Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 189 of 295
Found at i:64894846 original size:71 final size:67
Alignment explanation
Indices: 64894771--64894912 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
64894761 TCACCAGATA
* * *
64894771 CAGATATTATGGCTAGGCCACCAGAACAGATATATATATATGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTATGACGAAGCCACCAGAACAG----ATATATATGGCGAAGCCACCAGATTGCAGCGA
64894836 GGCTGC
62 GGCTGC
* * * * *
64894842 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGGGAGGCT
1 CAGATATTATGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
64894907 GC
66 GC
64894909 CAGA
1 CAGA
64894913 GCGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 39 0.62
71 24 0.38
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTATGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:64894890 original size:27 final size:26
Alignment explanation
Indices: 64894842--64894893 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64894832 GCGAGGCTGC
*
64894842 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
64894868 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64894894 TTGCAGGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64909562 original size:45 final size:45
Alignment explanation
Indices: 64909498--64909671 Score: 194
Period size: 45 Copynumber: 3.8 Consensus size: 45
64909488 TGTAACCCGC
64909498 CCATAAGCGAACTCGGACTCAACTCAACGAGTT-GGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATT-GCAT
* *
64909543 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTGCAT
* * * *
64909593 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTAGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATT-GCAT
*
64909636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
64909672 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 34 0.32
46 28 0.26
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTGCAT
Found at i:64909663 original size:93 final size:92
Alignment explanation
Indices: 64909505--64909675 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
64909495 CGCCCATAAG
* * * *
64909505 CGAACTCGGACTCAACTCAACGAGTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCAGACTCAACTCAACGAGTTAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
64909570 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
64909597 CGAACTCAGACTCAACTCAACGAGTTCAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTT-AGACATTAGCATCCATAAGTGAACTCGGACTCAACTCA
64909662 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
64909676 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 25 0.34
93 49 0.66
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCAGACTCAACTCAACGAGTTAGACATTAGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64914789 original size:46 final size:47
Alignment explanation
Indices: 64914683--64914804 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
64914673 TGTCTTCGAC
** * *
64914683 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAG
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAG
* * *
64914733 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAG
*
64914779 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
64914805 CTGTCGTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAG
Found at i:64926879 original size:15 final size:15
Alignment explanation
Indices: 64926859--64926927 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
64926849 ATATCTTGGG
64926859 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
64926874 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
64926889 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
64926904 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
64926919 TTTCTTTAT
1 TTTCTTTAT
64926928 TCGGTTTCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:64926928 original size:30 final size:30
Alignment explanation
Indices: 64926850--64926936 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
64926840 CATAGTATCA
* * * * *
64926850 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
64926880 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
64926910 TATCTTGGATTTCTTTATTC--GGTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
64926937 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.14
29 1 0.02
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:64929368 original size:46 final size:45
Alignment explanation
Indices: 64929315--64929490 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
64929305 TATTTGGGCA
64929315 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
64929361 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
64929408 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
64929454 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64929491 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:64929470 original size:93 final size:93
Alignment explanation
Indices: 64929311--64929482 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64929301 AGGATATTTG
* *
64929311 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64929376 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
64929404 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
64929469 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64929483 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:64932327 original size:25 final size:25
Alignment explanation
Indices: 64932299--64932347 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64932289 TTATAATATG
* * *
64932299 AAAAATAACTGTTTTGCCCCTAGGC
1 AAAAATAACCGTTATACCCCTAGGC
*
64932324 AAAAATGACCGTTATACCCCTAGG
1 AAAAATAACCGTTATACCCCTAGG
64932348 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
AAAAATAACCGTTATACCCCTAGGC
Found at i:64932782 original size:29 final size:30
Alignment explanation
Indices: 64932709--64932790 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 30
64932699 CGTTTACAAT
*
64932709 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATTAAGA
* *
64932740 AAAGGCTTCGGCCCAGTA-ATCG-TTTAAGG
1 AAAGGCTTCGGCCCAGTATAT-GAATTAAGA
64932769 AAAGGCTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
64932791 TTGAGACTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 25 0.54
30 4 0.09
31 17 0.37
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATTAAGA
Found at i:64934640 original size:68 final size:67
Alignment explanation
Indices: 64934564--64934713 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
64934554 CATCATGTGT
* * * *
64934564 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
64934626 ATGTAG
62 ATGTAG
** * *
64934632 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
64934697 AG
66 AG
64934699 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
64934714 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:64934669 original size:64 final size:64
Alignment explanation
Indices: 64934588--64934771 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
64934578 AGACATTATG
* *
64934588 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
64934652 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
64934717 AA
63 AA
* * * *
64934719 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
64934772 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:64938823 original size:27 final size:27
Alignment explanation
Indices: 64938793--64938943 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
64938783 ATATTGAGTC
* * *
64938793 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
64938820 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
64938848 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
64938875 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
64938902 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
64938929 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64938944 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:64938888 original size:82 final size:81
Alignment explanation
Indices: 64938793--64938942 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
64938783 ATATTGAGTC
*
64938793 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTCAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
64938857 AGTGCCGCATGGTCAATT
64 AGTGCCGCATGGTCAATT
* * **
