Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 223 of 333
Found at i:73568805 original size:80 final size:80
Alignment explanation
Indices: 73568672--73568855 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
73568662 TATTCGAATG
* * *
73568672 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
73568736 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
73568752 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
73568817 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
73568832 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
73568856 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:73576233 original size:40 final size:40
Alignment explanation
Indices: 73576173--73576356 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
73576163 TATTCGAATG
*
73576173 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
73576213 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * * *
73576253 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
73576293 ATATCCGGGCTAAGTTCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
73576333 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
73576357 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:73576306 original size:80 final size:79
Alignment explanation
Indices: 73576173--73576392 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 79
73576163 TATTCGAATG
* * * *
73576173 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCGAAGGCA
* *
73576238 TTTGTGCGAGTTG-CT
65 TTTATGCGAG-TGACC
* * *
73576253 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTTCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCGAAGGCA
*
73576318 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * *
73576333 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGAT-CCGAAG
73576393 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.01
78 12 0.10
79 19 0.16
80 89 0.74
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCGAAGGCAT
TTATGCGAGTGACC
Found at i:73591918 original size:34 final size:35
Alignment explanation
Indices: 73591837--73591918 Score: 80
Period size: 34 Copynumber: 2.4 Consensus size: 35
73591827 CTTTGTTTGC
* * *
73591837 ATACTG-TATTGAAATGGGCTAAGGCCTAGATTGC
1 ATACTGTTATTGAAATGGGCTAAGGCCCAGACTGA
* ** *
73591871 CT-CTGTTGCTGAAATGGGCTCAGGCCCAGACT-A
1 ATACTGTTATTGAAATGGGCTAAGGCCCAGACTGA
73591904 ATACTGTTATTGAAA
1 ATACTGTTATTGAAA
73591919 AAGGGGCTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (35 bp):
ATACTGTTATTGAAATGGGCTAAGGCCCAGACTGA
Found at i:73597261 original size:48 final size:48
Alignment explanation
Indices: 73597205--73597435 Score: 181
Period size: 48 Copynumber: 4.9 Consensus size: 48
73597195 CGGTAGTGAC
** *
73597205 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCATCGTT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
* * ** *
73597253 ATGTGATCCCATATAAGGCCATGTC-AAGACATGGCATTGGCATCATA
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
* *** * * *
73597300 ATGAGA-CATTGTGTAAAACCATAGT-TGGG-CTATCG-ACTTCG-AT-A-T
1 ATGTGATC-CCATGTAAGACCAT-GTCTGGGAC-ATGGCA-TTGGCATCATT
*
73597345 CTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
* * * * *
73597393 ATGTGGTCCCATATAAGACCATATCTAGGATATGGCATTGGCA
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
73597436 CCCTACCTTG
Statistics
Matches: 137, Mismatches: 34, Indels: 24
0.70 0.17 0.12
Matches are distributed among these distances:
44 2 0.01
45 24 0.18
46 7 0.05
47 34 0.25
48 70 0.51
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
Found at i:73619996 original size:28 final size:28
Alignment explanation
Indices: 73619933--73620030 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
73619923 ATATTAAGTC
*
73619933 CGCACACTCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
73619960 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
73619988 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
73620017 CGCACACTTAGTGC
1 CGCACACTTAGTGC
73620031 CAATCTCACG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:73620025 original size:29 final size:28
Alignment explanation
Indices: 73619932--73620030 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
73619922 TATATTAAGT
* *
73619932 CCGCACACTCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
73619959 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
73619987 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
73620016 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
73620031 CAATCTCACG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 21 0.33
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:73623208 original size:40 final size:40
Alignment explanation
Indices: 73623047--73623200 Score: 256
Period size: 40 Copynumber: 3.9 Consensus size: 40
73623037 ATTCGGATGG
*
73623047 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
73623086 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
73623126 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
73623166 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
73623201 AAGCTATATC
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.12
40 94 0.88
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:73623208 original size:80 final size:79
Alignment explanation
Indices: 73623047--73623227 Score: 249
Period size: 80 Copynumber: 2.3 Consensus size: 79
73623037 ATTCGGATGG
*
73623047 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAA
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAA
* *
73623112 TTGTGCGAGTTACT
66 TTGAGCGAGTAACT
* *
73623126 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCA
*
73623191 TTTGAGCGAG-AAGCT
65 ATTGAGCGAGTAA-CT
* *
73623206 ATATCC-GGCTAAACCTCGAAGG
1 ATAACCGGGCTAAGCC-CGAAGG
73623228 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 27 0.30
80 62 0.68
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (79 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAA
TTGAGCGAGTAACT
Found at i:73626123 original size:25 final size:24
Alignment explanation
Indices: 73626067--73626128 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
73626057 ATTTAATTAA
73626067 TAAAAATTATTAATGATTAAATAAAT
1 TAAAAATTA--AATGATTAAATAAAT
73626093 TGAAAAATTAAAT-ATTAGAATAAAAT
1 T-AAAAATTAAATGATTA-AAT-AAAT
*
73626119 TAAAATTTAA
1 TAAAAATTAA
73626129 GAGAAAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 6 0.19
27 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
TAAAAATTAAATGATTAAATAAAT
Found at i:73626909 original size:30 final size:30
Alignment explanation
Indices: 73626875--73626931 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
73626865 CTTCTAAAAA
*
73626875 TATTTA-GAAAAAGAGGCACCTAATTTTTAT
1 TATTTATG-AAAAGAGGCACCAAATTTTTAT
*
73626905 TATTTATGAAAAGAGGTACCAAATTTT
1 TATTTATGAAAAGAGGCACCAAATTTT
73626932 AAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (30 bp):
TATTTATGAAAAGAGGCACCAAATTTTTAT
Found at i:73628791 original size:42 final size:42
Alignment explanation
Indices: 73628728--73628823 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
73628718 TTAAAAGGTC
73628728 ACAC-CCCGTGTGAACAGGCCGTGTG-CATCACACGGCCTTAG
1 ACACGCCCGTGTGAACAGGCCGTGTGTC-TCACACGGCCTTAG
73628769 ACACGCCCGTGTGAACAGGCCGTGTGTCTCACACGGCCTTAG
1 ACACGCCCGTGTGAACAGGCCGTGTGTCTCACACGGCCTTAG
73628811 ACACGCCCGTGTG
1 ACACGCCCGTGTG
73628824 TCTCACACGG
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
41 4 0.08
42 48 0.91
43 1 0.02
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (42 bp):
ACACGCCCGTGTGAACAGGCCGTGTGTCTCACACGGCCTTAG
Found at i:73628821 original size:29 final size:29
Alignment explanation
Indices: 73628788--73628855 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
73628778 TGTGAACAGG
73628788 CCGTGTGTCTCACACGGCCTTAGACACGC
1 CCGTGTGTCTCACACGGCCTTAGACACGC
73628817 CCGTGTGTCTCACACGGCCTTAGACACGC
1 CCGTGTGTCTCACACGGCCTTAGACACGC
73628846 CCGTGTGTCT
1 CCGTGTGTCT
73628856 AAGCCGTGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.24
Consensus pattern (29 bp):
CCGTGTGTCTCACACGGCCTTAGACACGC
Found at i:73632650 original size:42 final size:43
Alignment explanation
Indices: 73632542--73632652 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
73632532 GTTTCGTACA
** * * * *
73632542 ATGCCAACGTCCTAGAGGTGGACTTACATGTAATCAAATATCG
1 ATGCCAATATCCTAGACGTGGTCTTACACGAAATCAAATATCG
* * * **
73632585 ATGCTACTATCCCAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATATCCTAGACGTGGTCTTACACGAAATCAAATATCG
73632627 ATGCCAATATCCTAGACGTGGTCTTA
1 ATGCCAATATCCTAGACGTGGTCTTA
73632653 TTCTTAAAAC
Statistics
Matches: 52, Mismatches: 16, Indels: 1
0.75 0.23 0.01
Matches are distributed among these distances:
42 23 0.44
43 29 0.56
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATATCCTAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:73639463 original size:33 final size:33
Alignment explanation
Indices: 73639426--73639489 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
73639416 GTTGGAAGGC
* *
73639426 AGTGATCTCATTCCTTAACTCAGCATTCTTGGT
1 AGTGATCTCAATCCTCAACTCAGCATTCTTGGT
*
73639459 AGTGATCTCAATCCTCAACTTAGCATTCTTG
1 AGTGATCTCAATCCTCAACTCAGCATTCTTG
73639490 CTAGGCGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (33 bp):
