Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 294 of 410
Found at i:90739654 original size:15 final size:15
Alignment explanation
Indices: 90739596--90739674 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
90739586 CAAAGATAAC
*
90739596 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
90739610 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
90739625 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
90739639 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
90739654 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
90739669 AAGAAA
1 AAGAAA
90739675 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90739683 original size:15 final size:15
Alignment explanation
Indices: 90739607--90739683 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
90739597 AGAAAACCGA
90739607 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
90739622 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
90739636 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
90739650 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
90739666 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
90739681 ATA
1 ATA
90739684 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:90742737 original size:93 final size:93
Alignment explanation
Indices: 90742625--90742796 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90742615 GCCCATAAGT
* *
90742625 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90742690 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
90742718 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90742783 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
90742797 CAAATATCCT
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90742792 original size:46 final size:46
Alignment explanation
Indices: 90742617--90742792 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
90742607 TGTAACCCGC
* * *
90742617 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
90742663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
90742713 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90742756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90742793 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90744838 original size:34 final size:34
Alignment explanation
Indices: 90744791--90744866 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
90744781 CTGATACTAT
* *
90744791 AATGGGCTTAGGCCCCCACTGATACTATTACTGA
1 AATGGGCTCAGGCCCACACTGATACTATTACTGA
* * *
90744825 AATGGGCTCAGGCCCAGACTGCTACTGTTACTGA
1 AATGGGCTCAGGCCCACACTGATACTATTACTGA
90744859 AATGGGCT
1 AATGGGCT
90744867 AAAAGCCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
AATGGGCTCAGGCCCACACTGATACTATTACTGA
Found at i:90745784 original size:5 final size:6
Alignment explanation
Indices: 90745767--90745791 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90745757 AAATTTGAAC
90745767 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
90745792 CAGATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:90760218 original size:25 final size:27
Alignment explanation
Indices: 90760181--90760233 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
90760171 TCAAACATGC
90760181 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
90760207 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
90760233 A
1 A
90760234 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:90761751 original size:26 final size:26
Alignment explanation
Indices: 90761715--90761798 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
90761705 CATGAAATTC
90761715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90761741 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90761767 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90761793 TTATCA
1 TTATCA
90761799 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90764345 original size:6 final size:6
Alignment explanation
Indices: 90764327--90764382 Score: 69
Period size: 6 Copynumber: 9.2 Consensus size: 6
90764317 TGCAAATGAA
*
90764327 TCATTT CTCATTT TCATTT TCATTT TCATTT TCA-TT TCAATT TCTATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TC-ATTT
*
90764376 CCATTT T
1 TCATTT T
90764383 GAGAAAACCA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
5 5 0.11
6 29 0.66
7 10 0.23
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (6 bp):
TCATTT
Found at i:90780008 original size:15 final size:15
Alignment explanation
Indices: 90779982--90780015 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
90779972 ATGTAATTTT
90779982 TAAAATTTTAAAGG-
1 TAAAATTTTAAAGGA
90779996 TAAAATATTTAAAGGA
1 TAAAAT-TTTAAAGGA
90780012 TAAA
1 TAAA
90780016 TTTAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 8 0.44
16 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
TAAAATTTTAAAGGA
Found at i:90780980 original size:14 final size:14
Alignment explanation
Indices: 90780961--90780990 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90780951 ATATATATAC
90780961 TTTGCAAAGGTTGA
1 TTTGCAAAGGTTGA
90780975 TTTGCAAAGGTTGA
1 TTTGCAAAGGTTGA
90780989 TT
1 TT
90780991 ATTTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (14 bp):
TTTGCAAAGGTTGA
Found at i:90781402 original size:16 final size:18
Alignment explanation
Indices: 90781381--90781418 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90781371 AATGGTATAT
*
90781381 AAATAT-ATATTA-TACA
1 AAATATCATAATAGTACA
90781397 AAATATCATAATAGTACA
1 AAATATCATAATAGTACA
90781415 AAAT
1 AAAT
90781419 CAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATATCATAATAGTACA
Found at i:90789495 original size:12 final size:12
Alignment explanation
Indices: 90789478--90789502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90789468 CAGGTCTGGA
90789478 AGCTGCTTCAAC
1 AGCTGCTTCAAC
90789490 AGCTGCTTCAAC
1 AGCTGCTTCAAC
90789502 A
1 A
90789503 ATGAGGGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGCTGCTTCAAC
Found at i:90789657 original size:21 final size:21
Alignment explanation
Indices: 90789603--90789666 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
90789593 TTGCTTCCTT
* *
90789603 AACACACTCCAGGATTTCTTG
1 AACACGCTCCAGGATTTCTTC
* * *
90789624 TACATGCTTCAGGATTTCTTC
1 AACACGCTCCAGGATTTCTTC
*
90789645 AACGCGCTCCAGGATTTTCTTC
1 AACACGCTCCAGGA-TTTCTTC
90789667 TGCAGTTCAG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (21 bp):
AACACGCTCCAGGATTTCTTC
Found at i:90792786 original size:22 final size:22
Alignment explanation
Indices: 90792761--90792804 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
90792751 TAAGTTTATA
90792761 TTATTTCATAAA-AATATTTTTT
1 TTATTT-ATAAACAATATTTTTT
*
90792783 TTATTTTTAAACAATATTTTTT
1 TTATTTATAAACAATATTTTTT
90792805 ACATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTTATAAACAATATTTTTT
Found at i:90795002 original size:20 final size:20
Alignment explanation
Indices: 90794977--90795014 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
90794967 CATGTGGGAT
90794977 GAATGTCT-TCGATGGGACGA
1 GAATGTCTGT-GATGGGACGA
90794997 GAATGTCTGTGATGGGAC
1 GAATGTCTGTGATGGGAC
90795015 AGATATTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26
Consensus pattern (20 bp):
GAATGTCTGTGATGGGACGA
Found at i:90798923 original size:48 final size:48
Alignment explanation
Indices: 90798822--90799185 Score: 240
Period size: 46 Copynumber: 7.7 Consensus size: 48
90798812 GATATTGTGT
**
90798822 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAAGATGAGA
* *
90798868 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGA
* * * *
90798916 GCTAGTGTAAGA-CATGTTTGAGACAT-GCATCGGCCTTGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATG-AGA
* * *
90798962 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACGA-GATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGA
* ** *
90799005 TG-TCAGTGTAAGACCATGCCTGAAACATGGCATCGGCACGTATAA-A-GA-T
1 -GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TAAGATGAGA
* * * * *** *
90799054 G-TCAGTTTAAGACCATATCTGAGACATGGCATTGGCACGGATATGTAAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATG--AGA
* * * ** *
90799104 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGAT-GAGA
90799153 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATC
90799186 AACTTGATGG
Statistics
Matches: 254, Mismatches: 42, Indels: 41
0.75 0.12 0.12
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 13 0.05
45 12 0.05
46 66 0.26
47 30 0.12
48 58 0.23
49 33 0.13
50 35 0.14
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGA
Found at i:90807541 original size:14 final size:14
Alignment explanation
Indices: 90807490--90807549 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
