Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 20 of 235
Found at i:5967032 original size:23 final size:22
Alignment explanation
Indices: 5967002--5967049 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
5966992 GTTTAAGATT
* *
5967002 TTTTAAGGTTTAAAAGTTTAGTG
1 TTTTAAGGATT-AAAGATTAGTG
*
5967025 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAAAGATTAGTG
5967047 TTT
1 TTT
5967050 ATGATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAAAGATTAGTG
Found at i:5967147 original size:41 final size:41
Alignment explanation
Indices: 5967090--5967371 Score: 396
Period size: 41 Copynumber: 6.9 Consensus size: 41
5967080 GTTATATGAC
**
5967090 TTTTAGCGGCGTTTTACGGAAAGCGCCGCTAATGCT-TCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GGT
*
5967131 TTTTAGCGGCGTTTTACCAAAAGTGCCGC-AATGCTCTGG-
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** *
5967170 TTTTAGCGGTATTTTACCAAAAAGCGCCGCGAATGCTCTGGT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGT
5967212 TTTTAGCGGCGTTTTACCAAAAACGCGCCG--AATGCTCTGGT
1 TTTTAGCGGCGTTTTACC-AAAA-GCGCCGCTAATGCTCTGGT
5967253 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
5967294 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** *
5967334 TTTTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT
5967372 ATGTTTTACA
Statistics
Matches: 223, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
39 22 0.10
40 60 0.27
41 114 0.51
42 21 0.09
43 6 0.03
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:5967224 original size:81 final size:81
Alignment explanation
Indices: 5967090--5967371 Score: 394
Period size: 81 Copynumber: 3.5 Consensus size: 81
5967080 GTTATATGAC
**
5967090 TTTTAGCGGCGTTTTA-CGGAAAGCGCCGCTAATGCT-TCGGTTTTTAGCGGCGTTTTACCAAAA
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCT-GGTTTTTAGCGGCGTTTTACCAAAA
*
5967153 GTGCCGCAATGCTCTGG
65 GCGCCGCAATGCTCTGG
** *
5967170 TTTTAGCGGTATTTTACCAAAAAGCGCCGCGAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAA
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACC-AAAA
5967235 CGCGCCG-AATGCTCTGG
65 -GCGCCGCAATGCTCTGG
5967252 TTTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAA
1 -TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAA
* *
5967316 GCGCCGCTATTGCTCTGT
65 GCGCCGC-AATGCTCTGG
* *
5967334 TTTTAGCGGCGTTTTACCAAAAA-TGCCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCT
5967372 ATGTTTTACA
Statistics
Matches: 181, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
80 20 0.11
81 73 0.40
82 67 0.37
83 21 0.12
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAG
CGCCGCAATGCTCTGG
Found at i:5967370 original size:122 final size:123
Alignment explanation
Indices: 5967090--5967371 Score: 403
Period size: 122 Copynumber: 2.3 Consensus size: 123
5967080 GTTATATGAC
** *
5967090 TTTTAGCGGCGTTTTACGGAAAGCGCCGCTAATGCT-TCGGTTTTTAGCGGCGTTTTACCAAAAG
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTCGGTTTTTAGCGGCGTTTTACCAAAAG
* *
5967154 TGCCGCAATGCTCTGGTTTTAGCGGTATTTTACCAAAAAGCGCCGCGAATGCTCTGGT
66 CGCCGCAATGCTCTGGTTTTAGCGGCATTTTACCAAAAAGCGCCGCGAATGCTCTGGT
*
5967212 TTTTAGCGGCGTTTTACCAAAAACG-CGCCGAATGCTCT-GGTTTTTAGCGGCGTTTTACCAAAA
1 TTTTAGCGGCGTTTTACCAAAAACGCCG-CTAATGCTCTCGGTTTTTAGCGGCGTTTTACCAAAA
* * *
5967275 GCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACC-AAAAGCGCCGCTATTGCTCT-GT
65 GCGCCGC-AATGCTCTGG-TTTTAGCGGCATTTTACCAAAAAGCGCCGCGAATGCTCTGGT
* *
5967334 TTTTAGCGGCGTTTTACCAAAAATGCCGCTATTGCTCT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCT
5967372 ATGTTTTACA
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
121 2 0.01
122 94 0.66
123 31 0.22
124 16 0.11
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.32
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTCGGTTTTTAGCGGCGTTTTACCAAAAG
CGCCGCAATGCTCTGGTTTTAGCGGCATTTTACCAAAAAGCGCCGCGAATGCTCTGGT
Found at i:5971308 original size:48 final size:48
Alignment explanation
Indices: 5971249--5971727 Score: 503
Period size: 48 Copynumber: 10.0 Consensus size: 48
5971239 AAAAGGTAAG
* *
5971249 ATGCCGATGCCATG-TCGCAGACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTC-CAAACATGGTCTTACACTAGCTCACATAACA
* * * * ***
5971297 AAGTCGATGCCATGTTCCAATCATGATCTTACACT-GACTCACATATTG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAG-CTCACATAACA
* * * * * *
5971345 AGGCCAATGCCCTGTCCCAGACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* * ***
5971393 ATGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* * * * *
5971441 AGGACGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* ***
5971489 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* * * * *
5971537 AGGACGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* * * **
5971585 ATGCCGATGCTATGTTCCAAACATGGTCTTATACTGGCTCACATATTA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
* * ** * * *
5971633 ACGCTGATAACATATCCCAAACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
*
5971681 ATGCCGATGCCACGTTCCAAACATGGTCTTACACTAGCTCACATAAC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAAC
5971728 CATAGTATCA
Statistics
Matches: 340, Mismatches: 88, Indels: 6
0.78 0.20 0.01
Matches are distributed among these distances:
47 1 0.00
48 336 0.99
49 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATAACA
Found at i:5971423 original size:96 final size:96
Alignment explanation
Indices: 5971253--5971725 Score: 723
Period size: 96 Copynumber: 4.9 Consensus size: 96
5971243 GGTAAGATGC
* * * * *
5971253 CGATGCCATGTCGCAGACATGGTCTTACACTAGCTCTCATAACAAAGTCGATGCCATGTTCCAAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
* * *
5971318 CATGATCTTACACTGACTCACATATTGAGGC
66 CATGGTCTTACACTGGCTCACATATTGAGGA
* * * *
5971349 CAATGCCCTGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCAATGCCATGTTCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
5971414 CATGGTCTTACACTGGCTCACATATTGAGGA
66 CATGGTCTTACACTGGCTCACATATTGAGGA
*
5971445 CGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
5971510 CATGGTCTTACACTGGCTCACATATTGAGGA
66 CATGGTCTTACACTGGCTCACATATTGAGGA
* *
5971541 CGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTCATAACAATGCCGATGCTATGTTCCAAA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
* * *
5971606 CATGGTCTTATACTGGCTCACATATTAACG-
66 CATGGTCTTACACTGGCTCACATATTGAGGA
** * *
5971636 CTGATAACATATCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCACGTTCCAA
1 C-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
5971701 ACATGGTCTTACACTAGCTCACATA
65 ACATGGTCTTACACTGGCTCACATA
5971726 ACCATAGTAT
Statistics
Matches: 349, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
95 1 0.00
96 348 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAA
CATGGTCTTACACTGGCTCACATATTGAGGA
Found at i:5979950 original size:14 final size:14
Alignment explanation
Indices: 5979931--5979958 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5979921 AGAATCCAAC
5979931 ACGCCCGTGTGGTT
1 ACGCCCGTGTGGTT
5979945 ACGCCCGTGTGGTT
1 ACGCCCGTGTGGTT
5979959 TTACCCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.36, T:0.29
Consensus pattern (14 bp):
ACGCCCGTGTGGTT
Found at i:5984981 original size:18 final size:18
Alignment explanation
Indices: 5984955--5984991 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5984945 CAAATCGCAA
5984955 TTTTACTACAGTTTTCAG
1 TTTTACTACAGTTTTCAG
* *
5984973 TTTTGCTACTGTTTTCAG
1 TTTTACTACAGTTTTCAG
5984991 T
1 T
5984992 ATATACTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (18 bp):
TTTTACTACAGTTTTCAG
Found at i:5989570 original size:20 final size:20
Alignment explanation
Indices: 5989545--5989583 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5989535 GACATCAGTC
5989545 AAAAAT-TAATAAAAGTATAT
1 AAAAATCTAA-AAAAGTATAT
*
5989565 AAAAATCTAAAAAATTATA
1 AAAAATCTAAAAAAGTATA
5989584 AATTGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAATCTAAAAAAGTATAT
Found at i:5996108 original size:16 final size:16
Alignment explanation
Indices: 5996083--5996117 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
5996073 AAATTTTAAA
5996083 TTTTTTAAAAAT-ATT
1 TTTTTTAAAAATAATT
5996098 TTTTTTAAAAATAATT
1 TTTTTTAAAAATAATT
5996114 TTTT
1 TTTT
5996118 AATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTAAAAATAATT
Found at i:5997470 original size:19 final size:21
Alignment explanation
Indices: 5997437--5997476 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
5997427 TATAATGTTT
5997437 TTTAATAATTCTAATATATTA
1 TTTAATAATTCTAATATATTA
5997458 TTTAA-AATT-TAATATATTA
1 TTTAATAATTCTAATATATTA
5997477 AAATGATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAATAATTCTAATATATTA
Found at i:6002394 original size:18 final size:18
Alignment explanation
Indices: 6002357--6002394 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6002347 GAGTTAAACG
* *
6002357 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCAAATT
6002375 AATCGAGTTATTCAAATT
1 AATCGAGTTATTCAAATT
6002393 AA
1 AA
6002395 ATCAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCAAATT
Found at i:6002466 original size:18 final size:18
Alignment explanation
Indices: 6002439--6002475 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6002429 TGAGTTTTCG
* *
6002439 AATTCGAATAACTCGAAT
1 AATTCAAATAAATCGAAT
6002457 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
6002475 A
1 A
6002476 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:6002834 original size:18 final size:18
Alignment explanation
Indices: 6002811--6002871 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 18
6002801 TACTCCCCTA
6002811 TTTACTTTCCCTAAAACT
1 TTTACTTTCCCTAAAACT
* *
6002829 TTTAC--TCCCCAAAATTT
1 TTTACTTTCCCTAAAA-CT
* *
6002846 TTTATTTTCCCCTTAAACT
1 TTTACTTT-CCCTAAAACT
6002865 TTTACTT
1 TTTACTT
6002872 CTTACCCTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 5 0.16
19 8 0.25
20 6 0.19
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTACTTTCCCTAAAACT
Found at i:6008695 original size:43 final size:43
Alignment explanation
Indices: 6008630--6008796 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
6008620 AGCTCATACA
* * * *
6008630 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * **
6008672 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGATGTAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
* * *
6008715 ATGCCAATGTCCCAGACATGGTCTTACACATAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
6008758 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
6008797 CTTGATACCT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 88 0.89
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:6010250 original size:32 final size:32
Alignment explanation
Indices: 6010193--6010260 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
6010183 AAGATGAAAA
* *
6010193 AAAAATGAAGGGATAACAAACTAGAAGGATGG
1 AAAAATGAAGGGATAACAAACTAGAAGAATAG
* *
6010225 AAAATTGAAGGGATAA-AAAGTTAGAAGAATAG
1 AAAAATGAAGGGATAACAAA-CTAGAAGAATAG
6010257 AAAA
1 AAAA
6010261 CATAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.57, C:0.03, G:0.25, T:0.15
Consensus pattern (32 bp):
AAAAATGAAGGGATAACAAACTAGAAGAATAG
Found at i:6011905 original size:26 final size:26
Alignment explanation
Indices: 6011869--6011919 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6011859 TGCAACTTTC
*
6011869 ACAGTATTGCATCAAAATGCACAGTT
1 ACAGTATTGCACCAAAATGCACAGTT
* *
6011895 ACAGTATTGCACCGAAGTGCACAGT
1 ACAGTATTGCACCAAAATGCACAGT
6011920 CAGAATAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (26 bp):
ACAGTATTGCACCAAAATGCACAGTT
Found at i:6015331 original size:27 final size:27
Alignment explanation
Indices: 6015298--6015353 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6015288 GTTGAAAACA
*
6015298 CTTTGAAACATTGTTTTCCTTCAAAAT
1 CTTTGAAACATTATTTTCCTTCAAAAT
6015325 CTTTGAAACATTATTTTCCTTCAAAAT
1 CTTTGAAACATTATTTTCCTTCAAAAT
6015352 CT
1 CT
6015354 CGAAATCCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (27 bp):
CTTTGAAACATTATTTTCCTTCAAAAT
Found at i:6019966 original size:28 final size:28
Alignment explanation
Indices: 6019926--6020008 Score: 157
Period size: 28 Copynumber: 3.0 Consensus size: 28
6019916 AGTATATTGG
6019926 CTCCATGTATTGCTCACCCATAATCTTA
1 CTCCATGTATTGCTCACCCATAATCTTA
6019954 CTCCATGTATTGCTCACCCATAATCTTA
1 CTCCATGTATTGCTCACCCATAATCTTA
*
6019982 CTCCATGTATTGCTCGCCCATAATCTT
1 CTCCATGTATTGCTCACCCATAATCTT
6020009 CCTTTTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (28 bp):
CTCCATGTATTGCTCACCCATAATCTTA
Found at i:6021376 original size:243 final size:243
Alignment explanation
Indices: 6020948--6021438 Score: 964
Period size: 243 Copynumber: 2.0 Consensus size: 243
6020938 GAAACCTTCT
6020948 AATCAGTTTAAAACAAGTTGAAAAACAATTTAGAACATCGTTTTCCTTCAAAATCCCAAAATCCA
1 AATCAGTTTAAAACAAGTTGAAAAACAATTTAGAACATCGTTTTCCTTCAAAATCCCAAAATCCA
*
6021013 CCATTAACGACCTAATTTTTAGGATTTATTCAAAACTGTCGATTCAATAGGTAAAAAATATATTT
66 CCATTAACGACCTAATTTTTAGGATTTATTCAAAACTGTCAATTCAATAGGTAAAAAATATATTT
*
6021078 AAAAGACTAAATATCATAAAAAAACTAATAGGAAATTGAACCATTCCGTTTGATAGGAGAAAAAC
131 AAAAGACTAAATATCATAAAAAAACTAATAGGAAATTGAACCATTCCCTTTGATAGGAGAAAAAC
6021143 AAACATTTGGTTGAAAATCCAGAAAACCCACAAGTTGTGCAATGGCAA
196 AAACATTTGGTTGAAAATCCAGAAAACCCACAAGTTGTGCAATGGCAA
6021191 AATCAGTTTAAAACAAGTTGAAAAACAATTTAGAACATCGTTTTCCTTCAAAATCCCAAAATCCA
1 AATCAGTTTAAAACAAGTTGAAAAACAATTTAGAACATCGTTTTCCTTCAAAATCCCAAAATCCA
6021256 CCATTAACGACCTAATTTTTAGGATTTATTCAAAACTGTCAATTCAATAGGTAAAAAATATATTT
66 CCATTAACGACCTAATTTTTAGGATTTATTCAAAACTGTCAATTCAATAGGTAAAAAATATATTT
6021321 AAAAGACTAAATATCATAAAAAAACTAATAGGAAATTGAACCATTCCCTTTGATAGGAGAAAAAC
131 AAAAGACTAAATATCATAAAAAAACTAATAGGAAATTGAACCATTCCCTTTGATAGGAGAAAAAC
6021386 AAACATTTGGTTGAAAATCCAGAAAACCCACAAGTTGTGCAATGGCAA
196 AAACATTTGGTTGAAAATCCAGAAAACCCACAAGTTGTGCAATGGCAA
6021434 AATCA
1 AATCA
6021439 ATGGTGTTTT
Statistics
Matches: 246, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 246 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (243 bp):
AATCAGTTTAAAACAAGTTGAAAAACAATTTAGAACATCGTTTTCCTTCAAAATCCCAAAATCCA
CCATTAACGACCTAATTTTTAGGATTTATTCAAAACTGTCAATTCAATAGGTAAAAAATATATTT
AAAAGACTAAATATCATAAAAAAACTAATAGGAAATTGAACCATTCCCTTTGATAGGAGAAAAAC
AAACATTTGGTTGAAAATCCAGAAAACCCACAAGTTGTGCAATGGCAA
Found at i:6022983 original size:18 final size:17
Alignment explanation
Indices: 6022956--6022989 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6022946 TATTTATTAA
*
6022956 ATTAATTAATTTATTTCC
1 ATTAAATAATTT-TTTCC
6022974 ATTAAATAATTTTTTC
1 ATTAAATAATTTTTTC
6022990 AACTCAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTAAATAATTTTTTCC
Found at i:6024985 original size:20 final size:20
Alignment explanation
Indices: 6024962--6025107 Score: 89
Period size: 20 Copynumber: 7.3 Consensus size: 20
6024952 AGAGTATAAA
*
6024962 CAGGGGCATGTAAGTGCATT
1 CAGGGGCATGTAAGTGCAAT
* * *
6024982 CAGGGGTATCG-AAGTACAAA
1 CAGGGGCAT-GTAAGTGCAAT
* *
6025002 CAGGGGCATGTATGTGTAAT
1 CAGGGGCATGTAAGTGCAAT
* * ** *
6025022 CAGGGGTACCG-AAGTATAAA
1 CAGGGGCA-TGTAAGTGCAAT
* *
6025042 CAGGGGCACGTATGTGCAAT
1 CAGGGGCATGTAAGTGCAAT
* * * *
6025062 CAGGGGTATCTAAGTACAAA
1 CAGGGGCATGTAAGTGCAAT
* *
6025082 CAGGGGCACGTATGTGCAAT
1 CAGGGGCATGTAAGTGCAAT
6025102 CAGGGG
1 CAGGGG
6025108 TACCGAAGTA
Statistics
Matches: 91, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
19 3 0.03
20 86 0.95
21 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.20
Consensus pattern (20 bp):
CAGGGGCATGTAAGTGCAAT
Found at i:6025003 original size:40 final size:40
Alignment explanation
Indices: 6024954--6025143 Score: 281
Period size: 40 Copynumber: 4.8 Consensus size: 40
6024944 GGGATACTAG
* * * * *
6024954 AGTATAAACAGGGGCATGTAAGTGCATTCAGGGGTATCGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
* *
6024994 AGTACAAACAGGGGCATGTATGTGTAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
* * *
6025034 AGTATAAACAGGGGCACGTATGTGCAATCAGGGGTATCTA
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
6025074 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
*
6025114 AGTACAAATAGGGGCACGTATGTGCAATCA
1 AGTACAAACAGGGGCACGTATGTGCAATCA
6025144 TCAATAATTA
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
Found at i:6028539 original size:14 final size:16
Alignment explanation
Indices: 6028522--6028555 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6028512 TTGGTTATAG
6028522 TTATTTT-AG-TTTAA
1 TTATTTTAAGTTTTAA
6028536 TTATTTTAAGTTTTAA
1 TTATTTTAAGTTTTAA
6028552 TTAT
1 TTAT
6028556 GTCATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 2 0.11
16 9 0.50
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTATTTTAAGTTTTAA
Found at i:6029978 original size:52 final size:52
Alignment explanation
Indices: 6029900--6030004 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
6029890 TTATAATAAA
* *
6029900 TCAAATCTCGATTATGGGTGATTAGCTTGCTTCAGTAATCCCCATCAACTGT
1 TCAAATCTCAATTATGGGTGATTAGCTCGCTTCAGTAATCCCCATCAACTGT
*
6029952 TCAAATCTCAATTATGGGTGATTAGCTCGCTTCGGTAATCCCCATCAACTGT
1 TCAAATCTCAATTATGGGTGATTAGCTCGCTTCAGTAATCCCCATCAACTGT
6030004 T
1 T
6030005 GTTTTGGGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (52 bp):
TCAAATCTCAATTATGGGTGATTAGCTCGCTTCAGTAATCCCCATCAACTGT
Found at i:6031687 original size:14 final size:16
Alignment explanation
Indices: 6031651--6031691 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
6031641 TAAAACAATG
6031651 CAAATAAACATATGATT
1 CAAATAAACATATGA-T
6031668 CAAATAAACATAT-A-
1 CAAATAAACATATGAT
6031682 CAAATAAACA
1 CAAATAAACA
6031692 AACACAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.42
16 1 0.04
17 13 0.54
ACGTcount: A:0.61, C:0.15, G:0.02, T:0.22
Consensus pattern (16 bp):
CAAATAAACATATGAT
Found at i:6032011 original size:43 final size:43
Alignment explanation
Indices: 6031964--6032120 Score: 113
Period size: 42 Copynumber: 3.7 Consensus size: 43
6031954 AACATATACA
*
6031964 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCG
** * * * *
6032007 ATGCC-ACAGTCTTAGACAG-GGTCTTACATGAAATCAGATA-CA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAAAATCG
* * * * * **
6032049 ATGCCGATGTCCTAGACATGGTCTTACACGTAAAAAAAAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAA-TCG
* * *
6032093 ATGCTAACATCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
6032121 CGAAATCACA
Statistics
Matches: 85, Mismatches: 23, Indels: 11
0.71 0.19 0.09
Matches are distributed among these distances:
42 31 0.36
43 31 0.36
44 23 0.27
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCG
Found at i:6034988 original size:39 final size:40
Alignment explanation
Indices: 6034845--6035011 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
6034835 CCATCAGAAT
* *
6034845 TTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGAC
* *
6034884 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
*
6034924 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
* *
6034963 TTAGCCCGGA-ATTAGTCACTAGCACAAATTCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGAC
6035003 TTAGCCCGG
1 TTAGCCCGG
6035012 TTATCATCCG
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 39 0.34
40 76 0.66
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGAC
Found at i:6034997 original size:79 final size:80
Alignment explanation
Indices: 6034845--6035011 Score: 243
Period size: 79 Copynumber: 2.1 Consensus size: 80
6034835 CCATCAGAAT
* * *
6034845 TTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC
6034909 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
*
6034924 TTAGCCCGGATATAG-TAACTTGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGC
1 TTAGCCCGGATATAGCT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGC
*
6034986 ACAAATTCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
6035003 TTAGCCCGG
1 TTAGCCCGG
6035012 TTATCATCCG
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
78 1 0.01
79 49 0.61
80 30 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAGCTACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:6036375 original size:48 final size:47
Alignment explanation
Indices: 6036305--6036402 Score: 187
Period size: 48 Copynumber: 2.1 Consensus size: 47
6036295 ATTTTTTTTT
6036305 CTCTTTCCCTTCTCCTCCTACTAACCACTATTATTTTATTACCCATG
1 CTCTTTCCCTTCTCCTCCTACTAACCACTATTATTTTATTACCCATG
6036352 CTCTTTCCCTTTCTCCTCCTACTAACCACTATTATTTTATTACCCATG