AGTGATCTCAATCCTCAACTCAGCATTCTTGGT
Found at i:73645451 original size:16 final size:16
Alignment explanation
Indices: 73645430--73645460 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
73645420 AAAAGAATTA
73645430 AAAGTCTGGCCCCAGT
1 AAAGTCTGGCCCCAGT
73645446 AAAGTCTGGCCCCAG
1 AAAGTCTGGCCCCAG
73645461 CACAGACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (16 bp):
AAAGTCTGGCCCCAGT
Found at i:73645505 original size:34 final size:34
Alignment explanation
Indices: 73645462--73645529 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
73645452 TGGCCCCAGC
73645462 ACAGACAGTACCAGATGGGCCTTAGCCCATTACA
1 ACAGACAGTACCAGATGGGCCTTAGCCCATTACA
73645496 ACAGACAGTACCAGATGGGCCTTAGCCCATTACA
1 ACAGACAGTACCAGATGGGCCTTAGCCCATTACA
73645530 GAATAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (34 bp):
ACAGACAGTACCAGATGGGCCTTAGCCCATTACA
Found at i:73645580 original size:6 final size:6
Alignment explanation
Indices: 73645553--73645668 Score: 76
Period size: 6 Copynumber: 18.8 Consensus size: 6
73645543 TATCTGAACT
* * * * *
73645553 AGAATC AAAATG AGAATT AGAATC AGAATC AGGTGAT- AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
73645602 AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
73645652 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
73645669 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 70 0.81
7 7 0.08
8 4 0.05
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:73645594 original size:19 final size:19
Alignment explanation
Indices: 73645570--73645640 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
73645560 AAATGAGAAT
73645570 TAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGGTGA
* **
73645589 TAGAATCAAAATCA--AAA
1 TAGAATCAGAATCAGGTGA
*
73645606 TCAGAATCAGAATTAGGTGA
1 T-AGAATCAGAATCAGGTGA
*
73645626 CAGAATCAGAATCAG
1 TAGAATCAGAATCAG
73645641 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.05
18 11 0.28
19 26 0.65
20 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
TAGAATCAGAATCAGGTGA
Found at i:73645632 original size:25 final size:25
Alignment explanation
Indices: 73645604--73645668 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
73645594 TCAAAATCAA
* *
73645604 AATCAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
73645629 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
73645654 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
73645669 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:73645646 original size:37 final size:37
Alignment explanation
Indices: 73645553--73645659 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
73645543 TATCTGAACT
* * *
73645553 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGAT
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
73645590 AGAATCAAAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
73645627 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAG
73645660 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:73646331 original size:27 final size:27
Alignment explanation
Indices: 73646301--73646424 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
73646291 TACCCCATAA
* * * *
73646301 GGGTATCTCGAAAATTCTACCTTATAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
73646328 GGGTATTTCGATATTTCTACCCTACAA
1 GGGTATTTCGATAATTCTACCCTACAG
* *
73646355 AGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
*
73646382 GGGTATTTC-AGTAATTCTACCCTATAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
*
73646409 GGGTATTTCAATAATT
1 GGGTATTTCGATAATT
73646425 TTGTAAATCG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:73646415 original size:54 final size:53
Alignment explanation
Indices: 73646284--73646417 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 53
73646274 GGGCAAAATG
* * * * *
73646284 GTAATTTTACCCCATAAGGGTATCTCGAAAATTCTACCTTATAGGGGTATTTC
1 GTAATTCTACCCTATAAGGGTATTTCGAAAATTCTACCCTACAGGGGTATTTC
* * * **
73646337 GATATTTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 G-TAATTCTACCCTATAAGGGTATTTCGAAAATTCTACCCTACAGGGGTATTTC
*
73646391 AGTAATTCTACCCTATAGGGGTATTTC
1 -GTAATTCTACCCTATAAGGGTATTTC
73646418 AATAATTTTG
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.02
54 63 0.97
55 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTATAAGGGTATTTCGAAAATTCTACCCTACAGGGGTATTTC
Found at i:73648682 original size:10 final size:11
Alignment explanation
Indices: 73648612--73648686 Score: 59
Period size: 11 Copynumber: 7.1 Consensus size: 11
73648602 ACCCAACCCA
*
73648612 TGCATATAATG
1 TGCATATCATG
*
73648623 TGTATATC--G
1 TGCATATCATG
73648632 TAGCATATCATG
1 T-GCATATCATG
*
73648644 TGCTTATCAT-
1 TGCATATCATG
**
73648654 AACATATCATG
1 TGCATATCATG
73648665 TGCATATCATG
1 TGCATATCATG
*
73648676 T-CCTATCATG
1 TGCATATCATG
73648686 T
1 T
73648687 ATAACAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
9 2 0.04
10 22 0.44
11 24 0.48
12 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (11 bp):
TGCATATCATG
Found at i:73648686 original size:21 final size:21
Alignment explanation
Indices: 73648614--73648674 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
73648604 CCAACCCATG
* * * *
73648614 CATATAATGTGTATATCGTAG
1 CATATCATGTGCATATCATAA
*
73648635 CATATCATGTGCTTATCATAA
1 CATATCATGTGCATATCATAA
73648656 CATATCATGTGCATATCAT
1 CATATCATGTGCATATCAT
73648675 GTCCTATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
CATATCATGTGCATATCATAA
Found at i:73648855 original size:27 final size:27
Alignment explanation
Indices: 73648826--73649128 Score: 399
Period size: 27 Copynumber: 11.2 Consensus size: 27
73648816 GGTTATCTTG
* * * *
73648826 GTAATTCTACCTTACAAGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
73648853 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
73648880 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
73648907 GTAACTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
73648934 ATATTTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
73648961 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
73648988 GTAATTCTACCCTACAGGGGTGTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
73649015 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
73649042 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** * *
73649069 GTAATTCTACTTTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
73649096 GTAATTCTACCTTAGAAGGGTATTTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
73649123 GTAATT
1 GTAATT
73649129 TTATAAATCG
Statistics
Matches: 243, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 243 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:73649142 original size:27 final size:26
Alignment explanation
Indices: 73649112--73649345 Score: 191
Period size: 27 Copynumber: 8.7 Consensus size: 26
73649102 CTACCTTAGA
73649112 AGGGTATTTCT-GTAATTTTATAAATCG
1 AGGGTATTT-TGGTAATTTTATAAA-CG
*** * *
73649139 AGGGTAAAATGGTAATTCTATAAATTG
1 AGGGTATTTTGGTAATTTTATAAA-CG
* **
73649166 AGGGTACTTTGGTAATTTTATAGGTCG
1 AGGGTATTTTGGTAATTTTATA-AACG
* * *
73649193 ATGGTATTTTGGTAATTTTGTAAACT
1 AGGGTATTTTGGTAATTTTATAAACG
* *
73649219 AGGGGTATTTTGGTAATTTTACAAACC
1 A-GGGTATTTTGGTAATTTTATAAACG
*
73649246 AGGGGTATTTTGGTAATTTTATAAACTA
1 A-GGGTATTTTGGTAATTTTATAAAC-G
** * *
73649274 AGGGTATTTTAATAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTATAAACG
* * *
73649300 AGGGGTATTTTGTTAATTTTGTAAACCA
1 A-GGGTATTTTGGTAATTTTATAAA-CG
73649328 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
73649346 GGTAAACTAA
Statistics
Matches: 167, Mismatches: 34, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.02
27 160 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTATAAACG
Found at i:73649253 original size:54 final size:54
Alignment explanation
Indices: 73649195--73649345 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
73649185 ATAGGTCGAT
*
73649195 GGTATTTTGGTAATTTTGTAAACTAGGGGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGG
* **
73649249 GGTATTTTGGTAATTTTATAAACTAAGGGTATTTTAATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGG
* *
73649303 GGTATTTTGTTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 GGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTT
73649346 GGTAAACTAA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGG
Found at i:73649352 original size:27 final size:27
Alignment explanation
Indices: 73649195--73649345 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
73649185 ATAGGTCGAT
* *
73649195 GGTATTTTGGTAATTTTGTAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
*
73649222 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
* *
73649249 GGTATTTTGGTAATTTTATAAACTAAG
1 GGTATTTTGGTAATTTTATAAACCAGG
** *
73649276 GGTATTTTAATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAGG
* * *
73649303 GGTATTTTGTTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAGG
73649330 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
73649346 GGTAAACTAA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAACCAGG
Found at i:73655758 original size:25 final size:24
Alignment explanation
Indices: 73655718--73655763 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
73655708 TGCGGATTTG
73655718 TCAAAAAGAAATAAAAATTTATTA