64938875 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
1 CGCACACTCAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
64938940 TGC
66 TGC
64938943 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:64947095 original size:24 final size:24
Alignment explanation
Indices: 64947064--64947109 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
64947054 ATGAAGTGAA
**
64947064 AAAGGGCTTTGCC-CCAGTTATTT
1 AAAGGGCTAGGCCTCCAGTTATTT
64947087 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
64947110 ATGGTAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTT
Found at i:64953098 original size:17 final size:18
Alignment explanation
Indices: 64953064--64953103 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
64953054 CATAATGCAG
*
64953064 GCCCATGTGGGCCTACAC
1 GCCCATGTGGGCCCACAC
64953082 GCCCATGT-GGCCCACAC
1 GCCCATGTGGGCCCACAC
64953099 GCCCA
1 GCCCA
64953104 AATCTGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.17, C:0.45, G:0.25, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCACAC
Found at i:64956974 original size:34 final size:34
Alignment explanation
Indices: 64956936--64957005 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
64956926 CCTAAAAATG
64956936 TTACCTCACGTAACCAGAGCTCTCAGTTACTAAA
1 TTACCTCACGTAACCAGAGCTCTCAGTTACTAAA
*
64956970 TTACCTCACGTAACCAGAGCTCTCAGTTACTGAA
1 TTACCTCACGTAACCAGAGCTCTCAGTTACTAAA
64957004 TT
1 TT
64957006 TGGCGTATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (34 bp):
TTACCTCACGTAACCAGAGCTCTCAGTTACTAAA
Found at i:64962154 original size:40 final size:40
Alignment explanation
Indices: 64962076--64962230 Score: 249
Period size: 40 Copynumber: 3.9 Consensus size: 40
64962066 CGGTATAATA
* * * *
64962076 CCAGCTCGTAGCCTGCAGGTCTCT-AGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
*
64962115 CCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
64962155 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
*
64962195 CCAGCACGAAGCCTGCGGGTCATTAAGCCCGGATAA
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAA
64962231 TACCTCAAGT
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 19 0.18
40 89 0.82
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAACATT
Found at i:64970035 original size:40 final size:40
Alignment explanation
Indices: 64969972--64970110 Score: 244
Period size: 40 Copynumber: 3.5 Consensus size: 40
64969962 CGTAGCTTGC
*
64969972 GGGTCTGT-AGCCCGGATAACATTCCAGCACGAAGCCTGT
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
*
64970011 GGGTTTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
*
64970051 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGC
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
64970091 GGGTCTTTAAGCCCGGATAA
1 GGGTCTTTAAGCCCGGATAA
64970111 TACCTCAAGT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 6 0.06
40 89 0.94
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (40 bp):
GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
Found at i:64982663 original size:25 final size:25
Alignment explanation
Indices: 64982629--64982693 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
64982619 GTTAAATGTT
*
64982629 AGTGAAACATTCCTTGAAACCTATA
1 AGTGAAACATTCCTTGAAACCTAAA
64982654 AGTGAAACATTCCTTGAAACCTAAA
1 AGTGAAACATTCCTTGAAACCTAAA
64982679 AGTGAAACATTCCTT
1 AGTGAAACATTCCTT
64982694 AAAATCCAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (25 bp):
AGTGAAACATTCCTTGAAACCTAAA
Found at i:64985907 original size:44 final size:44
Alignment explanation
Indices: 64985841--64986408 Score: 724
Period size: 44 Copynumber: 12.9 Consensus size: 44
64985831 ATATGTTATT
* *
64985841 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATTTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
*
64985885 TTTGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* *
64985929 TTTGATCTGCTCTATGCCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * * * *
64985973 TTCGATCTGCTCTCTGTCAACACAGAAATGCCAAATCTTCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* ** * *
64986017 TTTGATCTGCTCTCCACCAATACAGAGACACCAAATCTGTTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * *
64986061 TTCGATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * ** *
64986105 TTTGATCTACTCTCCACCAATACAGAGACGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * *
64986149 TTTGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * *
64986193 TTCGATCTGCTCTCCGCCAATACAAAGACGCTAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * * *
64986237 TTCGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTACCATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* ** *
64986281 TTCGATCTGCTCCCTTTCAATACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
* * **
64986325 TTTGATCTACTCTCCACCAATACAGA-ACCGCCAAATCTGCTATC
1 TTCGATCTGCTCTCTGCCAATACAGAGA-CGCCAAATCTGCTATC
* * *
64986369 TTCGATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGC
1 TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
64986409 AAGATTTTCT
Statistics
Matches: 454, Mismatches: 68, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
43 1 0.00
44 452 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATC
Found at i:65000051 original size:40 final size:40
Alignment explanation
Indices: 65000004--65000148 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
64999994 CTCACACAAG
* * * * *
65000004 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
65000044 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
65000084 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
65000125 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65000149 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:65000543 original size:38 final size:38
Alignment explanation
Indices: 65000501--65000576 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
65000491 CAAGAACTCC
65000501 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
65000539 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
65000577 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:65007348 original size:41 final size:40
Alignment explanation
Indices: 65007221--65007365 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
65007211 CTCGCACAAG
* * * * *
65007221 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
65007261 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
65007301 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
65007342 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65007366 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:65007759 original size:38 final size:38
Alignment explanation
Indices: 65007717--65007792 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
65007707 CAAGAACTCC
*
65007717 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
65007755 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
65007793 AAAGGATGAA
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:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
Found at i:65010499 original size:22 final size:24
Alignment explanation
Indices: 65010456--65010504 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
65010446 TTTTATTTAT
* **
65010456 TTTATTTTTATGGTTTTTTTTG-G
1 TTTATTTCTATGGTTTGCTTTGTG
65010479 TTTATTTCT-TGGTTTGCTTTGTG
1 TTTATTTCTATGGTTTGCTTTGTG
65010502 TTT
1 TTT
65010505 GCATGGGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.06, C:0.04, G:0.18, T:0.71
Consensus pattern (24 bp):
TTTATTTCTATGGTTTGCTTTGTG
Found at i:65017288 original size:29 final size:29
Alignment explanation
Indices: 65017235--65017316 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
65017225 TGTATATAAG
* **
65017235 GTGATTTGGGCTTAACAGGCCATATAAAA
1 GTGATTTGGGCCTAATGGGCCATATAAAA
* *
65017264 GTGATTTGGGCCTAATGGGCGATATAAAT
1 GTGATTTGGGCCTAATGGGCCATATAAAA
*
65017293 GAGA-TTGGGCC-AAGTGGGCCATAT
1 GTGATTTGGGCCTAA-TGGGCCATAT
65017317 GCATGTATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.04
28 16 0.36
29 27 0.60
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATAAAA
Found at i:65025901 original size:46 final size:46
Alignment explanation
Indices: 65025851--65026026 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65025841 TGGTTGAGCA
