCA-
1 AATA-CGATGCCA-TGTCCCAAAAAGGATCTTACACGTAAACCAT
* * *
30553632 AATACGATGTCGATGTCCCAAACATGATCTTACACGTAAACCAT
1 AATACGATG-CCATGTCCCAAAAAGGATCTTACACGTAAACCAT
30553676 AAGT-CGATGCCAATGTCCCA
1 AA-TACGATGCC-ATGTCCCA
30553696 GACATGGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
42 25 0.47
43 12 0.23
44 15 0.28
45 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
AATACGATGCCATGTCCCAAAAAGGATCTTACACGTAAACCAT
Found at i:30553695 original size:44 final size:41
Alignment explanation
Indices: 30553592--30553710 Score: 121
Period size: 44 Copynumber: 2.8 Consensus size: 41
30553582 GTAATTGAAT
* * * *
30553592 ATCGATGCCACTGTCCCAAAAAGGGTCTTACACGAAATCAA
1 ATCGATGCCAATGTCCCAAACATGGTCTTACACGAAACCAA
* * *
30553633 ATACGATGTCGATGTCCCAAACATGATCTTACACGTAAACCATA
1 AT-CGATGCCAATGTCCCAAACATGGTCTTACACG-AAACCA-A
* *
30553677 AGTCGATGCCAATGTCCCAGACATGGTTTTACAC
1 A-TCGATGCCAATGTCCCAAACATGGTCTTACAC
30553711 AATAACACAT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
41 2 0.03
42 26 0.42
43 5 0.08
44 28 0.45
45 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAAACATGGTCTTACACGAAACCAA
Found at i:30557267 original size:40 final size:40
Alignment explanation
Indices: 30557223--30557541 Score: 255
Period size: 40 Copynumber: 8.1 Consensus size: 40
30557213 GCGTTTGGAT
30557223 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
30557263 AAAAACACCGCTATAGATCGAGCATTAGCAGCACTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
*** *
30557303 AAAAACATAGCTATAGATCGAGCATTAGCGGCGCTTTCTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
30557343 AAAAACGCCGCTATAGGTTGACCATTAGTGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * ** * *
30557383 AAAAACGCCACAAAAAAATTAAGTACAAT-GCCGTCG-TTTTATG
1 AAAAACGCCGC-TATAGATCGAG--CATTAG-CGGCGCTTTT-TG
** * *
30557426 ----TTG-AGCTTTAG-T-G-GCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
30557458 AAAAATGCAGCTATAGATTGAGCATTAGCGGCGGTTTTT-
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
*
30557497 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
30557537 AAAAA
1 AAAAA
30557542 TACCACAAAA
Statistics
Matches: 217, Mismatches: 46, Indels: 32
0.74 0.16 0.11
Matches are distributed among these distances:
32 9 0.04
33 5 0.02
34 1 0.00
36 3 0.01
37 8 0.04
38 2 0.01
39 37 0.17
40 135 0.62
41 5 0.02
42 5 0.02
43 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:30557512 original size:39 final size:39
Alignment explanation
Indices: 30557439--30557540 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
30557429 AGCTTTAGTG
* *
30557439 GCATTAGCGGCGCTTTTTGAAAAATGCAGCTATAGATTGA
1 GCATTAGCGGCGCTTTTT-AAAAACGCAGCTATAGATCGA
* *
30557479 GCATTAGCGGCGGTTTTTAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAACGCAGCTATAGATCGA
30557518 GCATTAGCGGCGCTTTTTAAAAA
1 GCATTAGCGGCGCTTTTTAAAAA
30557541 ATACCACAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.70
40 17 0.30
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (39 bp):
GCATTAGCGGCGCTTTTTAAAAACGCAGCTATAGATCGA
Found at i:30557870 original size:7 final size:7
Alignment explanation
Indices: 30557849--30557950 Score: 96
Period size: 7 Copynumber: 14.4 Consensus size: 7
30557839 TTAATTATCA
*
30557849 TTATAGT
1 TTATGGT
*
30557856 TTAGGGT
1 TTATGGT
30557863 TTATGGT
1 TTATGGT
30557870 TTATGGT
1 TTATGGT
* *
30557877 ATATAGT
1 TTATGGT
*
30557884 TTAGGGT
1 TTATGGT
*
30557891 TTAAGGT
1 TTATGGT
*
30557898 TTATGGA
1 TTATGGT
*
30557905 TTATGGA
1 TTATGGT
30557912 TTATGGGT
1 TTAT-GGT
* *
30557920 TTAGGGA
1 TTATGGT
30557927 TTATGGT
1 TTATGGT
*
30557934 TTATGAT
1 TTATGGT
30557941 TTATGGT
1 TTATGGT
30557948 TTA
1 TTA
30557951 AGGGTTGGGG
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
7 71 0.93
8 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:30557871 original size:14 final size:14
Alignment explanation
Indices: 30557849--30558058 Score: 84
Period size: 14 Copynumber: 14.8 Consensus size: 14
30557839 TTAATTATCA
*
30557849 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
30557863 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
30557877 ATATAGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
30557891 TTAAGGTTTATGGA
1 TTATGGTTTAGGGT
*
30557905 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
30557920 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
30557934 TTATGATTTATGGT
1 TTATGGTTTAGGGT
* * *
30557948 TTAAGGGTTGGGGT
1 TTATGGTTTAGGGT
* *
30557962 TTAAGGATTA-GGT
1 TTATGGTTTAGGGT
* * *
30557975 GTTAGGGATTAAAGG-
1 -TTATGG-TTTAGGGT
*
30557990 TTAGGGGTTTAGGGT
1 TTA-TGGTTTAGGGT
* * *
30558005 TTATGTTTTATGAT
1 TTATGGTTTAGGGT
*
30558019 TTAAGGTTTAGGCG-
1 TTATGGTTTAGG-GT
* * *
30558033 ATAGGAGTTAAGGGT
1 TTATG-GTTTAGGGT
30558048 TTATGGTTTAG
1 TTATGGTTTAG
30558059 ATTAATTAGT
Statistics
Matches: 142, Mismatches: 45, Indels: 18
0.69 0.22 0.09
Matches are distributed among these distances:
13 3 0.02
14 109 0.77
15 28 0.20
16 2 0.01
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:30557927 original size:22 final size:22
Alignment explanation
Indices: 30557895--30557938 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30557885 TAGGGTTTAA
*
30557895 GGTTTATGGATTATGGATTATG
1 GGTTTAGGGATTATGGATTATG
*
30557917 GGTTTAGGGATTATGGTTTATG
1 GGTTTAGGGATTATGGATTATG
30557939 ATTTATGGTT
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:0.20, C:0.00, G:0.34, T:0.45
Consensus pattern (22 bp):
GGTTTAGGGATTATGGATTATG
Found at i:30557930 original size:29 final size:29
Alignment explanation
Indices: 30557883--30557953 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
30557873 TGGTATATAG
*
30557883 TTTA-GGGTTTAAGGTTTATGGATTATGGA
1 TTTATGGGTTTAAGGATTATGGATTAT-GA
* *
30557912 -TTATGGGTTTAGGGATTATGGTTTATGA
1 TTTATGGGTTTAAGGATTATGGATTATGA
30557940 TTTAT-GGTTTAAGG
1 TTTATGGGTTTAAGG
30557954 GTTGGGGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
TTTATGGGTTTAAGGATTATGGATTATGA
Found at i:30557954 original size:29 final size:29
Alignment explanation
Indices: 30557870--30557954 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
30557860 GGTTTATGGT
* * *
30557870 TTATGGTATAT-AGTTTAGGGTTTAA-GGT
1 TTATGGTTTATGA-TTTATGGTTTAAGGGA
*
30557898 TTATGGATTATGGA-TTATGGGTTT-AGGGA
1 TTATGGTTTAT-GATTTAT-GGTTTAAGGGA
30557927 TTATGGTTTATGATTTATGGTTTAAGGG
1 TTATGGTTTATGATTTATGGTTTAAGGG
30557955 TTGGGGTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
28 20 0.43
29 25 0.54
30 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
TTATGGTTTATGATTTATGGTTTAAGGGA
Found at i:30557984 original size:71 final size:71
Alignment explanation
Indices: 30557856--30558030 Score: 176
Period size: 71 Copynumber: 2.5 Consensus size: 71
30557846 TCATTATAGT
* * * * * **
30557856 TTAGGGTTTATGGTTTATGGTATATA-GTTTAGGGTTTAAGGTTTATGGATTATGGATTATGGGT
1 TTAGGGTTTATGATTTATGGTTTA-AGGGTTAGGGTTTAAGGATTATGGATTAGGGATTAAAGG-
30557920 TTA-GGGA
64 TTAGGGGA
* * *
30557927 TTATGGTTTATGATTTATGGTTTAAGGGTTGGGGTTTAAGGATTA-GGTGTTAGGGATTAAAGGT
1 TTAGGGTTTATGATTTATGGTTTAAGGGTTAGGGTTTAAGGATTATGG-ATTAGGGATTAAAGGT
*
30557991 TAGGGGT
65 TAGGGGA
* * *
30557998 TTAGGGTTTATGTTTTATGATTTAAGGTTTAGG
1 TTAGGGTTTATGATTTATGGTTTAAGGGTTAGG
30558031 CGATAGGAGT
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
70 6 0.07
71 79 0.93
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (71 bp):
TTAGGGTTTATGATTTATGGTTTAAGGGTTAGGGTTTAAGGATTATGGATTAGGGATTAAAGGTT
AGGGGA
Found at i:30558004 original size:7 final size:7
Alignment explanation
Indices: 30557854--30558058 Score: 67
Period size: 7 Copynumber: 28.9 Consensus size: 7
30557844 TATCATTATA
30557854 GTTTAGG
1 GTTTAGG
*
30557861 GTTTATG
1 GTTTAGG
*
30557868 GTTTATG
1 GTTTAGG
* **
30557875 GTATATA
1 GTTTAGG
30557882 GTTTAGG
1 GTTTAGG
*
30557889 GTTTAAG
1 GTTTAGG
*
30557896 GTTTATG
1 GTTTAGG
* *
30557903 GATTATG
1 GTTTAGG
*
30557910 GATTATGG
1 GTTTA-GG
30557918 GTTTAGG
1 GTTTAGG
* *
30557925 GATTATG
1 GTTTAGG
*
30557932 GTTTATG
1 GTTTAGG
* *
30557939 ATTTATG
1 GTTTAGG
30557946 GTTTAAGG
1 GTTT-AGG
*
30557954 G-TTGGG
1 GTTTAGG
*
30557960 GTTTAAG
1 GTTTAGG
*
30557967 GATTA-G
1 GTTTAGG
30557973 GTGTTAGG
1 GT-TTAGG
* *
30557981 GATTAAAG
1 G-TTTAGG
30557989 G-TTAGGG
1 GTTTA-GG
30557996 GTTTAGG
1 GTTTAGG
*
30558003 GTTTATG
1 GTTTAGG
* *
30558010 TTTTATG
1 GTTTAGG
* *
30558017 ATTTAAG
1 GTTTAGG
30558024 GTTTAGG
1 GTTTAGG
*
30558031 CG-ATAGG
1 -GTTTAGG
*
30558038 AGTTAAGG
1 -GTTTAGG
*
30558046 GTTTATG