1 TCAAAAAGAAATAAAAATTTATTA
73655742 TCAAAAAGAAATAAAAATTTAT
1 TCAAAAAGAAATAAAAATTTAT
73655764 CAAAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
TCAAAAAGAAATAAAAATTTATTA
Found at i:73655778 original size:21 final size:21
Alignment explanation
Indices: 73655713--73655768 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 21
73655703 CTTTGTGCGG
*
73655713 ATTTGTCAAAAAGAAATAAAA
1 ATTTATCAAAAAGAAATAAAA
73655734 ATTTATTATCAAAAAGAAATAAAA
1 A--T-TTATCAAAAAGAAATAAAA
73655758 ATTTATCAAAA
1 ATTTATCAAAA
73655769 TTAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 10 0.32
22 1 0.03
23 1 0.03
24 19 0.61
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
ATTTATCAAAAAGAAATAAAA
Found at i:73655988 original size:130 final size:130
Alignment explanation
Indices: 73655755--73656010 Score: 512
Period size: 130 Copynumber: 2.0 Consensus size: 130
73655745 AAAAGAAATA
73655755 AAAATTTATCAAAATTAATTAAAATTAAATATGCTAATAATTTAAGTACAATAAATTATTTTTTA
1 AAAATTTATCAAAATTAATTAAAATTAAATATGCTAATAATTTAAGTACAATAAATTATTTTTTA
73655820 ATTATTATATATTGTTCAAATTAATCTAAATTGTTATTATGATAGCAAAAATAGACTAAATATTT
66 ATTATTATATATTGTTCAAATTAATCTAAATTGTTATTATGATAGCAAAAATAGACTAAATATTT
73655885 AAAATTTATCAAAATTAATTAAAATTAAATATGCTAATAATTTAAGTACAATAAATTATTTTTTA
1 AAAATTTATCAAAATTAATTAAAATTAAATATGCTAATAATTTAAGTACAATAAATTATTTTTTA
73655950 ATTATTATATATTGTTCAAATTAATCTAAATTGTTATTATGATAGCAAAAATAGACTAAAT
66 ATTATTATATATTGTTCAAATTAATCTAAATTGTTATTATGATAGCAAAAATAGACTAAAT
73656011 GTTTTCTCAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 126 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (130 bp):
AAAATTTATCAAAATTAATTAAAATTAAATATGCTAATAATTTAAGTACAATAAATTATTTTTTA
ATTATTATATATTGTTCAAATTAATCTAAATTGTTATTATGATAGCAAAAATAGACTAAATATTT
Found at i:73661863 original size:38 final size:38
Alignment explanation
Indices: 73661820--73661895 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
73661810 TTCATCCTTT
73661820 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
*
73661858 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
73661896 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
Found at i:73663185 original size:40 final size:40
Alignment explanation
Indices: 73663084--73663228 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
73663074 TACTCGAATG
* * *
73663084 ATATCAGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
73663125 ACATCCGGACTAAGAT-CCGAAGACATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
73663165 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
73663205 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
73663229 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.68
41 26 0.30
42 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:73680047 original size:38 final size:38
Alignment explanation
Indices: 73680005--73680080 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
73679995 TTCATCCTTT
73680005 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
*
73680043 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
73680081 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
Found at i:73681370 original size:40 final size:40
Alignment explanation
Indices: 73681269--73681413 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
73681259 TACTCGAATG
*
73681269 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
73681310 ACATCCGGACTAAGAT-CCGAAGACATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
73681350 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
73681390 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
73681414 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:73694671 original size:13 final size:13
Alignment explanation
Indices: 73694653--73694677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73694643 TTGTTATTTA
73694653 TAAGTAATTTTGT
1 TAAGTAATTTTGT
73694666 TAAGTAATTTTG
1 TAAGTAATTTTG
73694678 ATGAATTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TAAGTAATTTTGT
Found at i:73698268 original size:24 final size:22
Alignment explanation
Indices: 73698221--73698268 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
73698211 CCATAAGCAT
*
73698221 TCATAACCAATGACATAACCCA
1 TCATAACCAATCACATAACCCA
73698243 TCATATACACAATCACA-AACCACA
1 TCATA-AC-CAATCACATAACC-CA
73698267 TC
1 TC
73698269 TCAAGGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (22 bp):
TCATAACCAATCACATAACCCA
Found at i:73699893 original size:39 final size:39
Alignment explanation
Indices: 73699844--73699922 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
73699834 TAGCTATGTG
* *
73699844 ATAAACGCCAAATTATACATATTTATACCCTAAATACTT
1 ATAAACGCCAAATTATACACATTTATACCCCAAATACTT
*
73699883 ATAAATGCCAAATTATACACATTTATACCCCAAATACTT
1 ATAAACGCCAAATTATACACATTTATACCCCAAATACTT
73699922 A
1 A
73699923 GCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.32
Consensus pattern (39 bp):
ATAAACGCCAAATTATACACATTTATACCCCAAATACTT
Found at i:73701135 original size:13 final size:13
Alignment explanation
Indices: 73701119--73701151 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
73701109 TTTAATTAAA
*
73701119 TTAGTTAATTAGT
1 TTAGATAATTAGT
73701132 TTAGATAATTAGT
1 TTAGATAATTAGT
73701145 TTA-ATAA
1 TTAGATAA
73701152 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:73706533 original size:21 final size:21
Alignment explanation
Indices: 73706495--73706564 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
73706485 CCTCCTATCT
73706495 TTTTATTCTTA-TTT-ATTTTA
1 TTTTATT-TTATTTTCATTTTA
73706515 TTTTATTTTATTTTCATTTTTA
1 TTTTATTTTATTTTCA-TTTTA
* *
73706537 TTTT-TTCTATTTTCATTTAAA
1 TTTTATTTTATTTTCATTT-TA
73706558 TTTTATT
1 TTTTATT
73706565 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.07
20 13 0.30
21 16 0.37
22 11 0.26
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTTTCATTTTA
Found at i:73706554 original size:6 final size:5
Alignment explanation
Indices: 73706495--73706574 Score: 69
Period size: 5 Copynumber: 15.8 Consensus size: 5
73706485 CCTCCTATCT
73706495 TTTTA TTCTTA -TTTA TTTTA TTTTA TTTTA TTTTCA TTTTTA TTTT-
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA
* *
73706541 TTCTA TTTTCA TTTAAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
73706575 GAAAGACATA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 36 0.58
6 13 0.21
7 4 0.06
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:73706561 original size:26 final size:25
Alignment explanation
Indices: 73706506--73706574 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
73706496 TTTATTCTTA
* *
73706506 TTTATTTTATTTTATTTTATTTTCATT
1 TTTA-TTT-TTTTATTTTATTTTAAAT
73706533 TTTATTTTTTCTATTTTCA-TTTAAAT
1 TTTATTTTTT-TATTTT-ATTTTAAAT
*
73706559 TTTATTATTTTATTTT
1 TTTATTTTTTTATTTT
73706575 GAAAGACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.24
26 23 0.62
27 5 0.14
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATTTTTTTATTTTATTTTAAAT
Found at i:73715006 original size:43 final size:43
Alignment explanation
Indices: 73714951--73715035 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
73714941 ATATCGAACA
* *
73714951 ATGCCAACGTCCCAGA-CGTGGTCTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGATAG-GGTCTTAC-TCGTAAACACATATCG
73714994 ATGCC-ACTGTCCCAGATAGGGTCTTACTCGTAAACACATATC
1 ATGCCAAC-GTCCCAGATAGGGTCTTACTCGTAAACACATATC
73715036 AGATTCACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATAGGGTCTTACTCGTAAACACATATCG
Found at i:73721377 original size:43 final size:43
Alignment explanation
Indices: 73721294--73721377 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
73721284 CAATACCAAC
*
73721294 GTCCCAGACGTGGTCTTACATGTAATCACATATCGGTGCCATT
1 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCATT
* *
73721337 GTCCCAGACAG-GGTCTTTC-TCGTAATCACATATTGATGCCA
1 GTCCCAGAC-GTGGTCTTACAT-GTAATCACATATCGATGCCA
73721378 ACGTATCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCATT
Found at i:73722727 original size:43 final size:43
Alignment explanation
Indices: 73722679--73722835 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
73722669 GTTATCAAGA
*
73722679 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAAT-GTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGC-ATCGTAT
** *
73722722 TGTGATTATGTGTAAGACCATATCTGGGATATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * *
73722765 TATGAATT-CGTGTAAGACCCTATCTAGGACACTGGCATCG-AT
1 TGTG-ATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
*
73722807 ATGTGATAACATGTAAGACCATATCTGGG
1 -TGTGATTACATGTAAGACCATATCTGGG
73722836 CTATGGCATT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
42 6 0.06
43 86 0.91
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:73726125 original size:46 final size:46
Alignment explanation
Indices: 73726058--73726226 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
73726048 GCTGGGATAT
73726058 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
* * * *
73726104 TCGTTGAGTTGAGTCCCAGTTC-GTGA--GATG-TAACTAGGCATCC-AAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAA-C
* * * * *
73726151 TTGTTGAGTTGAGTCTGAGTTCACTTATGGATCCGAATGCCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
*