65025851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65025897 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65025942 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65025990 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65026027 GCGGTTACAT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65026007 original size:93 final size:93
Alignment explanation
Indices: 65025848--65026019 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65025838 GGATGGTTGA
* *
65025848 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65025913 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65025941 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65026006 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65026020 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65033458 original size:46 final size:46
Alignment explanation
Indices: 65033408--65033583 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65033398 TGGTTGAGCA
65033408 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65033454 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
65033499 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65033547 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65033584 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65033564 original size:93 final size:93
Alignment explanation
Indices: 65033405--65033576 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65033395 GGATGGTTGA
* *
65033405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65033470 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
65033498 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65033563 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65033577 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65047844 original size:16 final size:16
Alignment explanation
Indices: 65047823--65047860 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
65047813 ATAGATCGGC
65047823 AAAAGCCAAAATGCCA
1 AAAAGCCAAAATGCCA
*
65047839 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCA
65047855 AAAAGC
1 AAAAGC
65047861 TGAAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.24, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAGCCAAAATGCCA
Found at i:65048118 original size:29 final size:29
Alignment explanation
Indices: 65048075--65048197 Score: 120
Period size: 29 Copynumber: 4.2 Consensus size: 29
65048065 TGTGAGGCTG
* *
65048075 TATATAAGGTGATTTGGGCCTAACGGGCCA
1 TATA-AAGGTGATTTGGGCCTGACAGGCCA
* *
65048105 TATAAAGGTTATTTGGGCCTGATAGGCCA
1 TATAAAGGTGATTTGGGCCTGACAGGCCA
* * * *
65048134 TATGAATGTAATTTGGGCCTGATAGGCCA
1 TATAAAGGTGATTTGGGCCTGACAGGCCA
* * * * *
65048163 TATGAATGTGAATTGGGCTTGACGGGCCA
1 TATAAAGGTGATTTGGGCCTGACAGGCCA
65048192 TATAAA
1 TATAAA
65048198 TGAGATTGGG
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 76 0.95
30 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
TATAAAGGTGATTTGGGCCTGACAGGCCA
Found at i:65055095 original size:40 final size:40
Alignment explanation
Indices: 65054990--65055342 Score: 373
Period size: 40 Copynumber: 8.8 Consensus size: 40
65054980 AAAGGTATCA
* * * **
65054990 AAGTACAAACAAGGGCACTTATGTGCAACCAGGGGGTACTA
1 AAGTACAAACAGGGGCACGTATGTGCAATCA-GGGGTACCG
* * * *
65055031 AAATACAAAATAGGGGCACATATGTGCAATCAGGTGTACCG
1 AAGTAC-AAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* * *
65055072 AAGTACAAACAGGGGCATGTATGTGCAATTAGTGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* * * *
65055112 AAGTACAAAGAAGGGCACGTATGTGCAATCAGGAGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* *** * * *
65055152 AAGTAAAAACAGGGGCATACATGTGAAATCAGTGGTATCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* * * *
65055192 AAGTACAAATAGGGGCAAGTATATGAAATCAGGGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* *
65055232 AAGTACAAACAGGGGCACGTATGTTCAATCAGGGGTATCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
** * *
65055272 AAGTACAAACAGATGCACATATGTGCAATCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
* *
65055312 AAGTACAAATAAGGGCACGTATGTGCAATCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCA
65055343 TCAATAATCA
Statistics
Matches: 253, Mismatches: 58, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
40 216 0.85
41 16 0.06
42 21 0.08
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
Found at i:65055229 original size:120 final size:119
Alignment explanation
Indices: 65054990--65055342 Score: 418
Period size: 120 Copynumber: 2.9 Consensus size: 119
65054980 AAAGGTATCA
* * * * *
65054990 AAGTACAAACAAGGGCACTTATGTGCAACCAGGGGGTACTAAAATACAAAATAGGGGCACATATG
1 AAGTACAAACAAGGGCACGTATGTGCAATCA-GGGGTACCAAAGTA-AAAACAGGGGCACATATG
* * * *
65055055 TGCAATCAGGTGTACCGAAGTACAAACAGGGGCATGTATGTGCAATTAGTGGTACCG
64 TGCAATCAGG-GTACCGAAGTACAAATAGGGGCAAGTATGTGCAATCAGGGGTACCG
* * * *
65055112 AAGTACAAAGAAGGGCACGTATGTGCAATCAGGAGTACCAAAGTAAAAACAGGGGCATACATGTG
1 AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTAAAAACAGGGGCACATATGTG
* * * *
65055177 AAATCAGTGGTATCGAAGTACAAATAGGGGCAAGTATATGAAATCAGGGGTACCG
66 CAATCAG-GGTACCGAAGTACAAATAGGGGCAAGTATGTGCAATCAGGGGTACCG
* * * * * **
65055232 AAGTACAAACAGGGGCACGTATGTTCAATCAGGGGTATCGAAGTACAAACAGATGCACATATGTG
1 AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTAAAAACAGGGGCACATATGTG
* * *
65055297 CAATCAGGGGTACCAAAGTACAAATAAGGGCACGTATGTGCAATCA
66 CAATCA-GGGTACCGAAGTACAAATAGGGGCAAGTATGTGCAATCA
65055343 TCAATAATCA
Statistics
Matches: 194, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
120 153 0.79
121 13 0.07
122 28 0.14
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (119 bp):
AAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACCAAAGTAAAAACAGGGGCACATATGTG
CAATCAGGGTACCGAAGTACAAATAGGGGCAAGTATGTGCAATCAGGGGTACCG
Found at i:65055244 original size:20 final size:19
Alignment explanation
Indices: 65055221--65055283 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
65055211 TATATGAAAT
65055221 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* * * *
65055241 CAGGGGCACGTATGTTCAAT
1 CAGGGGTACG-AAGTACAAA
65055261 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
65055281 CAG
1 CAG
65055284 ATGCACATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:65068667 original size:46 final size:45
Alignment explanation
Indices: 65068617--65068792 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
65068607 TGTTTGGACA
65068617 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
65068663 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
65068710 TCCGAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
65068756 CCCGATCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65068793 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:65068774 original size:93 final size:93
Alignment explanation
Indices: 65068615--65068785 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65068605 GATGTTTGGA
* *
65068615 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
65068680 GAGTCTGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* * *
65068708 CATCCGAGCTCGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACGCCCGATCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
65068773 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
65068786 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:65070370 original size:40 final size:40
Alignment explanation
Indices: 65070273--65070489 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
65070263 CGGATGATAA
* * *
65070273 CCGGGCTAAGTCCGGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
65070313 CC-GGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65070352 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65070392 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65070432 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
65070472 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65070490 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 49 0.30
40 114 0.70
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65077749 original size:40 final size:40
Alignment explanation
Indices: 65077701--65077927 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
65077691 GCAAACACAT
* *
65077701 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