1 CTCTTTCCC-TTCTCCTCCTACTAACCACTATTATTTTATTACCCATG
6036400 CTC
1 CTC
6036403 CTTATTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 9 0.18
48 41 0.82
ACGTcount: A:0.18, C:0.37, G:0.02, T:0.43
Consensus pattern (47 bp):
CTCTTTCCCTTCTCCTCCTACTAACCACTATTATTTTATTACCCATG
Found at i:6046660 original size:40 final size:39
Alignment explanation
Indices: 6046576--6046760 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
6046566 TCGAATGATG
* * * * *
6046576 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
6046616 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6046656 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
6046695 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
6046736 -CCGGGCTATGTCTCAAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
6046761 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6046783 original size:79 final size:79
Alignment explanation
Indices: 6046629--6046793 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
6046619 GGACTAAGAT
* * * **
6046629 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
* *
6046694 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* * *
6046708 CCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCTCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
6046771 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
6046787 CCGAAGG
1 CCGAAGG
6046794 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.66
80 22 0.31
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:6049254 original size:20 final size:20
Alignment explanation
Indices: 6049225--6049274 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
6049215 TTTGTAAGGG
*
6049225 ATTTGTACTTTGGTGCCCCT
1 ATTTGCACTTTGGTGCCCCT
*
6049245 GTTTGCACTTTGGTGCCCCT
1 ATTTGCACTTTGGTGCCCCT
6049265 ATTTGCACTT
1 ATTTGCACTT
6049275 CAGTTCCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.20, T:0.44
Consensus pattern (20 bp):
ATTTGCACTTTGGTGCCCCT
Found at i:6049283 original size:20 final size:20
Alignment explanation
Indices: 6049237--6049284 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6049227 TTGTACTTTG
* **
6049237 GTGCCCCTGTTTGCACTTTG
1 GTGCCCCTATTTGCACTTCA
6049257 GTGCCCCTATTTGCACTTCA
1 GTGCCCCTATTTGCACTTCA
*
6049277 GTTCCCCT
1 GTGCCCCT
6049285 GTATACAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.08, C:0.35, G:0.19, T:0.38
Consensus pattern (20 bp):
GTGCCCCTATTTGCACTTCA
Found at i:6051746 original size:14 final size:14
Alignment explanation
Indices: 6051727--6051753 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6051717 TAGGAATTTC
6051727 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
6051741 ATAAGAAAATTTT
1 ATAAGAAAATTTT
6051754 ATCCATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:6053279 original size:341 final size:341
Alignment explanation
Indices: 6052686--6053373 Score: 1103
Period size: 341 Copynumber: 2.0 Consensus size: 341
6052676 TGATTGTTGA
*
6052686 TCATGATATATGTTTATGTGATTTATGGAATGTTATAAATACATGAAATGATTTCATGATTAGAA
1 TCATGATATATGTTTATGTGATTTATGGAATGTTATAAATACAAGAAATGATTTCATGATTAGAA
6052751 ATGTGTTTAAAATGTTAAGTTCCGTTAGAATAATGAAAATCGATGGATACATGTGATTTCCCAAA
66 ATGTGTTTAAAATGTTAAGTTCCGTTAGAATAATGAAAATCGATGGATACATGTGATTTCCCAAA
* * * * *
6052816 TATGAAGGTGATTCTGCATATGTTACAGAAGGGATGTAGCTCAGACGAATAATTTCGATATAGCC
131 TATGAAGGTGATTCTGCATATGTTACAGAAAGGATCTACCTCAGACGAATAATCTCGATAGAGCC
* * * *
6052881 TTTCAAGTATCCTGTTATATTGTTCCTGCAAGCATCTTGATCGGTAGTGATTTAGCATGTGTTGC
196 TCTCAAGTATCCTGTTATATAGTTCCTGAAAGCATCCTGATCGGTAGTGATTTAGCATGTGTTGC
*
6052946 ACACTACCATAGCTTTTTGTGAGCGTCCTGACATACGATCAGTTGTGATCCTGCATATAATGCGG
261 ACACTACCATAGCTCTTTGTGAGCGTCCTGACATACGATCAGTTGTGATCCTGCATATAATGCGG
* *
6053011 ACATAAACGCAGCTCT
326 ACACAAACGCAACTCT
6053027 TCATGATATATGTTTATGTGATTTATGGAATGTTATAAATACAAGAAATGATTTCATGATTAGAA
1 TCATGATATATGTTTATGTGATTTATGGAATGTTATAAATACAAGAAATGATTTCATGATTAGAA
*
6053092 ATGTGTTTAAAATGTTAAGTTCCGTTGGAATAATGAAAATCGATGGATACATGTGATTTCCCAAA
66 ATGTGTTTAAAATGTTAAGTTCCGTTAGAATAATGAAAATCGATGGATACATGTGATTTCCCAAA
* *
6053157 TGTGAAGGTGATTCTGTATATGTTACAGAAAGGATCTACCTC-GAAC-AAGTAATC-CTGATAGA
131 TATGAAGGTGATTCTGCATATGTTACAGAAAGGATCTACCTCAG-ACGAA-TAATCTC-GATAGA
* * *
6053219 GCCTCTCGAGTATCCTGTTATATAGTTCCTGAAAGCATCCTGGTCGGTAGTGGTTTAGCATGTGT
193 GCCTCTCAAGTATCCTGTTATATAGTTCCTGAAAGCATCCTGATCGGTAGTGATTTAGCATGTGT
* ** * **
6053284 TGCACACTACCGTAGCTCTTTGTGAGCGTCCTGATGTATGATTGGTTGTGATCCTGCATATAATG
258 TGCACACTACCATAGCTCTTTGTGAGCGTCCTGACATACGATCAGTTGTGATCCTGCATATAATG
6053349 CGGACACAAACGCAACTCT
323 CGGACACAAACGCAACTCT
6053368 TCATGA
1 TCATGA
6053374 GCGTCTTATT
Statistics
Matches: 319, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
340 4 0.01
341 315 0.99
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (341 bp):
TCATGATATATGTTTATGTGATTTATGGAATGTTATAAATACAAGAAATGATTTCATGATTAGAA
ATGTGTTTAAAATGTTAAGTTCCGTTAGAATAATGAAAATCGATGGATACATGTGATTTCCCAAA
TATGAAGGTGATTCTGCATATGTTACAGAAAGGATCTACCTCAGACGAATAATCTCGATAGAGCC
TCTCAAGTATCCTGTTATATAGTTCCTGAAAGCATCCTGATCGGTAGTGATTTAGCATGTGTTGC
ACACTACCATAGCTCTTTGTGAGCGTCCTGACATACGATCAGTTGTGATCCTGCATATAATGCGG
ACACAAACGCAACTCT
Found at i:6054745 original size:16 final size:16
Alignment explanation
Indices: 6054721--6054751 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6054711 ACAAATCCCA
6054721 AAATACCGAAAAGCCG
1 AAATACCGAAAAGCCG
*
6054737 AAATGCCGAAAAGCC
1 AAATACCGAAAAGCC
6054752 AAAAGTTTGG
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:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (16 bp):
AAATACCGAAAAGCCG
Found at i:6055053 original size:28 final size:28
Alignment explanation
Indices: 6054967--6055069 Score: 125
Period size: 28 Copynumber: 3.7 Consensus size: 28
6054957 ATTGCATGAC
* *
6054967 TATGAATGTGATTAGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* * * *
6054995 TACGAAAGTGATTGGGCCTGATAGGTCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
6055023 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* * *
6055051 TATGATTGAGATCGGGCCT
1 TATGAATGTGATTGGGCCT
6055070 AAAGGGGCCT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:6059604 original size:28 final size:28
Alignment explanation
Indices: 6059564--6059685 Score: 118
Period size: 28 Copynumber: 4.3 Consensus size: 28
6059554 GATTGCATGA
* *
6059564 ATATGAATGTGATTCGGCCTGACGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* * *
6059592 ATATGAAAGTGATTGGGCCTAATGGGCT
1 ATATGAATGTGATTGGGCCTGATGGGCC
* *
6059620 ATATGAATGTAATTGGGCCCGATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* * * *
6059648 ATATAAATGCGATTTAGGCCTAATGGGGCC
1 ATATGAATGTGA-TTGGGCCTGAT-GGGCC
*
6059678 AAATGAAT
1 ATATGAAT
6059686 AAGTATGGAT
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 55 0.74
29 8 0.11
30 11 0.15
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGGCC
Found at i:6059647 original size:56 final size:57
Alignment explanation
Indices: 6059564--6059674 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
6059554 GATTGCATGA
* * * *
6059564 ATATGAATGTGATTCGGCCTGACGGGCCATATGAAA-GTGA-TTGGGCCTAATGGGCT
1 ATATGAATGTAATTCGGCCCGACGGGCCATAT-AAATGCGATTTAGGCCTAATGGGCT
* *
6059620 ATATGAATGTAATTGGGCCCGATGGGCCATATAAATGCGATTTAGGCCTAATGGG
1 ATATGAATGTAATTCGGCCCGACGGGCCATATAAATGCGATTTAGGCCTAATGGG
6059675 GCCAAATGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 3 0.06
56 31 0.66
57 13 0.28
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
ATATGAATGTAATTCGGCCCGACGGGCCATATAAATGCGATTTAGGCCTAATGGGCT
Found at i:6063525 original size:15 final size:16
Alignment explanation
Indices: 6063505--6063534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6063495 TGGTGCCATG
6063505 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
6063520 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
6063535 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:6068833 original size:42 final size:41
Alignment explanation
Indices: 6068774--6068937 Score: 202
Period size: 42 Copynumber: 3.9 Consensus size: 41
6068764 TTAGGGTTAT
* *
6068774 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGGTA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
6068816 TGAGACTTCGTATAAGACCATATCTGGCATATGGCATCGATG
1 TGAGA-TTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
6068858 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
6068901 TGAGATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCAT
6068938 TGGTACGGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 68 0.65
43 36 0.35
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:6068921 original size:85 final size:84
Alignment explanation
Indices: 6068774--6068937 Score: 224
Period size: 85 Copynumber: 1.9 Consensus size: 84
6068764 TTAGGGTTAT
* * *
6068774 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGGTATGAGACTTCGTATAAGACCATAT
1 TGAGATTACATGTAAGACCATAGCTGGGATATGGCATCGATATGAGACTTCATATAAGACCATAT
6068839 CT-GGCATATGGCATCGATG
66 CTAGG-ATATGGCATCGATG
* * * *
6068858 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-TTACATGTAAGACCAT
1 TGAGATTACATGTAAGACCATAGCTGGGATA-TGGCATCGATATGAGACTT-CATATAAGACCAT
6068922 ATCTAGGATATGGCAT
64 ATCTAGGATATGGCAT
6068938 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 29 0.41
85 39 0.56
86 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (84 bp):
TGAGATTACATGTAAGACCATAGCTGGGATATGGCATCGATATGAGACTTCATATAAGACCATAT
CTAGGATATGGCATCGATG
Found at i:6069137 original size:11 final size:11
Alignment explanation
Indices: 6069121--6069145 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6069111 TCACTATGGG
6069121 GATGACCTTGT
1 GATGACCTTGT
6069132 GATGACCTTGT
1 GATGACCTTGT
6069143 GAT
1 GAT
6069146 TCTTGGTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
GATGACCTTGT
Found at i:6079996 original size:22 final size:21
Alignment explanation
Indices: 6079953--6079999 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6079943 TAGCACGAGG
* *
6079953 GTGTCCCTAGGTCACACGGGC
1 GTGTCCCTAGGACACACAGGC
*
6079974 GTGTCCCTTGGACTACACAGGC
1 GTGTCCCTAGGAC-ACACAGGC
6079996 GTGT
1 GTGT
6080000 GAGCCCTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.30, G:0.32, T:0.23