1 GTTTAGG
30558053 GTTTAG
1 GTTTAG
30558059 ATTAATTAGT
Statistics
Matches: 149, Mismatches: 39, Indels: 20
0.72 0.19 0.10
Matches are distributed among these distances:
6 7 0.05
7 120 0.81
8 21 0.14
9 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:30558691 original size:19 final size:18
Alignment explanation
Indices: 30558675--30558726 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
30558665 TCTCTCCCCC
*
30558675 ATTCCGTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCCCA
* *
30558693 ATTTCCTTTTTCTTTCTCA
1 A-TTCCCTTTTCTTTCCCA
30558712 ATTCCCTTTTCTTTC
1 ATTCCCTTTTCTTTC
30558727 TCAGCCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.10, C:0.31, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCCCA
Found at i:30558716 original size:18 final size:18
Alignment explanation
Indices: 30558675--30558729 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
30558665 TCTCTCCCCC
* *
30558675 ATTCCGTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCTCA
*
30558693 ATTTCCTTTTTCTTTCTCA
1 A-TTCCCTTTTCTTTCTCA
30558712 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
30558730 GCCTTTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.11, C:0.31, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCA
Found at i:30561563 original size:15 final size:16
Alignment explanation
Indices: 30561543--30561573 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
30561533 GTTTTTGTCT
30561543 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
30561558 TATATATGATCTAAAA
1 TATATATGATCTAAAA
30561574 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:30565098 original size:14 final size:13
Alignment explanation
Indices: 30565079--30565110 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
30565069 TATACAAGTC
30565079 AAAAAAAATTCGAA
1 AAAAAAAATTC-AA
30565093 AAAAAAAATTCAA
1 AAAAAAAATTCAA
30565106 AAAAA
1 AAAAA
30565111 TTCGAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:30565123 original size:14 final size:13
Alignment explanation
Indices: 30565079--30565124 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
30565069 TATACAAGTC
30565079 AAAAAAAATTCGAA
1 AAAAAAAATTCG-A
30565093 AAAAAAAATTC--
1 AAAAAAAATTCGA
30565104 -AAAAAAATTCGA
1 AAAAAAAATTCGA
30565116 AAAGAAAAA
1 AAA-AAAAA
30565125 AAAATCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.36
13 2 0.07
14 16 0.57
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:30567301 original size:40 final size:40
Alignment explanation
Indices: 30567218--30567482 Score: 311
Period size: 40 Copynumber: 6.7 Consensus size: 40
30567208 TTGAATGCTG
* * * * *
30567218 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAA
* * * *
30567258 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
30567298 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
30567338 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
30567378 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * * *
30567418 TCCGGGTTATGTGCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
30567457 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
30567483 AACGAGGAGC
Statistics
Matches: 195, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
39 33 0.17
40 154 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
Found at i:30567500 original size:79 final size:80
Alignment explanation
Indices: 30567257--30567515 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
30567247 AAGTGAATAT
* * * * * *
30567257 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCTCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30567321 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30567337 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30567402 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
30567417 ATCCGGGTTATGTGCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30567481 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30567496 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30567516 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 13 0.08
79 50 0.32
80 91 0.59
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30569223 original size:15 final size:14
Alignment explanation
Indices: 30569194--30569250 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 14
30569184 AAGAGAAAAC
30569194 AAAGAAAAGGAAAGAA
1 AAAGAAAA-G-AAGAA
30569210 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
30569225 AAAGAAAAAGAAATAA
1 AAAG-AAAAG-AAGAA
30569241 AAAGAAAAGA
1 AAAGAAAAGA
30569251 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 1 0.03
15 19 0.51
16 13 0.35
17 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:30569328 original size:11 final size:12
Alignment explanation
Indices: 30569298--30569328 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30569288 TTGAGAGAAC
30569298 TTGAAAAAGCCT
1 TTGAAAAAGCCT
30569310 TTGAAAAAGCCT
1 TTGAAAAAGCCT
30569322 TTGAAAA
1 TTGAAAA
30569329 TCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:30569354 original size:12 final size:12
Alignment explanation
Indices: 30569324--30569355 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30569314 AAAAGCCTTT
*
30569324 GAAAATCAAAAA
1 GAAAATGAAAAA
30569336 GAAAATGAAAAA
1 GAAAATGAAAAA
30569348 GAAAATGA
1 GAAAATGA
30569356 GATTGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.16, T:0.09
Consensus pattern (12 bp):
GAAAATGAAAAA
Found at i:30569365 original size:30 final size:31
Alignment explanation
Indices: 30569331--30569412 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
30569321 TTTGAAAATC
*
30569331 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
30569361 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
30569391 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
30569413 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:30574707 original size:24 final size:25
Alignment explanation
Indices: 30574674--30574726 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 25
30574664 ATCCATCAAC
30574674 AAGCATCATAATACACAAGTGGCAT
1 AAGCATCATAATACACAAGTGGCAT
30574699 AAGC-TCATAATACACAAGTGGCAT
1 AAGCATCATAATACACAAGTGGCAT
30574723 AAGC
1 AAGC
30574727 CAAACTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (25 bp):
AAGCATCATAATACACAAGTGGCAT
Found at i:30577958 original size:6 final size:6
Alignment explanation
Indices: 30577933--30578007 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
30577923 AGTGTGAAAG
* ** **
30577933 AAAGCAA AAAGAGA ATAAGAA AAAGAA AATTGAA ATTGAA AAAGAA AGTGAA
1 AAAG-AA AAAGA-A A-AAGAA AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA
*
30577985 AAAGAA AAAGAA AAGGAA AAAGA
1 AAAGAA AAAGAA AAAGAA AAAGA
30578008 GATCGAGATC
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
6 39 0.71
7 12 0.22
8 4 0.07
ACGTcount: A:0.71, C:0.01, G:0.20, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:30577961 original size:19 final size:19
Alignment explanation
Indices: 30577939--30577999 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
30577929 AAAGAAAGCA
30577939 AAAAGAGAATAAGAAAAAG
1 AAAAGAGAATAAGAAAAAG
*
30577958 AAAATTGA-AAT-TGAAAAAG
1 AAAA--GAGAATAAGAAAAAG
* *
30577977 -AAAGTGAAAAAGAAAAAG
1 AAAAGAGAATAAGAAAAAG
30577995 AAAAG
1 AAAAG
30578000 GAAAAAGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 1 0.03
17 2 0.06
18 10 0.30
19 15 0.45
20 3 0.09
21 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAAGAGAATAAGAAAAAG
Found at i:30578094 original size:60 final size:60
Alignment explanation
Indices: 30577971--30578094 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
30577961 ATTGAAATTG
** *
30577971 AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGATCGAGAGTA
1 AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGAAAGAAAGTA
* * * *
30578031 AAAAAGAATGTG-AGAAGAAAAAGAAAATTGAAAAAGAGAGT-GAGTATGAAGAAAGAAAG-A
1 AAAAAGAAAGTGAAAAAGAAAAAGAAAA-GGAAAAAGAGA-TCGAG-ATCAAGAAAGAAAGTA
30578091 AAAA
1 AAAA
30578095 TGATCAAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 14 0.26
60 29 0.54
61 11 0.20
ACGTcount: A:0.63, C:0.02, G:0.25, T:0.10
Consensus pattern (60 bp):
AAAAAGAAAGTGAAAAAGAAAAAGAAAAGGAAAAAGAGATCGAGATCAAGAAAGAAAGTA
Found at i:30594685 original size:40 final size:40
Alignment explanation
Indices: 30594450--30594671 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
30594440 AATGATGTCT
* * * *
30594450 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
