Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 33 of 127
Found at i:6844847 original size:29 final size:30
Alignment explanation
Indices: 6844724--6844847 Score: 89
Period size: 29 Copynumber: 4.1 Consensus size: 30
6844714 ATTTATGTTA
*
6844724 AAAATTTATTTAAATATAAAT--TAAAGATT
1 AAAATTTATTTAAATA-AAATAATAAAAATT
*
6844753 AAAATTT-TTTAATATAAATTAAATTTTAAAAATT
1 AAAATTTATTTAA-ATAAAAT-AA---TAAAAATT
* * * *
6844787 -TATTTGTATGTAAATAAAA-AATAAAAAAT
1 AAAATT-TATTTAAATAAAATAATAAAAATT
6844816 AAAATTTATTTAAATAAAATAAT-AAAATT
1 AAAATTTATTTAAATAAAATAATAAAAATT
6844845 AAA
1 AAA
6844848 GAAATTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
28 8 0.11
29 37 0.51
30 6 0.08
32 2 0.03
33 3 0.04
34 13 0.18
35 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (30 bp):
AAAATTTATTTAAATAAAATAATAAAAATT
Found at i:6844852 original size:22 final size:21
Alignment explanation
Indices: 6844801--6844852 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
6844791 TGTATGTAAA
6844801 TAAAAAATAAAAAATAAAATT
1 TAAAAAATAAAAAATAAAATT
**
6844822 TATTTAAATAAAATAATAAAA-T
1 TA-AAAAATAAAA-AATAAAATT
6844844 TAAAGAAAT
1 TAAA-AAAT
6844853 TTTTTGTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAATAAAAAATAAAATT
Found at i:6855147 original size:10 final size:10
Alignment explanation
Indices: 6855134--6855167 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6855124 ATAAATTAAA
6855134 TTATATATTT
1 TTATATATTT
6855144 TTATATATTT
1 TTATATATTT
*
6855154 TT-TAAATTT
1 TTATATATTT
6855163 TTATA
1 TTATA
6855168 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATATATTT
Found at i:6855224 original size:13 final size:13
Alignment explanation
Indices: 6855205--6855244 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6855195 ATTTACTTAA
6855205 ATATATTAAAATT
1 ATATATTAAAATT
* *
6855218 TTATATTAAAATA
1 ATATATTAAAATT
*
6855231 ATATATAAAAATT
1 ATATATTAAAATT
6855244 A
1 A
6855245 AAAATCGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:6855249 original size:33 final size:33
Alignment explanation
Indices: 6855170--6855249 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 33
6855160 TTTTTATAAA
* *
6855170 ATAAAAA-TAATAATTTTATATCAAAATTTACT
1 ATAAAAATTAAAAATTTTATATCAAAATATACT
*
6855202 -TAAATATATT-AAAATTTTATATTAAAATAATA-T
1 ATAAA-A-ATTAAAAATTTTATATCAAAAT-ATACT
6855235 ATAAAAATTAAAAAT
1 ATAAAAATTAAAAAT
6855250 CGATAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 24 0.62
34 7 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAAAAATTAAAAATTTTATATCAAAATATACT
Found at i:6856963 original size:11 final size:12
Alignment explanation
Indices: 6856946--6856998 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
6856936 ATTATTTAGG
*
6856946 TAAAAATTATAA
1 TAAAAATTTTAA
6856958 -AAAAATTTTAA
1 TAAAAATTTTAA
6856969 -AAATTAA-TTTAA
1 TAAA--AATTTTAA
6856981 TAAAAATTTTAA
1 TAAAAATTTTAA
6856993 TAAAAA
1 TAAAAA
6856999 ATTCAAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 15 0.42
12 16 0.44
13 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAATTTTAA
Found at i:6857001 original size:24 final size:23
Alignment explanation
Indices: 6856947--6857001 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
6856937 TTATTTAGGT
6856947 AAAAATTATAAAAAAATTTTAAA
1 AAAAATTATAAAAAAATTTTAAA
*
6856970 AATTAATT-TAATAAAAATTTTAATA
1 AA-AAATTATAA-AAAAATTTTAA-A
6856995 AAAAATT
1 AAAAATT
6857002 CAAATCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.19
24 19 0.70
25 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATTATAAAAAAATTTTAAA
Found at i:6859953 original size:61 final size:61
Alignment explanation
Indices: 6859804--6859978 Score: 167
Period size: 61 Copynumber: 2.9 Consensus size: 61
6859794 TTTTTTTAGA
* ** ** *
6859804 ATTATTTAAGATATTTTTTGACAAAAAATACCTTAAATAATCTAATTCAATTTTGTAAAAG
1 ATTATTTAAGATATTTTTTGACTAAAAATACCTTAAATAATCTAATAAAAAATTGTAAAAC
* ** *
6859865 ATTATTTAAGGAT-TTTTTT-AGTCAAAAATACCTTAAATAATCTCCTAAAAAATTG-ATTAAC
1 ATTATTTAA-GATATTTTTTGACT-AAAAATACCTTAAATAATCTAATAAAAAATTGTA-AAAC
* * * **
6859926 ATTATTTAAGATATTTTTTGACTAAAAATATCATAAAAAATCTTTTAAAAAAT
1 ATTATTTAAGATATTTTTTGACTAAAAATACCTTAAATAATCTAATAAAAAAT
6859979 CTTATAAGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
60 5 0.05
61 83 0.89
62 5 0.05
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (61 bp):
ATTATTTAAGATATTTTTTGACTAAAAATACCTTAAATAATCTAATAAAAAATTGTAAAAC
Found at i:6860427 original size:22 final size:24
Alignment explanation
Indices: 6860381--6860430 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6860371 AAAAATTAAT
* *
6860381 AAAAAATTATCATCATATATGTCA
1 AAAAAATTATAATAATATATGTCA
6860405 AAAAAATTATAATAAT-TAT-TCA
1 AAAAAATTATAATAATATATGTCA
6860427 AAAA
1 AAAA
6860431 TTAATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 3 0.12
24 14 0.58
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAAAATTATAATAATATATGTCA
Found at i:6862532 original size:41 final size:40
Alignment explanation
Indices: 6862456--6862538 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 40
6862446 AAATTCAAAA
* * *
6862456 AAAAAAGAAAAAGAAAAAGAAAGAAGAACTCAGGGA-GAG
1 AAAAAAGAAAAAAAAAAAGAAAGAACAACTAAGGGATGAG
*
6862495 AAAAAAGAAAGAAAAAAAAGGAAGAGACAACTAAGGGATGAG
1 AAAAAAGAAA-AAAAAAAAGAAAGA-ACAACTAAGGGATGAG
6862537 AA
1 AA
6862539 GGTGATGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.27
40 12 0.32
41 10 0.27
42 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.25, T:0.04
Consensus pattern (40 bp):
AAAAAAGAAAAAAAAAAAGAAAGAACAACTAAGGGATGAG
Found at i:6871678 original size:36 final size:36
Alignment explanation
Indices: 6871635--6871714 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
6871625 TTCACCAAAT
* * *
6871635 ATATTTTTTAGAAAAGAAAAGATAGA-AAAACAAAAA
1 ATATTTTTTAAAAAAGAAAA-AAAAATAAAACAAAAA
* *
6871671 CTA-TTTTTAAAAAATAAAAAAAAATAAAACAAAAA
1 ATATTTTTTAAAAAAGAAAAAAAAATAAAACAAAAA
6871706 ATATTTTTT
1 ATATTTTTT
6871715 CAACGAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
34 3 0.08
35 26 0.72
36 7 0.19
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (36 bp):
ATATTTTTTAAAAAAGAAAAAAAAATAAAACAAAAA
