Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 21 of 352
Found at i:6646026 original size:8 final size:9
Alignment explanation
Indices: 6645983--6646028 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
6645973 AATTTTTTAA
6645983 AAATATTTT
1 AAATATTTT
6645992 AAATTATTTT
1 AAA-TATTTT
6646002 AAAT-TTTT
1 AAATATTTT
* *
6646010 TAATTTTTT
1 AAATATTTT
6646019 AAA-ATTTT
1 AAATATTTT
6646027 AA
1 AA
6646029 TAACAAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
8 13 0.41
9 10 0.31
10 9 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
AAATATTTT
Found at i:6646857 original size:21 final size:22
Alignment explanation
Indices: 6646817--6646860 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6646807 ATAAACAATA
*
6646817 TAATGATTTTGACTTTTTAACT
1 TAATGATTTTAACTTTTTAACT
*
6646839 TAATGGTTTTAAC-TTTTAACT
1 TAATGATTTTAACTTTTTAACT
6646860 T
1 T
6646861 TAGAAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TAATGATTTTAACTTTTTAACT
Found at i:6647440 original size:19 final size:19
Alignment explanation
Indices: 6647418--6647458 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6647408 TAAACTATGA
*
6647418 TTTATATTTTAAATTA-ATT
1 TTTAAATTTT-AATTAGATT
6647437 TTTAAATTTTAATTAGATT
1 TTTAAATTTTAATTAGATT
6647456 TTT
1 TTT
6647459 TCGTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTTAATTAGATT
Found at i:6648866 original size:12 final size:12
Alignment explanation
Indices: 6648839--6648877 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6648829 TATTTTTTAG
6648839 AATATATAAA-A
1 AATATATAAATA
* *
6648850 AATATTTTAATA
1 AATATATAAATA
6648862 AATATATAAATA
1 AATATATAAATA
6648874 AATA
1 AATA
6648878 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATATATAAATA
Found at i:6650583 original size:18 final size:17
Alignment explanation
Indices: 6650556--6650591 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6650546 GAGGAAGAAG
*
6650556 AAAGAAAAATAATATAT
1 AAAGAAAAATAAAATAT
6650573 AAAGTAAAAATAAAATAT
1 AAAG-AAAAATAAAATAT
6650591 A
1 A
6650592 TAGAGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAGAAAAATAAAATAT
Found at i:6659916 original size:30 final size:30
Alignment explanation
Indices: 6659854--6659912 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
6659844 TTAAATTCAT
* *
6659854 TTTATATCTTTTATATATTTTCATAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
*
6659884 TTTACATCTTATAT-TATTTTCGTAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
6659913 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTACATCTTATATATATTTTCATAATTAA
Found at i:6659921 original size:26 final size:25
Alignment explanation
Indices: 6659862--6659934 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
6659852 ATTTTATATC
6659862 TTTTATA-TATTTTCATAATTAATT
1 TTTTATATTATTTTCATAATTAATT
*
6659886 TACATCTTATATTATTTTCGTAATTAAATT
1 T---T-TTATATTATTTTCATAATT-AATT
*
6659916 TTTTATATTATTTTAATAA
1 TTTTATATTATTTTCATAA
6659935 AAAACTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 1 0.03
26 15 0.38
27 2 0.05
28 5 0.12
29 12 0.30
30 5 0.12
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (25 bp):
TTTTATATTATTTTCATAATTAATT
Found at i:6661833 original size:20 final size:21
Alignment explanation
Indices: 6661797--6661835 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6661787 TTCAATACAA
6661797 TAATTGAACCAAGTTAAAAAT
1 TAATTGAACCAAGTTAAAAAT
6661818 TAATTGAACC-AGTTAAAA
1 TAATTGAACCAAGTTAAAA
6661836 CGATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
TAATTGAACCAAGTTAAAAAT
Found at i:6661920 original size:14 final size:15
Alignment explanation
Indices: 6661883--6661930 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
6661873 TACACATAAA
6661883 AATAATAATTATATTT
1 AATAATAATT-TATTT
6661899 GAAATAATAATTT-TTT
1 --AATAATAATTTATTT
*
6661915 AATAATTATTTATTT
1 AATAATAATTTATTT
6661930 A
1 A
6661931 TTATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 3 0.11
17 1 0.04
18 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATAATAATTTATTT
Found at i:6663779 original size:17 final size:17
Alignment explanation
Indices: 6663757--6663790 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6663747 ATCCACTAAT
*
6663757 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6663774 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6663791 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6668417 original size:17 final size:17
Alignment explanation
Indices: 6668395--6668428 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6668385 ATCCACTAAT
*
6668395 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
6668412 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
6668429 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:6670297 original size:130 final size:129
Alignment explanation
Indices: 6669992--6670323 Score: 383
Period size: 130 Copynumber: 2.6 Consensus size: 129
6669982 AAAAAACTGA
* *
6669992 AACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCC-AGACATTGAACATTACCTT-GTTTT--
1 AACCCAGCACGA-TAGGGCACGATTCC-CGAA-TTCCTAAACATTGAACATTACCTTCATTTTAA
** * *
6670052 AGAATTTAGAAGACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAATT
63 AGAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATT
6670117 AC
128 AC
* * ** *
6670119 AACCCAGCACGATAGGGCACGATTCCCCGAATT-TTCAAATATCAAACATTATCTTCATTTTAAA
1 AACCCAGCACGATAGGGCACGATT-CCCGAATTCCT-AAACATTGAACATTACCTTCATTTTAAA
* * *
6670183 GAATTTTTAAAACATGAGTGAGATTCCAAAGGAATATTTGGTTATTTTGAACAAAC-GAGAAATT
64 GAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAG-GAAATT
*
6670247 GC
128 AC
* *
6670249 AACCCAGCACGATAGGGCACGATTAACCGAATTCCTAAACATTGAACATTGCCTTCGA-TTTAAA
1 AACCCAGCACGATAGGGCACGATT-CCCGAATTCCTAAACATTGAACATTACCTTC-ATTTTAAA
6670313 GAATTTTTAAA
64 GAATTTTTAAA
6670324 CGAATAATTA
Statistics
Matches: 172, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
126 2 0.01
127 40 0.23
128 7 0.04
129 1 0.01
130 120 0.70
131 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCGAATTCCTAAACATTGAACATTACCTTCATTTTAAAGA
ATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTAC
Found at i:6673479 original size:35 final size:34
Alignment explanation
Indices: 6673440--6673561 Score: 111
Period size: 35 Copynumber: 3.4 Consensus size: 34
6673430 ATCGTCGGTA
*
6673440 TATCCGACTAGAACTGGGTGCAAATACTTTTGGTT
1 TATCCAACTAGAACTGGGTGCAAATA-TTTTGGTT
* *
6673475 TATCCAACTAGAGCTGGGCT-CACAATTATTTTCGTCAGTA
1 TATCCAACTAGAACTGGG-TGCA-AA-TATTTT-G---GTT
* *
6673515 TATCCGACTAGCACTGGGTGCAAATATTGTTGGTT
1 TATCCAACTAGAACTGGGTGCAAATATT-TTGGTT
6673550 TATCCAACTAGA
1 TATCCAACTAGA
6673562 GTTGGGCTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
35 30 0.43
36 7 0.10
37 3 0.04
38 5 0.07
39 5 0.07
40 19 0.28
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (34 bp):
TATCCAACTAGAACTGGGTGCAAATATTTTGGTT
Found at i:6673510 original size:75 final size:75
Alignment explanation
Indices: 6673421--6673622 Score: 316
Period size: 75 Copynumber: 2.7 Consensus size: 75
6673411 GTAGAAGTAA
6673421 ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGCAAATACTT-TTGGTTTATCCAACTA
1 ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGCAAATA-TTGTTGGTTTATCCAACTA
6673485 GAGCTGGGCTC
65 GAGCTGGGCTC
* * *
6673496 ACAATTATTTTCGTCAGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
1 ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
*
6673561 AGTTGGGCTC
66 AGCTGGGCTC
* * * *
6673571 ACAATTATTATCGTCGATATATCCGACAAGTACTGGATGCAAATATTGTTGG
1 ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGCAAATATTGTTGG
6673623 GTTTGAGAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
74 2 0.02
75 114 0.98
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (75 bp):
ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
AGCTGGGCTC
Found at i:6673532 original size:40 final size:38
Alignment explanation
Indices: 6673421--6673611 Score: 109
Period size: 35 Copynumber: 5.0 Consensus size: 38
6673411 GTAGAAGTAA
*
6673421 ACAATTATTATCGTCGGTATATCCGACTAGAACTGGGTGC
1 ACAATTATTTTCGTC-GTATATCCGACTAG-ACTGGGTGC
* *
6673461 A-AA-TACTTTT-G--GTTTATCCAACTAGAGCTGGGCT-C
1 ACAATTA-TTTTCGTCGTATATCCGACTAGA-CTGGG-TGC
6673496 ACAATTATTTTCGTCAGTATATCCGACTAGCACTGGGTGC
1 ACAATTATTTTCGTC-GTATATCCGACTAG-ACTGGGTGC
* * *
6673536 A-AA-TATTGTT-G--GTTTATCCAACTAGAGTTGGGCT-C
1 ACAATTATT-TTCGTCGTATATCCGACTAGA-CTGGG-TGC
* * *
6673571 ACAATTATTATCGTCGATATATCCGACAAGTACTGGATGC
1 ACAATTATTTTCGTCG-TATATCCGACTAG-ACTGGGTGC
6673611 A
1 A
6673612 AATATTGTTG
Statistics
Matches: 115, Mismatches: 14, Indels: 44
0.66 0.08 0.25
Matches are distributed among these distances:
34 2 0.02
35 37 0.32
36 11 0.10
37 8 0.07
38 8 0.07
39 12 0.10
40 35 0.30
41 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (38 bp):