65077741 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65077781 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65077821 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65077861 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65077901 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
65077928 ATCCAATGTT
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:65086520 original size:40 final size:40
Alignment explanation
Indices: 65086472--65086658 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
65086462 GCAAACACAT
* *
65086472 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
65086512 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
65086552 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65086592 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
65086632 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
65086659 ATCCAATGTT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:65090763 original size:48 final size:48
Alignment explanation
Indices: 65090695--65091018 Score: 506
Period size: 48 Copynumber: 6.8 Consensus size: 48
65090685 CAAGATAAAT
* * * * *
65090695 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
65090743 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
65090791 ATATGTATATGTGG-AAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
65090838 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
65090886 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
65090934 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
65090982 ATATGTATATGTGGCAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
65091019 TGTTGTAACA
Statistics
Matches: 256, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 42 0.16
48 214 0.84
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:65091112 original size:37 final size:37
Alignment explanation
Indices: 65091062--65091164 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
65091052 GGAAATGTAT
65091062 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
65091099 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
65091136 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
65091165 GACTATTCGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:65095675 original size:31 final size:28
Alignment explanation
Indices: 65095582--65095692 Score: 150
Period size: 28 Copynumber: 3.9 Consensus size: 28
65095572 TTCGACTATG
*
65095582 TATGACACTTAGTGTGCGAGACATTGAT
1 TATGGCACTTAGTGTGCGAGACATTGAT
65095610 TATGGCACTTAGTGTGCGAGACATTGAT
1 TATGGCACTTAGTGTGCGAGACATTGAT
* *
65095638 TATGGCACTTAGTAAAGTGCAAGACGTTGAT
1 TATGGCACTTAGT---GTGCGAGACATTGAT
* *
65095669 TGTGGCACTTAGTGTGCAAGACAT
1 TATGGCACTTAGTGTGCGAGACAT
65095693 CGAGTATGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
28 50 0.67
31 25 0.33
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGACATTGAT
Found at i:65107630 original size:19 final size:20
Alignment explanation
Indices: 65107592--65107638 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
65107582 CAATAAAATA
*
65107592 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATAATTTAC
*
65107612 TTTTCTGG-ATATAATTTAC
1 TTTTCTGGAAAATAATTTAC
65107631 TTTTCTGG
1 TTTTCTGG
65107639 TGTTTGGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (20 bp):
TTTTCTGGAAAATAATTTAC
Found at i:65126816 original size:19 final size:19
Alignment explanation
Indices: 65126789--65126825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65126779 CTAAATTGAT
65126789 AAACATATAAAAATTTCAG
1 AAACATATAAAAATTTCAG
* *
65126808 AAACTTATAGAAATTTCA
1 AAACATATAAAAATTTCA
65126826 ATGTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AAACATATAAAAATTTCAG
Found at i:65129998 original size:39 final size:40
Alignment explanation
Indices: 65129921--65130027 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
65129911 TAGCTCCTCG
* * *
65129921 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
65129961 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
65130000 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
65130028 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:65130026 original size:79 final size:80
Alignment explanation
Indices: 65129927--65130147 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
65129917 CTCGTTCAAG
* * * ** * *
65129927 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
65129990 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
65130006 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
65130071 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
65130086 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
65130148 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
79 36 0.31
80 75 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:65130078 original size:80 final size:80
Alignment explanation
Indices: 65129967--65130147 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
65129957 CTCATTCAAT
* * *
65129967 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
65130030 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
65130046 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
65130110 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
65130127 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
65130148 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:65130107 original size:40 final size:40
Alignment explanation
Indices: 65129964--65130147 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
65129954 TAACTCATTC
* *
65129964 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
65130004 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
65130044 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
65130084 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
65130125 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65130148 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:65132681 original size:12 final size:11
Alignment explanation
Indices: 65132655--65132680 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65132645 CAAAAAAATC
65132655 AAAATTCAAAA
1 AAAATTCAAAA
65132666 AAAATTCAAAA
1 AAAATTCAAAA
65132677 AAAA
1 AAAA
65132681 AGTGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATTCAAAA
Found at i:65132699 original size:24 final size:23
Alignment explanation
Indices: 65132672--65132728 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
65132662 AAAAAAAATT
*
65132672 CAAAAAAAAAGTGAAAAAA-TCGAG
1 CAAAAAAAAAG-AAAAAAAGT-GAG
65132696 CAAAAAAGAAAGAAAAAAAGTGAG
1 CAAAAAA-AAAGAAAAAAAGTGAG
65132720 CAAAAAAAA
1 CAAAAAAAA
65132729 TCAAGTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 23 0.77
25 5 0.17
ACGTcount: A:0.72, C:0.07, G:0.16, T:0.05
Consensus pattern (23 bp):
CAAAAAAAAAGAAAAAAAGTGAG
Found at i:65135604 original size:20 final size:20
Alignment explanation
Indices: 65135558--65135604 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
65135548 AGCTCGTTTC
*
65135558 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
65135578 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
65135598 CAGCTCA
1 CAGCTCA
65135605 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:65137604 original size:22 final size:22
Alignment explanation
Indices: 65137576--65137619 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65137566 TTTTGAACCA
*
65137576 TTACCATTTCGTACCAACTCCC
1 TTACCATTTCATACCAACTCCC
*
65137598 TTACCATTTCATACCAATTCCC
1 TTACCATTTCATACCAACTCCC
65137620 AAATACCAAA
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:0.25, C:0.39, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAACTCCC
Found at i:65137952 original size:12 final size:13
Alignment explanation
Indices: 65137933--65137968 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
65137923 AAAGGAGTTC
65137933 GAAAAAAAAAATT
1 GAAAAAAAAAATT
*
65137946 GAGAAAAAAAATT
1 GAAAAAAAAAATT
65137959 GAAAAAAAAA
1 GAAAAAAAAA
65137969 TTGCATACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (13 bp):
GAAAAAAAAAATT
Found at i:65137969 original size:12 final size:12
Alignment explanation
Indices: 65137935--65137971 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
65137925 AGGAGTTCGA
65137935 AAAAAAAAATTG
1 AAAAAAAAATTG
65137947 AGAAAAAAAATTG
1 A-AAAAAAAATTG
65137960 AAAAAAAAATTG
1 AAAAAAAAATTG