Consensus pattern (21 bp):
GTGTCCCTAGGACACACAGGC
Found at i:6083824 original size:23 final size:23
Alignment explanation
Indices: 6083717--6083819 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
6083707 TTTACACATT
* * *
6083717 AATCACTTTAAAATTTAGGAATA
1 AATCACATTAATATTTAAGAATA
6083740 AATCACATTAATATTTAAGAATA
1 AATCACATTAATATTTAAGAATA
*
6083763 AATC-CAATTAATATTTAAGCATA
1 AATCAC-ATTAATATTTAAGAATA
* * *
6083786 AAGCACATTAACT-TTTCAGTATA
1 AATCACATTAA-TATTTAAGAATA
6083809 AATCACATTAA
1 AATCACATTAA
6083820 CTTTTAACAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.01
23 66 0.96
24 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (23 bp):
AATCACATTAATATTTAAGAATA
Found at i:6084707 original size:33 final size:33
Alignment explanation
Indices: 6084665--6084730 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
6084655 CCTTCAACAT
6084665 AGAAAACTTAAAATTGGAATATCTCAATCTATA
1 AGAAAACTTAAAATTGGAATATCTCAATCTATA
*
6084698 AGAAAACTTAAAATTGGAATATCTCAGTCTATA
1 AGAAAACTTAAAATTGGAATATCTCAATCTATA
6084731 CTTAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (33 bp):
AGAAAACTTAAAATTGGAATATCTCAATCTATA
Found at i:6087788 original size:154 final size:154
Alignment explanation
Indices: 6087557--6087857 Score: 476
Period size: 154 Copynumber: 2.0 Consensus size: 154
6087547 CCTCTCATTA
* * *
6087557 TGACAAAACACCCTACGTTGCTGATCATTTGCGGGTCTACTATTAGGAGTTGGTTCTAGAACCAT
1 TGACAAAACACCCTACGCTACTGATCATTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACCAT
* *
6087622 TTTCGTAGGGTTTTATATATTTCTTGAAAGTTCCTCGATTACTTCTTTACTCCAAGGTTTGAAGT
66 TTTCGTAGGGTTTTATATATTTCTTGAAAGTTCCTCGACTACTTCTTTACTCCAAGATTTGAAGT
*
6087687 TATTCATGTAATTTCCTCCCAGTT
131 CATTCATGTAATTTCCTCCCAGTT
* * * *
6087711 TGACAAAGCACCCTACGCTACTGATCATTTGCAGGTCTACTATTAGGAGTTGGTTTTAGAAGCGT
1 TGACAAAACACCCTACGCTACTGATCATTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACCAT
* * **
6087776 TTTCGTAGGGTTTTATATATTTCTTGAAAGTTCTTTGACTACTTCTTTACTTTAAGATTTGAAGT
66 TTTCGTAGGGTTTTATATATTTCTTGAAAGTTCCTCGACTACTTCTTTACTCCAAGATTTGAAGT
6087841 CATTCATGTAATTTCCT
131 CATTCATGTAATTTCCT
6087858 TAAGGAAACT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
154 133 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (154 bp):
TGACAAAACACCCTACGCTACTGATCATTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACCAT
TTTCGTAGGGTTTTATATATTTCTTGAAAGTTCCTCGACTACTTCTTTACTCCAAGATTTGAAGT
CATTCATGTAATTTCCTCCCAGTT
Found at i:6091679 original size:42 final size:42
Alignment explanation
Indices: 6091600--6091680 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
6091590 GGTGCAGAGG
* * *
6091600 ACACATGGTCTAACTACATGCCCTTGTATCTGACCGTGTATC
1 ACACAAGGTCTAACTACACGCCCGTGTATCTGACCGTGTATC
* *
6091642 ACACAAGGTCTAGAC-ACACGCCCGTGTGTCTGCCCGTGT
1 ACACAAGGTCTA-ACTACACGCCCGTGTATCTGACCGTGT
6091681 GGACAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (42 bp):
ACACAAGGTCTAACTACACGCCCGTGTATCTGACCGTGTATC
Found at i:6093927 original size:16 final size:16
Alignment explanation
Indices: 6093906--6093937 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6093896 GTGTAACGCC
6093906 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
6093922 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
6093938 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:6095709 original size:47 final size:47
Alignment explanation
Indices: 6095631--6096739 Score: 2002
Period size: 47 Copynumber: 23.6 Consensus size: 47
6095621 CCCTTCGGGA
* * * ** * *
6095631 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* * *
6095678 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* * *
6095725 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
*
6095772 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6095819 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6095866 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6095913 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6095960 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096007 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096054 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096101 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096148 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096195 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096242 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096289 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096336 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096383 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096430 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096477 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
** *
6096524 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
6096571 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
*
6096618 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* *
6096667 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
* *
6096714 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
6096740 CACAATTATC
Statistics
Matches: 1035, Mismatches: 25, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
47 989 0.96
49 46 0.04
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
Found at i:6100481 original size:29 final size:28
Alignment explanation
Indices: 6100449--6100555 Score: 108
Period size: 29 Copynumber: 3.8 Consensus size: 28
6100439 ATAATATGAT
6100449 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
6100478 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* * * * *
6100507 CTGGGCC-AGATGGGCCGTTTGAACAGGA
1 TTGGGCCTA-ATGGGCCATATGAATAGAA
*
6100535 TTGGGCCTAATAGGCCATATG
1 TTGGGCCTAATGGGCCATATG
6100556 CATGTATGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
28 19 0.31
29 43 0.69
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:6100504 original size:58 final size:57
Alignment explanation
Indices: 6100441--6100553 Score: 129
Period size: 58 Copynumber: 2.0 Consensus size: 57
6100431 GCATGAATAT
** * * *
6100441 AATATGATTTGGGCCTA-ATGGGCCATATGAATGAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAA-CAGAATTGGGCCTAATAGGCCATAAG
* * *
6100499 AATATGAACTGGGCCAGATGGGCCGTTTGAACAGGATTGGGCCTAATAGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAACAGAATTGGGCCTAATAGGCCATA
6100554 TGCATGTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAACAGAATTGGGCCTAATAGGCCATAAG
Found at i:6101588 original size:21 final size:20
Alignment explanation
Indices: 6101550--6101597 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
6101540 TCGTAACTGG
* **
6101550 AAGGTTTTTTTTAGTTAATT
1 AAGGTTTCTTTTAGTTAAGA
*
6101570 AAGGTTTCTTTTATTTTAAGA
1 AAGGTTTCTTTTA-GTTAAGA
6101591 AAGGTTT
1 AAGGTTT
6101598 TCAATGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (20 bp):
AAGGTTTCTTTTAGTTAAGA
Found at i:6101768 original size:45 final size:45
Alignment explanation
Indices: 6101716--6101811 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 45
6101706 ACACATAACC
6101716 ACATATATC-ACTGCCAACGTCCCAGACGTGGTATTACACGAAAAA
1 ACATATATCGA-TGCCAACGTCCCAGACGTGGTATTACACGAAAAA
* * * * *
6101761 ACATATATCGATGCCAATGTCTCAGACGTGGTCTTACCCGAAAAC
1 ACATATATCGATGCCAACGTCCCAGACGTGGTATTACACGAAAAA
6101806 ACATAT
1 ACATAT
6101812 CGTAATCCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (45 bp):
ACATATATCGATGCCAACGTCCCAGACGTGGTATTACACGAAAAA
Found at i:6123017 original size:14 final size:15
Alignment explanation
Indices: 6122998--6123027 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6122988 GTTTATTATA
6122998 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
6123012 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
6123027 T
1 T
6123028 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:6125013 original size:41 final size:41
Alignment explanation
Indices: 6124965--6125098 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
6124955 ACTTAAAGGT
*
6124965 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCCAAGC
1 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCAAAGC
* * * * *
6125006 CTAGCAAGC-GTAATGCCGGTGAAATGATT-TCGGACTTAAAGGT
1 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCAAA-GC
* * **
6125049 CTAGCAAGGTTTAAGCTGGTGAATATTATCAGGCTCTGAGC
1 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCAAAGC
*
6125090 CTAGTAAGC
1 CTAGCAAGC
6125099 GTAATGTCGG
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
40 3 0.04
41 26 0.37
42 20 0.29
43 18 0.26
44 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (41 bp):
CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCAAAGC
Found at i:6125022 original size:84 final size:84
Alignment explanation
Indices: 6124909--6125142 Score: 362
Period size: 84 Copynumber: 2.8 Consensus size: 84
6124899 GTGATGAATT
* *
6124909 TCGGGCTTTAAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCTAAGCCTAGCAAGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
6124974 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
* * * *
6124993 TCGGGCTCCAAGCCTAGCAAGCGTAATGCCGGTGAAATGATTTCGGACTTAAAGGTCTAGCAAGG
1 TCGGGCTCTAAGCCTAGCAAGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
6125058 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
* * * * *
6125077 TCAGGCTCTGAGCCTAGTAAGCGTAATGTCGGTG-AATGATATCAGACTTAAAGGTCTAGCAGGC
1 TCGGGCTCTAAGCCTAGCAAGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
6125141 TT
66 TT
6125143 ATTGTCGGTG
Statistics
Matches: 135, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 28 0.21
84 107 0.79
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (84 bp):
TCGGGCTCTAAGCCTAGCAAGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
TTTAAGCTGGTGAATATTA
Found at i:6126329 original size:22 final size:22
Alignment explanation
Indices: 6126304--6126347 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6126294 TCCCCGTTCT
6126304 CTTTCCCCATTTCTTATAGGTC
1 CTTTCCCCATTTCTTATAGGTC
*
6126326 CTTTCCCTATTTCTTATAGGTC
1 CTTTCCCCATTTCTTATAGGTC
6126348 TGTACAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.09, T:0.48
Consensus pattern (22 bp):
CTTTCCCCATTTCTTATAGGTC
Found at i:6129287 original size:14 final size:15