90807480 ATGGTAAGAG
*
90807490 TGGTATGAATGAAA
1 TGGTATGAACGAAA
*
90807504 TGGTATGAATGAAA
1 TGGTATGAACGAAA
*
90807518 TGGTATGAACGAAG
1 TGGTATGAACGAAA
* *
90807532 GGGTATGAACGAAT
1 TGGTATGAACGAAA
90807546 TGGT
1 TGGT
90807550 CGGTTTAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (14 bp):
TGGTATGAACGAAA
Found at i:90810094 original size:13 final size:13
Alignment explanation
Indices: 90810076--90810100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90810066 AGGCAATGTG
90810076 AGGGACACGGGCC
1 AGGGACACGGGCC
90810089 AGGGACACGGGC
1 AGGGACACGGGC
90810101 GTGTGTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:90810201 original size:20 final size:20
Alignment explanation
Indices: 90810176--90810227 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
90810166 GGGGTAAGGG
*
90810176 ACACGGGCGTGTCCCAATGT
1 ACACGGGCGTGTCCCAATGC
*
90810196 ACACGGGTGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
90810216 ACACGGGCGTGT
1 ACACGGGCGTGT
90810228 GCATTGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATGC
Found at i:90814502 original size:21 final size:21
Alignment explanation
Indices: 90814469--90814515 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
90814459 TAAGATAGAC
90814469 CACAAGGCCGTGT-GAGTGGGT
1 CACAAGGCCGTGTGGA-TGGGT
* *
90814490 CACATGGCTGTGTGGATGGGT
1 CACAAGGCCGTGTGGATGGGT
90814511 CACAA
1 CACAA
90814516 TGTAACAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (21 bp):
CACAAGGCCGTGTGGATGGGT
Found at i:90818702 original size:55 final size:53
Alignment explanation
Indices: 90818602--90818776 Score: 201
Period size: 55 Copynumber: 3.2 Consensus size: 53
90818592 ATGTCTTAAC
* *
90818602 ATGGTCTTACCTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGA
1 ATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGA
* * *
90818655 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTT-GA
1 ATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGA
* * * * *
90818709 CATGGTCTTACATGATTTCCTTGCTTTATAGAACTTATCAATGCCATGCCTTGGC
1 -ATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGA
90818764 ATGGTCTTACATG
1 ATGGTCTTACATG
90818777 ATATCCTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.02
53 22 0.21
54 35 0.34
55 42 0.41
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
ATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGA
Found at i:90818769 original size:54 final size:54
Alignment explanation
Indices: 90818577--90818784 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
90818567 TTTCCTTTTT
* * * * * *
90818577 GAACTTACCATTGCCATGTCTTAACATGGTCTTACCTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
** *
90818630 GAACTCACCAATGCCATGCCTTGGA-ATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTT-GACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
90818684 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCTTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
90818739 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
90818785 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 41 0.31
54 45 0.34
55 41 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:90818818 original size:47 final size:47
Alignment explanation
Indices: 90818763--90818883 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
90818753 CATGCCTTGG
* * *
90818763 CATGGTCTTACATGATATCCTTATCTTACCAAATGCTATACTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATACTCCAAA
* * **
90818810 TATGGTCTTACATGGTACCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATACTCCAAA
90818857 CATGGTCTTACATGGTATCCTTGTCTT
1 CATGGTCTTACATGGTATCCTTGTCTT
90818884 GGAGCCAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATACTCCAAA
Found at i:90819627 original size:30 final size:30
Alignment explanation
Indices: 90819593--90819649 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
90819583 CTAACTCAAA
*
90819593 CTTTGGCAAAATTATAATTTT-CCCCTAAAC
1 CTTT-GCAAAATTACAATTTTACCCCTAAAC
* *
90819623 CTTTGCAGAATTACGATTTTACCCCTA
1 CTTTGCAAAATTACAATTTTACCCCTA
90819650 TGCTCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 13 0.57
30 10 0.43
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (30 bp):
CTTTGCAAAATTACAATTTTACCCCTAAAC
Found at i:90828501 original size:129 final size:127
Alignment explanation
Indices: 90828259--90828506 Score: 293
Period size: 129 Copynumber: 1.9 Consensus size: 127
90828249 AGAAAGATAA
* * ** *
90828259 TAACGAAGCCTGTTGAGTCATCGGAGGGGCTTCCACCAAAGAATGGGTGAGTTGTGCATCGGATT
1 TAACGAAGCCTGTTGAGTCATCGAAGAGGCTTCCACCAAAGAATGGGTGAGTTGTGCATCAAACT
** * *
90828324 TAGGGGAAAAAGTAGCGATGCAAACATTGAAGCTAAGAATAATAAGGCTCTATTTAGGGAAAG
66 TAAAGGAAAAAGTAACGATGAAAACATTGAAGCTAAGAATAATAAGGCT-TATTTAGGGAAAG
* * *
90828387 TAACGGAGCTTGTTGAGTCATCGAAGAGGTTTCCACCAAAAGAA-GAGGTGAGTTGTGCATCAAA
1 TAACGAAGCCTGTTGAGTCATCGAAGAGGCTTCCACC-AAAGAATG-GGTGAGTTGTGCATCAAA
* * * * *
90828451 CTTAAAGGAATAAGTAACTATGAAAACTTTGAAGCT-AGGATCAATGAGGCTTATTT
64 CTTAAAGGAAAAAGTAACGATGAAAACATTGAAGCTAAGAAT-AATAAGGCTTATTT
90828507 TTGTAGAATT
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
128 42 0.42
129 58 0.58
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (127 bp):
TAACGAAGCCTGTTGAGTCATCGAAGAGGCTTCCACCAAAGAATGGGTGAGTTGTGCATCAAACT
TAAAGGAAAAAGTAACGATGAAAACATTGAAGCTAAGAATAATAAGGCTTATTTAGGGAAAG
Found at i:90834196 original size:36 final size:36
Alignment explanation
Indices: 90834155--90834224 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
90834145 AATCATTTGA
90834155 TGGATAATCGGAATTGAAAATGAATCATGTTGTGGC
1 TGGATAATCGGAATTGAAAATGAATCATGTTGTGGC
90834191 TGGATAATCGGAATTGAAAATGAATCATGTTGTG
1 TGGATAATCGGAATTGAAAATGAATCATGTTGTG
90834225 ACTCCATTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (36 bp):
TGGATAATCGGAATTGAAAATGAATCATGTTGTGGC
Found at i:90848426 original size:13 final size:13
Alignment explanation
Indices: 90848408--90848432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90848398 TATATGATAT
90848408 GTGTGAAAATTTC
1 GTGTGAAAATTTC
90848421 GTGTGAAAATTT
1 GTGTGAAAATTT
90848433 TATCGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:90848793 original size:11 final size:11
Alignment explanation
Indices: 90848779--90848834 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
90848769 AGATAAATAT
90848779 TATTTTATTAA
1 TATTTTATTAA
90848790 TATTTTATTAA
1 TATTTTATTAA
*
90848801 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
90848814 TATTTTATTAT
1 TATTTTATTAA
90848825 TATTTTATTA
1 TATTTTATTA
90848835 GTATATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 27 0.68
12 6 0.15
13 7 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:90848840 original size:24 final size:23
Alignment explanation
Indices: 90848747--90848840 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 23
90848737 GAGATATTTT
* *
90848747 GATATTTTATAATTATTTAATTA
1 GATATTTTATTATTATTTTATTA
*
90848770 GATA----AATATTATTTTATTA
1 GATATTTTATTATTATTTTATTA
* *
90848789 -ATATTTTATTAATATTTTAATAA
1 GATATTTTATTATTATTTT-ATTA
90848812 GATATTTTATTATTATTTTATTA
1 GATATTTTATTATTATTTTATTA
90848835 GTATAT
1 G-ATAT
90848841 AAAGAAAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.05
19 12 0.21
22 9 0.16
23 11 0.20
24 21 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
GATATTTTATTATTATTTTATTA
Found at i:90850653 original size:21 final size:21
Alignment explanation
Indices: 90850629--90850700 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
90850619 CTTTCTAAAA
90850629 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* * * *
90850650 TGAAA-GATACCATAGGAACATGAT
1 TGAAATG-T---GTAAGACCATGGT
90850674 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
90850696 TGAAA
1 TGAAA
90850701 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 9 0.24
24 9 0.24
25 6 0.16
26 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:90850680 original size:46 final size:46
Alignment explanation
Indices: 90850628--90850855 Score: 280
Period size: 46 Copynumber: 5.0 Consensus size: 46
90850618 GCTTTCTAAA
* *
90850628 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGG-AACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCAT-GGCAACATGAC
* *
90850674 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * **
90850720 GGGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
90850766 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
90850812 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
90850856 TCAAAGATAA
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 3 0.02
46 157 0.98
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:90850957 original size:13 final size:13