30594490 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
* *
30594530 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
30594569 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
30594609 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
30594649 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
30594672 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:30594693 original size:119 final size:119
Alignment explanation
Indices: 30594454--30594694 Score: 276
Period size: 119 Copynumber: 2.0 Consensus size: 119
30594444 ATGTCTGGGC
*
30594454 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
30594519 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
* * * * *
30594573 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGTG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
30594636 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCTCGGT
30594692 TAA
1 TAA
30594695 ATTCTGAAGG
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
118 3 0.03
119 70 0.68
120 30 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
Found at i:30595588 original size:85 final size:85
Alignment explanation
Indices: 30595445--30595623 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
30595435 GGCCGGCCAT
*
30595445 GAGCATGGGTGGACAAGATGTTATGGCTAAAACCATGTCACAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCACAAACATGTTGGGGTAGTGCATTAT
30595510 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
30595530 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCACAAACATGTTGGGGTAGTGCATTAT
30595595 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
30595615 GGGCATGGG
1 GAGCATGGG
30595624 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCACAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:30599137 original size:47 final size:47
Alignment explanation
Indices: 30599080--30599406 Score: 483
Period size: 47 Copynumber: 6.7 Consensus size: 47
30599070 TTAGGATTCT
* *
30599080 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
30599127 ATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
30599176 ATGTGATAAATGTGAAAGTGTATATATATATGTGATAAGGGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAA--GGCCTAATGGCCG
* * *
30599229 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
30599276 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
30599325 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
30599372 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30599407 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 14, Indels: 16
0.90 0.05 0.06
Matches are distributed among these distances:
47 110 0.43
49 100 0.39
51 16 0.06
53 32 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:30599247 original size:149 final size:143
Alignment explanation
Indices: 30599080--30599406 Score: 546
Period size: 149 Copynumber: 2.2 Consensus size: 143
30599070 TTAGGATTCT
*
30599080 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
30599145 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATATGTG
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTG----TATATATGTG
*
30599210 ATAAGGGGCCTAATGGCCG
127 ATAA--GGCCTAATAGCCG
*
30599229 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
30599294 TGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
30599359 GGCCTAATAGCCG
131 GGCCTAATAGCCG
*
30599372 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30599407 TCCCGAAGGG
Statistics
Matches: 171, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
143 45 0.26
145 14 0.08
149 112 0.65
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCG
Found at i:30600934 original size:23 final size:23
Alignment explanation
Indices: 30600868--30600934 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
30600858 ATATATCCGG
30600868 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* *
30600891 GCT-AGT---GA-TA-TATTCAG-
1 GCTAAGTCCCGAGGAGCATTC-GT
30600908 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
30600931 GCTA
1 GCTA
30600935 GTGATATATC
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
17 7 0.22
18 5 0.16
19 2 0.06
21 2 0.06
22 5 0.16
23 11 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAGGAGCATTCGT
Found at i:30601217 original size:40 final size:40
Alignment explanation
Indices: 30600854--30601203 Score: 504
Period size: 40 Copynumber: 8.8 Consensus size: 40
30600844 GAGAATTGAG
*
30600854 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30600894 AGTGATATATTCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30600934 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
30600974 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
30601014 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30601054 AGTGATGTATCTGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30601094 AGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
30601134 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
30601174 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
30601204 TAATCATGCT
Statistics
Matches: 282, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 279 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:30601411 original size:25 final size:25
Alignment explanation
Indices: 30601382--30601432 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
30601372 GTGTATTAAC
30601382 GAATGAATAAGA-GCACTATGTATGT
1 GAATG-ATAAGAGGCACTATGTATGT
* *
30601407 GAATGATTAGAGGCACTATGTGTGT
1 GAATGATAAGAGGCACTATGTATGT
30601432 G
1 G
30601433 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTATGT
Found at i:30604972 original size:47 final size:47
Alignment explanation
Indices: 30604915--30605241 Score: 474
Period size: 47 Copynumber: 6.7 Consensus size: 47
30604905 TTAGGATTCT
*
30604915 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* *
30604962 ATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCA
*
30605011 ATGTGATAAATGTGAAAGTGTATATATATATGTGATAAGGGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTG----TATATATGTGATAA--GGCCTAATGGCCA
* *
30605064 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
30605111 ATGTGATGAATGTGAAAGTGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCA
* *
30605160 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
30605207 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30605242 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 14, Indels: 16
0.90 0.05 0.06
Matches are distributed among these distances:
47 111 0.43
49 100 0.39
51 16 0.06
53 31 0.12
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
Found at i:30605082 original size:149 final size:143
Alignment explanation
Indices: 30604915--30605241 Score: 537
Period size: 149 Copynumber: 2.2 Consensus size: 143
30604905 TTAGGATTCT
*
30604915 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
30604980 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATATGTG
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTG----TATATATGTG
*
30605045 ATAAGGGGCCTAATGGCCA
127 ATAA--GGCCTAATAGCCA
*
30605064 ATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
30605129 TGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
*
30605194 GGCCTAATAGCCG
131 GGCCTAATAGCCA
*
30605207 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30605242 TCCCGAAGGG
Statistics
Matches: 170, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
143 44 0.26
145 14 0.08
149 112 0.66
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCA
Found at i:30613850 original size:40 final size:40
Alignment explanation
Indices: 30613573--30613836 Score: 340
Period size: 40 Copynumber: 6.6 Consensus size: 40
30613563 CGAATGATGT
* * * *
30613573 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30613613 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
30613653 CCGGGCTAAG-CCGGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30613691 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30613732 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
30613772 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
30613812 CCGAGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30613837 AACGAGTAGC
Statistics
Matches: 199, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.17
40 156 0.78
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30613850 original size:120 final size:119
Alignment explanation
Indices: 30613572--30613843 Score: 309