Found at i:6873856 original size:42 final size:42
Alignment explanation
Indices: 6873777--6873860 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
6873767 TATATTTTCA
*
6873777 ATAAAAATTATATTTTTATCGTAGAAGTATTGCTTTTTTTTT
1 ATAAAAATTATATTTTTATCGTAGAAGAATTGCTTTTTTTTT
*
6873819 ATAAAAATTATATTTTTTATCTTA-AA-AA-TGTCTTTTTTTTT
1 ATAAAAATTATA-TTTTTATCGTAGAAGAATTG-CTTTTTTTTT
6873860 A
1 A
6873861 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
40 2 0.05
41 12 0.32
42 14 0.37
43 10 0.26
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (42 bp):
ATAAAAATTATATTTTTATCGTAGAAGAATTGCTTTTTTTTT
Found at i:6874016 original size:112 final size:113
Alignment explanation
Indices: 6873900--6874103 Score: 245
Period size: 112 Copynumber: 1.8 Consensus size: 113
6873890 AAATTATGCA
* * *
6873900 TTTTTATCTTATAAACATCATATTTTCAACAAAA-AATGCATTTTTATTTTTAAAAA-AGTCACT
1 TTTTTATCTTAGAAACATCATATTTTCAACAAAAGAATACATTTTTA-TATTAAAAACA-TCA-T
* *
6873963 -TTTGTTGAATTTTAAAAAAT-ATTTTTTTATATTTTTAACAAATATTACG
63 ATTTGTTAAATTCTAAAAAATAATTTTTTTATATTTTTAACAAATATTACG
* * * ** * *
6874012 TTTTTATTTTAGATATATTGTATTTTCAATAAAAGACTACATTTTTATATTAAAAACATCATATT
1 TTTTTATCTTAGAAACATCATATTTTCAACAAAAGAATACATTTTTATATTAAAAACATCATATT
6874077 TGTTAAATTCTAAAAAATAATTTTTTT
66 TGTTAAATTCTAAAAAATAATTTTTTT
6874104 CATTAAAGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
111 1 0.01
112 56 0.74
113 19 0.25
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (113 bp):
TTTTTATCTTAGAAACATCATATTTTCAACAAAAGAATACATTTTTATATTAAAAACATCATATT
TGTTAAATTCTAAAAAATAATTTTTTTATATTTTTAACAAATATTACG
Found at i:6875163 original size:18 final size:18
Alignment explanation
Indices: 6875136--6875175 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6875126 AAGCTTTTTA
* *
6875136 TTTAAATATATTTATTAT
1 TTTAAATATAATTACTAT
*
6875154 TTTAATTATAATTACTAT
1 TTTAAATATAATTACTAT
6875172 TTTA
1 TTTA
6875176 CCCTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAAATATAATTACTAT
Found at i:6876310 original size:15 final size:15
Alignment explanation
Indices: 6876266--6876313 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
6876256 AAATAAATAC
6876266 AATTAAATTATATTAA
1 AATTAAA-TATATTAA
6876282 TAATTAAA-ATATTAA
1 -AATTAAATATATTAA
6876297 AATTAAATGA-ATTAA
1 AATTAAAT-ATATTAA
6876312 AA
1 AA
6876314 GTCATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.24
15 14 0.48
16 1 0.03
17 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATTAAATATATTAA
Found at i:6880698 original size:52 final size:53
Alignment explanation
Indices: 6880632--6880788 Score: 189
Period size: 52 Copynumber: 3.0 Consensus size: 53
6880622 TGGACAAAAA
* * *
6880632 GACTTGCAAAAGAAGAATTTC-AAAAG-AAAGATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTTCTAAAAGAAAAG-GGATTCTTAATAGGCAAGTTT
6880684 GACTTGCAAGAGAAGAA-TTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTT
** * * *
6880736 GACTTATAAGAGAAGAA-TTCTAAGAGGAGAGGGATTCTTAAT-GGTCAAGTTT
1 GACTTGCAAGAGAAGAATTTCTAAAAGAAAAGGGATTCTTAATAGG-CAAGTTT
6880788 G
1 G
6880789 TATGGTTATA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 5 0.05