65137972 CATACGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:65140170 original size:13 final size:13
Alignment explanation
Indices: 65140152--65140204 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
65140142 AGATCAAATG
65140152 AGAGAAAAAGAAA
1 AGAGAAAAAGAAA
*
65140165 AGAGAAAAATACAA
1 AGAGAAAAAGA-AA
65140179 A-AG-AAAAGAAA
1 AGAGAAAAAGAAA
65140190 A-ATGAAAAA-AAA
1 AGA-GAAAAAGAAA
65140202 AGA
1 AGA
65140205 AAATTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 4 0.12
12 10 0.29
13 17 0.50
14 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (13 bp):
AGAGAAAAAGAAA
Found at i:65140196 original size:7 final size:6
Alignment explanation
Indices: 65140154--65140207 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
65140144 ATCAAATGAG
*
65140154 AGAAAA AGAAAA GAGAAAA ATACAAA AG-AAA AGAAAA ATG-AAA A-AAAA
1 AGAAAA AGAAAA -AGAAAA AGA-AAA AGAAAA AGAAAA A-GAAAA AGAAAA
65140202 AGAAAA
1 AGAAAA
65140208 TTCAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 9 0.22
6 20 0.50
7 11 0.28
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (6 bp):
AGAAAA
Found at i:65140200 original size:20 final size:20
Alignment explanation
Indices: 65140156--65140204 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
65140146 CAAATGAGAG
65140156 AAAAAGAAAAGAGAAAAATA
1 AAAAAGAAAAGAGAAAAATA
* *
65140176 CAAAAG-AAA-AGAAAAATG
1 AAAAAGAAAAGAGAAAAATA
65140194 AAAAA-AAAAGA
1 AAAAAGAAAAGA
65140205 AAATTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 15 0.62
19 4 0.17
20 5 0.21
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAAGAGAAAAATA
Found at i:65140214 original size:17 final size:17
Alignment explanation
Indices: 65140170--65140222 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
65140160 AGAAAAGAGA
* *
65140170 AAAATACAAAAGAAAAG
1 AAAATTCAAAAAAAAAG
* *
65140187 AAAAATGAAAAAAAAAG
1 AAAATTCAAAAAAAAAG
*
65140204 AAAATTCAAAAAAAGAG
1 AAAATTCAAAAAAAAAG
65140221 AA
1 AA
65140223 TGAAAAGAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAATTCAAAAAAAAAG
Found at i:65140258 original size:15 final size:15
Alignment explanation
Indices: 65140154--65140263 Score: 55
Period size: 15 Copynumber: 6.9 Consensus size: 15
65140144 ATCAAATGAG
65140154 AGAAAAAG-AAAAG-
1 AGAAAAAGAAAAAGA
*
65140167 AGAAAAATACAAAAGAAA
1 AGAAAAAGA-AAAAG--A
*
65140185 AGAAAAATGAAAAAAAA
1 AGAAAAA-G-AAAAAGA
**
65140202 AGAAAATTCAAAAA-A
1 AGAAAA-AGAAAAAGA
* *
65140217 AGAGAATGAAAAGAGA
1 AGAAAAAGAAAA-AGA
*
65140233 GCGATAAAAGAAAAAGA
1 -AGA-AAAAGAAAAAGA
65140250 AGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
65140264 TGAGTGAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
13 7 0.09
14 5 0.07
15 23 0.31
16 8 0.11
17 12 0.16
18 14 0.19
19 4 0.05
20 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (15 bp):
AGAAAAAGAAAAAGA
Found at i:65144441 original size:22 final size:22
Alignment explanation
Indices: 65144413--65144456 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
65144403 TTTTGAACCA
65144413 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
65144435 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
65144457 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:65148495 original size:31 final size:31
Alignment explanation
Indices: 65148446--65148528 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
65148436 CGCTTACAGT
*
65148446 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTAAGCCCAGTGATATGATTTATGA
**
65148476 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTAAGCCCAGTGATATGATTTATGA
65148507 AAAGGCTTAAGCCCAGT-ATATG
1 AAAGGCTTAAGCCCAGTGATATG
65148529 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTAAGCCCAGTGATATGATTTATGA
Found at i:65150259 original size:30 final size:30
Alignment explanation
Indices: 65150225--65150321 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
65150215 TAAACTAAAA
65150225 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65150255 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
65150285 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
65150314 ATGAGCTA
1 -TGAGCTA
65150322 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65152489 original size:12 final size:12
Alignment explanation
Indices: 65152474--65152504 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65152464 TTCTTTTTGC
65152474 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65152486 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65152498 TTTTCAA
1 TTTTCAA
65152505 GTTCTCTCAA
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:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:65152580 original size:6 final size:6
Alignment explanation
Indices: 65152564--65152613 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
65152554 TTTCTTTTTA
*
65152564 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
65152613 T
1 T
65152614 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:65152596 original size:37 final size:37
Alignment explanation
Indices: 65152553--65152623 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
65152543 CTTGCCTCTC
65152553 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
65152590 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
65152624 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:65152624 original size:16 final size:16
Alignment explanation
Indices: 65152549--65152609 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
65152539 GCCTCTTGCC
*
65152549 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
65152565 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
65152581 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
65152597 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
65152610 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:65153558 original size:25 final size:24
Alignment explanation
Indices: 65153530--65153593 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 24
65153520 TATACTTCGA
65153530 TTTTTCGATTTTCTTTTAAATTTT
1 TTTTTCGATTTTCTTTTAAATTTT
* *
65153554 TTTTTCGATTTTTTTTTTCAATTTT
1 TTTTTCGA-TTTTCTTTTAAATTTT
*
65153579 TTTTTCGAATTTCTT
1 TTTTTCGATTTTCTT
65153594 CTTCTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (24 bp):
TTTTTCGATTTTCTTTTAAATTTT
Found at i:65153589 original size:13 final size:13
Alignment explanation
Indices: 65153530--65153590 Score: 74
Period size: 12 Copynumber: 4.9 Consensus size: 13
65153520 TATACTTCGA
65153530 TTTTTCG-ATTTT
1 TTTTTCGAATTTT
* *
65153542 CTTTT-AAATTTT
1 TTTTTCGAATTTT
*
65153554 TTTTTCGATTTTT
1 TTTTTCGAATTTT
65153567 TTTTTC-AATTTT
1 TTTTTCGAATTTT
65153579 TTTTTCGAATTT
1 TTTTTCGAATTT
65153591 CTTCTTCTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 24 0.60
13 16 0.40
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTCGAATTTT
Found at i:65153603 original size:25 final size:25
Alignment explanation
Indices: 65153530--65153608 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
65153520 TATACTTCGA
* *
65153530 TTTTTCGATTTTCTT-TTAAATTTT
1 TTTTTCGAATTTCTTCTTCAATTTT
* * *
65153554 TTTTTCGATTTTTTTTTTCAATTTT
1 TTTTTCGAATTTCTTCTTCAATTTT
**
65153579 TTTTTCGAATTTCTTCTTCTCTTTT
1 TTTTTCGAATTTCTTCTTCAATTTT
65153604 TTTTT
1 TTTTT
65153609 TCAATTACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 14 0.30
25 33 0.70
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTCGAATTTCTTCTTCAATTTT
Found at i:65155309 original size:30 final size:30
Alignment explanation
Indices: 65155275--65155371 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
65155265 TAAACTAAAA
65155275 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65155305 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
65155335 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
65155364 ATGAGCTA
1 -TGAGCTA
65155372 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 3 0.06
30 45 0.88
31 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65158954 original size:23 final size:22
Alignment explanation
Indices: 65158903--65158954 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
65158893 CCTCGTCTTT
*
65158903 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
65158925 -TCATTTTCTCTTCTTTCTT-TAAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
65158948 TTCTTTT
1 TTCTTTT