Period size: 119 Copynumber: 2.3 Consensus size: 119
30613562 TCGAATGATG
* ** * * * * *
30613572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGAGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
30613635 TTGTGCGAGATACTAATTCCGGGCTAAGCCGGAAGGCATTGGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* * **
30613691 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 TCCGAGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
* * *
30613756 GTGCTAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
66 GTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
*
30613812 -CCGAGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGAGCTAAGTCCCGAAGGCATTTGAACGAGT
30613844 AGCTATATCC
Statistics
Matches: 132, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 3 0.02
119 69 0.52
120 58 0.44
121 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:30615643 original size:40 final size:40
Alignment explanation
Indices: 30615599--30615862 Score: 352
Period size: 40 Copynumber: 6.6 Consensus size: 40
30615589 TCCTCGTTCA
* * *
30615599 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30615639 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30615679 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30615719 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
30615759 AATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
30615799 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
30615839 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30615863 CAGCATTCAA
Statistics
Matches: 203, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.01
40 192 0.95
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:30623605 original size:34 final size:35
Alignment explanation
Indices: 30623477--30623717 Score: 213
Period size: 39 Copynumber: 6.6 Consensus size: 35
30623467 TCGTTCAAAT
* * *
30623477 GCCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAA
1 GCCTTC-GGACTTAACCCGGATTTA-T-ACTCGCACAA
* *
30623514 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 -GCCTTC-GGACTTAACCCGGATTT-A-TACTCGCAC-AA
30623554 TGCCTTCGGACTTAACCCGGATTTATACTCGCACAA
1 -GCCTTCGGACTTAACCCGGATTTATACTCGCACAA
30623590 GCCTTCGG-CTTAACCCGGATTT-TACT-GCACAA
1 GCCTTCGGACTTAACCCGGATTTATACTCGCACAA
*
30623622 GCCTTCGGACTTAACCCGGATTTGTATCTCGCACAAA
1 GCCTTCGGACTTAACCCGGATTTATA-CTCGCAC-AA
* * *
30623659 GCCTTCGGATCTT-ATCCGGATATATTCACTTAGCACAAA
1 GCCTTCGGA-CTTAACCCGGATTTA-T-AC-TCGCAC-AA
*
30623698 GCCTTCGGACTTAGCCCGGA
1 GCCTTCGGACTTAACCCGGA
30623718 CAGCATTCAA
Statistics
Matches: 178, Mismatches: 12, Indels: 25
0.83 0.06 0.12
Matches are distributed among these distances:
32 14 0.08
33 18 0.10
34 16 0.09
35 10 0.06
36 6 0.03
37 27 0.15
38 28 0.16
39 49 0.28
40 10 0.06
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (35 bp):
GCCTTCGGACTTAACCCGGATTTATACTCGCACAA
Found at i:30630004 original size:27 final size:27
Alignment explanation
Indices: 30629973--30630150 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
30629963 TAAATTGTAC
30629973 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30630000 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30630026 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30630054 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30630082 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30630109 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30630136 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30630151 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30630087 original size:82 final size:81
Alignment explanation
Indices: 30629974--30630129 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30629964 AAATTGTACA
*
30629974 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
30630038 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30630055 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
30630120 TGCGAGTTGA
65 TGCGAATTGA
30630130 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30630141 original size:82 final size:81
Alignment explanation
Indices: 30629970--30630150 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
30629960 GATTAAATTG
*
30629970 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
30630035 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30630051 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
30630115 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30630133 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30630151 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30638465 original size:27 final size:27
Alignment explanation
Indices: 30638392--30638490 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 27
30638382 GTTAGGTAAG
*
30638392 AAAGCCTTTGTGGTGTAATATGAAAGA
1 AAAGCCTTTGTGGCGTAATATGAAAGA
* *
30638419 AAA--C-ATGTGGCATAATATGAAAGA
1 AAAGCCTTTGTGGCGTAATATGAAAGA
* *
30638443 AAAGCCTTTGTGGCGCAAAATGAAAGA
1 AAAGCCTTTGTGGCGTAATATGAAAGA
* *
30638470 AAAGCCTTTGTAGTGTAATAT
1 AAAGCCTTTGTGGCGTAATAT
30638491 TGAAGGAATT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 20 0.34
25 1 0.02
26 1 0.02
27 36 0.62
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAGCCTTTGTGGCGTAATATGAAAGA
Found at i:30640078 original size:67 final size:67
Alignment explanation
Indices: 30639970--30640102 Score: 198
Period size: 67 Copynumber: 2.0 Consensus size: 67
30639960 TGTTGTATCT
* *
30639970 TTTTAACCACCTTACTAATACCTTTGCAATTGCCTTCATTAAGCCCTTAGTA-ATATATAGGAGT
1 TTTTAACCACCTTACTAATAACTTTGCAATTGCCCTCATTAAGCCC-TAGTACATATATAGGAGT
30640034 CTA
65 CTA
* *
30640037 TTTTAACCAGCTTACTAATAACTATTGCAA-TGCCCTCATTAAGCCCTAGTACATATATGGGAGT
1 TTTTAACCACCTTACTAATAACT-TTGCAATTGCCCTCATTAAGCCCTAGTACATATATAGGAGT
30640101 CT
65 CT
30640103 CGTAAACGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 5 0.08
67 49 0.82
68 6 0.10
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (67 bp):
TTTTAACCACCTTACTAATAACTTTGCAATTGCCCTCATTAAGCCCTAGTACATATATAGGAGTC
TA
Found at i:30641933 original size:40 final size:40
Alignment explanation
Indices: 30641874--30642103 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
30641864 CATTTGAATG
* * * *
30641874 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * *
30641914 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
30641954 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30641993 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30642033 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30642073 ATATCCGGGCTAAGA-CCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30642104 TTGTGGTTAT
Statistics
Matches: 167, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
39 48 0.29
40 117 0.70
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:30642087 original size:119 final size:118
Alignment explanation
Indices: 30641874--30642123 Score: 342
Period size: 119 Copynumber: 2.1 Consensus size: 118
30641864 CATTTGAATG
* * *
30641874 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCA
*
30641939 TTTGTGCGAGTTGCTATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATT
65 TTTGTGCGAGTTGATATACCCGGGATAAGA-CCGAAGGCAATTGTGCTAGTGATT
* *
30641994 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGACCCGAAGGCAATTGTGCGAG-TGATTATATCCGGGCCAAGACCCGAAGGC
* * * * * *
30642057 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCGAGGGCATTTGTGCTTGTGGTT
64 ATTTGTGCGAGTTGATATACCCGGGATAAGACCGAAGGCAATTGTGCTAGTGATT
30642112 ATATCCGGCTAA
1 ATATCCGGCTAA
30642124 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
118 26 0.23
119 86 0.75
120 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (118 bp):
ATATCCGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCCAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGATAAGACCGAAGGCAATTGTGCTAGTGATT
Found at i:30642119 original size:79 final size:79
Alignment explanation
Indices: 30641874--30642103 Score: 345
Period size: 79 Copynumber: 2.9 Consensus size: 79
30641864 CATTTGAATG
* * *
30641874 ATATCCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
30641939 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGAT
* *
30641954 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
30642019 TTGTGCGAGTTGAT
66 TTGTGCGAGTTGAT
* * * *
30642033 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGA-CCGAGGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTATCCGGGCTAAGACCCGAAGGCA
30642097 TTTGTGC
65 TTTGTGC