52 85 0.90
53 4 0.04
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTT
Found at i:6881325 original size:31 final size:31
Alignment explanation
Indices: 6881274--6881358 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
6881264 AGGCTTTTAG
* * *
6881274 CCCAACAAATAGTATCAGAGCTGTGGTATTT
1 CCCAACAAGTGGTATCAGAGCTGTGGTATTC
* * *
6881305 CCTAACAAGTGGTATTAGAGCTGTGGTGTTC
1 CCCAACAAGTGGTATCAGAGCTGTGGTATTC
6881336 CCCAACAAGTGGTATCAGAGCTG
1 CCCAACAAGTGGTATCAGAGCTG
6881359 AAGGTTCGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (31 bp):
CCCAACAAGTGGTATCAGAGCTGTGGTATTC
Found at i:6881660 original size:11 final size:11
Alignment explanation
Indices: 6881644--6881675 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6881634 AAATCCCATA
6881644 AGAGATTTGTT
1 AGAGATTTGTT
6881655 AGAGATTTGTT
1 AGAGATTTGTT
*
6881666 TGAGATTTGT
1 AGAGATTTGT
6881676 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:6881780 original size:52 final size:53
Alignment explanation
Indices: 6881700--6881856 Score: 203
Period size: 52 Copynumber: 3.0 Consensus size: 53
6881690 TGGACAAGAA
* * * *
6881700 GACTTGCAAAATAAGAATTTTAAGAGAAAGAT-GATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGATGGATTCTTAATAGGCAAGTTT
*
6881752 GACTTGCAAGAGAAGAATTCTAAAAGAAA-ATGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGATGGATTCTTAATAGGCAAGTTT
** * * *
6881804 GACTTATAGGAGAAGAATTCTAAGAG-GAGATGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGATGGATTCTTAATAGGCAAGTTT
6881856 G
1 G
6881857 TATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.03
52 89 0.97
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (53 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGATGGATTCTTAATAGGCAAGTTT
Found at i:6883087 original size:23 final size:23
Alignment explanation
Indices: 6883048--6883092 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6883038 TCCACATCTT
*
6883048 AGCAGTGTGTACAAATAAATTAA
1 AGCAGTGTGAACAAATAAATTAA
6883071 AGCAGT-TGAACATAATAAATTA
1 AGCAGTGTGAACA-AATAAATTA
6883093 CCATTTGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (23 bp):
AGCAGTGTGAACAAATAAATTAA
Found at i:6887884 original size:17 final size:17
Alignment explanation
Indices: 6887862--6887895 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6887852 CTTAGTTTTC
6887862 TTTCCATTAACAAAGAA
1 TTTCCATTAACAAAGAA
6887879 TTTCCATTAACAAAGAA
1 TTTCCATTAACAAAGAA
6887896 AATGGAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
TTTCCATTAACAAAGAA
Found at i:6889064 original size:18 final size:17
Alignment explanation
Indices: 6889029--6889068 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
6889019 CATTATATTT
*
6889029 ATAATACTAACACGTGA
1 ATAATACTAACACATGA
*
6889046 ATAATACATGACACATGA
1 ATAATAC-TAACACATGA
6889064 ATAAT
1 ATAAT
6889069 TTGTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (17 bp):
ATAATACTAACACATGA
Found at i:6889499 original size:112 final size:111
Alignment explanation
Indices: 6889332--6889579 Score: 243
Period size: 112 Copynumber: 2.2 Consensus size: 111