Alignment explanation
Indices: 6129268--6129297 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6129258 GTTTATTATA
6129268 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
6129282 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
6129297 T
1 T
6129298 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:6133308 original size:28 final size:28
Alignment explanation
Indices: 6133276--6133374 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
6133266 ATAATAAGCC
*
6133276 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
6133304 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* *
6133332 CGCACACTTAGTGCTATAA-AATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
6133361 CGCACACTTAGTGC
1 CGCACACTTAGTGC
6133375 CAATCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.03
28 39 0.63
29 19 0.31
30 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:6134425 original size:34 final size:36
Alignment explanation
Indices: 6134363--6134436 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
6134353 AAAGGTTGCG
6134363 TAAACTTCCAAAAATATCATTGAACATACCTTGAT-
1 TAAACTTCCAAAAATATCATTGAACATACCTTGATC
6134398 TAAACTTCCAAAAATATC-TTGAACATACCTTGATC
1 TAAACTTCCAAAAATATCATTGAACATACCTTGATC
6134433 TAAA
1 TAAA
6134437 GGACCACCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 16 0.42
35 22 0.58
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.31
Consensus pattern (36 bp):
TAAACTTCCAAAAATATCATTGAACATACCTTGATC
Found at i:6137025 original size:50 final size:50
Alignment explanation
Indices: 6136966--6137065 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
6136956 CCGGACTCCG
6136966 GTTGTACTAGCACTGGAGCTTCGGTTAAACAGGTCTTTAGTCGATCGAAA
1 GTTGTACTAGCACTGGAGCTTCGGTTAAACAGGTCTTTAGTCGATCGAAA
6137016 GTTGTACTAGCACTGGAGCTTCGGTTAAACAGGTCTTTAGTCGATCGAAA
1 GTTGTACTAGCACTGGAGCTTCGGTTAAACAGGTCTTTAGTCGATCGAAA
6137066 CTCTTCTGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTTGTACTAGCACTGGAGCTTCGGTTAAACAGGTCTTTAGTCGATCGAAA
Found at i:6141476 original size:28 final size:28
Alignment explanation
Indices: 6141444--6141542 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
6141434 ATAGTAAGTC
*
6141444 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
6141472 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
6141500 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
6141529 CGCACACTTAGTGC
1 CGCACACTTAGTGC
6141543 AAATCTCATG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 45 0.71
29 18 0.29
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:6148645 original size:39 final size:39
Alignment explanation
Indices: 6148602--6148680 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
6148592 TACCATAAAT
6148602 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
1 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
*
6148641 TTCAAATTTTTAGCATATTCATCCATGACCTAATTTCCA
1 TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
6148680 T
1 T
6148681 ACTTTGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (39 bp):
TTCAAATTTTCAGCATATTCATCCATGACCTAATTTCCA
Found at i:6151705 original size:127 final size:127
Alignment explanation
Indices: 6151479--6151731 Score: 488
Period size: 127 Copynumber: 2.0 Consensus size: 127
6151469 CGACTAAACG
* *
6151479 GCCTTTCACCCATCCTACGATAAATTTTATGTACGTGACTTCAAGTATATTTGTCACATATGTTC
1 GCCTTTCACCCATCCTACGATAAATTTTATGTACGTGAATTCAAGTATATTTGTCACATAGGTTC
6151544 AAACTTACCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGACAC
66 AAACTTACCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGACAC
6151606 GCCTTTCACCCATCCTACGATAAATTTTATGTACGTGAATTCAAGTATATTTGTCACATAGGTTC
1 GCCTTTCACCCATCCTACGATAAATTTTATGTACGTGAATTCAAGTATATTTGTCACATAGGTTC
6151671 AAACTTACCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGACA
66 AAACTTACCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGACA
6151732 TTTACCCGAT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 124 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (127 bp):
GCCTTTCACCCATCCTACGATAAATTTTATGTACGTGAATTCAAGTATATTTGTCACATAGGTTC
AAACTTACCGAGCTCAACACCAAGTATAAGCATAGCACCTATTAGCCATGTACTCAAGACAC
Found at i:6151844 original size:27 final size:27
Alignment explanation
Indices: 6151814--6151991 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
6151804 ATATTGAGTC
* *
6151814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
6151841 CGCACACTTAATGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
6151868 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
6151896 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
6151923 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
6151950 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
6151977 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
6151992 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:6151963 original size:54 final size:55
Alignment explanation
Indices: 6151814--6151991 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
6151804 ATATTGAGTC
* * * * * * *
6151814 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAATGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
6151868 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
6151923 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
*
6151977 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
6151992 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 58 0.57
55 44 0.43
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:6159936 original size:27 final size:27
Alignment explanation
Indices: 6159906--6160083 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6159896 ATATTGAGTC
* * * *
6159906 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
6159933 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6159960 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
6159988 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
6160015 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
6160042 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6160069 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
6160084 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:6160045 original size:82 final size:81
Alignment explanation
Indices: 6159927--6160082 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6159917 TGCTATATAA
* *
6159927 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
6159992 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
6160009 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
6160073 CACTTAGTGC
65 CACTTAGTGC
6160083 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6168565 original size:47 final size:46
Alignment explanation
Indices: 6168511--6168667 Score: 224
Period size: 47 Copynumber: 3.3 Consensus size: 46
6168501 TTAGGATTTT
** * *
6168511 ATGTGATGAATGTGAATGTGTATTTATGAGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGG-CGAATGGCCA
*
6168558 ATGTGATGAATGTGAGCATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGG-CGAATGGCCA
*
6168605 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGC-GAATGGCCA
*
6168652 ATGTGATGAACGTGAA
1 ATGTGATGAATGTGAA
6168668 AGTGTATATA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 99 0.99
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (46 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCGAATGGCCA
Found at i:6170749 original size:40 final size:40
Alignment explanation
Indices: 6170675--6170856 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
6170665 AACCCAAGTA
* * *
6170675 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
6170714 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
6170754 CCTTCGGGACTTAGCCCGGATTTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
6170794 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
6170834 CCTTCAGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
6170857 CATTCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.09
40 117 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:6177754 original size:25 final size:26
Alignment explanation
Indices: 6177699--6177755 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
6177689 CAAGGTGCTA
*
6177699 ATATCATGGCCTGAAGCCAACTCATTTG
1 ATATCATGGCCTGAAGCCAA--CATTCG
6177727 ATATGCATGGCCTGAAGCCAA-A-TCG
1 ATAT-CATGGCCTGAAGCCAACATTCG
6177752 ATAT
1 ATAT
6177756 ATCAACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 1 0.04
28 4 0.15
29 16 0.59
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (26 bp):
ATATCATGGCCTGAAGCCAACATTCG
Found at i:6179502 original size:17 final size:18
Alignment explanation
Indices: 6179482--6179515 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6179472 AAGTGAATTG
6179482 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
6179499 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
6179516 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:6180258 original size:10 final size:10
Alignment explanation
Indices: 6180231--6180278 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
6180221 TAAAATTTTA
6180231 AAAGATAAAT
1 AAAGATAAAT
6180241 ACAA-ATAAAT
1 A-AAGATAAAT
*
6180251 AAAGATAATT
1 AAAGATAAAT
6180261 AAAGATAAAT
1 AAAGATAAAT
6180271 AAAGATAA
1 AAAGATAA
6180279 TCAAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6180279 original size:20 final size:19
Alignment explanation
Indices: 6180231--6180290 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
6180221 TAAAATTTTA
*
6180231 AAAGATAAATACAAATAAAT
1 AAAGATAATTA-AAATAAAT
6180251 AAAGATAATTAAAGATAAAT
1 AAAGATAATTAAA-ATAAAT
*
6180271 AAAGATAATCAAAAATAAAT
1 AAAGATAAT-TAAAATAAAT
6180291 CCTAGAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAATTAAAATAAAT
Found at i:6181497 original size:29 final size:29
Alignment explanation
Indices: 6181421--6181489 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
6181411 GTATTTTACC
*
6181421 GATTTGGCTTTAGGCCATGCATATCGGAT
1 GATTTGGCTTTAGGCCATGCAAATCGGAT
*
6181450 GATTTGGCTTCAGGCCATGCAAATCGGAT
1 GATTTGGCTTTAGGCCATGCAAATCGGAT
6181479 GATTTGGCTTT
1 GATTTGGCTTT
6181490 GGGTCATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (29 bp):