Alignment explanation
Indices: 90850939--90850968 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90850929 TCAGATGACG
90850939 AATGGTTATATGA
1 AATGGTTATATGA
*
90850952 AATGGTTATGTGA
1 AATGGTTATATGA
90850965 AATG
1 AATG
90850969 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:90858974 original size:19 final size:19
Alignment explanation
Indices: 90858950--90858989 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
90858940 CACAATTAAG
90858950 TAGCATGACTGGGTATAAT
1 TAGCATGACTGGGTATAAT
90858969 TAGCATGACTGGGTATAAT
1 TAGCATGACTGGGTATAAT
90858988 TA
1 TA
90858990 CGTATGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (19 bp):
TAGCATGACTGGGTATAAT
Found at i:90861990 original size:34 final size:34
Alignment explanation
Indices: 90861952--90862019 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
90861942 ATTTTCGGTT
90861952 TTGACATTTTAAACTGAATAAACCAATTAAGCCC
1 TTGACATTTTAAACTGAATAAACCAATTAAGCCC
90861986 TTGACATTTTAAACTGAATAAACCAATTAAGCCC
1 TTGACATTTTAAACTGAATAAACCAATTAAGCCC
90862020 ATAACCCATT
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:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (34 bp):
TTGACATTTTAAACTGAATAAACCAATTAAGCCC
Found at i:90862181 original size:18 final size:18
Alignment explanation
Indices: 90862146--90862187 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
90862136 CAGATTGGTA
90862146 ATTTAATTTTTTTATTAT-
1 ATTT-ATTTTTTTATTATC
*
90862164 ATTTATTTTATTTTTTATC
1 ATTTATTTT-TTTATTATC
90862183 ATTTA
1 ATTTA
90862188 ATATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATTTTTTTATTATC
Found at i:90862521 original size:23 final size:22
Alignment explanation
Indices: 90862495--90862539 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
90862485 TTTAAGTTCA
90862495 TTAAAATTTGTT-TGATTTAATTT
1 TTAAAATTT-TTATGA-TTAATTT
*
90862518 TTAATATTTTTATGATTAATTT
1 TTAAAATTTTTATGATTAATTT
90862540 GAAATAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
TTAAAATTTTTATGATTAATTT
Found at i:90867965 original size:12 final size:12
Alignment explanation
Indices: 90867950--90868012 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
90867940 TGTTATCAAT
90867950 TTATTATTATAA
1 TTATTATTATAA
**
90867962 TTATTATTATGGT
1 TTATTATTAT-AA
*
90867975 TTTTTATT-TAA
1 TTATTATTATAA
*
90867986 ATATTATTATTAA
1 TTATTATTA-TAA
90867999 -TATTATTAT-A
1 TTATTATTATAA
90868009 TTAT
1 TTAT
90868013 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 10 0.25
12 19 0.47
13 10 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:90868464 original size:3 final size:3
Alignment explanation
Indices: 90868456--90868504 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
90868446 ATGAATTAAA
* *
90868456 TAT TAT TA- TAT TA- TAT TAT TAT TAT AAT GTAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
90868500 TAT TA
1 TAT TA
90868505 ACTAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:90868472 original size:10 final size:10
Alignment explanation
Indices: 90868459--90868550 Score: 51
Period size: 12 Copynumber: 8.3 Consensus size: 10
90868449 AATTAAATAT
90868459 TATTATATTA
1 TATTATATTA
90868469 TATTATTATTA
1 TATTA-TATTA
* *
90868480 TAATGTATTA
1 TATTATATTA
90868490 TTATTAATATTA
1 -TATT-ATATTA
* *
90868502 T-TAACTAATA
1 TATTA-TATTA
90868512 TATATATATATA
1 TAT-TATAT-TA
90868524 TATATATATATA
1 TAT-TATAT-TA
90868536 TATATATATATA
1 TAT-TATAT-TA
90868548 TAT
1 TAT
90868551 GAAATAAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.01
10 16 0.24
11 15 0.22
12 35 0.52
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (10 bp):
TATTATATTA
Found at i:90868477 original size:16 final size:16
Alignment explanation
Indices: 90868456--90868502 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
90868446 ATGAATTAAA
90868456 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
90868472 TATTATTATAATGTAT
1 TATTATTATATTATAT
90868488 TATTATTAATATTAT
1 TATTATT-ATATTAT
90868503 TAACTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:90868480 original size:19 final size:21
Alignment explanation
Indices: 90868456--90868502 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
90868446 ATGAATTAAA
90868456 TATTATTATAT-TA-TATTAT
1 TATTATTATATGTATTATTAT
90868475 TATTA-TA-ATGTATTATTAT
1 TATTATTATATGTATTATTAT
*
90868494 TAATATTAT
1 TATTATTAT
90868503 TAACTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 4 0.17
19 15 0.65
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATTATATGTATTATTAT
Found at i:90868516 original size:2 final size:2
Alignment explanation
Indices: 90868509--90868550 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
90868499 TTATTAACTA
90868509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90868551 GAAATAAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90869664 original size:29 final size:30
Alignment explanation
Indices: 90869617--90869684 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
90869607 TGGCCCAAGA
* *
90869617 GTAAATACTCAAAACTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAACTTGAAGGACTAATAGT
* *
90869647 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATCAAAACTTGAAGGACTAATAGT
*
90869677 GCAAATAT
1 GTAAATAT
90869685 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAACTTGAAGGACTAATAGT
Found at i:90869926 original size:30 final size:30
Alignment explanation
Indices: 90869892--90869949 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
90869882 ATTTTATAGT
*
90869892 TATTTAAAT-AGATAATTATTATTTATTTAA
1 TATTTAAATAAGACAATTATTA-TTATTTAA
* *
90869922 TATTTTAATAAGACATTTATTATTATTT
1 TATTTAAATAAGACAATTATTATTATTT
90869950 TATTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
TATTTAAATAAGACAATTATTATTATTTAA
Found at i:90871587 original size:26 final size:26
Alignment explanation
Indices: 90871536--90871587 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
90871526 ATATACTAAA
*
90871536 TAAAATAATAAAAAAAAATATCTTAT
1 TAAAATAATAAAAAAAAATATATTAT
* *
90871562 TAAAATATTAAATAAATAATA-ATTAT
1 TAAAATAATAAA-AAAAAATATATTAT
90871588 CTAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAATAATAAAAAAAAATATATTAT
Found at i:90871877 original size:30 final size:31
Alignment explanation
Indices: 90871809--90871867 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
90871799 CACCCTTAAA
* * *
90871809 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
90871840 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
90871868 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:90874642 original size:20 final size:20
Alignment explanation
Indices: 90874605--90874642 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
90874595 TTATCTAATG
90874605 ATTTAGAAAAGTATTTGAGT
1 ATTTAGAAAAGTATTTGAGT
*
90874625 ATTT-GAAATGTATATTGA
1 ATTTAGAAAAGTAT-TTGA
90874643 TTGAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTTAGAAAAGTATTTGAGT
Found at i:90874890 original size:34 final size:36
Alignment explanation
Indices: 90874849--90874916 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
90874839 AAATGGAAAA
90874849 GTGAATTTGAATTG-AA-TGAGAATTGA-ATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGACATTGAATT
90874883 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
90874917 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 8 0.26
36 9 0.29
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGACATTGAATT
Found at i:90874917 original size:18 final size:17
Alignment explanation
Indices: 90874846--90874921 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
90874836 AGAAAATGGA
*
90874846 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
90874863 -AA-TGAGAATTGAATTG
1 AAAGTGA-AATTGAATTG
* *
90874879 AATTGTGAATTTGAATTG
1 AA-AGTGAAATTGAATTG
90874897 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
90874915 AAAGTGA
1 AAAGTGA
90874922 TTTGAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 10 0.20
18 22 0.45
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:90874925 original size:34 final size:33
Alignment explanation
Indices: 90874846--90874927 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
90874836 AGAAAATGGA
90874846 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
*
90874879 AATTGTGAATTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGAATTTGAATTG-AA-TGAGAATTGA-ATTG
90874915 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
90874928 ATGTGAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.49
35 11 0.26
36 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAATGAGAATTGAATTG
Found at i:90874934 original size:18 final size:18
Alignment explanation