65158955 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 14 0.56
24 4 0.16
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:65167810 original size:13 final size:13
Alignment explanation
Indices: 65167803--65167853 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
65167793 AAAAAAATAT
65167803 AAAAAAAATTTGA
1 AAAAAAAATTTGA
*
65167816 AAAAAAATTTTGA
1 AAAAAAAATTTGA
*
65167829 AAAAAAAA-TTCA
1 AAAAAAAATTTGA
65167841 AAAAAAAAGTTTG
1 AAAAAAAA-TTTG
65167854 TATTCAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 11 0.34
13 19 0.59
14 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAAAAATTTGA
Found at i:65167929 original size:30 final size:31
Alignment explanation
Indices: 65167886--65167962 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 31
65167876 TGTATTTAGT
*
65167886 ATTGAAGAAAAAAAAGAAGAAAAAAAAATTCAGA
1 ATTGAA-AAAAAAAAGAAG-AAAAAAAA-TCAAA
65167920 ATT-AAAAAAAAAAGAAGAAAAAAAATCAAA
1 ATTGAAAAAAAAAAGAAGAAAAAAAATCAAA
65167950 ATTGAAAAAAAAA
1 ATTGAAAAAAAAA
65167963 GTGATTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 7 0.17
31 17 0.41
32 12 0.29
33 2 0.05
34 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.12
Consensus pattern (31 bp):
ATTGAAAAAAAAAAGAAGAAAAAAAATCAAA
Found at i:65167963 original size:30 final size:32
Alignment explanation
Indices: 65167893--65167963 Score: 110
Period size: 30 Copynumber: 2.3 Consensus size: 32
65167883 AGTATTGAAG
*
65167893 AAAAAAAAGAAGAAAAAAAAATTCAGAATTAA
1 AAAAAAAAGAAGAAAAAAAAATTCAAAATTAA
*
65167925 AAAAAAAAGAAG-AAAAAAAA-TCAAAATTGA
1 AAAAAAAAGAAGAAAAAAAAATTCAAAATTAA
65167955 AAAAAAAAG
1 AAAAAAAAG
65167964 TGATTGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 17 0.46
31 8 0.22
32 12 0.32
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (32 bp):
AAAAAAAAGAAGAAAAAAAAATTCAAAATTAA
Found at i:65168796 original size:21 final size:20
Alignment explanation
Indices: 65168767--65168812 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
65168757 AATCTTGAAT
*
65168767 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
65168788 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
65168808 GAAAA
1 GAAAA
65168813 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:65168828 original size:6 final size:6
Alignment explanation
Indices: 65168819--65168854 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
65168809 AAAAAAGAAT
* *
65168819 TTGAGA TTGAGA TTGAGA TTGATA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
65168855 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TTGAGA
Found at i:65178642 original size:20 final size:20
Alignment explanation
Indices: 65178619--65178666 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
65178609 AGCTCCGTCC
65178619 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** * *
65178639 AGCTCGTTTTAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
65178659 AGCTCAAC
1 AGCTCAAC
65178667 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:65182462 original size:20 final size:20
Alignment explanation
Indices: 65182408--65182464 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
65182398 GACCTGGAAT
* *
65182408 TGAGCTGGATGTGAACTTGT
1 TGAGCTGGATGTGAGCTTGA
**
65182428 TGAGCTGGAACTGAGCTTGA
1 TGAGCTGGATGTGAGCTTGA
*
65182448 TGAGCTGGTTGTGAGCT
1 TGAGCTGGATGTGAGCT
65182465 GGACGAGCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.12, G:0.37, T:0.32
Consensus pattern (20 bp):
TGAGCTGGATGTGAGCTTGA
Found at i:65186504 original size:13 final size:13
Alignment explanation
Indices: 65186486--65186544 Score: 93
Period size: 13 Copynumber: 4.5 Consensus size: 13
65186476 TTGTAGATTC
*
65186486 AAAAAAATCG-AA
1 AAAAAAATTGAAA
65186498 AAAAAAATTGAAA
1 AAAAAAATTGAAA
65186511 AAAAAAATTGAAA
1 AAAAAAATTGAAA
65186524 AAAAAAATTTGAAA
1 AAAAAAA-TTGAAA
65186538 AAAAAAA
1 AAAAAAA
65186545 ATTTTGCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
12 9 0.20
13 22 0.50
14 13 0.30
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAATTGAAA
Found at i:65186513 original size:14 final size:14
Alignment explanation
Indices: 65186496--65186547 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
65186486 AAAAAAATCG
65186496 AAAAAAAAATTG-A
1 AAAAAAAAATTGAA
65186509 AAAAAAAAATTGAA
1 AAAAAAAAATTGAA
*
65186523 AAAAAAAATTTGAA
1 AAAAAAAAATTGAA
65186537 AAAAAAAAATT
1 AAAAAAAAATT
65186548 TTGCATACGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
13 12 0.33
14 24 0.67
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAAAAAAATTGAA
Found at i:65203030 original size:17 final size:18
Alignment explanation
Indices: 65203008--65203048 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
65202998 CGTTTCTTTT
65203008 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
65203025 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
65203043 T-TTTTG
1 TCTTTTG
65203049 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:65203032 original size:24 final size:25
Alignment explanation
Indices: 65202977--65203032 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
65202967 ACAAACAAAT
* *
65202977 TCTTTTTTCATTTTCATCACTCGTT
1 TCTTTTTTCATTTTAATCACTCGTC
65203002 TC-TTTTTC-TTTTGAATCACTC-TC
1 TCTTTTTTCATTTT-AATCACTCGTC
65203025 TCTTTTTT
1 TCTTTTTT
65203033 ATCACTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.26
24 18 0.67
25 2 0.07
ACGTcount: A:0.11, C:0.23, G:0.04, T:0.62
Consensus pattern (25 bp):
TCTTTTTTCATTTTAATCACTCGTC
Found at i:65205304 original size:17 final size:17
Alignment explanation
Indices: 65205278--65205310 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65205268 CTAGACCGTA
*
65205278 TGCAATTTTTTTTTTTT
1 TGCAAATTTTTTTTTTT
65205295 TGCAAATTTTTTTTTT
1 TGCAAATTTTTTTTTT
65205311 AGATTTTTTT
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:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
TGCAAATTTTTTTTTTT
Found at i:65205341 original size:13 final size:13
Alignment explanation
Indices: 65205286--65205350 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
65205276 TATGCAATTT
*
65205286 TTTTTTTTTTGCAAA
1 TTTTTTTTTT--AAC
65205301 TTTTTTTTTTAGA-
1 TTTTTTTTTTA-AC
**
65205314 TTTTTTTTCGAAAC
1 TTTTTTTT-TTAAC
65205328 TTTTTTTTTTAAC
1 TTTTTTTTTTAAC
65205341 TTTTTTTTTT
1 TTTTTTTTTT
65205351 CGAAGCTACG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 23 0.53
14 10 0.23
15 10 0.23
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTTAAC
Found at i:65205346 original size:29 final size:28
Alignment explanation
Indices: 65205285--65205354 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
65205275 GTATGCAATT
*
65205285 TTTTTTTTTTTGCAAATTTTTTTTTTAGA
1 TTTTTTTTTTCG-AAATTTTTTTTTTAGA
65205314 --TTTTTTTTCGAAACTTTTTTTTTTA-A
1 TTTTTTTTTTCGAAA-TTTTTTTTTTAGA
65205340 CTTTTTTTTTTCGAA
1 -TTTTTTTTTTCGAA
65205355 GCTACGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 4 0.11
27 20 0.56
29 12 0.33
ACGTcount: A:0.17, C:0.07, G:0.06, T:0.70
Consensus pattern (28 bp):
TTTTTTTTTTCGAAATTTTTTTTTTAGA
Found at i:65205350 original size:14 final size:14
Alignment explanation
Indices: 65205301--65205350 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
65205291 TTTTTGCAAA
65205301 TTTTTTTTTTAGA-T
1 TTTTTTTTTTA-ACT
***
65205315 TTTTTTTCGAAAC-
1 TTTTTTTTTTAACT
65205328 TTTTTTTTTTAACT
1 TTTTTTTTTTAACT
65205342 TTTTTTTTT
1 TTTTTTTTT
65205351 CGAAGCTACG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTTAACT
Found at i:65209909 original size:30 final size:30
Alignment explanation
Indices: 65209814--65209910 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65209804 AGCTCACTCC
* *
65209814 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * **
65209844 TATCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
65209874 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
65209904 TAGCTCA
1 TAGCTCA
65209911 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:65215132 original size:9 final size:9
Alignment explanation
Indices: 65215089--65215133 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
65215079 ATCACTTTTC
*
65215089 TTTTTTGAT
1 TTTTTTTAT
65215098 TTTTTTTAT
1 TTTTTTTAT
*
65215107 TTTTTTTCAA
1 TTTTTTT-AT
65215117 TTTTTTTAT
1 TTTTTTTAT
65215126 TTTTTTTA
1 TTTTTTTA