GATTTGGCTTTAGGCCATGCAAATCGGAT
Found at i:6192578 original size:14 final size:14
Alignment explanation
Indices: 6192559--6192587 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6192549 GTATATATGT
6192559 GATAAGGCCTAATA
1 GATAAGGCCTAATA
6192573 GATAAGGCCTAATA
1 GATAAGGCCTAATA
6192587 G
1 G
6192588 CCGATGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (14 bp):
GATAAGGCCTAATA
Found at i:6192581 original size:61 final size:60
Alignment explanation
Indices: 6192513--6192634 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 60
6192503 TATATATGTA
* *
6192513 ATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAG
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA-G-CTAATAG
6192574 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGCTAATAG
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGCTAATAG
6192635 CCGATGTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
61 42 0.74
62 1 0.02
63 14 0.25
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (60 bp):
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGCTAATAG
Found at i:6192633 original size:47 final size:47
Alignment explanation
Indices: 6192573--6193518 Score: 1779
Period size: 47 Copynumber: 20.1 Consensus size: 47
6192563 AGGCCTAATA
6192573 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
6192622 GATAA-G-CTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192667 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192714 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192761 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192808 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192855 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192902 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192949 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6192996 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193043 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193090 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193137 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193184 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193231 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193278 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193325 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193372 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193419 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * * * * * * *
6193466 GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
6193513 GATAAG
1 GATAAG
6193519 TCCCGAAGGG
Statistics
Matches: 884, Mismatches: 11, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
45 14 0.02
46 1 0.00
47 863 0.98
48 1 0.00
49 5 0.01
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:6195941 original size:40 final size:40
Alignment explanation
Indices: 6195746--6195929 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
6195736 CTCGATGATG
* *
6195746 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* * *
6195786 ACCCGGGCTAAGTCCCGAAGAGCATTCGTACTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* *
6195826 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
* * * * *
6195866 ATCCGTGCTAA-ACCTCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGTGATAT
*
6195906 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTCCCGAAGAGCA
6195930 ATCATGCTGG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 120 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:6196210 original size:58 final size:57
Alignment explanation
Indices: 6196141--6196249 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
6196131 CGAATGATTA
* *
6196141 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
6196199 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
6196250 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 26 0.57
58 20 0.43
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:6209168 original size:26 final size:26
Alignment explanation
Indices: 6209139--6209204 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6209129 AGCATGGCTG
* ** *
6209139 CCAGAATAGATATTGTGATGGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
6209165 CCAGATACAGAT-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
6209191 CCAGAACAGATATT
1 CCAGAACAGATATT
6209205 TGGGGTGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 6 0.18
26 22 0.67
27 5 0.15
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:6209243 original size:28 final size:28
Alignment explanation
Indices: 6209163--6209251 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 28
6209153 GTGATGGAGT
* *
6209163 CACCAGATACAG--ATTTGTGGCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
* **
6209189 CACCAG-AACAGATATTTGGGGTGTAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
6209216 CACTAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
6209244 CACCAGAA
1 CACCAGAA
6209252 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 4 0.08
26 6 0.12
27 15 0.30
28 25 0.50
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:6211729 original size:49 final size:49
Alignment explanation
Indices: 6211673--6211774 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
6211663 TAAGTTACTA
* **
6211673 TAAGTTTCAAAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGG
1 TAAGTTTCAAAAGGATACCACGTAAGACCATGAAAAGACATGGCAATGG
* *
6211722 TAAGTTTCAAAAGGTTACCACGTAAGACCATGAAAAGTCATGGCAATGG
1 TAAGTTTCAAAAGGATACCACGTAAGACCATGAAAAGACATGGCAATGG
6211771 TAAG
1 TAAG
6211775 GTACCCACGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (49 bp):
TAAGTTTCAAAAGGATACCACGTAAGACCATGAAAAGACATGGCAATGG
Found at i:6214743 original size:15 final size:15
Alignment explanation
Indices: 6214723--6214755 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6214713 TAATAACGTC
6214723 TAACCCTAGGTTGAT
1 TAACCCTAGGTTGAT
6214738 TAACCCTAGGTTGAT
1 TAACCCTAGGTTGAT
6214753 TAA
1 TAA
6214756 TTGTAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (15 bp):
TAACCCTAGGTTGAT
Found at i:6222174 original size:43 final size:43
Alignment explanation
Indices: 6222121--6222206 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
6222111 AAATATGTGT
*
6222121 TCTGAACTCATTAAGTTGGTCTGAGTTCATGATATATGTGACA
1 TCTGAACTCATTAAGTTGGTCTGAGTTCATGATATACGTGACA
* * *
6222164 TCTGAGCTCATTGAGTTGGTCTGAGTTCATGATGTACGTGACA
1 TCTGAACTCATTAAGTTGGTCTGAGTTCATGATATACGTGACA
6222207 CATGTAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (43 bp):
TCTGAACTCATTAAGTTGGTCTGAGTTCATGATATACGTGACA
Found at i:6225903 original size:43 final size:42
Alignment explanation
Indices: 6225837--6225999 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 42
6225827 AGCTCGTACA
* ***
6225837 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGAAGTGGTCTTACACAAAATCAAATAT-G
*
6225880 ATGCCACTGTCCCAGATAG-GGTCTTACACAAAATCAAATATG
1 ATGCCAATGTCCCAGA-AGTGGTCTTACACAAAATCAAATATG
* ** * * * *
6225922 ATGTCAACATCCTAGATGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGAAGTGGTCTTACAC-AAAATCA-AA-TATG
* * *
6225966 ATACCAACGTCCCAGACGTGGTCTTACACGAAAA
1 ATGCCAATGTCCCAGAAGTGGTCTTACAC-AAAA
6226000 CACATATCGG
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 22 0.23
43 40 0.42
44 32 0.33
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAAGTGGTCTTACACAAAATCAAATATG
Found at i:6233245 original size:43 final size:42
Alignment explanation
Indices: 6233198--6233281 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
6233188 TCATACATGT
6233198 AATCAAATATCGATGC-CACTGTCCCAAACAGGGTCTTACACGA
1 AATCAAATAT-GATGCTCA-TGTCCCAAACAGGGTCTTACACGA
* * * *
6233241 AATCAAATATGATGCTGATGTCCGAGACATGGTCTTACACG
1 AATCAAATATGATGCTCATGTCCCAAACAGGGTCTTACACG
6233282 TAATTTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (42 bp):
AATCAAATATGATGCTCATGTCCCAAACAGGGTCTTACACGA
Found at i:6233275 original size:42 final size:43
Alignment explanation
Indices: 6233175--6233336 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 43
6233165 TAATGCCAAC
* * * * * *
6233175 GTCCCAGACGTGGTCATACATG-TAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATAT-GATGCTAAT
* * *
6233218 GTCCCAAACAGGGTCTTACACG-AAATCAAATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATATGATGCTAAT
* ** *
6233260 GTCCGAGACATGGTCTTACACGTAATTTCAAAT-CGATGCTAAT
1 GTCCCAGACATGGTCTTACACG-AAAATCAAATATGATGCTAAT
* * * *
6233303 GTCTCAGACGTGCTCTTACACGAAAATCACATAT
1 GTCCCAGACATGGTCTTACACGAAAATCAAATAT
6233337 ATCAAAAATC
Statistics
Matches: 92, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 32 0.35
43 53 0.58
44 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAAATCAAATATGATGCTAAT
Found at i:6234012 original size:8 final size:8
Alignment explanation
Indices: 6233999--6234023 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6233989 AATCATAATT
6233999 AAATTCAA
1 AAATTCAA
6234007 AAATTCAA
1 AAATTCAA
6234015 AAATTCAA
1 AAATTCAA
6234023 A
1 A
6234024 CATGGGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATTCAA
Found at i:6236261 original size:40 final size:40
Alignment explanation
Indices: 6236163--6236425 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
6236153 TCCTCGTTCA
* * * ** *
6236163 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
6236202 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
6236242 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
6236282 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
6236322 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
6236362 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
6236402 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6236426 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:6242107 original size:564 final size:564
Alignment explanation
Indices: 6241039--6242166 Score: 2121
Period size: 564 Copynumber: 2.0 Consensus size: 564
6241029 AACCAAGGAT
6241039 AACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCCA
1 AACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCCA
6241104 GGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCCGAATT
66 GGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCCGAATT
6241169 ACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATG
131 ACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATG
6241234 AGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAA
196 AGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAA
6241299 CATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCG
261 CATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCG
6241364 GATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGG
326 GATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGG
* * *
6241429 TCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTTCATTCTGTTCAAACAACCTCG
391 TCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCG
* *
6241494 GGCAATCTTTAATGAAGTGGTCCACTGATCCGCATTTGTAACAGGAGCGGTCAGGAAATCTACAA
456 GGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAA
*
6241559 CTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCTGTC
521 CTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
6241603 AACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCCA
1 AACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCCA
6241668 GGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCCGAATT
66 GGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCCGAATT
*
6241733 ACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAGGAATG
131 ACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATG
*
6241798 AGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGGGTGAATGTACCGGTAATAA
196 AGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAA
6241863 CATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCG
261 CATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCG
* *
6241928 GATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCCAGATGG
326 GATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGG
**
6241993 TCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGACAACCTCG
391 TCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCG
*
6242058 GGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGCGGTCAGGGAATCTACAA
456 GGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAA
* *
6242123 CTCCCCGAATGCCATTTACCGCAATATCGGCATTTCGTCCTGTC
521 CTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
6242167 TCGACGTTCA
Statistics
Matches: 549, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
564 549 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (564 bp):
AACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTTCCA
GGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCCGAATT
ACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATG
AGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAA
CATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCG
GATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGG
TCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCG
GGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAA
CTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
Found at i:6244767 original size:40 final size:40
Alignment explanation
Indices: 6244667--6244931 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
6244657 GCTCCTCGTT
* * * *
6244667 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
6244707 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6244746 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6244786 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
6244826 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
6244866 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
6244907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
6244932 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:6244891 original size:80 final size:80
Alignment explanation
Indices: 6244634--6244931 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
6244624 AAATCACGTA
* ** * * *
6244634 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6244696 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
6244712 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
6244775 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
6244792 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6244856 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
6244872 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
6244932 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:6244940 original size:41 final size:41
Alignment explanation
Indices: 6244863--6244940 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
6244853 TTTGTATCTC
* * *
6244863 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
6244904 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
6244941 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:6257676 original size:46 final size:46
Alignment explanation
Indices: 6257600--6257736 Score: 152
Period size: 46 Copynumber: 2.9 Consensus size: 46
6257590 AAGCTCCTCC
* * *
6257600 TGAGCTGATAAATAGTAAGCTCTATT-GAGCTAGAAACGATAAGCTCTAT
1 TGAGCTG--AAATAGTAAGCTCT-TTCGAGCT-GAATCGATAAGCTCCAA
* *
6257649 TGAGCTG-AATAGTAAGCTATTTCGAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAATAGTAAGCTCTTTCGAGCTGAATCGATAAGCTCCAA
* * *
6257694 TGAGTTGAAATAGTAAGCTCTTACGAGCTGAATCAATAAGCTC
1 TGAGCTGAAATAGTAAGCTCTTTCGAGCTGAATCGATAAGCTC
6257737 ATACGAGCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
45 21 0.28
46 48 0.63
49 7 0.09
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
TGAGCTGAAATAGTAAGCTCTTTCGAGCTGAATCGATAAGCTCCAA
Found at i:6257725 original size:23 final size:23
Alignment explanation
Indices: 6257650--6257745 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 23
6257640 AAGCTCTATT
* *
6257650 GAGCTGAAT-AGTAAGCTATTTC
1 GAGCTGAATCAGTAAGCTCTTAC
* ** *
6257672 GAGCTGAATCGGTAAGCTCCAAT
1 GAGCTGAATCAGTAAGCTCTTAC
*
6257695 GAGTTGAAAT-AGTAAGCTCTTAC
1 GAGCTG-AATCAGTAAGCTCTTAC
* *
6257718 GAGCTGAATCAATAAGCTCATAC
1 GAGCTGAATCAGTAAGCTCTTAC
6257741 GAGCT
1 GAGCT
6257746 ATCGTGAGTC
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
22 12 0.21
23 42 0.74
24 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:6259616 original size:30 final size:30
Alignment explanation
Indices: 6259582--6259667 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
6259572 TTTTCGAGCA
6259582 TAGGGGTAAAATGGTCATTTTGCCAAGGCC
1 TAGGGGTAAAATGGTCATTTTGCCAAGGCC
6259612 TAGGGGTAAAATGGTCATTTTGCCAAGGCC
1 TAGGGGTAAAATGGTCATTTTGCCAAGGCC
* *
6259642 TAGGGGCAAAATGGTCATTTTACCAA
1 TAGGGGTAAAATGGTCATTTTGCCAA
6259668 AGTTGTGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTGCCAAGGCC
Found at i:6260080 original size:47 final size:46
Alignment explanation
Indices: 6260005--6260321 Score: 159
Period size: 47 Copynumber: 6.7 Consensus size: 46
6259995 GGATTATATG
* *
6260005 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACA
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGACA
*
6260053 AGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATG---
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTGA-GACA
* * * * * **
6260099 ATAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATAGAGAGG
1 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGACA
* * * * * *
6260147 AGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGC-CTCA-ATCA
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGA-CA
* * * * *
6260192 TGATAGCTAGTGTAAGACGTTTCTGGGACATGCATCAG--TTAAG-CTT
1 --AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGAC-A
* * * * * *
6260238 TGTGCTAGTGTAAGACATGTTTGGGACATGCATCAACA-CGTATACA
1 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTG-AGACA
*
6260284 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 --AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
6260322 GTCCTCGATG
Statistics
Matches: 203, Mismatches: 43, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
44 30 0.15
45 6 0.03
46 31 0.15
47 68 0.33
48 46 0.23
49 17 0.08
50 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACA
Found at i:6260113 original size:94 final size:95
Alignment explanation
Indices: 6260002--6260321 Score: 348
Period size: 94 Copynumber: 3.4 Consensus size: 95
6259992 ATTGGATTAT
*
6260002 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACAAGGGCTAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACAAGTGCTAGTGTAAG
* *
6260067 ACATGTCTGGGACATGCATCAGCCAC-ATT
66 ACATGTTTGGGACATGCATCAGCCACAATC
* * * * * ** *
6260096 ATGATAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATAGAGAGGAGTGCCAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACAAGTGCTAGTGTAAG
* *
6260161 ACATGTTTGGGACATGCATCGGCCTCAATC
66 ACATGTTTGGGACATGCATCAGCCACAATC
* * * * * * **
6260191 ATGATAGCTAGTGTAAGA-CGTTTCTGGGACAT-GCATCAG--TTAAG-CTTTGTGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGAC-AAGTGCTAGTGTAA
* *
6260251 GACATGTTTGGGACATGCATCA-ACACGTATAC
65 GACATGTTTGGGACATGCATCAGCCAC-AAT-C
*
6260283 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
6260322 GTCCTCGATG
Statistics
Matches: 188, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
90 2 0.01
91 37 0.20
92 18 0.10
93 17 0.09
94 95 0.51
95 19 0.10
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (95 bp):
ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACAAGTGCTAGTGTAAG
ACATGTTTGGGACATGCATCAGCCACAATC
Found at i:6260321 original size:141 final size:142
Alignment explanation
Indices: 6260002--6260370 Score: 335
Period size: 141 Copynumber: 2.6 Consensus size: 142
6259992 ATTGGATTAT
* * * **
6260002 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGA-CA-AGGGCTAGTGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTCA-ATCAGATAGCTAGTGTA
* *
6260065 AGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGGGATATG
64 AGACATGTCTGGGACATGCATCAGCAACATTATGATAGCCAGTGTAAGACCATGTCTGGGACATG
** *
6260130 GCATCGGCATAGAG
129 GCATCAACATAGAC
* * * *
6260144 AGGAGTGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCAATCATGATAGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATCA-GATAGCTAGTGTAA
* * * * *
6260207 GACGTTTCTGGGACATGCATCAGTTAAGC-TT-TG-T-GCTAGTGTAAGA-CATGTTTGGGACAT
65 GACATGTCTGGGACATGCATCAG-CAA-CATTATGATAGCCAGTGTAAGACCATGTCTGGGACAT
*