Indices: 90874846--90874934 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 18
90874836 AGAAAATGGA
90874846 AAAGTGAATTTG-AATTG
1 AAAGTGAATTTGAAATTG
* *
90874863 AATGAGAA-TTG-AATTG
1 AAAGTGAATTTGAAATTG
*
90874879 AATTGTGAATTTG-AATTG
1 AA-AGTGAATTTGAAATTG
* *
90874897 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGAAATTG
90874915 AAAGTG-ATTTGAAATGTG
1 AAAGTGAATTTGAAAT-TG
90874933 AA
1 AA
90874935 TTTGGAGACC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.17
17 26 0.43
18 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.34
Consensus pattern (18 bp):
AAAGTGAATTTGAAATTG
Found at i:90882529 original size:19 final size:19
Alignment explanation
Indices: 90882505--90882541 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90882495 ACCGAGAACT
90882505 TTAGAAAATTTTTCACTAC
1 TTAGAAAATTTTTCACTAC
**
90882524 TTAGAATTTTTTTCACTA
1 TTAGAAAATTTTTCACTA
90882542 AACAGGGCTC
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:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAGAAAATTTTTCACTAC
Found at i:90889013 original size:40 final size:34
Alignment explanation
Indices: 90888934--90889001 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
90888924 TTTGAAAAGT
90888934 TGTGAATTTTGGTTGGTTTTGAAGCTTGCAACAA
1 TGTGAATTTTGGTTGGTTTTGAAGCTTGCAACAA
90888968 TGTGAATTTTGGTTGGTTTTGAAGCTTGCAACAA
1 TGTGAATTTTGGTTGGTTTTGAAGCTTGCAACAA
90889002 GACCCATGTG
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:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (34 bp):
TGTGAATTTTGGTTGGTTTTGAAGCTTGCAACAA
Found at i:90891186 original size:22 final size:22
Alignment explanation
Indices: 90891161--90891236 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
90891151 AGGTGTGTAT
90891161 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
90891183 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
90891207 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
90891230 ATGTGAT
1 ATGTGAT
90891237 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:90891212 original size:47 final size:47
Alignment explanation
Indices: 90891153--90891452 Score: 501
Period size: 47 Copynumber: 6.4 Consensus size: 47
90891143 TTGATTCAAG
*
90891153 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
90891200 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90891247 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
90891294 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
90891341 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90891388 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90891435 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
90891453 TCCTGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 236 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:90893162 original size:42 final size:42
Alignment explanation
Indices: 90893072--90893163 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
90893062 ATTAATAGTT
*
90893072 TATT-AATTTAATACATCATATCAATATCTAGACAAATATTA
1 TATTAAATTTAATACATCATATCAATATCTAGAAAAATATTA
* * ** * *
90893113 AAATAAATTTAATATTTTATATTAATATCTAGAAAAAT-TTA
1 TATTAAATTTAATACATCATATCAATATCTAGAAAAATATTA
90893154 GTATTAAATT
1 -TATTAAATT
90893164 CATTAAATAA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
41 5 0.12
42 35 0.88
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (42 bp):
TATTAAATTTAATACATCATATCAATATCTAGAAAAATATTA
Found at i:90893553 original size:19 final size:19
Alignment explanation
Indices: 90893531--90893568 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90893521 GAGTTTTGGT
*
90893531 TCTCAGGTTCAATTTTCAA
1 TCTCAGGTCCAATTTTCAA
*
90893550 TCTCGGGTCCAATTTTCAA
1 TCTCAGGTCCAATTTTCAA
90893569 GTTCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (19 bp):
TCTCAGGTCCAATTTTCAA
Found at i:90896251 original size:39 final size:39
Alignment explanation
Indices: 90896207--90896521 Score: 540
Period size: 39 Copynumber: 8.1 Consensus size: 39
90896197 ATGCAAGAGA
**
90896207 CTGGAAATGTATCCGGGCTAAAGTCCTACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
90896246 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
90896285 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
90896324 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
90896363 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
90896402 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
90896441 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
90896480 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
90896519 CTG
1 CTG
90896522 ATAATATAAT
Statistics
Matches: 260, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 260 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:90905661 original size:35 final size:35
Alignment explanation
Indices: 90905615--90905688 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
90905605 TTTAAGTTAT
90905615 AGGTATGATTCACCCATAGGTTAGTAACAAAATGC
1 AGGTATGATTCACCCATAGGTTAGTAACAAAATGC
90905650 AGGTATGATTCACCCATAGGTTAGTAACAAAATGC
1 AGGTATGATTCACCCATAGGTTAGTAACAAAATGC
90905685 AGGT
1 AGGT
90905689 TCTAGGGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (35 bp):
AGGTATGATTCACCCATAGGTTAGTAACAAAATGC
Found at i:90909400 original size:37 final size:37
Alignment explanation
Indices: 90909328--90909400 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
90909318 ACAGGTAACC
**
90909328 TGATAAACCATAATTTATACATATTTTTATTCCATGT
1 TGATAAACCATAATTTATACATATTTTTACCCCATGT
*
90909365 TGATAAACCGTAATTTATACATATTTTTACCCCATG
1 TGATAAACCATAATTTATACATATTTTTACCCCATG
90909401 CTTAACGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.42
Consensus pattern (37 bp):
TGATAAACCATAATTTATACATATTTTTACCCCATGT
Found at i:90913176 original size:40 final size:40
Alignment explanation
Indices: 90913131--90913304 Score: 174
Period size: 40 Copynumber: 4.3 Consensus size: 40
90913121 CGGAATATAA
90913131 CCGGATATATTCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATATTCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
90913171 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
90913211 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90913251 CCGGATATAATTTC-C-AGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATAT-A-TTCACTAGCACAAATGCCTTCGGGTCTTAGC
90913291 CCGGATATCATTCA
1 CCGGATAT-ATTCA
90913305 ATTTCTCATG
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.04
40 104 0.94
41 2 0.02
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATATTCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90913281 original size:80 final size:80
Alignment explanation
Indices: 90913147--90913298 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
90913137 ATATTCACGT
* *
90913147 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
90913212 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
90913227 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
90913290 CCCGGATAT
64 CCCGGATAT
90913299 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:90923401 original size:25 final size:25
Alignment explanation
Indices: 90923367--90923420 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
90923357 ATGTCGCGAC
90923367 ACTACTGCGTAACCCTATTTTCTGA
1 ACTACTGCGTAACCCTATTTTCTGA
90923392 ACTACTGCGTAACCCTATTTTCTGA
1 ACTACTGCGTAACCCTATTTTCTGA
90923417 ACTA
1 ACTA
90923421 ACTTATCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (25 bp):
ACTACTGCGTAACCCTATTTTCTGA
Found at i:90935704 original size:19 final size:19
Alignment explanation
Indices: 90935667--90935704 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
90935657 AAATTTTGAT
90935667 AAATAAAGAATATAGTGAA
1 AAATAAAGAATATAGTGAA
90935686 AAATACAAGAATATA-TGAA
1 AAATA-AAGAATATAGTGAA
90935705 TATTGTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.21
Consensus pattern (19 bp):
AAATAAAGAATATAGTGAA
Found at i:90938451 original size:31 final size:31
Alignment explanation
Indices: 90938416--90938614 Score: 326
Period size: 31 Copynumber: 6.4 Consensus size: 31
90938406 ACGGTTACTA
*
90938416 GGCCGAAACCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
90938447 GGCCGAAGCCTTTTTATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
90938478 GGCTGAAGCCTTTTCATAAATCACATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
90938509 GGCCGAAGCCTTTTTATAAATCACATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
90938540 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
90938571 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
90938602 GGCTGAAGCCTTT
1 GGCCGAAGCCTTT
90938615 ACTGTAAACG
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:90938685 original size:42 final size:42