73726197 TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
73726227 GCGGGTTACA
Statistics
Matches: 96, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 53 0.55
47 24 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAAC
Found at i:73730184 original size:173 final size:173
Alignment explanation
Indices: 73729895--73730239 Score: 636
Period size: 173 Copynumber: 2.0 Consensus size: 173
73729885 TCAGTTATTA
73729895 GGCTAAGGCCCACCTAATACTATCTGTGATAGGCTCAGGCCCAGTCTGTTTCTGCATACCATACA
1 GGCTAAGGCCCACCTAATACTATCTGTGATAGGCTCAGGCCCAGTCTGTTTCTGCATACCATACA
*
73729960 TCTGATTGTTTGTATTATAAGGGATTACACACTGAATTTTCGCAAACTCACCCTTCTGTCTAACT
66 TCTGACTGTTTGTATTATAAGGGATTACACACTGAATTTTCGCAAACTCACCCTTCTGTCTAACT
73730025 GTGCAAGTAATCCCCAGCCTTAGGAAATTTGGAGCTGCGAGAT
131 GTGCAAGTAATCCCCAGCCTTAGGAAATTTGGAGCTGCGAGAT
* * *
73730068 GGCTAAGGCCCACCTAATACTGTCTGTGATGGGCTTAGGCCCAGTCTGTTTCTGCATACCATACA
1 GGCTAAGGCCCACCTAATACTATCTGTGATAGGCTCAGGCCCAGTCTGTTTCTGCATACCATACA
73730133 TCTGACTGTTTGTATTATAAGGGATTACACACTGAATTTTCGCAAACTCACCCTTCTGTCTAACT
66 TCTGACTGTTTGTATTATAAGGGATTACACACTGAATTTTCGCAAACTCACCCTTCTGTCTAACT
* *
73730198 GTGCAGGTAATCCCCAGCCTTAGGAAATTTGGAGCTGTGAGA
131 GTGCAAGTAATCCCCAGCCTTAGGAAATTTGGAGCTGCGAGA
73730240 GACTCGGAGG
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 166 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (173 bp):
GGCTAAGGCCCACCTAATACTATCTGTGATAGGCTCAGGCCCAGTCTGTTTCTGCATACCATACA
TCTGACTGTTTGTATTATAAGGGATTACACACTGAATTTTCGCAAACTCACCCTTCTGTCTAACT
GTGCAAGTAATCCCCAGCCTTAGGAAATTTGGAGCTGCGAGAT
Found at i:73735851 original size:41 final size:41
Alignment explanation
Indices: 73735804--73735884 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
73735794 AAGGCTACCA
* * *
73735804 TCTCAAATTGTCCTAGTCTTTATTTCTTGGATAGGATATCT
1 TCTCAAATTCTCCTAGTCTTCATTTCTTGGACAGGATATCT
73735845 TCTCAAATTCTCCTAGTCTTCATTTCTTGGACAGGATATC
1 TCTCAAATTCTCCTAGTCTTCATTTCTTGGACAGGATATC
73735885 CTTCATGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (41 bp):
TCTCAAATTCTCCTAGTCTTCATTTCTTGGACAGGATATCT
Found at i:73736621 original size:25 final size:25
Alignment explanation
Indices: 73736593--73736644 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
73736583 GGTTTCACTA
73736593 AGATAAGTTATAGAAATTAGATTGC
1 AGATAAGTTATAGAAATTAGATTGC
73736618 AGATAAGTTATAGAAATTAGATTGC
1 AGATAAGTTATAGAAATTAGATTGC
73736643 AG
1 AG
73736645 TCCTTACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (25 bp):
AGATAAGTTATAGAAATTAGATTGC
Found at i:73746609 original size:40 final size:40
Alignment explanation
Indices: 73746553--73746804 Score: 285
Period size: 40 Copynumber: 6.3 Consensus size: 40
73746543 CATTTGAATG
* *
73746553 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
73746593 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* *
73746633 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
73746673 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
73746713 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* * * * * * ** *
73746753 ATACCCAGGTTAAGACTCGAAGGCAATTGTGCTTGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
73746793 ATATCC-GGCTAA
1 ATATCCGGGCTAA
73746805 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 5 0.03
40 185 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:73748293 original size:39 final size:39
Alignment explanation
Indices: 73748176--73748398 Score: 351
Period size: 39 Copynumber: 5.7 Consensus size: 39
73748166 GCTCCTCGTT
* *
73748176 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
73748216 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
73748256 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
73748295 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
73748334 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
73748373 CAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAA
73748399 ATCATTCAAA
Statistics
Matches: 175, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 127 0.73
40 46 0.26
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:73753380 original size:17 final size:18
Alignment explanation
Indices: 73753348--73753385 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
73753338 GTGTGGCTTA
73753348 CCCGTGTGGACCCACACG
1 CCCGTGTGGACCCACACG
73753366 CCCGTGTGG-CCCACACG
1 CCCGTGTGGACCCACACG
73753383 CCC
1 CCC
73753386 AAATCGGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.13, C:0.50, G:0.26, T:0.11
Consensus pattern (18 bp):
CCCGTGTGGACCCACACG
Found at i:73759373 original size:54 final size:54
Alignment explanation
Indices: 73759270--73759376 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
73759260 GGAATCGTCC
* **
73759270 TGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATATATCTGTTT
* * *
73759324 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGAATCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGAATCTGCCACATATATCTGTT
73759377 CTAGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATATATCTGTTT
Found at i:73759375 original size:27 final size:27
Alignment explanation
Indices: 73759269--73759375 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
73759259 AGGAATCGTC
* *
73759269 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
73759296 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
73759323 TTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
** *
73759351 CTGGTGAATCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
73759376 TCTAGCAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.75
28 15 0.22
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:73767007 original size:27 final size:26
Alignment explanation
Indices: 73766969--73767077 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
73766959 AAGCATCCTG
*
73766969 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCAC-ATTATCTGATCTA
* *
73766996 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTA
*
73767023 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTA
* * *
73767051 GTGACTCTGTCACATTATCTGTTCTA
1 GTGGCTCTGCCACATTATCTGATCTA
73767077 G
1 G
73767078 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 48 0.68
28 17 0.24
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTA
Found at i:73767070 original size:54 final size:54
Alignment explanation
Indices: 73766966--73767075 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
73766956 AGGAAGCATC
*
73766966 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
73767020 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
73767074 CT
1 CT
73767076 AGCAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:73768563 original size:43 final size:43
Alignment explanation
Indices: 73768505--73768615 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
73768495 TTCAAGGTGT
* **
73768505 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACGTGTAAGACCATGTCTGGGACAGAGGCATCGATATGA
* * *
73768548 GATTACGTGAAAGACCCTGTCTGGGACAGAGGCATCGATATGT
1 GATTACGTGTAAGACCATGTCTGGGACAGAGGCATCGATATGA
* * *
73768591 GATAACATGTAAGACCATATCTGGG
1 GATTACGTGTAAGACCATGTCTGGG
73768616 GTATGGCATT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACAGAGGCATCGATATGA
Found at i:73778636 original size:43 final size:42
Alignment explanation
Indices: 73778546--73778669 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
73778536 TGTGATTTTG
* **
73778546 TGTAAGACCATGTCTGGGACATTGGCATTGATATGAGACT-ATG
1 TGTAAGACCATGTCTGGGACA-TGGCATTGATATGTGA-TAACA
* *
73778589 TGTAAGACCCTGTCTGGGACAGAGGCATTGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACA-TGGCATTGATATGTGATAACA
* *
73778632 TGTAAGACCATATCTGGGATATGGCATTG-TATGTGATA
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGTGATA
73778670 TATGTGTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 9 0.13
42 8 0.11
43 53 0.76
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTGATATGTGATAACA
Found at i:73794143 original size:42 final size:42
Alignment explanation
Indices: 73794083--73794164 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
73794073 GGTGTAGGGG
*
73794083 ACACACGGCTAGACCACATGCCCATG-GTGCAGGCAGTGTGTC
1 ACACACGGCTAGACCACATGCCCATGTGTGCA-CCAGTGTGTC
*
73794125 ACACACGGCCTAGA-CACATGCCCGTGTGTGCACCAGTGTG
1 ACACACGG-CTAGACCACATGCCCATGTGTGCACCAGTGTG
73794165 GACAACTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (42 bp):
ACACACGGCTAGACCACATGCCCATGTGTGCACCAGTGTGTC
Found at i:73795238 original size:48 final size:48
Alignment explanation
Indices: 73795159--73795250 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
73795149 TGTCTCATAT
* * *
73795159 CGATGCCAATGCCATGTCATAAACATTGTCTTACATGGGATCACGTGA
1 CGATGCCAATGCCATGTCACAAACATGGTCTTACATGGAATCACGTGA
* *
73795207 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCAC
1 CGATGCCAATGCCATGTCACAAACATGGTCTTACATGGAATCAC
73795251 TTATAACCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCACAAACATGGTCTTACATGGAATCACGTGA
Found at i:73797352 original size:34 final size:34
Alignment explanation
Indices: 73797305--73797372 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
73797295 TCAAATACAA
*
73797305 TTGGGCCTAAGCCCCTT-TCAGTATCAGTAACAGT
1 TTGGGCCTAAGCCCATTAT-AGTATCAGTAACAGT
* *
73797339 TTGGGCCTTAGCCCATTATAGTATCAGTAGCAGT