30642104 TTGTGGTTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 85 0.62
80 52 0.38
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGAT
Found at i:30674111 original size:26 final size:26
Alignment explanation
Indices: 30674081--30674132 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
30674071 AATAGTAGTT
30674081 AAATGTTA-AATATATATGTTGTTATG
1 AAATGTTAGAATATATAT-TTGTTATG
*
30674107 AAATGTTAGAATTTATATTTGTTATG
1 AAATGTTAGAATATATATTTGTTATG
30674133 GCCGAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (26 bp):
AAATGTTAGAATATATATTTGTTATG
Found at i:30679603 original size:46 final size:46
Alignment explanation
Indices: 30679536--30679710 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
30679526 TGTAACCCGC
* *
30679536 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
30679582 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GG-ATGCCCAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCA--T
* *** * * *
30679628 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
30679675 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
30679711 ATGCCCAAAC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 64 0.62
47 28 0.27
48 1 0.01
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:30679652 original size:93 final size:93
Alignment explanation
Indices: 30679544--30679717 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
30679534 GCCCATAAGT
* * *
30679544 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
30679609 CGAGCTCGGATGCCCAGTTACATCTCTC
66 CGAGCTCGGATGCCCAGTTACATCTCTC
* * *
30679637 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
30679702 CGAGTTCGGATGCCCA
66 CGAGCTCGGATGCCCA
30679718 AACATCCTAG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCCAGTTACATCTCTC
Found at i:30679730 original size:46 final size:46
Alignment explanation
Indices: 30679587--30679730 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
30679577 CGCATCCATA
* *
30679587 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
30679636 --CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
30679680 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
30679726 AGTGA
1 AGTGA
30679731 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 29 0.39
49 5 0.07
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:30681227 original size:22 final size:22
Alignment explanation
Indices: 30681199--30681246 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
30681189 TTCTCAGTTT
30681199 CCCATGATATCATGACATAAAA
1 CCCATGATATCATGACATAAAA
*
30681221 CCCATGATATCTTGACATAAAA
1 CCCATGATATCATGACATAAAA
30681243 CCCA
1 CCCA
30681247 ACAATCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (22 bp):
CCCATGATATCATGACATAAAA
Found at i:30682118 original size:30 final size:30
Alignment explanation
Indices: 30682074--30682162 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30682064 CAAAGATAAC
*
30682074 AAGAAAGCC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
30682103 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
* * * *
30682133 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
30682163 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:30682122 original size:15 final size:15
Alignment explanation
Indices: 30682074--30682153 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30682064 CAAAGATAAC
*
30682074 AAGAAAGCC-GAATA
1 AAGAAATCCAGAATA
30682088 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30682103 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30682118 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30682133 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30682148 AAGAAA
1 AAGAAA
30682154 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30682162 original size:15 final size:15
Alignment explanation
Indices: 30682085--30682162 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30682075 AGAAAGCCGA
30682085 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30682100 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30682114 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30682129 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30682145 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30682160 ATA
1 ATA
30682163 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30685219 original size:46 final size:46
Alignment explanation
Indices: 30685076--30685219 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
30685066 CCCGCCCATA
* *
30685076 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC--TAACATC-CT
* * ** **
30685125 --CGAACTCGGACTCAACTCAACGAATTCGGA--CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCC-T
30685168 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
30685215 AGTGA
1 AGTGA
30685220 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 1 0.01
46 33 0.43
47 28 0.37
48 7 0.09
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
Found at i:30687627 original size:30 final size:30
Alignment explanation
Indices: 30687583--30687671 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30687573 CAAAGATAAC
*
30687583 AAGAAAGCC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
30687612 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
* * * *
30687642 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
30687672 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:30687631 original size:15 final size:15
Alignment explanation
Indices: 30687583--30687662 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30687573 CAAAGATAAC
*
30687583 AAGAAAGCC-GAATA
1 AAGAAATCCAGAATA
30687597 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30687612 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30687627 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30687642 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30687657 AAGAAA
1 AAGAAA
30687663 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30687671 original size:15 final size:15
Alignment explanation
Indices: 30687594--30687671 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30687584 AGAAAGCCGA
30687594 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30687609 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30687623 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30687638 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30687654 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30687669 ATA
1 ATA
30687672 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30688886 original size:46 final size:46
Alignment explanation
Indices: 30688743--30688886 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
30688733 CCTGCCCATA
* *
30688743 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC--TAACATC-CT
* * ** **
30688792 --CGAACTCGGACTCAACTCAACGAATTCGGA--CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCC-T
30688835 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
30688882 AGTGA
1 AGTGA
30688887 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 1 0.01
46 33 0.43
47 28 0.37
48 7 0.09
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCTAACATCCT
Found at i:30698075 original size:48 final size:48
Alignment explanation
Indices: 30697955--30698175 Score: 177
Period size: 48 Copynumber: 4.7 Consensus size: 48
30697945 CACATAGTAA
* **
30697955 GATGCCAATGCCATATCCCAGATATGGTCCTACATTGGATCATC-TATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCA-CATATC
* * * * *
30698003 GAAGCC---G--ATAGCCCAGCTATGGTCTTACACAATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA-AAGGATCACATATC
* **
30698046 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
* * ** * *
30698094 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACAGATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
* * ** *
30698142 AATGCCAATGCCATGTCCGGGACATGGTCTTACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA
30698176 TGGGATAACA
Statistics
Matches: 141, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.75
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACAAAGGATCACATATC
Found at i:30698176 original size:48 final size:48
Alignment explanation
Indices: 30698047--30698181 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
30698037 TCTCATATCG
* * * * *
30698047 ATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
*
30698095 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTACAGATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