Alignment explanation
Indices: 90938638--90938730 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
90938628 TGGCCCTTAG
90938638 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
90938680 GCCCATTTCAATATCATATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
90938722 GCCCATTTC
1 GCCCATTTC
90938731 GGGAGACTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:90938904 original size:25 final size:25
Alignment explanation
Indices: 90938876--90938945 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
90938866 CTCTTTTAAT
90938876 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
90938901 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
90938926 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
90938946 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:90939784 original size:27 final size:27
Alignment explanation
Indices: 90939754--90939818 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
90939744 GGGCATATTT
90939754 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
90939781 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
90939808 GTCTTTTTACC
1 GTCATTTTACC
90939819 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:90939820 original size:26 final size:26
Alignment explanation
Indices: 90939754--90939855 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
90939744 GGGCATATTT
90939754 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
90939781 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * * *
90939808 GTCTTTTTACCTATTAGGGGTATTTA-A
1 GTCATTTTACCTA-CAAGGGTA-TTACG
*
90939835 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
90939856 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
26 5 0.08
27 44 0.75
28 10 0.17
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:90939902 original size:27 final size:27
Alignment explanation
Indices: 90939872--90940077 Score: 130
Period size: 27 Copynumber: 7.6 Consensus size: 27
90939862 GTAAATCTAC
*
90939872 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
90939899 AAACCAATGGTATTTCTA-TAATTTTTAA
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* *
90939927 AAAGTCAAGGGTATTTCTGTAATTTTAT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
** ** *
90939955 AAA-TTAGGGTTATTTTGGTAATTTTAC
1 AAACCAAGGG-TATTTCAGTAATTTTAT
** * *
90939982 AAATTAAGGGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
90940009 AAA-CTAGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * ** *
90940036 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
90940063 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
90940078 TGGTAATTCT
Statistics
Matches: 147, Mismatches: 24, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
26 6 0.04
27 105 0.71
28 22 0.15
29 14 0.10
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:90940023 original size:54 final size:54
Alignment explanation
Indices: 90939857--90940118 Score: 233
Period size: 54 Copynumber: 4.8 Consensus size: 54
90939847 TACAAGGGTG
* * * ** * *
90939857 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACTAGTGGTA
* * * * * *
90939911 TTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTCTGTAATTTTATAAATTAG-GGTTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTACAAACTAGTGG-TA
* *
90939967 TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACTAGTGGTA
* * ** *
90940021 TTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACTAGTGGTA
* ** * *
90940075 TTTTGGTAATTCTATCCTA-TAGGGGTATTTCAGTAATTTCACAA
1 TTTTGGTAATTTTA-CAAACTAAGGGTATTTCAGTAATTTTACAA
90940119 TCGAGGGTAA
Statistics
Matches: 169, Mismatches: 32, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
54 114 0.67
55 23 0.14
56 32 0.19
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAACTAGTGGTA
Found at i:90940078 original size:27 final size:27
Alignment explanation
Indices: 90939935--90940085 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
90939925 AAAAAGTCAA
* *
90939935 GGGTATTTCT-GTAATTTTATAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* * *
90939962 GGTTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
90939989 GGGTATTTCAGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
90940016 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
90940043 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
90940070 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
90940086 CTATCCTATA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 108 0.99
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:90940102 original size:81 final size:81
Alignment explanation
Indices: 90939935--90940118 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 81
90939925 AAAAAGTCAA
* * * * *
90939935 GGGTATTTCTGTAATTTTATAAATTAGGGTTATTTTGGTAATTTTACAAATTAAGGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAG
90940000 TAATTTCACAAACTAG
66 TAATTTCACAAACTAG
* * * **
90940016 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAG
**
90940081 TAA-TTCTATCCTA-TAG
66 TAATTTC-A-CAAACTAG
*
90940097 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
90940119 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 82 0.94
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:90940125 original size:27 final size:27
Alignment explanation
Indices: 90939935--90940118 Score: 174
Period size: 27 Copynumber: 6.8 Consensus size: 27
90939925 AAAAAGTCAA
* * * *
90939935 GGGTATTTCTGTAATTTTATAAATTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* * * * *
90939962 GGTTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTCACAAACTAG
*
90939989 GGGTATTTCAGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
90940016 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* *
90940043 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACTAG
* **
90940070 GGGTATTTTGGTAA-TTCTATCCTA-TAG
1 GGGTATTTCGGTAATTTC-A-CAAACTAG
*
90940097 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
90940119 TCGAGGGTAA
Statistics
Matches: 131, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 123 0.94
28 5 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACTAG
Found at i:90940151 original size:27 final size:27
Alignment explanation
Indices: 90940117--90940368 Score: 281
Period size: 27 Copynumber: 9.3 Consensus size: 27
90940107 GTAATTTCAC
**
90940117 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
90940144 AA-CTGAGGGTAAAATGGTAACTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
90940171 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
90940198 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
90940225 AATCGAGAGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
90940252 AATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
90940279 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
90940306 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
90940333 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
90940360 AATCGAGGG
1 AATCGAGGG
90940369 CATTTCAGTA
Statistics
Matches: 197, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 195 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:90940180 original size:54 final size:54
Alignment explanation
Indices: 90940117--90940368 Score: 346
Period size: 54 Copynumber: 4.7 Consensus size: 54
90940107 GTAATTTCAC
** * *
90940117 AATCGAGGGTAAAACAATAATTTTGTAAA-CTGAGGGTAAAATGGTAACTT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATGGTAA-TTCTATA
90940171 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * *
90940225 AATCGAGAGTAAAACGGTAATTCTATAAATCGAAGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* * * *
90940279 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* **
90940333 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
90940369 CATTTCAGTA
Statistics
Matches: 177, Mismatches: 19, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 174 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:90940237 original size:81 final size:81
Alignment explanation
Indices: 90940117--90940368 Score: 346
Period size: 81 Copynumber: 3.1 Consensus size: 81
90940107 GTAATTTCAC
** * *
90940117 AATCGAGGGTAAAACAATAATTTTGTAAA-CTGAGGGTAAAATGGTAACTT-TGTAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAACGGTAA-TTCTATAAATCGAGGG
* *
90940180 TAAAACGGTAATTCTGTA
64 TAAAATGGTAATTCTATA
* * * * *
90940198 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGAGTAAAACGGTAATTCTATAAATCGAAGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
90940263 AAATGGTAATTCTATA
66 AAATGGTAATTCTATA
* *
90940279 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
90940344 AAATGGTAATTCTACA
66 AAATGGTAATTCTATA