1 TTGGGCCTAAGCCCATTATAGTATCAGTAACAGT
73797373 CATGCAGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATTATAGTATCAGTAACAGT
Found at i:73819297 original size:40 final size:39
Alignment explanation
Indices: 73819126--73819335 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
73819116 GGACTAAGAT
73819126 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
73819165 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
73819204 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
73819243 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
73819283 CCGAAGGCATTTGTGCGA-ATTACTATAAT-CGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-C
73819323 CCGAAGGCATTTG
1 CCGAAGGCATTTG
73819336 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 113 0.70
40 46 0.28
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:73826530 original size:39 final size:40
Alignment explanation
Indices: 73826435--73826657 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
73826425 TTGAATGATG
*
73826435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
73826473 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
73826514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
73826553 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
73826592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
73826633 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73826658 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
39 92 0.55
40 59 0.36
41 14 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:73826621 original size:79 final size:80
Alignment explanation
Indices: 73826435--73826657 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
73826425 TTGAATGATG
* * *
73826435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAAT-TCCGGGCTAAGACCCGAAGGCAT
*
73826497 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
73826514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATTCCGGGCTAAGACCCGAAGGCATT
*
73826576 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
73826592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAAT-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTA-ATTCCGGGCTAAGACCCGAAGGCATT
73826656 TG
65 TG
73826658 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 44 0.35
79 56 0.44
80 27 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATTCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:73826679 original size:79 final size:79
Alignment explanation
Indices: 73826435--73826690 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
73826425 TTGAATGATG
* * * *
73826435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGGCTAAG-CCCGAAGGCA
** *
73826496 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
73826514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTG
** *
73826578 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
73826592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAAT-CGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGCTAAG-CCCGAAGGCAT
*
73826655 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
73826672 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
73826691 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 44 0.29
79 70 0.46
80 37 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:73829617 original size:44 final size:45
Alignment explanation
Indices: 73829544--73829649 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
73829534 TGCTTTGAAC
** *
73829544 ATCCGCACACTTAGTGCTGTAACAGTTAACCGAAGCTAGAAT-GAT
1 ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTA-AATCGAT
**
73829589 -TCCGCACACTTAGTGCCATCTCAATTAACCGAAGCTAAATCGAT
1 ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTAAATCGAT
*
73829633 AT-CGTACACTTAGTGCC
1 ATCCGCACACTTAGTGCC
73829650 TCATATAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 3 0.06
44 49 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTAAATCGAT
Found at i:73830127 original size:21 final size:21
Alignment explanation
Indices: 73830101--73830140 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
73830091 CATTTATTTC
*
73830101 ACATTTTAGTCCCTCAAAATA
1 ACATTTTAGTCCCACAAAATA
73830122 ACATTTTAGTCCCACAAAA
1 ACATTTTAGTCCCACAAAA
73830141 GGACCTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (21 bp):
ACATTTTAGTCCCACAAAATA
Found at i:73831935 original size:22 final size:22
Alignment explanation
Indices: 73831910--73831953 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
73831900 TAGTCATATA
73831910 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
73831932 ATAATTTATTAGTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
73831954 TATTTACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:73832057 original size:15 final size:15
Alignment explanation
Indices: 73832037--73832092 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
73832027 ATTCAATATT
73832037 AATATTTTAATAATA
1 AATATTTTAATAATA
*
73832052 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
73832071 AATATATTAATAATA
1 AATATTTTAATAATA
73832086 AAT-TTTT
1 AATATTTT
73832093 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:73832075 original size:34 final size:32
Alignment explanation
Indices: 73832025--73832088 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
73832015 ATTATTGAAA
* *
73832025 TTATTCAATATTAATATTTTAATAATAAATAT
1 TTATTCAATATAAATATATTAATAATAAATAT
73832057 TTATTACAATTATAAATATATTAATAATAAAT
1 TTATT-CAA-TATAAATATATTAATAATAAAT
73832089 TTTTTGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.18
33 3 0.11
34 20 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TTATTCAATATAAATATATTAATAATAAATAT
Found at i:73836809 original size:46 final size:46
Alignment explanation
Indices: 73836759--73836934 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
73836749 TGGTTGAGCA
*
73836759 TCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
73836805 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
73836850 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
73836898 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73836935 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73836915 original size:93 final size:93
Alignment explanation
Indices: 73836756--73836927 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
73836746 GGATGGTTGA
* ***
73836756 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
73836821 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
*
73836849 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
73836914 TGAGTCTGAGTTCG
66 TGAGTCTGAGTTCG
73836928 CTTATGGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:73844438 original size:47 final size:47
Alignment explanation
Indices: 73844329--73844500 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
73844319 GGATGGTTGA
* * *
73844329 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
*
73844377 G--TCCGAACTCGTTGAATTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
73844422 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
73844469 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
73844501 ACTTATGGAT
Statistics
Matches: 114, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 28 0.25
47 75 0.66
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:73851704 original size:24 final size:22
Alignment explanation
Indices: 73851661--73851709 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
73851651 AACTGAACAA
73851661 AAAACAAAATAAAAGCAGAAAAT
1 AAAACAAAATAAAAGCAG-AAAT
*
73851684 AAAACAAATTGAAAA-CAAGAAAT
1 AAAACAAAAT-AAAAGC-AGAAAT
73851707 AAA
1 AAA
73851710 TGTGCAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAACAAAATAAAAGCAGAAAT
Found at i:73866935 original size:28 final size:28
Alignment explanation
Indices: 73866878--73866937 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
73866868 ACATACATGC
*
73866878 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCAATT
*
73866906 ATATGGCCCA-TCCGGCCCAAT-TCACATT
1 ATATGGCCCACT-AGGCCCAATCTCA-ATT
73866934 ATAT
1 ATAT
73866938 TCATGCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCTCAATT
Found at i:73867051 original size:19 final size:19
Alignment explanation
Indices: 73867006--73867042 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
73866996 TAGGCCCAAC
*
73867006 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCTGGCCCATTT
73867024 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
73867043 GGCCTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:73867170 original size:16 final size:16
Alignment explanation
Indices: 73867149--73867191 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
73867139 GTAGCTAAAC
73867149 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
**
73867165 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGACA
*
73867181 TTTTGGCTTTT
1 TTTCGGCTTTT
73867192 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.19, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:73871402 original size:23 final size:23
Alignment explanation
Indices: 73871376--73871422 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
73871366 TGAATTTAAA
73871376 TGATGGTAAGAGCATTTCATGCT
1 TGATGGTAAGAGCATTTCATGCT