ACAATTATTTTCGTCGTATATCCGACTAGACTGGGTGC
Found at i:6673647 original size:10 final size:11
Alignment explanation
Indices: 6673631--6673660 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6673621 GGGTTTGAGA
6673631 AAAAATAAAAT
1 AAAAATAAAAT
6673642 -AAAATAAAAT
1 AAAAATAAAAT
6673652 AAAAATAAA
1 AAAAATAAA
6673661 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6678136 original size:31 final size:30
Alignment explanation
Indices: 6678099--6678209 Score: 118
Period size: 31 Copynumber: 3.6 Consensus size: 30
6678089 ATTTCAAAAT
6678099 TATATATAAATTTTAATTTAATATATAATGA
1 TATATATAAATTTTAATTTAATATATAAT-A
*
6678130 TATATATAAATTTTAATTTAATATA-ATTA
1 TATATATAAATTTTAATTTAATATATAATA
* * * *
6678159 TACACATTAAATTTTAA-TTACTATTTCAATA
1 TATATA-TAAATTTTAATTTAATATAT-AATA
*
6678190 TATATTTAAAATTTTAATTT
1 TATATAT-AAATTTTAATTT
6678210 TAATTTAGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
29 11 0.17
30 13 0.20
31 40 0.61
32 2 0.03
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (30 bp):
TATATATAAATTTTAATTTAATATATAATA
Found at i:6682398 original size:35 final size:34
Alignment explanation
Indices: 6682328--6682401 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
6682318 ACCATTTCGG
* ** *
6682328 ATTTATTGATATTTTTAATTTTTTTTACATATAT
1 ATTTATTGATAATTTTAATTTTTACTAAATATAT
6682362 ATTTATTGACTAATTTTAATTTCTTACTAAATTATAT
1 ATTTATTGA-TAATTTTAATTT-TTACTAAA-TATAT
6682399 ATT
1 ATT
6682402 AAATATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 9 0.27
35 11 0.33
36 5 0.15
37 8 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (34 bp):
ATTTATTGATAATTTTAATTTTTACTAAATATAT
Found at i:6686724 original size:12 final size:12
Alignment explanation
Indices: 6686707--6686734 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6686697 ATAAAGTTAC
6686707 ATTTCTAAAATT
1 ATTTCTAAAATT
6686719 ATTTCTAAAATT
1 ATTTCTAAAATT
6686731 ATTT
1 ATTT
6686735 ATGGAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTCTAAAATT
Found at i:6687108 original size:29 final size:29
Alignment explanation
Indices: 6687071--6687131 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
6687061 ACAATATAAG
* *
6687071 TTTTGAAAAAAT--TTGTAACGAGTTGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
* *
6687098 TTTTGAAAAAATTATTTTGACGAGATGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
6687127 TTTTG
1 TTTTG
6687132 TTTTTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.41
29 17 0.59
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (29 bp):
TTTTGAAAAAATAATTTTAACGAGATGGA
Found at i:6688128 original size:20 final size:20
Alignment explanation
Indices: 6688103--6688140 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6688093 TAATGTGGTC
**
6688103 AATAATTATTTATTATAATT
1 AATAATTAAATATTATAATT
6688123 AATAATTAAATATTATAA
1 AATAATTAAATATTATAA
6688141 AAATATTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATTAAATATTATAATT
Found at i:6699747 original size:13 final size:13
Alignment explanation
Indices: 6699729--6699756 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6699719 AGGCAGTAAA
6699729 ATATGAATATATC
1 ATATGAATATATC
6699742 ATATGAATATATC
1 ATATGAATATATC
6699755 AT
1 AT
6699757 TAAAATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATGAATATATC
Found at i:6707312 original size:32 final size:32
Alignment explanation
Indices: 6707271--6707333 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
6707261 TTTAACTATT
6707271 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
1 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
* *
6707303 ATTTAAAAATTTGACCGTTGGGCCCAACGGT
1 ATTTAAAAATTTGAACATTGGGCCCAACGGT
6707334 TAAGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (32 bp):
ATTTAAAAATTTGAACATTGGGCCCAACGGTC
Found at i:6708362 original size:17 final size:18
Alignment explanation
Indices: 6708342--6708376 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6708332 TTTTTACATA
6708342 TATG-TAAAATTTAATTT
1 TATGCTAAAATTTAATTT
*
6708359 TATGCTAAAATTTTATTT
1 TATGCTAAAATTTAATTT
6708377 AAATAGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (18 bp):
TATGCTAAAATTTAATTT
Found at i:6708511 original size:27 final size:27
Alignment explanation
Indices: 6708473--6708524 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
6708463 TGTATGTAAA
6708473 TATTTATTCTATTTTGAACTATATAAG
1 TATTTATTCTATTTTGAACTATATAAG
6708500 TATTTATTCTATTTTGAACTATATA
1 TATTTATTCTATTTTGAACTATATA
6708525 TAAATAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (27 bp):
TATTTATTCTATTTTGAACTATATAAG
Found at i:6710083 original size:16 final size:16
Alignment explanation
Indices: 6710062--6710092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6710052 GATATTTTAA
6710062 TATATTATATTAATAT
1 TATATTATATTAATAT
*
6710078 TATATTATGTTAATA
1 TATATTATATTAATA
6710093 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:6710189 original size:12 final size:12
Alignment explanation
Indices: 6710172--6710202 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6710162 GAAGCAGGGG
6710172 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
6710184 AGAAAAAGGGAA
1 AGAAAAAGAGAA
6710196 AGAAAAA
1 AGAAAAA
6710203 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:6712321 original size:59 final size:58
Alignment explanation
Indices: 6712232--6712459 Score: 246
Period size: 59 Copynumber: 3.9 Consensus size: 58
6712222 ATGTATTAAT
* * *
6712232 GTTTTTT-AATATATTTT-TACAAACTGTTTTTATATTGTTTCATTTAATAAAACAGAT
1 GTTTTTTGAATAT-TTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
*
6712289 GTTGTTTTGAATATTTTTATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* * * * * *
6712348 GTTATTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCGTTTAATGAAATATAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* *****
6712407 ATTCTTTTGAATAAGAAAATACAAATTATTTTT-TCATTGTTTCATTTAATAAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
6712460 TTAAGAGTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
57 3 0.02
58 9 0.06
59 133 0.92
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (58 bp):
GTTTTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
Found at i:6712469 original size:118 final size:118
Alignment explanation
Indices: 6712234--6712459 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 118
6712224 GTATTAATGT
* * * ** *
6712234 TTTTTAATATATTTTTACAAACTGTTTTTATATTGTTTCATTTAATAAAACAGATGTTGTTTTGA
1 TTTTGAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAATTCTTTTGA
*****
6712299 ATATTTTTATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAAGTTA
66 ATAAGAAAATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAAGTTA
* * * * *
6712352 TTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCGTTTAATGAAATATAAATTCTTTTGA
1 TTTTGAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAATTCTTTTGA
*
6712417 ATAAGAAAATACAAATTATTTTT-TCATTGTTTCATTTAATAAA
66 ATAAGAAAATACAAATTATTTTTAT-ATTATTTCATTTAATAAA
6712460 TTAAGAGTTA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
117 1 0.01
118 89 0.99
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (118 bp):
TTTTGAATATATTTGTACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAATTCTTTTGA
ATAAGAAAATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAAGTTA
Found at i:6712498 original size:28 final size:28
Alignment explanation
Indices: 6712466--6712521 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6712456 TAAATTAAGA
**
6712466 GTTACTTTGATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
6712494 GTTACTTCAATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
6712522 ATATGACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (28 bp):
GTTACTTCAATTTTGAAATGTTCGCATT
Found at i:6713710 original size:14 final size:13
Alignment explanation
Indices: 6713693--6713731 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6713683 ATAGGGAGAA
6713693 AACAATAAGAAAAT
1 AACAATAA-AAAAT
*
6713707 AACATTAAAAAAT
1 AACAATAAAAAAT
*
6713720 AAAAATAAAAAA
1 AACAATAAAAAA
6713732 GAGTAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (13 bp):
AACAATAAAAAAT
Found at i:6716359 original size:46 final size:46
Alignment explanation
Indices: 6716306--6716481 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
6716296 TATTTGGGCA
6716306 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
* * * *
6716352 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT---GA-GCG
* * ** *
6716399 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
* * *
6716445 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6716482 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 2 0.02
46 65 0.61
47 30 0.28
48 2 0.02
50 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
Found at i:6716461 original size:93 final size:93