90940360 AATCGAGGG
1 AATCGAGGG
90940369 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.01
81 147 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAATGGTAATTCTATA
Found at i:90942642 original size:60 final size:60
Alignment explanation
Indices: 90942566--90942689 Score: 196
Period size: 60 Copynumber: 2.1 Consensus size: 60
90942556 AGCAAATTTC
* *
90942566 ACTAAATTAATTAACAAATA-ATCGAGATTAGCATTATTTTTAAGTAAAAAGGTGGTAAAA
1 ACTAAATTAATGAACAAATACA-CGAGATTAACATTATTTTTAAGTAAAAAGGTGGTAAAA
* *
90942626 ACTAAATTAATGAACAAATACACGGGATTAATATTATTTTTAAGTAAAAAGGTGGTAAAA
1 ACTAAATTAATGAACAAATACACGAGATTAACATTATTTTTAAGTAAAAAGGTGGTAAAA
90942686 ACTA
1 ACTA
90942690 CTAGAAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 58 0.98
61 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (60 bp):
ACTAAATTAATGAACAAATACACGAGATTAACATTATTTTTAAGTAAAAAGGTGGTAAAA
Found at i:90945048 original size:25 final size:25
Alignment explanation
Indices: 90944953--90945105 Score: 132
Period size: 25 Copynumber: 6.1 Consensus size: 25
90944943 TCATTAGGGT
* *
90944953 TACCGATTTATGGCTCGTGAGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
* * *
90944978 TACCAATTTATAGCTCGTGAGAGTA
1 TACCGATTTATAGCTCGTAAGAGCA
* *
90945003 TATCAATTTATAGCTCGTAAGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
* *
90945028 TACCGATTTATATCTCATAAGA-CTA
1 TACCGATTTATAGCTCGTAAGAGC-A
* *
90945053 TACCGATCTT-CAGCTC-AAATGAGCA
1 TACCGAT-TTATAGCTCGTAA-GAGCA
* * *
90945078 TACCGATTCACAGCTCGTATGAGCA
1 TACCGATTTATAGCTCGTAAGAGCA
90945103 TAC
1 TAC
90945106 ATGTACATGA
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.04
25 98 0.92
26 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
TACCGATTTATAGCTCGTAAGAGCA
Found at i:90946003 original size:44 final size:44
Alignment explanation
Indices: 90945955--90946044 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
90945945 TAATATGGTA
90945955 TAGACTTGGTCAAGCCTTTGTTGAACAATTGATCAATGTATGTT
1 TAGACTTGGTCAAGCCTTTGTTGAACAATTGATCAATGTATGTT
90945999 TAGACTTGGTCAAGCCTTTGTTGAACAATTGATCAATGTATGTT
1 TAGACTTGGTCAAGCCTTTGTTGAACAATTGATCAATGTATGTT
90946043 TA
1 TA
90946045 CATTTGTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (44 bp):
TAGACTTGGTCAAGCCTTTGTTGAACAATTGATCAATGTATGTT
Found at i:90948500 original size:48 final size:42
Alignment explanation
Indices: 90948419--90948536 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 42
90948409 ATCGATGCTA
* * **
90948419 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATGCTGATACCG
1 ATGCCATGTCCCAGATATAGTCTTACACAGGATCTC---CT-AT--CG
* *
90948467 ATGCCATGTCCCAAATATAGTCTTATACAGGATCTCCTATCG
1 ATGCCATGTCCCAGATATAGTCTTACACAGGATCTCCTATCG
*
90948509 ATGCCATGTCCCAGACATAGTCTTACAC
1 ATGCCATGTCCCAGATATAGTCTTACAC
90948537 GAAATCACTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 27 0.44
44 2 0.03
45 2 0.03
48 30 0.49
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATAGTCTTACACAGGATCTCCTATCG
Found at i:90959516 original size:23 final size:22
Alignment explanation
Indices: 90959483--90959549 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
90959473 AGACTCACCA
* * *
90959483 CAGCTCGTATGGGCTGATCGTTT
1 CAGCTCTTATGAGCTGACCG-TT
*
90959506 CAGCTCTTATGAGCTTACCGTT
1 CAGCTCTTATGAGCTGACCGTT
** *
90959528 CAGCTCTTCGGAGCTTACCGTT
1 CAGCTCTTATGAGCTGACCGTT
90959550 TCAGTCCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 22 0.58
23 16 0.42
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (22 bp):
CAGCTCTTATGAGCTGACCGTT
Found at i:90959532 original size:22 final size:22
Alignment explanation
Indices: 90959504--90959601 Score: 94
Period size: 22 Copynumber: 4.4 Consensus size: 22
90959494 GGCTGATCGT
*
90959504 TTCAGCTCTTATGAGCTTACCG
1 TTCAGCTCTTAGGAGCTTACCG
*
90959526 TTCAGCTCTTCGGAGCTTACCG
1 TTCAGCTCTTAGGAGCTTACCG
**
90959548 TTTCAG-TCCTTAAGG-GCTTACTAT
1 -TTCAGCT-CTT-AGGAGCTTAC-CG
90959572 TTCAGCTC-TACGGAGCTTACCG
1 TTCAGCTCTTA-GGAGCTTACCG
90959594 TTCAGCTC
1 TTCAGCTC
90959602 AATTGAGCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.02
22 32 0.52
23 26 0.42
24 3 0.05
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (22 bp):
TTCAGCTCTTAGGAGCTTACCG
Found at i:90964490 original size:29 final size:31
Alignment explanation
Indices: 90964458--90964515 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
90964448 TGTCCATTAT
*
90964458 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
90964487 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
90964516 TATAAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:90966875 original size:48 final size:48
Alignment explanation
Indices: 90966756--90966973 Score: 244
Period size: 48 Copynumber: 4.6 Consensus size: 48
90966746 TGAGATCCCA
* * * * * *
90966756 TGTAAGACCATGTCTGGGACATGGCATTGGAATCGAGA--TGAGATCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGTGTTAG
* ** *
90966802 TATAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGTGTTAG
* * ** * *
90966850 TGTAAGACCATGTCTTGGACATGGCATCGGCCTCGACGTGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGTGTTAG
*
90966898 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAT-TTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTG-TGTTAG
*
90966946 TGTAAGACCATGTCTGGTACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
90966974 ATTATGAGAC
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
46 32 0.22
48 111 0.78
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGTGTTAG
Found at i:90966920 original size:96 final size:94
Alignment explanation
Indices: 90966756--90966973 Score: 278
Period size: 96 Copynumber: 2.3 Consensus size: 94
90966746 TGAGATCCCA
* * *
90966756 TGTAAGACCATGTCTGGGACATGGCATTGGAATCGAGATGAGATCGTATAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTTGGACATGGCATCGGAATCGAGATGAGATAGTATAAGACCATGTCTGGGA
** *
90966821 CATGGCATCGGTGTTGATATGTG-TGTTAG
66 CATGGCATCGGCATCGATATGTGAT-TTAG
** * * *
90966850 TGTAAGACCATGTCTTGGACATGGCATCGGCCTCGACGTGTGAGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTTGGACATGGCATCGGAATCGA-G-ATGAGATAGTATAAGACCATGTCTGG
*
90966915 GACATGGCATCGGCATCGATATGTGATTTTG
64 GACATGGCATCGGCATCGATATGTGATTTAG
90966946 TGTAAGACCATGTC-TGGTACATGGCATC
1 TGTAAGACCATGTCTTGG-ACATGGCATC
90966974 ATTATGAGAC
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
94 32 0.30
95 4 0.04
96 71 0.66
97 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (94 bp):
TGTAAGACCATGTCTTGGACATGGCATCGGAATCGAGATGAGATAGTATAAGACCATGTCTGGGA
CATGGCATCGGCATCGATATGTGATTTAG
Found at i:90967811 original size:2 final size:2
Alignment explanation
Indices: 90967804--90967828 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90967794 TTGAGTATTC
90967804 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
90967829 TCATTCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90971130 original size:2 final size:2
Alignment explanation
Indices: 90971123--90971159 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
90971113 GTATGTGCAT
90971123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90971160 GCTGAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90971207 original size:31 final size:29
Alignment explanation
Indices: 90971152--90971209 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
90971142 ATATATATAT
*
90971152 ATATATATGCTGAATTAAGTTGTAAAAGA
1 ATATAAATGCTGAATTAAGTTGTAAAAGA
90971181 ATATAAATG-TGAAGTTGAAGTATGTAAAA
1 ATATAAATGCTGAA-TT-AAGT-TGTAAAA
90971210 TATAAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (29 bp):
ATATAAATGCTGAATTAAGTTGTAAAAGA
Found at i:90973554 original size:48 final size:47
Alignment explanation
Indices: 90973448--90973665 Score: 208
Period size: 48 Copynumber: 4.6 Consensus size: 47
90973438 TGAGATCCCA
* * * * * *
90973448 TGTAAGACCATGTCTGGGACATGGCATTGGAATCGAGA--TGAGATCG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCATCGATATGTGTGTTAG
* ** *
90973494 TATAAGACCATGTCTAGGACATGGCATCGGGGTTGATATGTGTGTTAG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCATCGATATGTGTGTTAG
* ** * *
90973542 TGTAAGACCATGTCTTGGACATGGCATCGGCCTCGACGTGTGAGCTAG
1 TGTAAGACCATGTC-TGGACATGGCATCGGCATCGATATGTGTGTTAG
* *
90973590 TGTAAGACCATGTCTGGGACATGGCATCTGCATCGATATGTGAT-TTTG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCATCGATATGTG-TGTTAG
90973638 TGTAAGACCATGTCTGGTACATGGCATC
1 TGTAAGACCATGTCTGG-ACATGGCATC
90973666 ATTATGAGAC
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
46 31 0.22
47 3 0.02
48 106 0.75
49 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGACATGGCATCGGCATCGATATGTGTGTTAG
Found at i:90973613 original size:96 final size:94
Alignment explanation