73871399 TGATGGTAAGAGCATTTCATGCT
1 TGATGGTAAGAGCATTTCATGCT
73871422 T
1 T
73871423 ACTCTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (23 bp):
TGATGGTAAGAGCATTTCATGCT
Found at i:73874044 original size:42 final size:42
Alignment explanation
Indices: 73873936--73874053 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
73873926 GTATCAATGT
* * *
73873936 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
* * *
73873978 CAATAGCCTAGCTATGGTCTTACACG-AAGTCTCATATCGATAC
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATAC
73874021 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
73874054 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
Found at i:73882314 original size:26 final size:26
Alignment explanation
Indices: 73882268--73882321 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
73882258 TATACCATGT
73882268 AAGCTCTTATATTAAATACTTGAAGC
1 AAGCTCTTATATTAAATACTTGAAGC
73882294 AAGCTCTTATATTAAATACTTGAAGC
1 AAGCTCTTATATTAAATACTTGAAGC
73882320 AA
1 AA
73882322 ATGCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (26 bp):
AAGCTCTTATATTAAATACTTGAAGC
Found at i:73883059 original size:145 final size:144
Alignment explanation
Indices: 73882797--73883060 Score: 379
Period size: 145 Copynumber: 1.8 Consensus size: 144
73882787 TTTCATGCTG
* * *
73882797 GACATAAGTGTTGGATTGGAGTAATTCGAGAAAAGTGAAGAGTTGGATTAAAATAAGTCTTAGGA
1 GACATAAGTGTTGGATTGGAGTAATTAGAGAAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGAA
* ** *
73882862 ACAAGTGGAAACAGTTGATAAGCTGAATCTTTTCAAATGACACGCTAATGCATGCCATGTCTAGA
66 ACAAGTAGAAACAGTTGATAAGCAAAATCTTTTCAAATGACAAGCTAATGCATGCCATGTCTAGA
73882927 TATGTGTCGTGTTA
131 TATGTGTCGTGTTA
* * * *
73882941 GACATGAGTGTTGGATTGGAGTACTTAGAGAAAAAGTGAAGAGTCGGATTAACATAGGTCTTAGA
1 GACATAAGTGTTGGATTGGAGTAATTAGAG-AAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGA
*
73883006 AACAAGTAGAAACGGTT-AGTAAGCAAAATC-TTTCTAAATGACAAGCTAATGCATG
65 AACAAGTAGAAACAGTTGA-TAAGCAAAATCTTTTC-AAATGACAAGCTAATGCATG
73883061 ATTTCTATCT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
144 32 0.30
145 73 0.70
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (144 bp):
GACATAAGTGTTGGATTGGAGTAATTAGAGAAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGAA
ACAAGTAGAAACAGTTGATAAGCAAAATCTTTTCAAATGACAAGCTAATGCATGCCATGTCTAGA
TATGTGTCGTGTTA
Found at i:73884732 original size:9 final size:9
Alignment explanation
Indices: 73884718--73884792 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
73884708 TTTGGTTAAA
73884718 AATTAACCG
1 AATTAACCG
*
73884727 AATTAAACG
1 AATTAACCG
*
73884736 AATTACCCG
1 AATTAACCG
73884745 AATTAACCG
1 AATTAACCG
73884754 AATTAACCG
1 AATTAACCG
*
73884763 -ATTACCCG
1 AATTAACCG
73884771 AATT-ACCTG
1 AATTAACC-G
*
73884780 AATTACCCG
1 AATTAACCG
73884789 AATT
1 AATT
73884793 GAATCACTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 9 0.16
9 45 0.80
10 2 0.04
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:73884773 original size:26 final size:26
Alignment explanation
Indices: 73884718--73884789 Score: 101
Period size: 26 Copynumber: 2.7 Consensus size: 26
73884708 TTTGGTTAAA
*
73884718 AATTAACCGAATTAAACGAATTACCCG
1 AATTAACCGAATTAACCG-ATTACCCG
73884745 AATTAACCGAATTAACCGATTACCCG
1 AATTAACCGAATTAACCGATTACCCG
*
73884771 AATT-ACCTGAATTACCCGA
1 AATTAACC-GAATTAACCGA
73884790 ATTGAATCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
25 3 0.07
26 22 0.52
27 17 0.40
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (26 bp):
AATTAACCGAATTAACCGATTACCCG
Found at i:73884859 original size:17 final size:17
Alignment explanation
Indices: 73884837--73884932 Score: 66
Period size: 17 Copynumber: 5.3 Consensus size: 17
73884827 TTTGAATCAC
73884837 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** *
73884854 TACATAAGTCTATGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
73884874 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
** *
73884891 TACATAAATCTATGAATCAC
1 TACAT-AAT-TAAAAAT-AT
*
73884911 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
73884928 TACAT
1 TACAT
73884933 GAGTCTTGAA
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 19 0.33
18 12 0.21
19 13 0.22
20 14 0.24
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:73884879 original size:20 final size:19
Alignment explanation
Indices: 73884829--73884918 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 19
73884819 TGTAAGTCTT
73884829 TGAATCACTACATAAT-TA
1 TGAATCACTACATAATCTA
** *
73884847 AAAAT-ATTACATAAGTCTA
1 TGAATCACTACATAA-TCTA
73884866 TGAATCACTACATAAT-TA
1 TGAATCACTACATAATCTA
* * *
73884884 -AAAACATTACATAAATCTA
1 TGAATCACTACAT-AATCTA
73884903 TGAATCACTACATAAT
1 TGAATCACTACATAAT
73884919 TAAAAACATT
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
17 17 0.31
18 9 0.17
19 11 0.20
20 17 0.31
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (19 bp):
TGAATCACTACATAATCTA
Found at i:73884956 original size:37 final size:37
Alignment explanation
Indices: 73884792--73884942 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
73884782 TTACCCGAAT
** *
73884792 TGAATCACTACATAATTAAAAACATTATGTAAGTCTT
1 TGAATCACTACATAATTAAAAACATTACATAAGTCTA
*
73884829 TGAATCACTACATAATTAAAAATATTACATAAGTCTA
1 TGAATCACTACATAATTAAAAACATTACATAAGTCTA
*
73884866 TGAATCACTACATAATTAAAAACATTACATAAATCTA
1 TGAATCACTACATAATTAAAAACATTACATAAGTCTA
*
73884903 TGAATCACTACATAATTAAAAACATTACATGAGTCT-
1 TGAATCACTACATAATTAAAAACATTACATAAGTCTA
73884939 TGAA
1 TGAA
73884943 ATTAACACAT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 4 0.04
37 102 0.96
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (37 bp):
TGAATCACTACATAATTAAAAACATTACATAAGTCTA
Found at i:73887764 original size:32 final size:32
Alignment explanation
Indices: 73887674--73887832 Score: 176
Period size: 32 Copynumber: 4.9 Consensus size: 32
73887664 TTCCTGAGTG
**
73887674 GTACACACAAAGTATACCTTTCCTTTTCATA-T
1 GTACACACAAAGTATACCTAACCTTTTCA-AGT
* **
73887706 GGTATACACAAAGTATACCTTTCCTTTTCAAGT
1 -GTACACACAAAGTATACCTAACCTTTTCAAGT
* *
73887739 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* * *
73887771 GTACACACAAAGTGTACATAACCTTTTCATGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
**
73887803 GATATGCACAAAGTATACCTAACCTTTTCA
1 G-TACACACAAAGTATACCTAACCTTTTCA
73887833 CATTTGATAG
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
32 60 0.53
33 53 0.47
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (32 bp):
GTACACACAAAGTATACCTAACCTTTTCAAGT
Found at i:73887870 original size:29 final size:29
Alignment explanation
Indices: 73887825--73887978 Score: 254
Period size: 29 Copynumber: 5.3 Consensus size: 29
73887815 GTATACCTAA
* *
73887825 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
73887854 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
73887883 CCTTTTCACATTCGATAGCCGAAGATATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
73887912 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
73887941 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
73887970 ACTATTCAC
1 CCTTTTCAC
73887979 TAATCAGGTA
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:73887998 original size:31 final size:31
Alignment explanation
Indices: 73887927--73888195 Score: 303
Period size: 31 Copynumber: 8.7 Consensus size: 31
73887917 TCACATTCGA
* * *
73887927 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* *
73887956 TAGCTGAAGCTATCACTATTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
73887987 TAACT-AGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGA-AGCTACCACTTTTCACTAATCAGG
* * *
73888018 TAGCCGAAGCTACCACTTTTCACTGATTAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
73888049 TAGCTGAAGCTACCACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
** * *
73888080 TAGCCAAAGCTACCACTTTTCACTGACCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* * *
73888111 TAGCCGAAACTACCACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* *
73888142 TAGCCGAAGCTACCACTTTTCACTAATCAGA
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* *
73888173 TAGCCGAAGTTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
73888196 ATTGTACACA
Statistics
Matches: 211, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
28 1 0.00
29 18 0.09
30 4 0.02
31 187 0.89
32 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:73888078 original size:93 final size:93
Alignment explanation
Indices: 73887927--73888195 Score: 355
Period size: 93 Copynumber: 2.9 Consensus size: 93
73887917 TCACATTCGA
* * * *
73887927 TAGCCGAAGCTATCC-CTTTTCAC--ATTCGATAGCTGAAGCTATCACTATTCACTAATCAGGTA
1 TAGCCGAAGCTA-CCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTA
* * *
73887989 ACTAGAGCTACCACTTTTCACTAATCAGG
65 ACCAAAGCTACCACTTTTCACTAACCAGG
* *
73888018 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
*
73888083 CCAAAGCTACCACTTTTCACTGACCAGG
66 CCAAAGCTACCACTTTTCACTAACCAGG
* * * * *
73888111 TAGCCGAAACTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGATAG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
* *
73888176 CCGAAGTTACCACTTTTCAC
66 CCAAAGCTACCACTTTTCAC
73888196 ATTGTACACA
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
90 2 0.01
91 20 0.13
93 136 0.86