Alignment explanation
Indices: 6716302--6716474 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
6716292 GGGATATTTG
** * *
6716302 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
6716367 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
6716395 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
6716460 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
6716475 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6717883 original size:14 final size:14
Alignment explanation
Indices: 6717842--6717884 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
6717832 ATCCCGGGAT
*
6717842 ATTTTTTCAGAACC
1 ATTTTTTCAGAATC
* *
6717856 ATCTTTTCAAAATC
1 ATTTTTTCAGAATC
6717870 ATTTTTTCAGAATC
1 ATTTTTTCAGAATC
6717884 A
1 A
6717885 GCTGTACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (14 bp):
ATTTTTTCAGAATC
Found at i:6717894 original size:28 final size:28
Alignment explanation
Indices: 6717842--6717895 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6717832 ATCCCGGGAT
* * *
6717842 ATTTTTTCAGAACCATCTTTTCAAAATC
1 ATTTTTTCAGAACCAGCTGTACAAAATC
*
6717870 ATTTTTTCAGAATCAGCTGTACAAAA
1 ATTTTTTCAGAACCAGCTGTACAAAA
6717896 AAAGAGGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (28 bp):
ATTTTTTCAGAACCAGCTGTACAAAATC
Found at i:6718187 original size:29 final size:29
Alignment explanation
Indices: 6718125--6718212 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
6718115 TAAATAAAAT
* *
6718125 CCATCTCGTCAAAATAATTTTTTCAGAAC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* * * *
6718154 ACATCACGTCAAATTTATTTTTTCATATC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* *
6718183 CCATCTTGTCAAATTTATTTCTTTCGGAAC
1 CCATCTCGTCAAATTTATTT-TTTCAGAAC
6718213 AATACTTACC
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 40 0.87
30 6 0.13
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (29 bp):
CCATCTCGTCAAATTTATTTTTTCAGAAC
Found at i:6718315 original size:29 final size:28
Alignment explanation
Indices: 6718253--6718316 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
6718243 AAAACAATAT
*
6718253 ACCCTAAACCTTAATTTATTTTAAAAAA
1 ACCCTAAACCCTAATTTATTTTAAAAAA
* **
6718281 ATCCTAAACCCTAATTTATTTTTCCAAAA
1 ACCCTAAACCCTAATTTA-TTTTAAAAAA
6718310 ACCCTAA
1 ACCCTAA
6718317 TTAAACACGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (28 bp):
ACCCTAAACCCTAATTTATTTTAAAAAA
Found at i:6733886 original size:21 final size:21
Alignment explanation
Indices: 6733861--6733907 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
6733851 GAGGGTATTG
*
6733861 GGATTTG-AATATGCACTCATT
1 GGATTTGTAATATGCAC-AATT
6733882 GGATTTGTAATATGCACAATT
1 GGATTTGTAATATGCACAATT
6733903 GGATT
1 GGATT
6733908 AATAAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (21 bp):
GGATTTGTAATATGCACAATT
Found at i:6738468 original size:53 final size:53
Alignment explanation
Indices: 6738342--6738492 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
6738332 ATAAGTGCGC
* * ** *
6738342 CCGTTTAAGACCATAGCTGCGCTATGGCATCGGTGCAATGTGATGATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6738395 CCGTATAAGATCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
6738448 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
6738493 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:6742118 original size:31 final size:31
Alignment explanation
Indices: 6742060--6742131 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
6742050 TCACTAGTTG
* *
6742060 GGTCACCCAACTTTTAAGGAACATTCATTTT
1 GGTCACTCAACTTTTAAGAAACATTCATTTT
*
6742091 GGTCACTCAACTTTTAA-AATACTTTCATTTT
1 GGTCACTCAACTTTTAAGAA-ACATTCATTTT
*
6742122 AGTCACTCAA
1 GGTCACTCAA
6742132 AGCGTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (31 bp):
GGTCACTCAACTTTTAAGAAACATTCATTTT
Found at i:6743965 original size:2 final size:2
Alignment explanation
Indices: 6743960--6744030 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
6743950 TATGCAAAAA
*
6743960 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
6744002 AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6744031 ATATAGCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6750948 original size:19 final size:20
Alignment explanation
Indices: 6750920--6750958 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6750910 TTTGTAATGT
* *
6750920 TTGTATTTTA-ATATTTAAA
1 TTGTAATTTATATAATTAAA
6750939 TTGTAATTTATATAATTAAA
1 TTGTAATTTATATAATTAAA
6750959 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTGTAATTTATATAATTAAA
Found at i:6756012 original size:17 final size:17
Alignment explanation
Indices: 6755990--6756023 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6755980 GAACTTGTAC
*
6755990 AAAAATTTATATTTTAA
1 AAAAATTAATATTTTAA
*
6756007 AAAAATTAATTTTTTAA
1 AAAAATTAATATTTTAA
6756024 TTTATGTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAAATTAATATTTTAA
Found at i:6768469 original size:46 final size:47
Alignment explanation
Indices: 6768394--6768613 Score: 241
Period size: 46 Copynumber: 4.7 Consensus size: 47
6768384 TTATCTTTGA
* * * *
6768394 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* * * **
6768440 CATGTTGCCATGATATCTTTCAACCATGGTCTTATTTGTTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
*
6768487 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCA--TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CTAGTTTTCATGT
* * * ** *
6768533 TACGTTGCCATGGTATCTTTCAACCATAGTCTTAC-ACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* *
6768579 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
6768614 ACATTTCATT
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 111 0.75
47 35 0.24
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
Found at i:6768558 original size:93 final size:91
Alignment explanation
Indices: 6768394--6768622 Score: 244
Period size: 93 Copynumber: 2.5 Consensus size: 91
6768384 TTATCTTTGA
* * * * * *
6768394 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTC-TGTCATGTTGCCATGATATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCA--TTTCATGTCACGTTGCCATGATATCT
* **** * *
6768458 TTCAACCATGGTCTTATTTGTTTTCCCGT
64 TTCAACCATAGTCTTA-CACATTTCACAT
* *
6768487 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCATTTCATGTTACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CCATTTCATGTCACGTTGCCATGATATCTT
*
6768552 TCAACCATAGTCTTACACATTTCATAT
65 TCAACCATAGTCTTACACATTTCACAT
* *
6768579 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-CATTTCAT
6768623 TTCAGAGAGC
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
91 1 0.01
92 49 0.43
93 63 0.55
94 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.42
Consensus pattern (91 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACCATTTCATGTCACGTTGCCATGATATCTTT
CAACCATAGTCTTACACATTTCACAT
Found at i:6770161 original size:51 final size:51
Alignment explanation
Indices: 6770090--6770301 Score: 361
Period size: 51 Copynumber: 4.2 Consensus size: 51
6770080 CTGATCACAT
*
6770090 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
6770141 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
6770192 TTATCACTTGTCATTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * *
6770243 TAATCACTTGTCATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
6770294 TTGTCACT
1 TTATCACT
6770302 GATCAAAAGT
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 153 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:6776928 original size:44 final size:44
Alignment explanation
Indices: 6776866--6776975 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
6776856 CTGATCACAT
*
6776866 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
* **
6776910 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGTTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
6776954 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
6776976 AGTACTCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:6779604 original size:39 final size:40
Alignment explanation
Indices: 6779532--6779613 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
6779522 TTATATATTT
6779532 TATTTACTATACATTTGTCTTTATACTAATTTATTTATCA
1 TATTTACTATACATTTGTCTTTATACTAATTTATTTATCA
*
6779572 TATTTACTATACA-TTGTCTTTATACTACTTTATTTATCA
1 TATTTACTATACATTTGTCTTTATACTAATTTATTTATCA
6779611 TAT
1 TAT
6779614 AAATATCTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.55
Consensus pattern (40 bp):
TATTTACTATACATTTGTCTTTATACTAATTTATTTATCA
Found at i:6779656 original size:14 final size:15
Alignment explanation
Indices: 6779623--6779675 Score: 67
Period size: 14 Copynumber: 3.6 Consensus size: 15
6779613 TAAATATCTT
6779623 ATAATA-TAATTATA
1 ATAATATTAATTATA
6779637 AT-ATATTAATT-TA
1 ATAATATTAATTATA
6779650 ATAATATTAATTACTA
1 ATAATATTAATTA-TA