**
30698143 ATGCCAATGCCATGTCCGGGACATGGTCTTACATGGGAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
30698182 AACACATAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAGATCA
Found at i:30705161 original size:37 final size:37
Alignment explanation
Indices: 30705114--30705190 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
30705104 TGAATACATA
30705114 GATTGATGTTGTACGTTCAGCTATAGGTAAGCATATT
1 GATTGATGTTGTACGTTCAGCTATAGGTAAGCATATT
*
30705151 GATTGATGTTGTACGTTCGGCTATAGGTAAGCATATT
1 GATTGATGTTGTACGTTCAGCTATAGGTAAGCATATT
30705188 GAT
1 GAT
30705191 GGCTTTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (37 bp):
GATTGATGTTGTACGTTCAGCTATAGGTAAGCATATT
Found at i:30705814 original size:40 final size:40
Alignment explanation
Indices: 30705754--30705937 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
30705744 TATTCGAATG
*
30705754 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
30705794 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
30705834 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
30705874 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
30705914 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
30705938 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:30705887 original size:80 final size:80
Alignment explanation
Indices: 30705754--30705937 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
30705744 TATTCGAATG
* * *
30705754 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
30705818 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
30705834 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
30705899 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
30705914 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
30705938 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:30710444 original size:19 final size:19
Alignment explanation
Indices: 30710422--30710477 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
30710412 ATGTTCTCAG
30710422 ATTTCTATTATGATATCAT
1 ATTTCTATTATGATATCAT
* * *
30710441 A----T-TTATGTTCTCAG
1 ATTTCTATTATGATATCAT
30710455 ATTTCTATTATGATATCAT
1 ATTTCTATTATGATATCAT
30710474 ATTT
1 ATTT
30710478 GGGTTTTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 10
0.62 0.14 0.24
Matches are distributed among these distances:
14 10 0.38
15 1 0.04
18 1 0.04
19 14 0.54
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (19 bp):
ATTTCTATTATGATATCAT
Found at i:30710447 original size:33 final size:33
Alignment explanation
Indices: 30710410--30710477 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
30710400 TCATTATGCG
30710410 TTATGTTCTCAGATTTCTATTATGATATCATAT
1 TTATGTTCTCAGATTTCTATTATGATATCATAT
30710443 TTATGTTCTCAGATTTCTATTATGATATCATAT
1 TTATGTTCTCAGATTTCTATTATGATATCATAT
30710476 TT
1 TT
30710478 GGGTTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (33 bp):
TTATGTTCTCAGATTTCTATTATGATATCATAT
Found at i:30713160 original size:56 final size:56
Alignment explanation
Indices: 30713098--30713234 Score: 222
Period size: 56 Copynumber: 2.4 Consensus size: 56
30713088 GACCATGGCA
* *
30713098 TCGATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGA-T
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
*
30713153 TCCGATATATGTGTCCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
1 T-CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
*
30713210 TCGATATATGTGTGCAAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
30713235 CTGTTTGGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 1 0.01
56 72 0.96
57 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACT
Found at i:30715744 original size:96 final size:90
Alignment explanation
Indices: 30715544--30715774 Score: 236
Period size: 96 Copynumber: 2.5 Consensus size: 90
30715534 CACATAGTAA
*
30715544 GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACAGATCGAAGCAGATAGCCCAGC
1 GATGCCAATGCCATATCCCTAATATGGTCTTACATGGGATCACAGATCGAAGCAGATAGCCCAGC
* *
30715609 TATGGTCTTACACGATGCCTCATATC
66 TATGATCTTACACGAT-CCACATATC
* * *
30715635 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATCGATGCCA-ATGTCATGT
1 GATGCCAATGCCATATCCCTAATATGGTCTTACATGGGATCACAGATCGAAG-CAGA--T-A-G-
*
30715699 CCCAGAC-ATGATCTTACATAGGAT-CACATATC
60 CCCAG-CTATGATCTTAC--ACGATCCACATATC
* * * *
30715731 GGTGCCAATGCCATGT-CTTAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCCT-AATATGGTCTTACATGGGATCACA
30715775 CATAACCATA
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
91 49 0.42
92 2 0.02
93 1 0.01
94 1 0.01
95 3 0.03
96 57 0.48
97 1 0.01
98 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (90 bp):
GATGCCAATGCCATATCCCTAATATGGTCTTACATGGGATCACAGATCGAAGCAGATAGCCCAGC
TATGATCTTACACGATCCACATATC
Found at i:30715746 original size:48 final size:48
Alignment explanation
Indices: 30715544--30715774 Score: 210
Period size: 48 Copynumber: 4.9 Consensus size: 48
30715534 CACATAGTAA
* * * *
30715544 GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
30715592 GAAG-C-A-G--ATAG-CCCAG-CTATGGTCTTACA--CGATGCCTCATATC
1 GATGCCAATGCCAT-GTCCCAGAC-ATGGTCTTACATGGGAT--CACATATC
* * *
30715635 GATGCCAATGCCATATCCCTGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
30715683 GATGCCAATGTCATGTCCCAGACATGATCTTACATAGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
30715731 GGTGCCAATGCCATGTCTTAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
30715775 CATAACCATA
Statistics
Matches: 144, Mismatches: 26, Indels: 26
0.73 0.13 0.13
Matches are distributed among these distances:
41 3 0.02
43 26 0.18
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 106 0.74
50 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:30717070 original size:21 final size:20
Alignment explanation
Indices: 30717036--30717074 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30717026 AAACTTGTAT
30717036 ATCTATCAGCAAGCATTCATA
1 ATCTATCAGCAAGC-TTCATA
30717057 ATCTATCAAG-AAGCTTCA
1 ATCTATC-AGCAAGCTTCA
30717075 AAATACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
ATCTATCAGCAAGCTTCATA
Found at i:30725293 original size:12 final size:12
Alignment explanation
Indices: 30725273--30725304 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30725263 TTTTGGATTA
*
30725273 TTTTGATGTTCC
1 TTTTTATGTTCC
30725285 TTTTTATGTTCC
1 TTTTTATGTTCC
30725297 TTTTTATG
1 TTTTTATG
30725305 CAATGTGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.66
Consensus pattern (12 bp):
TTTTTATGTTCC
Found at i:30726109 original size:6 final size:6
Alignment explanation
Indices: 30726090--30726121 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
30726080 GGTCCTCCCT
*
30726090 CCCCCA CCCGCA CCCCCA CCCCCA CCCCCA CC
1 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CC
30726122 TCCCCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.81, G:0.03, T:0.00
Consensus pattern (6 bp):
CCCCCA
Found at i:30727573 original size:22 final size:22
Alignment explanation
Indices: 30727548--30727596 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
30727538 TTTAGCTCTA
30727548 ATTTTAAAAAT-TATAAAAATAT
1 ATTTTAAAAATCT-TAAAAATAT
* *
30727570 ATTTAAAAAATCTTTAAAATAT
1 ATTTTAAAAATCTTAAAAATAT
30727592 -TTTTA
1 ATTTTA
30727597 TATTTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 18 0.78
23 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTTAAAAATCTTAAAAATAT
Found at i:30727788 original size:17 final size:17
Alignment explanation
Indices: 30727766--30727798 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30727756 TCAAATTGAG
*
30727766 TTGAGAAATTTATTTAA
1 TTGAGAAATTAATTTAA
30727783 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
30727799 GTTAATTTAA
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:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:30734737 original size:26 final size:27
Alignment explanation
Indices: 30734708--30734769 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
30734698 TCTCTAGTTT
30734708 GAAAATCATCCTAACTAATCTCGC-TC
1 GAAAATCATCCTAACTAATCTCGCTTC
30734734 GAAAATCATCCTAACTAATCTCGCTTC
1 GAAAATCATCCTAACTAATCTCGCTTC
30734761 -AAAATCATC
1 GAAAATCATC
30734770 TTTCTCCGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 33 0.94
27 2 0.06
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (27 bp):
GAAAATCATCCTAACTAATCTCGCTTC
Found at i:30735288 original size:38 final size:37
Alignment explanation
Indices: 30735235--30735331 Score: 95