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (93 bp):
TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
CCAAAGCTACCACTTTTCACTAACCAGG
Found at i:73913145 original size:45 final size:45
Alignment explanation
Indices: 73913080--73913343 Score: 401
Period size: 45 Copynumber: 5.9 Consensus size: 45
73913070 TATCGTACGG
* * *
73913080 TACTATTCAGGCCTTGGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
73913125 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATACCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
73913170 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
73913215 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
73913260 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
73913305 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCTA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
73913344 GATGAATTCG
Statistics
Matches: 207, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
42 10 0.05
43 19 0.09
44 4 0.02
45 173 0.84
46 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:73913367 original size:41 final size:42
Alignment explanation
Indices: 73913189--73913385 Score: 132
Period size: 45 Copynumber: 4.5 Consensus size: 42
73913179 GGCCTTTGAG
* ** *
73913189 CCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCGGGCCTTTGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGA-TA-TCGGG-CTTAAAA
* * ** *
73913234 CCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCAGGCCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGA-TA-TC-GGGCTTAAAA
** *
73913279 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGATATCGGGCTTAAAA
* *
73913322 CCTAGCAGGCTAAATGCCGGTG-GATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAAATGATA-TCGGGCTTAAAA
* *
73913363 CCTAGCAGGCTAATTACCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
73913386 TTTGATAAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
40 1 0.01
41 32 0.23
42 10 0.07
43 21 0.15
44 2 0.01
45 68 0.50
46 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCGGTGAAATGATATCGGGCTTAAAA
Found at i:73916608 original size:23 final size:23
Alignment explanation
Indices: 73916578--73916652 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 23
73916568 TATATAATAG
73916578 TTCATGTGTGAACAGTCGAACAA
1 TTCATGTGTGAACAGTCGAACAA
* *
73916601 TTCATGTGTGAACAGTATTACTAAAATAA
1 TTCATGTGTGAACAG---T-C--GAACAA
73916630 TTCATGTGTGAACAGTCGAACAA
1 TTCATGTGTGAACAGTCGAACAA
73916653 AATATAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
23 19 0.45
25 1 0.02
26 2 0.05
27 1 0.02
29 19 0.45
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (23 bp):
TTCATGTGTGAACAGTCGAACAA
Found at i:73917427 original size:5 final size:5
Alignment explanation
Indices: 73917417--73917448 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
73917407 ATAATTGTGA
73917417 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
73917449 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:73917437 original size:14 final size:14
Alignment explanation
Indices: 73917418--73917448 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
73917408 TAATTGTGAA
73917418 AAATAAAATAAAAT
1 AAATAAAATAAAAT
73917432 AAATAAAATAAAAT
1 AAATAAAATAAAAT
73917446 AAA
1 AAA
73917449 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:73921879 original size:5 final size:5
Alignment explanation
Indices: 73921869--73921900 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
73921859 CAATTTGTTA
73921869 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
73921901 GAATACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:73921894 original size:9 final size:9
Alignment explanation
Indices: 73921870--73921900 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
73921860 AATTTGTTAA
73921870 AAATAAAAT
1 AAATAAAAT
73921879 AAAATAAAAT
1 -AAATAAAAT
73921889 AAATAAAAT
1 AAATAAAAT
73921898 AAA
1 AAA
73921901 GAATACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:73922624 original size:24 final size:24
Alignment explanation
Indices: 73922509--73922624 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 24
73922499 TCGGTCAAGG
* *
73922509 AAATTCGCACACAT-GTGCCATGC
1 AAATCCGCACACATAGTGCCATTC
* * * *
73922532 TAACCCACACACAAAGTGCC-TTGC
1 AAATCCGCACACATAGTGCCATT-C
* * *
73922556 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
73922580 AAATCCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
73922604 AAATCTGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
73922625 ATGTCATTTC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
23 10 0.13
24 65 0.84
25 2 0.03
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:73923960 original size:17 final size:17
Alignment explanation
Indices: 73923938--73923994 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
73923928 CCCCGCTTAA
73923938 TATATTATAACTTATTT
1 TATATTATAACTTATTT
*
73923955 TATATTATAACATATTT
1 TATATTATAACTTATTT
* * *
73923972 CAAATATATAATTTATTAT
1 TATAT-TATAACTTATT-T
73923991 TATA
1 TATA
73923995 AAAAGCATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 19 0.61
18 9 0.29
19 3 0.10
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATAACTTATTT
Found at i:73928682 original size:47 final size:47
Alignment explanation
Indices: 73928646--73928750 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
73928636 TAGTATTAAT
*
73928646 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
73928693 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
73928740 AATGTGATAAG
1 TATGTGATAAG
73928751 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:73933957 original size:49 final size:50
Alignment explanation
Indices: 73933884--73934116 Score: 317
Period size: 49 Copynumber: 4.7 Consensus size: 50
73933874 AGCTATTGTG
73933884 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
73933934 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
73933984 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
73934034 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** *
73934084 -GGTGGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
73934117 TGCATACCAT
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 73 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:73934081 original size:101 final size:98
Alignment explanation
Indices: 73933887--73934116 Score: 325
Period size: 100 Copynumber: 2.3 Consensus size: 98
73933877 TATTGTGAGG
73933887 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
73933952 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * ** *
73933987 TCACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
73934052 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
** *
73934086 TGGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
73934117 TGCATACCAT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 28 0.24
100 45 0.39
101 43 0.37
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:73937795 original size:5 final size:5
Alignment explanation
Indices: 73937781--73937826 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
73937771 TAACAATATA
* *
73937781 AAAAT AAAAT GAAAT AAAAT AAAAT AATATT AAAAT --AAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AA
73937827 TAAAAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 3 0.09
5 27 0.79
6 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:73937801 original size:15 final size:16
Alignment explanation
Indices: 73937754--73937831 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
73937744 ACTATAAAAC
*
73937754 AATAATATTAGTAATAA
1 AATAATATTA-AAATAA
* *
73937771 TAACAATATAAAAATAA
1 -AATAATATTAAAATAA
73937788 AATGAA-A-TAAAATAA
1 AAT-AATATTAAAATAA
73937803 AATAATATTAAAATAA
1 AATAATATTAAAATAA
*
73937819 TAA-AATAATAAAA
1 -AATAATATTAAAA
73937832 ACAAATGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 2 0.04
15 11 0.22
16 20 0.40
17 9 0.18
18 8 0.16
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (16 bp):
AATAATATTAAAATAA
Found at i:73937829 original size:11 final size:11
Alignment explanation
Indices: 73937765--73937821 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
73937755 ATAATATTAG
73937765 TAATAATAACAA
1 TAATAATAA-AA
73937777 T-AT-A-AAAA
1 TAATAATAAAA
*
73937785 TAA-AATGAAA
1 TAATAATAAAA
73937795 TAA-AATAAAA
1 TAATAATAAAA
*
73937805 TAATATTAAAA
1 TAATAATAAAA
73937816 TAATAA
1 TAATAA
73937822 AATAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 16 0.43
11 13 0.35
12 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:73937970 original size:36 final size:36
Alignment explanation
Indices: 73937921--73937992 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
73937911 AGAAAATAAA
73937921 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
1 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
* *
73937957 CCAGGGACGATGACGTATGAGTGCGGAGGGTGCAGG
1 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
73937993 GGCAGTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.14
Consensus pattern (36 bp):
CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
Found at i:73938295 original size:21 final size:22
Alignment explanation
Indices: 73938244--73938297 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