6779666 ATATATATTA
1 ATA-ATATTA
6779676 TAATTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.21
14 16 0.47
16 5 0.15
17 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTAATTATA
Found at i:6779681 original size:19 final size:19
Alignment explanation
Indices: 6779624--6779681 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
6779614 AAATATCTTA
*
6779624 TAATATA-ATTATAATATAT
1 TAATATATATTATAAT-TAC
* *
6779643 TAATTTAATAATATTAATTAC
1 TAATAT-ATATTA-TAATTAC
6779664 TAATATATATTATAATTA
1 TAATATATATTATAATTA
6779682 AAATCTAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 11 0.35
20 6 0.19
21 10 0.32
22 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATATATATTATAATTAC
Found at i:6781770 original size:42 final size:43
Alignment explanation
Indices: 6781696--6781779 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
6781686 TTGTGAGTAT
*
6781696 GGTAAATTCTAATATTATAAAATAAAATAATTATTTTAAATAA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
* *
6781739 GGTAAAATCTAATA-TATAAAATCAATTAATTATTTTAAATA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATA
6781780 TAATTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (43 bp):
GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
Found at i:6781872 original size:30 final size:32
Alignment explanation
Indices: 6781830--6781901 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 32
6781820 TTTAAATAAT
*
6781830 TATTTC-AATATCATTATTTTTAT-T-TGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
6781859 TATTTCAAATATCAATATTTTTATATGTGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
* *
6781891 AACTTCAAATA
1 TATTTCAAATA
6781902 ATTGCTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.16
30 16 0.43
31 1 0.03
32 14 0.38
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.47
Consensus pattern (32 bp):
TATTTCAAATATCAATATTTTTATATGTGAAA
Found at i:6801524 original size:96 final size:95
Alignment explanation
Indices: 6801356--6801646 Score: 483
Period size: 95 Copynumber: 3.1 Consensus size: 95
6801346 ACTCTTGGGT
* *
6801356 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTTTTTCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
**
6801421 CCTCTTTAACCGTCATTTATTCAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6801451 GTTTCGTGGCAATAAACAAGATTGTGGGTCTCGATTTTGGTGAGGTAAGCCAACATCTCTTGCTC
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGA-TTTGGTGAGGTAAGCCAACATCTCTTGCTC
*
6801516 TCCTCTTTAACCCCCGTTTATTCAATTCTAC
65 TCCTCTTTAACCCCCATTTATTCAATTCTAC
6801547 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
* * *
6801612 CCTCTTTAACCCCGATTTGTTTAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
6801642 TTTTT
1 GTTTT
6801647 TTGAATTTAG
Statistics
Matches: 183, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
95 94 0.51
96 89 0.49
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (95 bp):
GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
CCTCTTTAACCCCCATTTATTCAATTCTAC
Found at i:6813602 original size:13 final size:14
Alignment explanation
Indices: 6813586--6813614 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6813576 TTTTTTTATC
6813586 TAAATTTAT-TTTT
1 TAAATTTATATTTT
6813599 TAAATTTATATTTT
1 TAAATTTATATTTT
6813613 TA
1 TA
6813615 TTTAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:6814116 original size:89 final size:85
Alignment explanation
Indices: 6814023--6814186 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 85
6814013 ATCTATTTTC
*
6814023 ATAAATATTTTACCTGTTTCATATATTCTGTAAAGAAAACCAAAAAAAAAATTACTTACAAAATT
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACC---AAAAAAA-TACTTACAAAATT
6814088 GATAAAATACAACTTATTATTATA
62 GATAAAATACAACTTATTATTATA
* * * * * *
6814112 ATAAATATTTTACCTGTTTTATTTATTTTATAACGAAAACCAAAAAAATACTTGCAAAATTGATC
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
6814177 AAATACAACT
66 AAATACAACT
6814187 CGTTATAATC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 25 0.37
86 7 0.10
89 36 0.53
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (85 bp):
ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
AAATACAACTTATTATTATA
Found at i:6820835 original size:15 final size:15
Alignment explanation
Indices: 6820815--6820848 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6820805 AGTTGAACCG
*
6820815 ATTTTTATATTTTTT
1 ATTTTTATATTATTT
*
6820830 ATTTTTTTATTATTT
1 ATTTTTATATTATTT
6820845 ATTT
1 ATTT
6820849 GCTTTGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTATATTATTT
Found at i:6821111 original size:17 final size:17
Alignment explanation
Indices: 6821089--6821127 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6821079 TTTTAAAGAG
* * *
6821089 TTTTTTAATAATTTTTA
1 TTTTTTAAAAATATATA
6821106 TTTTTTAAAAATATATA
1 TTTTTTAAAAATATATA
6821123 TTTTT
1 TTTTT
6821128 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAAAAATATATA
Found at i:6821133 original size:24 final size:24
Alignment explanation
Indices: 6821096--6821157 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 24
6821086 GAGTTTTTTA
6821096 ATAATTTTTATTTTTTAAAAATAT
1 ATAATTTTTATTTTTTAAAAATAT
6821120 AT-ATTTTTA-TTTTTAAAACAT-T
1 ATAATTTTTATTTTTTAAAA-ATAT
6821142 ATAATTTTTTATTTTT
1 ATAA-TTTTTATTTTT
6821158 ATTTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.35
23 10 0.29
24 8 0.24
25 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATAATTTTTATTTTTTAAAAATAT
Found at i:6821158 original size:24 final size:22
Alignment explanation
Indices: 6821096--6821158 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
6821086 GAGTTTTTTA
6821096 ATAA-TTTTTATTTTTTAAAAAT
1 ATAATTTTTTA-TTTTTAAAAAT
6821118 AT-ATATTTTTATTTTTAAAACATT
1 ATAAT-TTTTTATTTTTAAAA-A-T
6821142 ATAATTTTTTATTTTTA
1 ATAATTTTTTATTTTTA
6821159 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 7 0.19
24 15 0.42
25 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATAATTTTTTATTTTTAAAAAT
Found at i:6821593 original size:3 final size:3
Alignment explanation
Indices: 6821585--6821616 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6821575 GAAAAACAGG
*
6821585 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6821617 AAGAGAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6830128 original size:53 final size:53
Alignment explanation
Indices: 6829995--6830142 Score: 190
Period size: 53 Copynumber: 2.8 Consensus size: 53
6829985 ATAAGTGCGC
* * ** *
6829995 CCGTTTAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* *
6830048 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* * *
6830101 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATG
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATATG
6830143 TGAACCGTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 83 0.99
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
Found at i:6830158 original size:46 final size:48
Alignment explanation
Indices: 6830086--6830180 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
6830076 ATCGGTATAA
* * **
6830086 TATGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
* *
6830134 TATGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
6830180 T
1 T
6830181 GTGTGATGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 29 0.71
47 6 0.15
48 6 0.15
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (48 bp):
TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
Found at i:6837079 original size:53 final size:53
Alignment explanation
Indices: 6836946--6837093 Score: 190
Period size: 53 Copynumber: 2.8 Consensus size: 53
6836936 ATAAGTGCGC
* * ** *
6836946 CCGTTTAAGACCATAGCTGGGCTATGGAATCGGTGCAATGTGATAATATGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* *
6836999 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
* * *
6837052 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATG
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATATG
6837094 TGAACCGTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 83 0.99
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATATGATAATATGACT
Found at i:6837109 original size:46 final size:48
Alignment explanation
Indices: 6837037--6837131 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
6837027 ATCGGTATAA
* * **
6837037 TATGATAATGTGATTCCGTATAAGACCATGTCTGGGATATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
* *
6837085 TATGAT-ATGTGA-ACCGTGTAAGACCATGGCAAGGCTATGGCTTCGG
1 TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
6837131 T
1 T
6837132 GTGTGATGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 29 0.71
47 6 0.15
48 6 0.15
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (48 bp):
TATGATAATGTGATACCGTATAAGACCATGGCAAGGATATGGCTTCGG
Found at i:6838800 original size:168 final size:168
Alignment explanation