6260267 -GCATCAACACGTATAC
128 GGCATCAACA--TAGAC
* * * * *
6260283 ATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGTCCTCGATGAAGATAGCCAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAT-CAGATAGCTAGTGTAA
* *
6260348 GGCCATGTTTGGGACATGGCATC
65 -GACATGTCTGGGACAT-GCATC
6260371 GGTAACTTAA
Statistics
Matches: 182, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
137 7 0.04
138 13 0.07
139 33 0.18
140 20 0.11
141 71 0.39
142 32 0.18
143 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (142 bp):
ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATCAGATAGCTAGTGTAAG
ACATGTCTGGGACATGCATCAGCAACATTATGATAGCCAGTGTAAGACCATGTCTGGGACATGGC
ATCAACATAGAC
Found at i:6263675 original size:9 final size:9
Alignment explanation
Indices: 6263661--6263686 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6263651 GCATCGAGAC
6263661 TTTGTTCAT
1 TTTGTTCAT
6263670 TTTGTTCAT
1 TTTGTTCAT
6263679 TTTGTTCA
1 TTTGTTCA
6263687 ATGGCATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (9 bp):
TTTGTTCAT
Found at i:6277445 original size:29 final size:29
Alignment explanation
Indices: 6277403--6277479 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
6277393 GAATAATTAT
* *
6277403 CATGACCCAAAGCCAAATCATCCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
6277432 CATGGCCCGAAGCCAAATCATCCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
*
6277461 CATGGCCTGAAGCCAAATC
1 CATGGCCCGAAGCCAAATC
6277480 GGTATAACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.17
Consensus pattern (29 bp):
CATGGCCCGAAGCCAAATCATCCGATATG
Found at i:6281635 original size:20 final size:21
Alignment explanation
Indices: 6281610--6281656 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
6281600 TCACTTAACA
6281610 AAACATGCATAACT-ATCATC
1 AAACATGCATAACTCATCATC
** *
6281630 AAACATTTATAATTCATCATC
1 AAACATGCATAACTCATCATC
6281651 AAACAT
1 AAACAT
6281657 CAAAATACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (21 bp):
AAACATGCATAACTCATCATC
Found at i:6286947 original size:12 final size:14
Alignment explanation
Indices: 6286932--6286963 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6286922 GTGAGAACAC
6286932 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
6286944 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
6286958 ATGTGT
1 ATGTGT
6286964 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:6287010 original size:52 final size:50
Alignment explanation
Indices: 6286929--6287063 Score: 153
Period size: 52 Copynumber: 2.7 Consensus size: 50
6286919 ATTGTGAGAA
* * ** *
6286929 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAG--TTAGGT
* * *
6286981 CACATGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
* * *
6287031 CGCATGTGAAGTACTAAGTCCAGGCTACTATGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGT
6287064 AATATCCTGA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
50 34 0.49
52 36 0.51
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
Found at i:6288405 original size:46 final size:46
Alignment explanation
Indices: 6288355--6288527 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
6288345 TGGTTGAGCA
6288355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
6288401 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
6288446 CATCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
6288494 CCCGAGCTCGTTGAGTTGATTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
6288528 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.55
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:6288511 original size:93 final size:93
Alignment explanation
Indices: 6288352--6288522 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
6288342 GGATGGTTGA
* *
6288352 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
6288417 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
6288445 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
* *
6288510 TGATTTCGAGTTC
66 TGAGTCCGAGTTC
6288523 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6289953 original size:50 final size:49
Alignment explanation
Indices: 6289867--6289997 Score: 133
Period size: 50 Copynumber: 2.7 Consensus size: 49
6289857 GCAACTTCAA
* * *
6289867 TCACGTGTGTACTACTAAATGCAAGCTACTATGTGTATCA-AATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAT-AGAATGGTT-GG
* * *
6289917 TCACGTGTGTAGTACTAAGTGCAGGCTA-TTTCGTGTATAGGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAT-GTGTATAGAATGGTTGG
* * *
6289966 TCGCATGCGTAGTACTAAGT-CAGGCTACTATG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATG
6289998 CGTACCAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
48 8 0.12
49 24 0.35
50 36 0.53
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATAGAATGGTTGG
Found at i:6290219 original size:16 final size:15
Alignment explanation
Indices: 6290198--6290227 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6290188 GAATGGAGAT
6290198 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
6290214 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
6290228 TAAACCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:6292266 original size:29 final size:29
Alignment explanation
Indices: 6292205--6292294 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
6292195 ACATACATGT
* *
6292205 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
6292233 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
6292262 TTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
6292291 ATAT
1 ATAT
6292295 TCATGATTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:6296111 original size:27 final size:27
Alignment explanation
Indices: 6296080--6296257 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
6296070 TAAATTGTAC
6296080 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
6296107 TGCACTGAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6296133 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6296161 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
6296189 GGCACTTAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6296216 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6296243 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6296258 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6296194 original size:82 final size:81
Alignment explanation
Indices: 6296081--6296236 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
6296071 AAATTGTACA
* *
6296081 GCACTAAGTGTGCGATTTGACTATGTTGCACTGAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6296145 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
6296162 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTTAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6296227 TGCGAGTTGA
65 TGCGAATTGA
6296237 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6296248 original size:82 final size:81
Alignment explanation
Indices: 6296077--6296257 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
6296067 GATTAAATTG
* *
6296077 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTGAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGATGCACTAA
6296142 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
6296158 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTTAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGAT-GCACT
* **
6296222 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6296240 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6296258 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTGAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6302163 original size:29 final size:30
Alignment explanation
Indices: 6302108--6302164 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
6302098 GCATTTTGAA
* *
6302108 AATATTTACAAAAAGAGGCATCTAATTTAT
1 AATATTTACAAAAAGAGGCACCAAATTTAT
6302138 AATATTTAC-AAAAGA-GCAACCAAATTT
1 AATATTTACAAAAAGAGGC-ACCAAATTT
6302165 TAAAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 13 0.54
30 9 0.38
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTAT
Found at i:6304692 original size:13 final size:13
Alignment explanation
Indices: 6304674--6304698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6304664 CGGGTACTTG
6304674 TCAGCTTGAGTAA
1 TCAGCTTGAGTAA
6304687 TCAGCTTGAGTA
1 TCAGCTTGAGTA
6304699 GTTACGTCCT
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:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (13 bp):
TCAGCTTGAGTAA
Found at i:6310396 original size:46 final size:45
Alignment explanation
Indices: 6310247--6310467 Score: 205
Period size: 46 Copynumber: 4.8 Consensus size: 45
6310237 GGTAAGGTGT
* * * *
6310247 CGATGCCATGTCCCAGACATGGCCTTACACTAACTATCAT-TTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTT-AT-GC
* * * * *
6310295 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCT-TATGC
*
6310341 CGATGCATGTCCC-GACATGTCTTACACTAGCTCTCATCTTAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTT-ATGC
* **
6310386 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATAATATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTTAT-GC
*
6310434 CGATGCATGTCCCGGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
6310468 ACAAACAAAT
Statistics
Matches: 144, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 29 0.20
46 51 0.35
47 34 0.24
48 30 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTTATGC
Found at i:6310616 original size:10 final size:10
Alignment explanation
Indices: 6310601--6310630 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6310591 ATATTAACTT
6310601 AATACAATTC
1 AATACAATTC
6310611 AATACAATTC
1 AATACAATTC
6310621 AATAC-ATTC
1 AATACAATTC
6310630 A
1 A
6310631 TTAACAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (10 bp):
AATACAATTC
Found at i:6316405 original size:24 final size:24
Alignment explanation
Indices: 6316357--6316406 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6316347 TCACTATATG
* *
6316357 AAAACATAATTTATAATCGTTAGT
1 AAAACATAATTTATAATCATCAGT
6316381 AAAACATAATTTATAATCATCAGT
1 AAAACATAATTTATAATCATCAGT
6316405 AA
1 AA
6316407 TCGTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (24 bp):
AAAACATAATTTATAATCATCAGT
Done.