65215134 ACTTGTATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:65218182 original size:22 final size:22
Alignment explanation
Indices: 65218152--65218195 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
65218142 TTTGGTATTT
65218152 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
65218174 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
65218196 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:65219851 original size:30 final size:30
Alignment explanation
Indices: 65219817--65219913 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65219807 TAAACTAAAA
*
65219817 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
* * * * * *
65219847 TGAGCTGAGGC-TAAACTCCTAAGTTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGTTAAAGT
*
65219877 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGTT-AAAGT
65219907 TGAGCTA
1 TGAGCTA
65219914 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGTTAAAGT
Found at i:65219922 original size:41 final size:41
Alignment explanation
Indices: 65219877--65219975 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
65219867 AAGTTGAAGT
65219877 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
1 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
65219918 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
1 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
*
65219959 TGAGCT-CGGTTTAGCTC
1 TGAGCTAAGGTTTAGCTC
65219976 AGGCAAGATG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 10 0.18
41 47 0.82
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.28
Consensus pattern (41 bp):
TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
Found at i:65221144 original size:30 final size:31
Alignment explanation
Indices: 65221110--65221206 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
65221100 AGCTCACTCC
*
65221110 TAGCTC-ACTTTCAACTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
* * **
65221140 TAGCTCAAC-TTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAG-CT
* *
65221170 CAGCTCAACTTT-AGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
65221200 TAGCTCA
1 TAGCTCA
65221207 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 3 0.06
30 41 0.80
31 7 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
Found at i:65224268 original size:20 final size:20
Alignment explanation
Indices: 65224245--65224291 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
65224235 GGGTTAAGAT
*
65224245 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
65224265 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
65224285 TGAGCTG
1 TGAGCTG
65224292 GAAAAGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:65229441 original size:8 final size:9
Alignment explanation
Indices: 65229415--65229440 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
65229405 TTCTTTTTCG
65229415 ATTTTTTTT
1 ATTTTTTTT
65229424 ATTTTTTTT
1 ATTTTTTTT
65229433 ATTTTTTT
1 ATTTTTTT
65229441 AACTTGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:65250738 original size:17 final size:16
Alignment explanation
Indices: 65250717--65250748 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65250707 ACCTCTTCTT
65250717 TTTTTTTAATTCTGAA
1 TTTTTTTAATTCTGAA
*
65250733 TTTTTTTACTTCTGAA
1 TTTTTTTAATTCTGAA
65250749 ACTTCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTTTAATTCTGAA
Found at i:65250847 original size:12 final size:12
Alignment explanation
Indices: 65250830--65250861 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
65250820 AAATTGAATA
65250830 CAATTTTTTTTT
1 CAATTTTTTTTT
65250842 CAA-TTTTTTTT
1 CAATTTTTTTTT
65250853 -AATTTTTTT
1 CAATTTTTTT
65250862 CCTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 14 0.74
12 3 0.16
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:65252895 original size:41 final size:41
Alignment explanation
Indices: 65252850--65252948 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
65252840 AAGTTGAAGT
65252850 TGAGCTAAGGTTTAGCTCGGGAGTTGAAAGTGAGCTAGGAG
1 TGAGCTAAGGTTTAGCTCGGGAGTTGAAAGTGAGCTAGGAG
*
65252891 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAGTGAGCTAGGAG
1 TGAGCTAAGGTTTAGCTCGGGAGTTGAAAGTGAGCTAGGAG
*
65252932 TGAGCT-CGGTTTAGCTC
1 TGAGCTAAGGTTTAGCTC
65252949 AGGCAAGATG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 10 0.18
41 46 0.82
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (41 bp):
TGAGCTAAGGTTTAGCTCGGGAGTTGAAAGTGAGCTAGGAG
Found at i:65259795 original size:15 final size:16
Alignment explanation
Indices: 65259756--65259796 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
65259746 AACAACACTC
65259756 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
65259772 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
65259786 CTTTCTTTTTC
1 CTTTCTTTTTC
65259797 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:65259991 original size:17 final size:15
Alignment explanation
Indices: 65259954--65259992 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
65259944 TATCTCCCAC
65259954 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
65259970 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
65259987 TCATTT
1 TCATTT
65259993 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:65260994 original size:13 final size:12
Alignment explanation
Indices: 65260968--65261025 Score: 89
Period size: 12 Copynumber: 4.7 Consensus size: 12
65260958 GAATACAAAC
65260968 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
65260980 TTTATTTTTGAAA
1 TTTTTTTTTG-AA
65260993 TTTTTTTTTTGAA
1 -TTTTTTTTTGAA
65261006 TTTTTTTTTGAA
1 TTTTTTTTTGAA
65261018 TTTTTTTT
1 TTTTTTTT
65261026 ACAATACCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
12 29 0.69
13 4 0.10
14 9 0.21
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:65261004 original size:26 final size:25
Alignment explanation
Indices: 65260968--65261025 Score: 98
Period size: 26 Copynumber: 2.3 Consensus size: 25
65260958 GAATACAAAC
65260968 TTTTTTTTTGAATTTATTTTTGAAAT
1 TTTTTTTTTGAATTTATTTTTG-AAT
*
65260994 TTTTTTTTTGAATTTTTTTTTGAAT
1 TTTTTTTTTGAATTTATTTTTGAAT
65261019 TTTTTTT
1 TTTTTTT
65261026 ACAATACCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (25 bp):
TTTTTTTTTGAATTTATTTTTGAAT
Found at i:65263688 original size:30 final size:31
Alignment explanation
Indices: 65263654--65263749 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
65263644 AGCTCACTCC
*
65263654 TAGCTC-ACTTTCAACTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
* * **
65263684 TAGCTCAAC-TTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAG-CT
*
65263714 CAGCTCAACTTT-AGCTCAC-AGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
65263743 TAGCTCA
1 TAGCTCA
65263750 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
29 13 0.25
30 34 0.67
31 4 0.08
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAAGCT
Found at i:65266105 original size:588 final size:589
Alignment explanation
Indices: 65264978--65266155 Score: 2223
Period size: 588 Copynumber: 2.0 Consensus size: 589
65264968 TTTCCATTCT
* *
65264978 TGATGTGATCCGGCCCGGGTAGATGAGTCGAATTCACGTAGTTGCCTGATCGTAGTTCGAGAGAG
1 TGATATGATCCGGCCCGGGTAGATGAGTCGAATTCACGTAGTTGCCCGATCGTAGTTCGAGAGAG
65265043 TCGTTCATGCCTCAGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
66 TCGTTCATGCCTCAGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
65265108 AGAAGGGTAAGTTTAGTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAG
131 AGAAGGGTAAGTTTAGTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAG
65265173 TTTGGAATAACAAGAAAATAATTCGAAGGATGGGAATGGAAAACGAACTTAACATCAGGAATGAT
196 TTTGGAATAACAAGAAAATAATTCGAAGGATGGGAATGGAAAACGAACTTAACATCAGGAATGAT
*
65265238 TCAACACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAGAAGATGGATAGATGGATAG
261 TCAACACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAG
*
65265303 GTGAACGCCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCA
326 GTGAACACCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCA
*
65265368 GATAAGTCTTTTGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACAAATGTTCATT
391 GATAAGTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACAAATGTTCATT
65265433 AACAATTTTGGCAAAAGTCCCTCACAATTGAAAGAAAACAAATACTTATAGGCACATAGATGACC
456 AACAATTTTGGCAAAAGTCCCTCACAATTGAAAGAAAACAAATACTTATAGGCACATAGATGACC