Indices: 6838506--6838838 Score: 483
Period size: 168 Copynumber: 2.0 Consensus size: 168
6838496 AAGAAACGCG
* * * *
6838506 TTTGTTTAAATTAAGACTTCAATTTTATAGCTTGATAAGTTAGACTTTGTGATGACATGCAATTT
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAA-TT
*
6838571 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTTCAATCACACAAAGGAATATAAGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
6838636 ATGAAACCTTGGGTCTT-AAATTTTGATTCTAGGAAACATA
130 ATGAAACCTT-GGTCTTAAAATTTT-ATTCTAGGAAACATA
*
6838676 TTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTTGTGATGACATCCACA-T
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCA-ATT
* * ** * *
6838739 GAATGCTTTTTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGGAATATATGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
* *
6838804 ATGAAATCTTGGTCTTAAAATTTTATTTTAGGAAA
130 ATGAAACCTTGGTCTTAAAATTTTATTCTAGGAAA
6838839 TTGATTTGCT
Statistics
Matches: 147, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
167 16 0.11
168 75 0.51
169 45 0.31
170 11 0.07
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (168 bp):
TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAATTG
AATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTAA
TGAAACCTTGGTCTTAAAATTTTATTCTAGGAAACATA
Found at i:6845961 original size:12 final size:12
Alignment explanation
Indices: 6845944--6845977 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
6845934 GACACTCCAT
6845944 AAATATTTATAA
1 AAATATTTATAA
6845956 AAATATTTATAA
1 AAATATTTATAA
6845968 AAATATTTAT
1 AAATATTTAT
6845978 GGCTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:6847625 original size:42 final size:42
Alignment explanation
Indices: 6847562--6847688 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
6847552 CTTCGTTTTC
** *
6847562 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
6847605 T-GATGCCATAGCCCATCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* *
6847646 TCGATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
6847687 TC
1 TC
6847689 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:6847748 original size:47 final size:47
Alignment explanation
Indices: 6847647--6847773 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
6847637 ATTCATATAT
* * * * * *
6847647 CGATGCCATAGCCTAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
* * *
6847693 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
6847740 CGATGCCATATCCCAGATATGGTCTTATACAGAA
1 CGATGCCATATCCCAGATATGGTCTTATACAGAA
6847774 ATCACTTGTC
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 25 0.36
47 44 0.64
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
Found at i:6848151 original size:3 final size:3
Alignment explanation
Indices: 6848143--6848209 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
6848133 TATATATTAA
*
6848143 ATT ATT ATT ATT ATTT ATT A-T AGTT -TT A-T ATT -TA ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* * *
6848186 GTT ATT GTT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
6848210 TAAATTGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 7 0.14
3 39 0.78
4 4 0.08
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6848198 original size:12 final size:12
Alignment explanation
Indices: 6848143--6848209 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
6848133 TATATATTAA
*
6848143 ATTATTATTATT
1 ATTATTATTGTT
*
6848155 ATTTATTATAGTT
1 A-TTATTATTGTT
*
6848168 -TTA-TATT-TA
1 ATTATTATTGTT
6848177 ATTATTATTGTT
1 ATTATTATTGTT
*
6848189 ATTGTTATTGTT
1 ATTATTATTGTT
6848201 ATTATTATT
1 ATTATTATT
6848210 TAAATTGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
9 1 0.02
10 6 0.14
11 7 0.16
12 21 0.48
13 9 0.20
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (12 bp):
ATTATTATTGTT
Found at i:6848216 original size:18 final size:18
Alignment explanation
Indices: 6848139--6848223 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 18
6848129 AAAATATATA
*
6848139 TTAAATTATTATTATTAT
1 TTAAATTGTTATTATTAT
* *
6848157 TTATTATAGTT-TTA-TAT
1 TTA-AATTGTTATTATTAT
* *
6848174 TT-AATTATTATTGTTAT
1 TTAAATTGTTATTATTAT
*
6848191 TGT-TATTGTTATTATTAT
1 T-TAAATTGTTATTATTAT
*
6848209 TTAAATTGATATTAT
1 TTAAATTGTTATTAT
6848224 ATTATAAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
15 4 0.08
16 2 0.04
17 10 0.20
18 30 0.60
19 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTAAATTGTTATTATTAT
Found at i:6848403 original size:15 final size:16
Alignment explanation
Indices: 6848383--6848427 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
6848373 GAAATAAAGG
6848383 AAAGAAACAGAGT-GA
1 AAAGAAACAGAGTGGA
6848398 AAAGAAACAGAATGTGGA
1 AAAGAAACAG-A-GTGGA
*
6848416 AACGAAACAGAG
1 AAAGAAACAGAG
6848428 AAGAAACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 3 0.12
18 11 0.42
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.07
Consensus pattern (16 bp):
AAAGAAACAGAGTGGA
Found at i:6848422 original size:18 final size:16
Alignment explanation
Indices: 6848381--6848426 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
6848371 AGGAAATAAA
6848381 GGAAAGAAACAG-AGT
1 GGAAAGAAACAGAAGT
*
6848396 GAAAAGAAACAGAATGT
1 GGAAAGAAACAGAA-GT
6848413 GGAAACGAAACAGA
1 GGAAA-GAAACAGA
6848427 GAAGAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 11 0.42
16 1 0.04
17 6 0.23
18 8 0.31
ACGTcount: A:0.57, C:0.09, G:0.28, T:0.07
Consensus pattern (16 bp):
GGAAAGAAACAGAAGT
Found at i:6848798 original size:27 final size:27
Alignment explanation
Indices: 6848766--6848829 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
6848756 ATGCCTTATA
*
6848766 GGTGTGCTTGGGAGGA-TATGATATACT
1 GGTGTG-TTGGGAGGATTATAATATACT
* *
6848793 GGTGTGTTATGGAGGATTTATAATATTCT
1 GGTGTGTT-GGGAGGA-TTATAATATACT
6848822 GGTGTGTT
1 GGTGTGTT
6848830 TGGGTTGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 2 0.06
27 12 0.39
29 17 0.55
ACGTcount: A:0.20, C:0.05, G:0.34, T:0.41
Consensus pattern (27 bp):
GGTGTGTTGGGAGGATTATAATATACT
Found at i:6849000 original size:19 final size:18
Alignment explanation
Indices: 6848962--6849001 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6848952 ATGAAATGAA
6848962 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
6848980 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
6848999 AAA
1 AAA
6849002 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:6850269 original size:31 final size:31
Alignment explanation
Indices: 6850227--6850365 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
6850217 ACAGCCGGAA
*
6850227 CTACCATTTTTCACTGATCAGGTAGCCAG-AG
1 CTACCACTTTTCACTGATCAGGTAG-CAGAAG
*
6850258 CTACCACTTTTCACTGATCAGGTAGCCGGAA-
1 CTACCACTTTTCACTGATCAGGTAG-CAGAAG
6850289 CTACCACTTTTCACTGATCAGGTAGCAGAAG
1 CTACCACTTTTCACTGATCAGGTAGCAGAAG
*
6850320 CTACCACTTTTCACTGATCAGGTAGCTGAAG
1 CTACCACTTTTCACTGATCAGGTAGCAGAAG
6850351 CTACCACTTTTCACT
1 CTACCACTTTTCACT
6850366 TGTCATTTGT
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
30 4 0.04
31 97 0.95
32 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCAGAAG
Found at i:6850322 original size:62 final size:62
Alignment explanation
Indices: 6850219--6850365 Score: 244
Period size: 62 Copynumber: 2.4 Consensus size: 62
6850209 GGGATGTTAC
*
6850219 AGCCGGAACTACCATTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGT
1 AGCCGGAACTACCACTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGT
6850281 AGCCGGAACTACCACTTTTCACTGATCAGGTAG-CAGAAGCTACCACTTTTCACTGATCAGGT
1 AGCCGGAACTACCACTTTTCACTGATCAGGTAGCCAG-AGCTACCACTTTTCACTGATCAGGT
*
6850343 AG-CTGAAGCTACCACTTTTCACT
1 AGCCGGAA-CTACCACTTTTCACT
6850366 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
61 7 0.09
62 74 0.91
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (62 bp):
AGCCGGAACTACCACTTTTCACTGATCAGGTAGCCAGAGCTACCACTTTTCACTGATCAGGT
Found at i:6851240 original size:32 final size:31
Alignment explanation
Indices: 6851202--6851265 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
6851192 ACACTTATTT
6851202 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
6851234 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
6851265 T
1 T
6851266 ATACATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:6851527 original size:41 final size:41
Alignment explanation
Indices: 6851482--6851678 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
6851472 ACCGGCTCTT
*
6851482 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6851523 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6851564 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6851605 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
6851646 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
6851679 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:6853226 original size:13 final size:13