Period size: 38 Copynumber: 2.6 Consensus size: 37
30735225 GTCCTAACTA
* **
30735235 TAAAAATTATAAAAAAATATTTAAAATATTTAAAATTCT
1 TAAAAATT-TTAAAAAATATTTAAAATATACAAAATT-T
* * **
30735274 TAAAAATTTTAAAAAGTATATAAGTTATACAAAATTT
1 TAAAAATTTTAAAAAATATTTAAAATATACAAAATTT
**
30735311 TAAATTTTTTAAAAAATATTT
1 TAAAAATTTTAAAAAATATTT
30735332 TTGTACCCAA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
37 18 0.38
38 21 0.45
39 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (37 bp):
TAAAAATTTTAAAAAATATTTAAAATATACAAAATTT
Found at i:30738014 original size:20 final size:21
Alignment explanation
Indices: 30737991--30738033 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30737981 ATAAGCATGT
*
30737991 ATTTTG-ATGTTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
*
30738011 ATTTTGAATGCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
30738032 AT
1 AT
30738034 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:30741079 original size:23 final size:23
Alignment explanation
Indices: 30741053--30741101 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
30741043 CTAAAAGTAT
30741053 TTAATAGCTATAGAACCTTAAAG
1 TTAATAGCTATAGAACCTTAAAG
30741076 TTAATAGCTATAGAACCTTAAAG
1 TTAATAGCTATAGAACCTTAAAG
30741099 TTA
1 TTA
30741102 GGGTCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TTAATAGCTATAGAACCTTAAAG
Found at i:30745123 original size:39 final size:39
Alignment explanation
Indices: 30744999--30745086 Score: 176
Period size: 39 Copynumber: 2.3 Consensus size: 39
30744989 GAGATTGGAA
30744999 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
30745038 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
30745077 ATATCCGGAC
1 ATATCCGGAC
30745087 TTAAGGTCTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:30745139 original size:39 final size:39
Alignment explanation
Indices: 30744999--30745141 Score: 155
Period size: 39 Copynumber: 3.7 Consensus size: 39
30744989 GAGATTGGAA
* * *
30744999 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACTTAAGATCCGCAGGCTACATGCTAGAAAT
* * *
30745038 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACTTAAGATCCGCAGGCTACATGCTAGAAAT
* * * *
30745077 ATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGGAAA-
1 ATATCCGGACTTAAGATCCGCAGGCTACATGCT-AGAAAT
*
30745116 ATATCCGG-GTTAAAGATCCGCAGGCT
1 ATATCCGGACTT-AAGATCCGCAGGCT
30745142 TGCGCTAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.02
39 86 0.93
40 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGACTTAAGATCCGCAGGCTACATGCTAGAAAT
Found at i:30746770 original size:13 final size:13
Alignment explanation
Indices: 30746752--30746783 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
30746742 ATTTTTAGGG
30746752 CACACGGGTTAGC
1 CACACGGGTTAGC
30746765 CACACGGGTTAGC
1 CACACGGGTTAGC
30746778 CACACG
1 CACACG
30746784 AGAGTGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.25, C:0.34, G:0.28, T:0.12
Consensus pattern (13 bp):
CACACGGGTTAGC
Found at i:30748828 original size:27 final size:27
Alignment explanation
Indices: 30748797--30748848 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
30748787 AGGTGTATTT
30748797 ACCTCATTCAGAAATAGGTTCTTGTTC
1 ACCTCATTCAGAAATAGGTTCTTGTTC
30748824 ACCTCATTCAGAAATAGGTTCTTGT
1 ACCTCATTCAGAAATAGGTTCTTGT
30748849 GTAGCTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (27 bp):
ACCTCATTCAGAAATAGGTTCTTGTTC
Found at i:30751181 original size:40 final size:40
Alignment explanation
Indices: 30751126--30751397 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
30751116 ATTTGAATAC
*
30751126 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
30751166 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
30751206 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
*
30751248 ATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
30751288 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
30751328 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
30751368 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
30751398 TTGTGGTTAT
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 178 0.82
42 39 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:30751343 original size:122 final size:122
Alignment explanation
Indices: 30751118--30751397 Score: 458
Period size: 122 Copynumber: 2.3 Consensus size: 122
30751108 GCATGAGCAT
*
30751118 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
* * *
30751182 GAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* *
30751239 TTGACATATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
30751304 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * *
30751361 TTG-C-TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30751398 TTGTGGTTAT
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 29 0.20
121 5 0.03
122 114 0.77
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (122 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:30759176 original size:40 final size:40
Alignment explanation
Indices: 30759121--30759392 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
30759111 ATTTGAATAC
*
30759121 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
30759161 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
30759201 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
30759243 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
30759283 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
30759323 ATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
30759363 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
30759393 TTGTGGTTAT
Statistics
Matches: 217, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
40 177 0.82
42 40 0.18
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:30759338 original size:122 final size:122
Alignment explanation
Indices: 30759113--30759392 Score: 458
Period size: 122 Copynumber: 2.3 Consensus size: 122
30759103 GCATGAGCAT
*
30759113 TTGA-ATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
* * *
30759177 GAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
*
30759234 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
*
30759299 GAAGGCAATTGTGCAAGTTGATATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAG
66 GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
* * *
30759356 TTG-C-TATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30759393 TTGTGGTTAT
Statistics
Matches: 149, Mismatches: 9, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 114 0.77
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (122 bp):
TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCC
GAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
Found at i:30761942 original size:21 final size:22
Alignment explanation
Indices: 30761916--30761957 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30761906 GTGTATTTTA
30761916 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
30761937 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
30761958 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:30764720 original size:40 final size:40
Alignment explanation
Indices: 30764642--30764865 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
30764632 ACCCAAGTAT
* *
30764642 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
30764681 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30764721 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30764761 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
30764804 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30764844 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30764866 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30764838 original size:83 final size:80
Alignment explanation
Indices: 30764642--30764865 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
30764632 ACCCAAGTAT
* * * *
30764642 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
30764706 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
30764721 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
30764785 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
30764804 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30764866 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:30767746 original size:37 final size:37
Alignment explanation
Indices: 30767687--30767825 Score: 251
Period size: 37 Copynumber: 3.8 Consensus size: 37
30767677 AGCTCAGACG
* *