73938234 TGCAGGGCTC
*
73938244 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGATCCAAGGG
* *
73938266 ACATGCCCGTGTGATCCTA-GG
1 ACACGCCCGTGTGATCCAAGGG
*
73938287 ACACACCCGTG
1 ACACGCCCGTG
73938298 CTGAAAGTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (22 bp):
ACACGCCCGTGTGATCCAAGGG
Found at i:73939808 original size:15 final size:15
Alignment explanation
Indices: 73939788--73939828 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
73939778 ATCAAACAAT
73939788 TCACATCAATATAAG
1 TCACATCAATATAAG
*
73939803 TCACATCAATATAAT
1 TCACATCAATATAAG
73939818 TCACATTCAAT
1 TCACA-TCAAT
73939829 TTAACATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
TCACATCAATATAAG
Found at i:73941591 original size:30 final size:30
Alignment explanation
Indices: 73941550--73941613 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
73941540 TGACTCGCCT
*
73941550 GTGTGTTTAGGCCGTGTATCACACACGACC
1 GTGTGTCTAGGCCGTGTATCACACACGACC
* *
73941580 GTGTGTCTAGGCCGTGTATTACACACGATC
1 GTGTGTCTAGGCCGTGTATCACACACGACC
73941610 GTGT
1 GTGT
73941614 CTCCAGGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (30 bp):
GTGTGTCTAGGCCGTGTATCACACACGACC
Found at i:73941724 original size:16 final size:16
Alignment explanation
Indices: 73941703--73941733 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
73941693 AAATGAATGT
73941703 AATTTTTTTGAATTTA
1 AATTTTTTTGAATTTA
*
73941719 AATTTTTTTGGATTT
1 AATTTTTTTGAATTT
73941734 TTTTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (16 bp):
AATTTTTTTGAATTTA
Found at i:73942986 original size:27 final size:27
Alignment explanation
Indices: 73942948--73943224 Score: 378
Period size: 27 Copynumber: 10.3 Consensus size: 27
73942938 TTGGGATGAA
73942948 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
73942975 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * **
73943002 AAAATAACAGAAATACCCTTATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
**
73943029 AAAATGACCGAAATA-CCCCATATTGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
73943055 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* *
73943082 AAAATGACCGAAATACCCTCATAGGAT
1 AAAATGACCGAAATACCCCCATAGGGT
*
73943109 AAAATGACCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
73943136 CAAATGATCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
73943163 AAAATAACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* **
73943190 AAAATGA-CTATAATACCCCTGTAGGGT
1 AAAATGACCGA-AATACCCCCATAGGGT
73943217 AAAATGAC
1 AAAATGAC
73943225 TGTTTTGCCC
Statistics
Matches: 220, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.10
27 197 0.90
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:73943134 original size:107 final size:108
Alignment explanation
Indices: 73942948--73943197 Score: 394
Period size: 107 Copynumber: 2.3 Consensus size: 108
73942938 TTGGGATGAA
*
73942948 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACAGA
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
* **
73943013 AATACCCTTATAGGGTAAAATGACCGAAATACCC-CATATTGT
66 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
* * * *
73943055 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGATAAAATGACCGA
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
* *
73943120 AATACCCTCATAGGGTCAAATGATCGAAATACCCTCATAGGGT
66 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
*
73943163 AAAATAACCGAAATACCCCCATAGGGTAAAATGAC
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGAC
73943198 TATAATACCC
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 91 0.70
108 39 0.30
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (108 bp):
AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
Found at i:73943246 original size:27 final size:27
Alignment explanation
Indices: 73943216--73943595 Score: 410
Period size: 27 Copynumber: 14.0 Consensus size: 27
73943206 CCCTGTAGGG
73943216 TAAAATGACTGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
*
73943243 TAAAATGAC-GATTTTGCCTTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGA
*
73943270 TAAAATGACGGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
73943297 TAAAATGACTGTTTTACCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
73943324 CAAAATGACTGTTTTGCCCTTGTGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
73943351 TAAAATGA-TGATTTTGCCCTTATGTGGA
1 TAAAATGACTG-TTTTGCCCTTATGT-GA
* *
73943379 -AAAATTACTGTTTTGCCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGA
** *
73943405 TAAAATGAC-GATTTTTTCCATATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGA
*
73943432 TAAAATGAC-GATTTTGCCCTTATGTGG
1 TAAAATGACTG-TTTTGCCCTTATGTGA
* * * *
73943459 CAAAATGATTGTTTTGCCCTTGTATGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
73943486 TAAAATGACTATTTTGTCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* * *
73943513 TAAAATGACGGTTTTACCCTTTATGTGG
1 TAAAATGACTGTTTTGCCC-TTATGTGA
* * * *
73943541 TAAAATGACTATTTTGCCTTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGA
*** *
73943568 TTGGATGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
73943595 T
1 T
73943596 GTATGTCCTT
Statistics
Matches: 293, Mismatches: 51, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.02
27 260 0.89
28 28 0.10
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGA
Found at i:73944835 original size:25 final size:26
Alignment explanation
Indices: 73944792--73944843 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
73944782 TCAAACATGC
73944792 ATTTCGGTCAATTTACTCCTAGGGGT
1 ATTTCGGTCAATTTACTCCTAGGGGT
*
73944818 ATTTCGGT-ACTTTACTCCTAGGGGT
1 ATTTCGGTCAATTTACTCCTAGGGGT
73944843 A
1 A
73944844 AAACTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTCGGTCAATTTACTCCTAGGGGT
Found at i:73946128 original size:24 final size:24
Alignment explanation
Indices: 73946089--73946194 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 24
73946079 GCCGGCCAAC
* *
73946089 TCCTGCTCCTTGATCATCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
**
73946114 TTTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
73946138 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
73946162 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
73946186 TCTTCTCCT
1 TCCTCTCCT
73946195 AATAGCCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 70 0.97
25 2 0.03
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.39
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:73961967 original size:32 final size:32
Alignment explanation
Indices: 73961931--73962014 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
73961921 ATCGGGCCTA
*
73961931 AGCCC-ATTCAGATAACATTGATACTGGGCCAG
1 AGCCCTATTCAGATAACATT-AAACTGGGCCAG
* * **
73961963 AGCCCTTTTCAGATTACATTAAACTGGGCCTT
1 AGCCCTATTCAGATAACATTAAACTGGGCCAG
73961995 AGCCCCTTATTCAGATAACA
1 AG-CCC-TATTCAGATAACA
73962015 GTACGACCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 16 0.38
33 15 0.36
34 11 0.26
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (32 bp):
AGCCCTATTCAGATAACATTAAACTGGGCCAG
Found at i:73961982 original size:33 final size:34
Alignment explanation
Indices: 73961936--73962014 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 34
73961926 GCCTAAGCCC
*
73961936 ATTCAGATAACATTGATACTGGGCCAGAG-CCCTT
1 ATTCAGATAACATT-AAACTGGGCCAGAGCCCCTT
* **
73961970 -TTCAGATTACATTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACATTAAACTGGGCCAGAGCCCCTT
73962003 ATTCAGATAACA
1 ATTCAGATAACA
73962015 GTACGACCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 11 0.29
33 17 0.45
34 10 0.26
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (34 bp):
ATTCAGATAACATTAAACTGGGCCAGAGCCCCTT
Found at i:73963670 original size:24 final size:24
Alignment explanation
Indices: 73963637--73963729 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
73963627 CTGCTCTTTG
* * *
73963637 ATCAGTTCCTAAATCTTCTCCTTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
73963661 ATCAACTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
73963685 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
73963709 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
73963730 TGACAGCCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.37
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:73970428 original size:27 final size:27
Alignment explanation
Indices: 73970389--73970610 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
73970379 TGGGATGAAT
* *
73970389 AAATGACTGAAATACCCCCATAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
73970416 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
73970443 AAATGACTAAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
73970470 AAATGATCGAAAT-TCCCTATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
73970496 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
73970523 AAATGACCTAAATACCCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
73970550 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
73970577 AAATGACTGTAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
73970604 AAATGAC
1 AAATGAC
73970611 TATTTTGCCC
Statistics
Matches: 162, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.13
27 141 0.87
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Done.