Alignment explanation
Indices: 6853210--6853234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6853200 ACATCGAATG
6853210 CACACAAAATAAA
1 CACACAAAATAAA
6853223 CACACAAAATAA
1 CACACAAAATAA
6853235 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:6858938 original size:30 final size:32
Alignment explanation
Indices: 6858878--6858941 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
6858868 CACTTATTTT
6858878 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
6858911 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
6858942 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:6859201 original size:41 final size:41
Alignment explanation
Indices: 6859156--6859351 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
6859146 ACCGGCTCTT
*
6859156 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6859197 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6859238 AGCCTGCTAGACTTATAGTCTGAAATGTGTCA-CGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6859278 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
6859319 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
6859352 TAACGATAAA
Statistics
Matches: 146, Mismatches: 4, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
39 2 0.01
40 35 0.24
41 106 0.73
42 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:6859313 original size:81 final size:81
Alignment explanation
Indices: 6859156--6859351 Score: 306
Period size: 81 Copynumber: 2.4 Consensus size: 81
6859146 ACCGGCTCTT
*
6859156 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTAAGCCTGCTAGACTTATAGTCTGAA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCA-CGGCATTAAGCCTGCTAGACTTATAGTCTGAA
6859221 ATGTGTCACCGGCATTA
65 ATGTGTCACCGGCATTA
6859238 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACGGCATTAAGCCTGCTAGACTTATAGTCTGAAT
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACGGCATTAAGCCTGCTAGACTTATAGTCTG-A-
6859303 AAT-T-TCACCGGCATTA
64 AATGTGTCACCGGCATTA
* * * *
6859319 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
6859352 TAACGATAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
81 71 0.66
82 33 0.31
83 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (81 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACGGCATTAAGCCTGCTAGACTTATAGTCTGAAA
TGTGTCACCGGCATTA
Found at i:6860903 original size:13 final size:13
Alignment explanation
Indices: 6860885--6860909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6860875 CCATCGAATG
6860885 CACACAAAATAAA
1 CACACAAAATAAA
6860898 CACACAAAATAA
1 CACACAAAATAA
6860910 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:6862665 original size:11 final size:11
Alignment explanation
Indices: 6862651--6862695 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6862641 AGATAAATAT
6862651 TATTTTATTAA
1 TATTTTATTAA
*
6862662 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
6862675 TATTTTATTAT
1 TATTTTATTAA
6862686 TATTTTATTA
1 TATTTTATTA
6862696 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6867211 original size:75 final size:76
Alignment explanation
Indices: 6867103--6867255 Score: 299
Period size: 75 Copynumber: 2.0 Consensus size: 76
6867093 TAACAATACA
6867103 AAAAAATATGATATGAGTCTGCTAACTCGAGGTCCCGAAATTCTAAAAACAT-AAAAAAAAAAAC
1 AAAAAATATGATATGAGTCTGCTAACTCGAGGTCCCGAAATTCTAAAAACATAAAAAAAAAAAAC
6867167 TAAATTAAACT
66 TAAATTAAACT
6867178 AAAAAATATGATATGAGTCTGCTAACTCGAGGTCCCGAAATTCTAAAAACATAAAAAAAAAAAAC
1 AAAAAATATGATATGAGTCTGCTAACTCGAGGTCCCGAAATTCTAAAAACATAAAAAAAAAAAAC
6867243 TAAATTAAACT
66 TAAATTAAACT
6867254 AA
1 AA
6867256 CCAAGTTGAA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 52 0.68
76 25 0.32
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.22
Consensus pattern (76 bp):
AAAAAATATGATATGAGTCTGCTAACTCGAGGTCCCGAAATTCTAAAAACATAAAAAAAAAAAAC
TAAATTAAACT
Found at i:6868698 original size:38 final size:38
Alignment explanation
Indices: 6868650--6868734 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
6868640 ATATAGTAAA
*
6868650 TAAAATATTTTA-AATATTTTAATATAAAAATAATTATAT
1 TAAAATATTTTATAA-ATTAT-ATATAAAAATAATTATAT
* *
6868689 TAAAA-ATTTTATTAAATTATATTTAATAATAATTATAT
1 TAAAATATTTTA-TAAATTATATATAAAAATAATTATAT
6868727 TAAAATAT
1 TAAAATAT
6868735 GATTAAACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 27 0.68
39 11 0.28
40 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
TAAAATATTTTATAAATTATATATAAAAATAATTATAT
Found at i:6869290 original size:2 final size:2
Alignment explanation
Indices: 6869283--6869324 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6869273 GTTCTCATTT
6869283 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6869325 ACGCTTATGC
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6878748 original size:6 final size:6
Alignment explanation
Indices: 6878737--6878770 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6878727 AGCTAAGCTT
6878737 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
1 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
6878771 GAATGCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.50, G:0.18, T:0.18
Consensus pattern (6 bp):
GCCTCA
Found at i:6885327 original size:21 final size:22
Alignment explanation
Indices: 6885298--6885344 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6885288 CAGAAGGAGT
*
6885298 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6885320 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6885341 GAGT
1 GAGT
6885345 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6901542 original size:16 final size:16
Alignment explanation
Indices: 6901513--6901582 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
6901503 TTTGGTTCGC
*
6901513 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
6901529 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
6901545 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
6901561 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
6901577 TGTAAT
1 TGTAAT
6901583 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6901627 original size:45 final size:44
Alignment explanation
Indices: 6901561--6901655 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
6901551 GGATTAGAGG
* *
6901561 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
6901606 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
6901650 TGTAAT
1 TGTAAT
6901656 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 22 0.50
45 22 0.50
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:6901835 original size:17 final size:17
Alignment explanation
Indices: 6901813--6901847 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6901803 AATAATTATT
6901813 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
6901830 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
6901847 A
1 A
6901848 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:6901943 original size:120 final size:120
Alignment explanation
Indices: 6901801--6902046 Score: 440
Period size: 120 Copynumber: 2.0 Consensus size: 120
6901791 ATATTTTAAC
*
6901801 ATAATAATTATTAAATATAATTTAATA-AAAAATATAATTTAATAAAATTCTTAATATTAAAATA
1 ATAATTATTATTAAATATAATTTAATATAAAAATATAATTTAATAAAATTCTTAATATT-AAATA
*
6901865 TTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
65 TTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
* *
6901921 ATAATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
1 ATAATTATTATTAAATATAATTTAATATAAAAATATAATTTAATAAAATTCTTAATATTAAATAT
6901986 TCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
66 TCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
6902041 ATAATT
1 ATAATT
6902047 GATTTTGTGG
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
120 92 0.76
121 29 0.24
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATTTAATATAAAAATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAA
Found at i:6901958 original size:18 final size:17
Alignment explanation
Indices: 6901935--6901969 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
6901925 TTATTATTAA
6901935 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
6901953 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6901970 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6902028 original size:61 final size:60
Alignment explanation
Indices: 6901842--6902030 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
6901832 ATATAATTTA
6901842 ATAAAATTCTTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 ATAAAATTCTTAATATT-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACT
* * * * * * ** *
6901904 ATAAAA-T-ATAATCTAAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TT
1 ATAAAATTCTTAATATTAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT
*
6901962 AATAAAATTCTTAGTATTAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATATTAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACT
6902024 ATAAAAT
1 ATAAAAT
6902031 ATAATCTAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
58 3 0.03
59 31 0.32
60 18 0.18
61 37 0.38
62 9 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTTAATATTAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACT
Found at i:6903548 original size:13 final size:13
Alignment explanation
Indices: 6903532--6903561 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6903522 TAGACCAAGC
6903532 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
6903545 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
6903558 TTTT
1 TTTT
6903562 TTGCAGCACC
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:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:6906340 original size:17 final size:17
Alignment explanation
Indices: 6906318--6906353 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6906308 AAGGCTGTAA
*
6906318 GATAACTTAGAATGATG
1 GATAACTTAGAATAATG
6906335 GATAACTTAGAATAATG
1 GATAACTTAGAATAATG
6906352 GA
1 GA
6906354 ATAAATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (17 bp):
GATAACTTAGAATAATG
Found at i:6909673 original size:46 final size:46
Alignment explanation
Indices: 6909606--6909734 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
6909596 TATAACCCGC
* * * * *
6909606 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
6909652 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
6909698 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6909735 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:6911392 original size:25 final size:25
Alignment explanation
Indices: 6911364--6911446 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
6911354 ATGAGCGTCT
6911364 TGATATATGGCTCTTTGGAGCTTCC
1 TGATATATGGCTCTTTGGAGCTTCC
* *
6911389 TGAT-TAAAGGCTCTTTCACGAGCTTCC
1 TGATAT-ATGGCTCTTT--GGAGCTTCC
* * *
6911416 TGGA-ATATGTCTCTTCGAAGCTTCC
1 T-GATATATGGCTCTTTGGAGCTTCC
*
6911441 CGATAT
1 TGATAT
6911447 TGACTCACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
27 16 0.36
28 3 0.07
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (25 bp):
TGATATATGGCTCTTTGGAGCTTCC
Found at i:6911508 original size:24 final size:25
Alignment explanation
Indices: 6911481--6911575 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
6911471 TGGCTTGTAT
*
6911481 GAGCTTCCCGTTA-ATGGCTCTCAG
1 GAGCTTCCCGTTATATGGCTCACAG
* ** *
6911505 GAGCTTCCCATTATACAGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAG
* *
6911530 GAGCTTCCTGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTATATGGCTC-ACAG
*
6911555 GAGCTTTCCGTT-TATGTGCTC
1 GAGCTTCCCGTTATATG-GCTC
6911576 GTATGAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
24 16 0.29
25 39 0.70
26 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAG
Found at i:6911550 original size:25 final size:25
Alignment explanation
Indices: 6911434--6911590 Score: 90
Period size: 24 Copynumber: 6.4 Consensus size: 25
6911424 GTCTCTTCGA
* * *
6911434 AGCTTCCCGATAT-TGACTCACTTG
1 AGCTTCCCGTTATATGGCTCACATG
* * ***
6911458 AACTTCCCGATAT-TGGCTTGTATG
1 AGCTTCCCGTTATATGGCTCACATG
* *
6911482 AGCTTCCCGTTA-ATGGCTCTCAGG
1 AGCTTCCCGTTATATGGCTCACATG
* **
6911506 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
* *
6911531 AGCTTCCTGTTATATGGCTCGA-AAG
1 AGCTTCCCGTTATATGGCTC-ACATG
* **
6911556 AGCTTTCCGTT-TATGTGCTCGTATG
1 AGCTTCCCGTTATATG-GCTCACATG
6911581 AGCATTCCCG
1 AGC-TTCCCG
6911591 AATATAAAAT
Statistics
Matches: 100, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
24 50 0.50
25 44 0.44
26 6 0.06
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:6913456 original size:15 final size:16
Alignment explanation
Indices: 6913423--6913456 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6913413 ATATTATAAT
*
6913423 ATAATTATTCAATTGA
1 ATAATCATTCAATTGA
6913439 ATAATCATTCAA-TGA
1 ATAATCATTCAATTGA
6913454 ATA
1 ATA
6913457 GACACATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAATCATTCAATTGA
Found at i:6916873 original size:6 final size:6
Alignment explanation
Indices: 6916862--6916889 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6916852 AGTGAAAATG
6916862 GGGGGT GGGGGT GGGGGT GGGGGT GGGG
1 GGGGGT GGGGGT GGGGGT GGGGGT GGGG
6916890 AAAAATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.86, T:0.14
Consensus pattern (6 bp):
GGGGGT
Found at i:6921588 original size:2 final size:2
Alignment explanation
Indices: 6921536--6921568 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6921526 AAAAAAGGAA
*
6921536 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6921569 GCACGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6921675 original size:3 final size:3
Alignment explanation
Indices: 6921660--6921731 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
6921650 AATACTAACG
* ** * *
6921660 ATA ATA GTA ATA ATA ATA ACC ATA ATA ATA ATA GTA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6921707 ATA TTTA A-A ATA ATA ATA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA ATA ATA A
6921732 CATAAAATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 3 0.06
3 49 0.91
4 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6921788 original size:29 final size:28
Alignment explanation
Indices: 6921744--6921834 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
6921734 TAAAATTGCT
6921744 AAAATAT-GGGCTAAATCGAAATAAAACA
1 AAAATATAGGGCTAAATCGAAATAAAA-A
* * *
6921772 AAAATATAGGGCGAAATTGAAAGAAAAA
1 AAAATATAGGGCTAAATCGAAATAAAAA
* *
6921800 TAAAATAAAAGGGACTAAATCAAAATAAAAA
1 -AAAAT-ATAGGG-CTAAATCGAAATAAAAA
6921831 AAAA
1 AAAA
6921835 GAAACTGGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 8 0.16
29 21 0.41
30 9 0.18
31 13 0.25
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.15
Consensus pattern (28 bp):
AAAATATAGGGCTAAATCGAAATAAAAA
Found at i:6923355 original size:44 final size:43
Alignment explanation
Indices: 6923264--6923803 Score: 339
Period size: 44 Copynumber: 12.6 Consensus size: 43
6923254 GGTCTATTCC
* * * *
6923264 ACTGTAATCTCAGGGAAATAAGACCTGACA---CGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
6923305 GCTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCTGCTCT
* *
6923349 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCTAC-A-TTTCAATCTGCTCT
** *
6923393 TTTGTAATCTCAGGGAGATAAGATCTGACA---CAATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
6923434 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCTGCTCT
* *
6923478 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCTAC-A-TTTCAATCTGCTCT
* *
6923522 TCTGTAATCTCAGGGAGATAAGATCTGACA---CAATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
6923563 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCTGCTCT
* *
6923607 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCTAC-A-TTTCAATCTGCTCT
* * *
6923651 TCTGTAATCTCAGGGAGATAAGATCTGACA---CGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * *
6923692 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAAT-TCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCT-GCTCT
* * *
6923736 ACTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCTAC-AT-TTCAATCTGCTCT
*
6923780 GCTGTAATCTCAGGGAGATAAGAT
1 ACTGTAATCTCAGGGAGATAAGAT
6923804 TTGAAATTCT
Statistics
Matches: 380, Mismatches: 79, Indels: 77
0.71 0.15 0.14
Matches are distributed among these distances:
40 4 0.01
41 111 0.29
42 16 0.04
43 3 0.01
44 230 0.61
45 10 0.03
46 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ACTGTAATCTCAGGGAGATAAGATCTACATTTCAATCTGCTCT
Found at i:6923430 original size:129 final size:129
Alignment explanation
Indices: 6923265--6923803 Score: 970
Period size: 129 Copynumber: 4.2 Consensus size: 129
6923255 GTCTATTCCA
* * * *
6923265 CTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
*
6923330 CTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
*
6923394 TTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
6923459 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
6923523 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
6923588 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
*
6923652 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * **
6923717 CTTCGTTTTAATTCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
6923781 CTGTAATCTCAGGGAGATAAGAT
1 CTGTAATCTCAGGGAGATAAGAT
6923804 TTGAAATTCT
Statistics
Matches: 397, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 397 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
Found at i:6923741 original size:85 final size:85
Alignment explanation
Indices: 6923349--6923803 Score: 291
Period size: 85 Copynumber: 5.3 Consensus size: 85
6923339 AATCCGCTCC
* * * * * ***