30767687 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30767724 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30767761 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30767798 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
30767826 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30768022 original size:47 final size:47
Alignment explanation
Indices: 30767944--30768442 Score: 836
Period size: 47 Copynumber: 10.6 Consensus size: 47
30767934 CCCTTCGGGA
* * * * * *
30767944 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30767991 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30768038 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30768085 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30768132 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30768179 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30768226 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30768273 CTTATCAAATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30768320 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30768367 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30768416 CTTATCACATATATACACTTTCTCATT
1 CTTATCACATATATACACTTTCACATT
30768443 TATTCAAATA
Statistics
Matches: 427, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 382 0.89
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30776974 original size:40 final size:40
Alignment explanation
Indices: 30776896--30777119 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
30776886 ACCCAAGTAT
* * *
30776896 CTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
30776935 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
30776975 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30777015 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
30777058 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30777098 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30777120 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.07
40 115 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30777092 original size:83 final size:80
Alignment explanation
Indices: 30776896--30777119 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 80
30776886 ACCCAAGTAT
* * * * *
30776896 CTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
30776960 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
30776975 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
30777039 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
30777058 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
30777120 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 49 0.39
83 65 0.52
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:30785481 original size:46 final size:46
Alignment explanation
Indices: 30785406--30785580 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
30785396 TGTAACCCGC
*
30785406 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCACAT
*
30785452 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * * * *
30785502 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
30785545 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30785581 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 57 0.54
47 26 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:30785572 original size:93 final size:93
Alignment explanation
Indices: 30785413--30785584 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
30785403 CGCCCATAAG
* * * * *
30785413 CGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCACATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
30785478 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
30785506 CGAACTCGGACTCAACTCAACAAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTT-AGACATTCACATCCATAAGTGAACTCGGACTCAACTC
30785570 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
30785585 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTTAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:30805275 original size:85 final size:85
Alignment explanation
Indices: 30805172--30805435 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
30805162 GGCCGGCCAT
30805172 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
30805237 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
30805257 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
30805322 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
30805342 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
30805407 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
30805427 GGGCATGGG
1 GAGCATGGG
30805436 CAATAAAATA
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:30807666 original size:47 final size:47
Alignment explanation
Indices: 30807615--30807711 Score: 158
Period size: 47 Copynumber: 2.1 Consensus size: 47
30807605 TTAGGATTTT
*
30807615 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
* * *
30807662 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
30807709 ATG
1 ATG
30807712 CGAAACGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGAATATATGAGATAAGGCCGAATGGCCA
Found at i:30807774 original size:46 final size:46
Alignment explanation
Indices: 30807685--30807775 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
30807675 GAACATGAAT
* * * *
30807685 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
30807731 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
30807776 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:30809285 original size:40 final size:40
Alignment explanation
Indices: 30809226--30809353 Score: 204
Period size: 40 Copynumber: 3.2 Consensus size: 40
30809216 CCTTCGAGAT
*
30809226 TTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGAAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
*
30809265 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
* *
30809305 TTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
*
30809345 TTAGTCCGG
1 TTAGCCCGG
30809354 TTATCATCCG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 4 0.05
40 78 0.95
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAAC
Found at i:30813634 original size:27 final size:28
Alignment explanation
Indices: 30813603--30813657 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
30813593 CGAATTCGCA
30813603 ACTGATAATAG-CCGATCTCAAATCTAT
1 ACTGATAATAGCCCGATCTCAAATCTAT
30813630 ACTGATAATAGCCCGATCTCAAATCTAT
1 ACTGATAATAGCCCGATCTCAAATCTAT
30813658 CTTTGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (28 bp):
ACTGATAATAGCCCGATCTCAAATCTAT
Found at i:30834811 original size:40 final size:40
Alignment explanation
Indices: 30834758--30834907 Score: 255
Period size: 40 Copynumber: 3.7 Consensus size: 40
30834748 CCGAGCTTGC
* *
30834758 GATATATTCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATA-TCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
30834799 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
30834839 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
* *
30834879 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
30834908 ATGTGTTTGC
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 99 0.94
41 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
Found at i:30843388 original size:40 final size:40
Alignment explanation
Indices: 30843329--30843476 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
30843319 GAGCATTGGA
* *
30843329 ATATATCCGGGC-TATGACCCGAAGGCAATTATGCGATTTG
1 ATATATCCGGGCTTA-GACCCGAAGGCAATTATGCAAGTTG
30843369 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
*
30843409 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
*
30843449 ATATGTCCGGG-TTAAGACCCGAAGGCAA
1 ATATATCCGGGCTT-AGACCCGAAGGCAA
30843477 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
Found at i:30850109 original size:49 final size:48
Alignment explanation
Indices: 30849982--30850125 Score: 173
Period size: 49 Copynumber: 2.9 Consensus size: 48
30849972 TCTATTGTGA
*
30849982 GGTCACATGTGTAGTACTAAGTGCAGAG-TACTATGTGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAG-GCTACTATGTGTA-CC--AGACTGT
* * *
30850033 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTG-T
* * *
30850082 GGTCGCATGTGTAGTACTAACTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
30850126 TAGCTTCGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
48 5 0.06
49 39 0.48
50 3 0.04
51 34 0.42
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGT
Done.