*
65265498 ATTCAAATTCGGCATCTAGGTGTTCACGCAATAATAAAAACGTTCACACTAATGTATTAAAATAG
521 ATTCAAATTCGGCATCTAGGTGTTCACACAATAATAAAAACGTTCACACTAATGTATTAAAATAG
65265563 TTCA
586 TTCA
*
65265567 TGATATGATTCGGCCCGGGTAGATGAGTCGAATTCACGTAGTTGCCCGATCGTAGTTCGAGAGAG
1 TGATATGATCCGGCCCGGGTAGATGAGTCGAATTCACGTAGTTGCCCGATCGTAGTTCGAGAGAG
* *
65265632 TCGTTCGTGCCTCGGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
66 TCGTTCATGCCTCAGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
**
65265697 AGAAGGGTAAGTTTAGTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTTGG
131 AGAAGGGTAAGTTTAGTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAG
65265762 TTTGGAATAACAAG-AAATAATTCGAAGGATGGGAATGGAAAACGAACTTAACATCAGGAATGAT
196 TTTGGAATAACAAGAAAATAATTCGAAGGATGGGAATGGAAAACGAACTTAACATCAGGAATGAT
65265826 TCAACACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAG
261 TCAACACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAG
*
65265891 GTGGACACCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCA
326 GTGAACACCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCA
65265956 GATAAGTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACAAATGTTCATT
391 GATAAGTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACAAATGTTCATT
*
65266021 AACAATTTTGGCAAAAGTCCCTTACAATTGAAAGAAAACAAATACTTATAGGCACATAGATGACC
456 AACAATTTTGGCAAAAGTCCCTCACAATTGAAAGAAAACAAATACTTATAGGCACATAGATGACC
*
65266086 ATTCAAATTTGGCATCTAGGTGTTCACACAATAATAAAAACGTTCACACTAATGTATTAAAATAG
521 ATTCAAATTCGGCATCTAGGTGTTCACACAATAATAAAAACGTTCACACTAATGTATTAAAATAG
65266151 TTCA
586 TTCA
65266155 T
1 T
65266156 AAATTCGGCA
Statistics
Matches: 575, Mismatches: 14, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
588 373 0.65
589 202 0.35
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (589 bp):
TGATATGATCCGGCCCGGGTAGATGAGTCGAATTCACGTAGTTGCCCGATCGTAGTTCGAGAGAG
TCGTTCATGCCTCAGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
AGAAGGGTAAGTTTAGTAATAGGTTCGATTTAGTAGCAAAGATGGATGATGGTTAAATGGCTCAG
TTTGGAATAACAAGAAAATAATTCGAAGGATGGGAATGGAAAACGAACTTAACATCAGGAATGAT
TCAACACTAAGAAGTGTCACCCCGGTTCCTATATTGTTAAGGTGAAAAGATGGATAGATGGATAG
GTGAACACCACACCAAGATTGGTGATAAGTTCAAACAAGACGATTGACGCCACTAGCACAAGCCA
GATAAGTCTTTCGAAACTTGTACGAGATATGAGAGGAAGCAACCTCACAAGAACAAATGTTCATT
AACAATTTTGGCAAAAGTCCCTCACAATTGAAAGAAAACAAATACTTATAGGCACATAGATGACC
ATTCAAATTCGGCATCTAGGTGTTCACACAATAATAAAAACGTTCACACTAATGTATTAAAATAG
TTCA
Found at i:65268035 original size:30 final size:30
Alignment explanation
Indices: 65268001--65268083 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
65267991 TAAACTAAAA
65268001 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65268031 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
65268061 TGAGCTAAGCTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCGTGAG
65268084 TTGAAAGTGG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
29 3 0.08
30 34 0.85
31 3 0.08
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65270153 original size:29 final size:29
Alignment explanation
Indices: 65270084--65270143 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
65270074 AAGGATTCAA
*
65270084 AGATTGGTTTATGGATATGAAGTTTATGT
1 AGATTGGTTTATGGATATAAAGTTTATGT
*
65270113 AGATGGGTTTATGGATATAAAGGTTT-TGT
1 AGATTGGTTTATGGATATAAA-GTTTATGT
65270142 AG
1 AG
65270144 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATTGGTTTATGGATATAAAGTTTATGT
Found at i:65275107 original size:21 final size:21
Alignment explanation
Indices: 65275069--65275108 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65275059 CCACGTCTTT
*
65275069 TTCATTTGTTTCTTTTTCTAA
1 TTCATTTGTCTCTTTTTCTAA
65275090 TTCATTT-TCTCTTCTTTCT
1 TTCATTTGTCTCTT-TTTCT
65275109 TCAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.68
Consensus pattern (21 bp):
TTCATTTGTCTCTTTTTCTAA
Found at i:65276958 original size:11 final size:11
Alignment explanation
Indices: 65276942--65276967 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65276932 GGAAATTTGA
65276942 AAAAAAAATTC
1 AAAAAAAATTC
65276953 AAAAAAAATTC
1 AAAAAAAATTC
65276964 AAAA
1 AAAA
65276968 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:65280898 original size:13 final size:13
Alignment explanation
Indices: 65280882--65280906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65280872 TGTTTTTTTT
65280882 TGACTTTTTTGAC
1 TGACTTTTTTGAC
65280895 TGACTTTTTTGA
1 TGACTTTTTTGA
65280907 GGGAATAATT
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:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (13 bp):
TGACTTTTTTGAC
Found at i:65283166 original size:56 final size:55
Alignment explanation
Indices: 65283050--65283167 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
65283040 TGCATGCTTT
* * * *
65283050 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
65283104 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
65283160 CATTAAAT
1 CATTAAAT
65283168 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:65283815 original size:20 final size:20
Alignment explanation
Indices: 65283790--65283844 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
65283780 ACGAGTTAAA
* *
65283790 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
65283810 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
65283830 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
65283845 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:65284756 original size:16 final size:15
Alignment explanation
Indices: 65284730--65284759 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65284720 TTTCAATCCA
65284730 TCATCCCAATCAAAG
1 TCATCCCAATCAAAG
65284745 TCATCACCAATCAAA
1 TCATC-CCAATCAAA
65284760 AATTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
TCATCCCAATCAAAG
Found at i:65286304 original size:13 final size:13
Alignment explanation
Indices: 65286286--65286318 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
65286276 TAAATACAAA
*
65286286 TTTTTTTTTGAAT
1 TTTTTTTTTGAAC
65286299 TTTTTTTTTGAAC
1 TTTTTTTTTGAAC
65286312 TTTTTTT
1 TTTTTTT
65286319 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTGAAC
Found at i:65287488 original size:56 final size:55
Alignment explanation
Indices: 65287372--65287489 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
65287362 TGCATGCTTT
* * * *
65287372 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
65287426 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
65287482 CATTAAAT
1 CATTAAAT
65287490 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:65288138 original size:20 final size:20
Alignment explanation
Indices: 65288113--65288167 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
65288103 ACGAGTTAAA
* *
65288113 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
65288133 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
65288153 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
65288168 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:65289488 original size:30 final size:28
Alignment explanation
Indices: 65289434--65289490 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
65289424 TTTCTTCCAC
* *
65289434 ACTTTCTTTTTGCTCACTCTCTTTTTCA
1 ACTTTCTTTTTGCACACACTCTTTTTCA
65289462 ACTTTACTTTCTTGCACACACTCTTTTTC
1 ACTTT-CTTT-TTGCACACACTCTTTTTC
65289491 TTTTTTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.14, C:0.30, G:0.04, T:0.53
Consensus pattern (28 bp):
ACTTTCTTTTTGCACACACTCTTTTTCA
Found at i:65290550 original size:11 final size:11
Alignment explanation
Indices: 65290534--65290575 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
65290524 CAGATTTTGT
65290534 TTTTTTTTGAA
1 TTTTTTTTGAA
65290545 TTTTTTTTTGAA
1 -TTTTTTTTGAA
*
65290557 TTTTTTTTCAA
1 TTTTTTTTGAA
65290568 TTTTTTTT
1 TTTTTTTT
65290576 TTGAAACTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:65290550 original size:12 final size:12
Alignment explanation
Indices: 65290533--65290576 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
65290523 TCAGATTTTG
65290533 TTTTTTTTTGAA
1 TTTTTTTTTGAA
65290545 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
65290557 -TTTTTTTTCAA
1 TTTTTTTTTGAA
65290568 TTTTTTTTT
1 TTTTTTTTT
65290577 TGAAACTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTGAA
Done.