6923349 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTTTTGTAATCTCAGGGAGATAA
1 ACTGTAATCTCAGAGAGATAAGA-TCCTCGTTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
6923414 GAT-CTGACACAATCTACTCT
65 GATACTGACACAATCTACTCT
* *
6923434 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATA
1 ACTGTAATC-TCAGAGAGATAAGATCC-TCGTTTCAATCTGCTCCACTGTAATCTCAGGGAGATA
* * *
6923498 GGATTACT-AGCTTCAATCTGCTCT
64 AGA-TACTGA-C-ACAATCTACTCT
* * *** * * *
6923522 TCTGTAATCTCAGGGAGATAAGAT-CT-GACACAATCTACTCTACTGTAA-CTTCAGAGAGATAA
1 ACTGTAATCTCAGAGAGATAAGATCCTCGTTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAA
* **** ** *
6923584 GATCCTTCGTTTTAATCCGCTCC
65 GATAC-T-GACACAATCTACTCT
* * * * * **
6923607 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTTCTGTAATCTCAGGGAGATAA
1 ACTGTAATCTCAGAGAGATAAGA-TCCTCGTTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
*
6923672 GAT-CTGACACGATCTACTCT
65 GATACTGACACAATCTACTCT
* *
6923692 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAAT-TCGCTCCACTGTAATATCAGGGAGAT
1 ACTGTAATC-TCAGAGAGATAAGATCC-TCGTTTCAATCT-GCTCCACTGTAATCTCAGGGAGAT
* * * *
6923755 AGGATTACT-ATCTTCAATCTGCTCC
63 AAGA-TACTGA-C-ACAATCTACTCT
* *
6923780 GCTGTAATCTCAGGGAGATAAGAT
1 ACTGTAATCTCAGAGAGATAAGAT
6923804 TTGAAATTCT
Statistics
Matches: 285, Mismatches: 62, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
84 10 0.04
85 166 0.58
86 7 0.02
87 10 0.04
88 89 0.31
89 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (85 bp):
ACTGTAATCTCAGAGAGATAAGATCCTCGTTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAG
ATACTGACACAATCTACTCT
Found at i:6936170 original size:12 final size:12
Alignment explanation
Indices: 6936153--6936268 Score: 86
Period size: 11 Copynumber: 9.8 Consensus size: 12
6936143 TTGGATAATA
6936153 TTTCTTCCTTCT
1 TTTCTTCCTTCT
*
6936165 TTTCTT-TTTCT
1 TTTCTTCCTTCT
* *
6936176 TTTCTGCTTTC-
1 TTTCTTCCTTCT
6936187 TTTCTT-CTTC-
1 TTTCTTCCTTCT
6936197 TTTCTTCCTT-T
1 TTTCTTCCTTCT
6936208 CTTTCTT-CTCTCT
1 -TTTCTTCCT-TCT
6936221 TTTC-TCCTTCT
1 TTTCTTCCTTCT
*
6936232 TTT-TTCTTTCTT
1 TTTCTTCCTTC-T
6936244 TTTCTTCTTCTTCT
1 TTTCTTC--CTTCT
6936258 TTCTCTTCCTT
1 TT-TCTTCCTT
6936269 TCCTTCTGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
10 9 0.11
11 31 0.36
12 27 0.32
13 7 0.08
14 3 0.04
15 8 0.09
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (12 bp):
TTTCTTCCTTCT
Found at i:6936191 original size:4 final size:4
Alignment explanation
Indices: 6936182--6936275 Score: 58
Period size: 4 Copynumber: 24.5 Consensus size: 4
6936172 TTCTTTTCTG
* * *
6936182 CTTT CTTT C-TT C-TT CTTT CTTC CTTT CTTT C-TT CTCT CTTT -TCT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* * *
6936226 CCTT CTTT -TTT CTTT CTTT TTCTT C-TT C-TT CTTT CTCTT CCTTT CCTT
1 CTTT CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CT-TT -CTTT CTTT
6936274 CT
1 CT
6936276 GTTCCAGTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
3 20 0.29
4 42 0.60
5 6 0.09
6 2 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:6936194 original size:7 final size:7
Alignment explanation
Indices: 6936154--6936261 Score: 72
Period size: 7 Copynumber: 16.1 Consensus size: 7
6936144 TGGATAATAT
*
6936154 TTCTTCC
1 TTCTTTC
6936161 TTC-TT-
1 TTCTTTC
6936166 TTCTTT-
1 TTCTTTC
6936172 TTCTTTTC
1 TTC-TTTC
*
6936180 TGCTTTC
1 TTCTTTC
6936187 TT-TCTTC
1 TTCT-TTC
6936194 TTCTTTC
1 TTCTTTC
*
6936201 TTC-CT-
1 TTCTTTC
6936206 TTCTTTC
1 TTCTTTC
*
6936213 TTCTCTC
1 TTCTTTC
6936220 TT-TTCTCC
1 TTCTT-T-C
*
6936228 TTCTTTT
1 TTCTTTC
6936235 TTCTTTC
1 TTCTTTC
6936242 TT-TTTC
1 TTCTTTC
6936248 TTC-TTC
1 TTCTTTC
6936254 TTCTTTC
1 TTCTTTC
6936261 T
1 T
6936262 CTTCCTTTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
5 6 0.08
6 22 0.28
7 43 0.54
8 7 0.09
9 2 0.03
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (7 bp):
TTCTTTC
Found at i:6936196 original size:3 final size:3
Alignment explanation
Indices: 6936154--6936328 Score: 64
Period size: 3 Copynumber: 57.7 Consensus size: 3
6936144 TGGATAATAT
* *
6936154 TTC TTCC TTC TT- TTC TTT TTC TT- TTC TGC TTTC TTTC TTC TTC TTTC
1 TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC -TTC
* * *
6936201 TTC CT- TTC TTTC TTC TCTC TT- TTC TCC TTC TT- TT- TTC TTTC TTT
1 TTC TTC TTC -TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC -TTC TTC
* * *** *
6936245 TTC TTC TTC TTC TT- TCTC TTCC TT- TCC TTC -TG TTC CAG TTC TTA
1 TTC TTC TTC TTC TTC T-TC TT-C TTC TTC TTC TTC TTC TTC TTC TTC
*
6936289 TTC TTC TTC TTC TT- TGTC TCC TTC TTTC TTC TTC TGTC TT
1 TTC TTC TTC TTC TTC T-TC TTC TTC -TTC TTC TTC T-TC TT
6936329 ACTTGTTTGC
Statistics
Matches: 128, Mismatches: 24, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
2 15 0.12
3 81 0.63
4 32 0.25
ACGTcount: A:0.01, C:0.30, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:6936197 original size:22 final size:21
Alignment explanation
Indices: 6936165--6936323 Score: 102
Period size: 22 Copynumber: 7.5 Consensus size: 21
6936155 TCTTCCTTCT
*
6936165 TTTCTTTTTCTTTTCTGCTTTC
1 TTTCTTCTTCTTTTCT-CTTTC
6936187 TTTCTTCTTC-TTTCTTCCTTTC
1 TTTCTTCTTCTTTTC-T-CTTTC
*
6936209 TTTCTTCTCTCTTTTCTCCTTC
1 TTTCTTCT-TCTTTTCTCTTTC
*
6936231 -TT-TT-TTC-TTTCTTTTTC
1 TTTCTTCTTCTTTTCTCTTTC
*
6936248 -TTCTTCTTC-TTTCTCTTCC
1 TTTCTTCTTCTTTTCTCTTTC
**
6936267 TTTCCTTCTGTTCCAGTTCT-TATTC
1 TTT-CTTC--TT-CTTTTCTCT-TTC
*
6936292 -TTCTTCTTCTTTGTCTCCTTC
1 TTTCTTCTTCTTT-TCTCTTTC
6936313 TTTCTTCTTCT
1 TTTCTTCTTCT
6936324 GTCTTACTTG
Statistics
Matches: 110, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
17 10 0.09
18 4 0.04
19 12 0.11
20 6 0.05
21 18 0.16
22 37 0.34
23 9 0.08
24 8 0.07
25 6 0.05
ACGTcount: A:0.01, C:0.30, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTCTTCTTCTTTTCTCTTTC
Found at i:6936202 original size:44 final size:44
Alignment explanation
Indices: 6936153--6936264 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 44
6936143 TTGGATAATA
* *
6936153 TTTCTTCCTTCTTTTCTTTTTCTTTTCTGCTTTCTTTCTTC-TTC
1 TTTCTTCCTTCTTTTCTTTCTCTTTTCT-CCTTCTTTCTTCTTTC
*
6936197 TTTCTTCCTT-TCTTTCTTCTCTCTTTTCTCCTTCTTTTTTCTTTC
1 TTTCTTCCTTCT-TTTCTT-TCTCTTTTCTCCTTCTTTCTTCTTTC
6936242 TTT-TT-CTTCTTCTTCTTTCTCTT
1 TTTCTTCCTTCTT-TTCTTTCTCTT
6936265 CCTTTCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
43 11 0.18
44 34 0.57
45 15 0.25
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.71
Consensus pattern (44 bp):
TTTCTTCCTTCTTTTCTTTCTCTTTTCTCCTTCTTTCTTCTTTC
Found at i:6936242 original size:67 final size:63
Alignment explanation
Indices: 6936153--6936275 Score: 160
Period size: 67 Copynumber: 1.9 Consensus size: 63
6936143 TTGGATAATA
* *
6936153 TTTCTTCCTTCTTTTCTTTTTCTTTTCTGCTTTCTTTCTTCTTCTTTCTTCCTTTCTTTCTTCTC
1 TTTCTTCCTTCTTTTCTTTTTCTTTT-T-C-TTC-TTCTTCTT-TCTCTTCCTTTCCTTCTTCTC
6936218 TCT
61 TCT
6936221 TTTC-TCCTTCTTTT-TTCTTTCTTTTTCTTCTTCTTCTTTCTCTTCCTTTCCTTCT
1 TTTCTTCCTTCTTTTCTT-TTTCTTTTTCTTCTTCTTCTTTCTCTTCCTTTCCTTCT
6936276 GTTCCAGTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
62 15 0.29
63 8 0.15
64 3 0.06
65 1 0.02
66 3 0.06
67 18 0.35
68 4 0.08
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (63 bp):
TTTCTTCCTTCTTTTCTTTTTCTTTTTCTTCTTCTTCTTTCTCTTCCTTTCCTTCTTCTCTCT
Found at i:7001515 original size:23 final size:23
Alignment explanation
Indices: 7001483--7001561 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
7001473 AACATCGCTG
* *
7001483 AAGCGAATAACAGAACACTGCCA
1 AAGCGGATAATAGAACACTGCCA
*
7001506 AAGTGGATAATAGAACA-TCGCCA
1 AAGCGGATAATAGAACACT-GCCA
* * *
7001529 AAGCGGGTAATAGAACACCGCCG
1 AAGCGGATAATAGAACACTGCCA
7001552 AAGCGGATAA
1 AAGCGGATAA
7001562 ACAAAGTGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AAGCGGATAATAGAACACTGCCA
Found at i:7001533 original size:46 final size:46
Alignment explanation
Indices: 7001466--7001561 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
7001456 TATACATAAC
** * *
7001466 ATAACAGAACATCGCTGAAGCGAATAACAGAACACTGCCAAAGTGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
* ** * *
7001512 ATAATAGAACATCGCCAAAGCGGGTAATAGAACACCGCCGAAGCGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
7001558 ATAA
1 ATAA
7001562 ACAAAGTGCG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (46 bp):
ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
Found at i:7005416 original size:18 final size:18
Alignment explanation
Indices: 7005393--7005432 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7005383 CAACAGATAC
*
7005393 GGTCATACGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
7005411 GGTCATAAGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
7005429 GGTC
1 GGTC
7005433 CACTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (18 bp):
GGTCATAAGCCTTTTCTA
Done.