Indices: 90973448--90973665 Score: 260
Period size: 96 Copynumber: 2.3 Consensus size: 94
90973438 TGAGATCCCA
* * *
90973448 TGTAAGACCATGTCTGGGACATGGCATTGGAATCGAGATGAGATCGTATAAGACCATGTCTAGGA
1 TGTAAGACCATGTCTTGGACATGGCATCGGAATCGAGATGAGATAGTATAAGACCATGTCTAGGA
** *
90973513 CATGGCATCGGGGTTGATATGTG-TGTTAG
66 CATGGCATCGGCATCGATATGTGAT-TTAG
** * * * *
90973542 TGTAAGACCATGTCTTGGACATGGCATCGGCCTCGACGTGTGAGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTTGGACATGGCATCGGAATCGA-G-ATGAGATAGTATAAGACCATGTCTAG
* *
90973607 GACATGGCATCTGCATCGATATGTGATTTTG
64 GACATGGCATCGGCATCGATATGTGATTTAG
90973638 TGTAAGACCATGTC-TGGTACATGGCATC
1 TGTAAGACCATGTCTTGG-ACATGGCATC
90973666 ATTATGAGAC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
94 32 0.30
95 4 0.04
96 69 0.65
97 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (94 bp):
TGTAAGACCATGTCTTGGACATGGCATCGGAATCGAGATGAGATAGTATAAGACCATGTCTAGGA
CATGGCATCGGCATCGATATGTGATTTAG
Found at i:90977702 original size:79 final size:79
Alignment explanation
Indices: 90977606--90977760 Score: 195
Period size: 79 Copynumber: 2.0 Consensus size: 79
90977596 TCGTTCAAAC
* * *
90977606 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATATC
90977671 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* ** ** * *
90977686 GCCTTCGGG-CTTAGCCCGGATATCACAACTTGCACATTTGCCTTCGGGTTTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
*
90977750 CAATTCGCACA
66 CAACTCGCACA
90977761 TTCATACACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 24 0.38
79 31 0.48
80 9 0.14
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:90977715 original size:39 final size:40
Alignment explanation
Indices: 90977606--90977760 Score: 197
Period size: 39 Copynumber: 3.9 Consensus size: 40
90977596 TCGTTCAAAC
* * * * * *
90977606 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
90977646 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
* *
90977686 GCCTTCGGG-CTTAGCCCGGATATCACAACTTGCACATTT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
* *
90977725 GCCTTCGGG-TTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACA
90977761 TTCATACACA
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 60 0.59
40 42 0.41
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
Found at i:90985545 original size:39 final size:39
Alignment explanation
Indices: 90985467--90985590 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
90985457 TATGATAACC
* *
90985467 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
90985507 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
90985546 CGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
90985585 CGCACA
1 CGCACA
90985591 TTCATACACA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 63 0.79
40 17 0.21
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:90988869 original size:22 final size:22
Alignment explanation
Indices: 90988825--90988884 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
90988815 CCACAGCTCG
* *
90988825 TATGAGCTTACCATTTCAGCTCT
1 TATGAGCTTACC-GTTCAACTCT
90988848 TATGAGCTTACCGTTCAACTCT
1 TATGAGCTTACCGTTCAACTCT
**
90988870 TCGGAGCTTACCGTT
1 TATGAGCTTACCGTT
90988885 TCAGACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (22 bp):
TATGAGCTTACCGTTCAACTCT
Found at i:90988952 original size:22 final size:22
Alignment explanation
Indices: 90988828--90988954 Score: 64
Period size: 22 Copynumber: 5.6 Consensus size: 22
90988818 CAGCTCGTAT
* *
90988828 GAGCTTACCATTTCAGCTCTTAT-
1 GAGCTTACCGTTT-AGCTC-AATG
* * *
90988851 GAGCTTACCGTTCAACTC-TTCG
1 GAGCTTACCGTTTAGCTCAAT-G
*
90988873 GAGCTTACCGTTTCAGACATTAA-G
1 GAGCTTACCGTTT-AG-C-TCAATG
*
90988897 G-GCTTACCGTTTCAGCTCTATG
1 GAGCTTACCGTTT-AGCTCAATG
* * *
90988919 GAGCATATCGTTTAGCTCAATT
1 GAGCTTACCGTTTAGCTCAATG
*
90988941 TAGCTTACCGTTTA
1 GAGCTTACCGTTTA
90988955 TCGGCTCAGG
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
20 1 0.01
21 2 0.03
22 37 0.47
23 35 0.44
24 3 0.04
25 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (22 bp):
GAGCTTACCGTTTAGCTCAATG
Found at i:90991930 original size:41 final size:41
Alignment explanation
Indices: 90991885--90992002 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
90991875 TGAAAGATAA
90991885 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
90991926 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90991956 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
90991997 ATGTAG
1 ATGTAG
90992003 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:90991941 original size:71 final size:71
Alignment explanation
Indices: 90991853--90992016 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90991843 GAGATGTATC
90991853 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90991918 AGGACA
66 AGGACA
90991924 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
90991989 AGGACA
66 AGGACA
90991995 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
90992017 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:90994675 original size:6 final size:6
Alignment explanation
Indices: 90994664--90994716 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
90994654 GCAAATGGAT
* *
90994664 CATTTC CATTTC CATTTC TATTAT- CATTTC CATTTC CATTTC TATTTC
1 CATTTC CATTTC CATTTC CATT-TC CATTTC CATTTC CATTTC CATTTC
90994712 CATTT
1 CATTT
90994717 TTGAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 1 0.02
6 39 0.95
7 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:90994716 original size:24 final size:24
Alignment explanation
Indices: 90994662--90994709 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
90994652 TTGCAAATGG
90994662 ATCATTTCCATTTCCATTTCTATT
1 ATCATTTCCATTTCCATTTCTATT
90994686 ATCATTTCCATTTCCATTTCTATT
1 ATCATTTCCATTTCCATTTCTATT
90994710 TCCATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (24 bp):
ATCATTTCCATTTCCATTTCTATT
Found at i:90995662 original size:16 final size:17
Alignment explanation
Indices: 90995643--90995695 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
90995633 AAATAGATAT
90995643 TTATT-TAAATATTAAA
1 TTATTATAAATATTAAA
*
90995659 TTATTATAATTATT-AA
1 TTATTATAAATATTAAA
* *
90995675 TTATTATTAATATTATA
1 TTATTATAAATATTAAA
90995692 TTAT
1 TTAT
90995696 AATATGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 19 0.61
17 12 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTATAAATATTAAA
Found at i:90996311 original size:16 final size:17
Alignment explanation
Indices: 90996287--90996320 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90996277 GTATTGATAT
*
90996287 TTGAGTTGAAT-GAGAA
1 TTGAATTGAATGGAGAA
90996303 TTGAATTGAATGGAGAA
1 TTGAATTGAATGGAGAA
90996320 T
1 T
90996321 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (17 bp):
TTGAATTGAATGGAGAA
Found at i:91001346 original size:19 final size:20
Alignment explanation
Indices: 91001296--91001339 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
91001286 AAATAGATAT
*
91001296 TTATT-TAAATATTAAATTA
1 TTATTATAATTATTAAATTA
*
91001315 TTGTTATAATTATT-AATTA
1 TTATTATAATTATTAAATTA
91001334 TTATTA
1 TTATTA
91001340 ATATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATAATTATTAAATTA
Found at i:91001951 original size:16 final size:17
Alignment explanation
Indices: 91001927--91001960 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
91001917 GTATTGATAT
*
91001927 TTGAGTTGAATG-AGAA
1 TTGAATTGAATGAAGAA
91001943 TTGAATTGAATGAAGAA
1 TTGAATTGAATGAAGAA
91001960 T
1 T
91001961 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
TTGAATTGAATGAAGAA
Found at i:91006193 original size:53 final size:54
Alignment explanation
Indices: 91006125--91006331 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
91006115 TTCCTTTTTA
* * *
91006125 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
91006178 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
91006232 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
91006287 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
91006332 AAACCTTAAT
Statistics
Matches: 123, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:91014683 original size:2 final size:2
Alignment explanation
Indices: 91014676--91014701 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
91014666 GGATCATCTC
91014676 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
91014702 CACAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91015650 original size:46 final size:46
Alignment explanation
Indices: 91015598--91015689 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
91015588 ATAATGACCC
91015598 AAGCTCTCTTTATATATGGAGAGTTCAAAGAGAGTTCAACTAGGAT
1 AAGCTCTCTTTATATATGGAGAGTTCAAAGAGAGTTCAACTAGGAT
*
91015644 AAGCTCTCTTTATATATGGAGAGTTCAGAGAGAGTTCAACTAGGAT
1 AAGCTCTCTTTATATATGGAGAGTTCAAAGAGAGTTCAACTAGGAT
91015690 TAGAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (46 bp):
AAGCTCTCTTTATATATGGAGAGTTCAAAGAGAGTTCAACTAGGAT
Found at i:91015757 original size:37 final size:39
Alignment explanation
Indices: 91015704--91015799 Score: 97
Period size: 42 Copynumber: 2.4 Consensus size: 39
91015694 ATTAAACAAA
* *
91015704 TTAATATTAAATTAATA-A-AATATTATCTAGACAAATAT
1 TTAAT-TTAATTTAATACATAATAATATCTAGACAAATAT
* *
91015742 TTAATTTAATTTAATATCTCATATTAATATCTAGATAAATAT
1 TTAATTTAATTTAATA---CATAATAATATCTAGACAAATAT
*
91015784 TAAATTTAATTTAATA
1 TTAATTTAATTTAATA
91015800 TTAAATTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
37 10 0.21
38 5 0.10
41 1 0.02
42 32 0.67
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (39 bp):
TTAATTTAATTTAATACATAATAATATCTAGACAAATAT
Found at i:91019487 original size:35 final size:35
Alignment explanation
Indices: 91019448--91019518 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
91019438 CTTTTTGCCT
91019448 AAAACTAATTCCGTTCATCTATTTATTCACCTACA
1 AAAACTAATTCCGTTCATCTATTTATTCACCTACA
91019483 AAAACTAATTCCGTTCATCTATTTATTCACCTACA
1 AAAACTAATTCCGTTCATCTATTTATTCACCTACA
91019518 A
1 A
91019519 CTGATTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (35 bp):
AAAACTAATTCCGTTCATCTATTTATTCACCTACA
Found at i:91030335 original size:29 final size:25
Alignment explanation
Indices: 91030295--91030349 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 25
91030285 AACGTAAGTG
91030295 ACTAAAACATAACATTTCAAATATAAATA
1 ACTAAAACAT-A-ATTT-AAA-ATAAATA
*
91030324 ACTAAAATATAATTTAAAATAAATA
1 ACTAAAACATAATTTAAAATAAATA
91030349 A
1 A
91030350 AAGTGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 3 0.12
27 4 0.16
28 1 0.04
29 9 0.36
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (25 bp):
ACTAAAACATAATTTAAAATAAATA
Found at i:91036551 original size:33 final size:33
Alignment explanation
Indices: 91036513--91036611 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
91036503 GACTGAGTGG
*
91036513 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
91036546 GAGTGTTTTGCTGCTGGACAGGAGCTAGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
91036579 GAGTGTTTTGTTACTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
91036612 CAAGAAGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.20, C:0.10, G:0.38, T:0.31
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:91049661 original size:7 final size:6
Alignment explanation
Indices: 91049620--91049660 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
91049610 ATAATTTAAT
*
91049620 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
91049661 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:91049661 original size:20 final size:20
Alignment explanation
Indices: 91049623--91049662 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
91049613 ATTTAATAAA
**
91049623 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
91049643 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
91049663 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:91049694 original size:9 final size:9
Alignment explanation
Indices: 91049680--91049738 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
91049670 TTTATACAAA
91049680 TAATTCGGT
1 TAATTCGGT
91049689 TAATTCGGT
1 TAATTCGGT
* *
91049698 CAATTCGGG
1 TAATTCGGT
91049707 TAATTCGGT
1 TAATTCGGT
* *
91049716 CAATTCGAT
1 TAATTCGGT
91049725 TAATTCGGT
1 TAATTCGGT
91049734 TAATT
1 TAATT
91049739 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:91051134 original size:17 final size:17
Alignment explanation
Indices: 91051112--91051146 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
91051102 TAGAAGAACC
*
91051112 CCAAATGAATTATCTAA
1 CCAAATAAATTATCTAA
91051129 CCAAATAAATTATCTAA
1 CCAAATAAATTATCTAA
91051146 C
1 C
91051147 ATCCCAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (17 bp):
CCAAATAAATTATCTAA
Found at i:91053963 original size:46 final size:44
Alignment explanation
Indices: 91053856--91053963 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
91053846 TGTTTTTGAC
** * * *
91053856 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
91053900 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTACT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
91053946 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
91053964 TTTCTATTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:91060468 original size:51 final size:51
Alignment explanation
Indices: 91060408--91060510 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
91060398 TTTGGAAACT
*
91060408 TAGAAAAATTTCAACCATATAGGGGTCACACGCCCATGTGAACAGGCCGTG
1 TAGAAAAATTTCAACCATACAGGGGTCACACGCCCATGTGAACAGGCCGTG
*
91060459 TAGAAAAATTTCAACCATACAGGGGTCACACGCCCGTGTGAACAGGCCGTG
1 TAGAAAAATTTCAACCATACAGGGGTCACACGCCCATGTGAACAGGCCGTG
91060510 T
1 T
91060511 GCCTTACATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (51 bp):
TAGAAAAATTTCAACCATACAGGGGTCACACGCCCATGTGAACAGGCCGTG
Found at i:91061777 original size:40 final size:40
Alignment explanation
Indices: 91061716--91061814 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
91061706 ACTCGATATC
*
91061716 TCGCACACTAAGTGCCGTATATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
* * * *
91061756 TCGCATACTAAGTGCTATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
91061796 TCGCACACTAAGTGCCATA
1 TCGCACACTAAGTGCCATA
91061815 AATAACCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
Found at i:91063903 original size:460 final size:460
Alignment explanation
Indices: 91063044--91063956 Score: 1389
Period size: 460 Copynumber: 2.0 Consensus size: 460
91063034 CAGGTTCCCT
* *
91063044 TGTAGCTTCTTCAACCCCTTGTCGATACCATAATACTTTCACTAATGTGATTATCTTATTTCTCA
1 TGTAGCTTCTTCAACCCCGTGTCAATACCATAATACTTTCACTAATGTGATTATCTTATTTCTCA
* * ** * *
91063109 GTTCTTTGATCTCACAAGCTGAAATTCGAATTGGTTCTTCAGCATATGACATATCATATTGAATT
66 GTTCTTTGATCTCACAAGCTAAAATTCAAACCGATTCTTCAGCATATGACATATCAGATTGAATT
** * * * * *
91063174 TCAACCTCGGTCGGGGAAATGACTTGTGATGGGTTGGACGGTATCATCGAAGCATCGACACATGA
131 TCAACCTCGACCGGGGAAATGACATATGAAGGGTCGAACGGTATCATCGAAGCATCGACACATGA
* * *
91063239 AACACATTATGTATTTTCTCTAACTCAGACAGTAAAGATAGTCGATATGCCACTGGCCTAACTTG
196 AACACATTATGTATTTTCTCTAACTCAGACAGTAAAGATAGTCGACATGCCACTGGCCCAACTCG
91063304 CTCAGTAATCTCATACGGTCCGATGAATCGCGAACTCAATTTCCCTTTCCGACCAAACCGCAATA
261 CTCAGTAATCTCATACGGTCCGATGAATCGCGAACTCAATTTCCCTTTCCGACCAAACCGCAATA
* * *
91063369 TCTTATTCCACGGTGACACTTTTAAAAACACTTTATCCCTAATGTGGAACTCAATATCTTTCCAT
326 TCTTATTCCACGGTGACACTTTTAAAAACACTTTATCCCCAATCTAGAACTCAATATCTTTCCAT
* * *
91063434 TTCAAGTCTGCACACAATTTCTGTCGATTCGGAGCTGCTTTCAAACTATCGCGAATTA-TTTTCA
391 TTCAAGTCTGCACACAATTTCTGTCGATACGAAGCTGCTTTCAAACTATCACGAATTACTTTTCA
91063498 GTACA
456 GTACA
* * * * *
91063503 TGTAGCTTCTTCAACCTCGTGTCAATGCCATAATACTTTCACTAATGTGATTCTCTTATTTTTTA
1 TGTAGCTTCTTCAACCCCGTGTCAATACCATAATACTTTCACTAATGTGATTATCTTATTTCTCA
* * * * *
91063568 GTTCTTTGGTCTCATAGGCTAAAATTCAAACCGATTCTTCAGCATATGACATGTTAGATTGAATT
66 GTTCTTTGATCTCACAAGCTAAAATTCAAACCGATTCTTCAGCATATGACATATCAGATTGAATT
* *
91063633 TCAACCTCGACCGGGGAAATGCCATATGAAGGGTCGAATCGGTATCGTCGAAGCATCGACACATG
131 TCAACCTCGACCGGGGAAATGACATATGAAGGGTCGAA-CGGTATCATCGAAGCATCGACACATG
91063698 AAACACATTATGTATTTTCTCTAACTCAGACAGTAAAGATAGTCGACATGCCACTGGCCCAACTC
195 AAACACATTATGTATTTTCTCTAACTCAGACAGTAAAGATAGTCGACATGCCACTGGCCCAACTC
* *
91063763 GCTCAGTAATCTCATACGGTCCGATGAATCGC-AGACTCAATTTCCCTTTCCTACCAAACTGCAA
260 GCTCAGTAATCTCATACGGTCCGATGAATCGCGA-ACTCAATTTCCCTTTCCGACCAAACCGCAA
* * *
91063827 TATCTTATTCCATGGTGACACTTTTAAAAACACTTTATCCCCAATCTAGAATTCAATATCTTTCT
324 TATCTTATTCCACGGTGACACTTTTAAAAACACTTTATCCCCAATCTAGAACTCAATATCTTTCC
* * * *
91063892 ATTTCAAGTCTGCATACGATTTTTGTTGATACGAAGCTGCTTTCAAACTATCACGAATTACTTTT
389 ATTTCAAGTCTGCACACAATTTCTGTCGATACGAAGCTGCTTTCAAACTATCACGAATTACTTTT
91063957 TCTTTTTCTT
Statistics
Matches: 406, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
459 143 0.35
460 259 0.64
461 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (460 bp):
TGTAGCTTCTTCAACCCCGTGTCAATACCATAATACTTTCACTAATGTGATTATCTTATTTCTCA
GTTCTTTGATCTCACAAGCTAAAATTCAAACCGATTCTTCAGCATATGACATATCAGATTGAATT
TCAACCTCGACCGGGGAAATGACATATGAAGGGTCGAACGGTATCATCGAAGCATCGACACATGA
AACACATTATGTATTTTCTCTAACTCAGACAGTAAAGATAGTCGACATGCCACTGGCCCAACTCG
CTCAGTAATCTCATACGGTCCGATGAATCGCGAACTCAATTTCCCTTTCCGACCAAACCGCAATA
TCTTATTCCACGGTGACACTTTTAAAAACACTTTATCCCCAATCTAGAACTCAATATCTTTCCAT
TTCAAGTCTGCACACAATTTCTGTCGATACGAAGCTGCTTTCAAACTATCACGAATTACTTTTCA
GTACA
Done.