6889322 ATCTTATAAT
* * ** *** ** *
6889332 TTTTTTTTCATATTTTCAATAAAGATTGTATTTTTATCTTAGAAGTATTGTCTTTTTTATAAAAA
1 TTTTTTTTCATATTTTCAACAAAGATTGCATTTTTATCTTAGAAACATCACCTTTTCAACAAAAA
*
6889397 ATAT-ATATTTTTATCTTAAAAACATCATTTTTATTAAATTCTG-AAA
66 A-ATCAT-TTTTTATCTTAAAAACATCACTTTTATTAAATTCTGAAAA
* *
6889443 TTTTTTTTACATATTTTCAACAAA-TTATGCATTTTTATCTTATAAACATCACCTTTTCAACAAA
1 TTTTTTTT-CATATTTTCAACAAAGAT-TGCATTTTTATCTTAGAAACATCACCTTTTCAACAAA
* * * * *
6889507 AAAATGCATTTTTTATTTTAAAAACGTCACTTTTGTTGAATTGTGAAAAA
64 AAAAT-CATTTTTTATCTTAAAAACATCACTTTTATTAAATTCTG-AAAA
6889557 TATTTTTTT-ATATTTTCAACAAA
1 T-TTTTTTTCATATTTTCAACAAA
6889580 ATATTGTGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
111 11 0.10
112 74 0.66
113 16 0.14
114 4 0.04
115 7 0.06
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (111 bp):
TTTTTTTTCATATTTTCAACAAAGATTGCATTTTTATCTTAGAAACATCACCTTTTCAACAAAAA
AATCATTTTTTATCTTAAAAACATCACTTTTATTAAATTCTGAAAA
Found at i:6889540 original size:41 final size:40
Alignment explanation
Indices: 6889456--6889540 Score: 100
Period size: 42 Copynumber: 2.1 Consensus size: 40
6889446 TTTTTACATA
** *
6889456 TTTTCAACAAATTATGCATTTTTATCTTATAAACATCACC
1 TTTTCAACAAAAAATGCATTTTTATCTTAAAAACATCACC
* *
6889496 TTTTCAACAAAAAAATGCATTTTTTATTTTAAAAACGTCA-C
1 TTTTCAAC-AAAAAATGCA-TTTTTATCTTAAAAACATCACC
6889537 TTTT
1 TTTT
6889541 GTTGAATTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
40 8 0.21
41 13 0.34
42 17 0.45
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (40 bp):
TTTTCAACAAAAAATGCATTTTTATCTTAAAAACATCACC
Found at i:6890755 original size:18 final size:18
Alignment explanation
Indices: 6890728--6890767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6890718 AAGCTTTTTA
* *
6890728 TTTAAATATATTTATTAT
1 TTTAAATATAATTACTAT
*
6890746 TTTAATTATAATTACTAT
1 TTTAAATATAATTACTAT
6890764 TTTA
1 TTTA
6890768 CCCTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAAATATAATTACTAT
Found at i:6891880 original size:17 final size:16
Alignment explanation
Indices: 6891858--6891898 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
6891848 TCAAATAAAT
6891858 ATAATTAAATTATATTA
1 ATAATTAAA-TATATTA
6891875 ATAATTAAA-ATATTA
1 ATAATTAAATATATTA
6891890 A-AATTAAAT
1 ATAATTAAAT
6891899 GAATTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
17 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTAAATATATTA
Found at i:6895934 original size:2 final size:2
Alignment explanation
Indices: 6895927--6895989 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
6895917 TAATTTGATA
6895927 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6895969 CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT C
6895990 GTTGAAAATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6898257 original size:20 final size:20
Alignment explanation
Indices: 6898232--6898270 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6898222 TTCAAAGTTT
*
6898232 TTTTTTATTGTTTTTATCTA
1 TTTTTTATTGTTTTAATCTA
6898252 TTTTTTATTGTTTTAATCT
1 TTTTTTATTGTTTTAATCT
6898271 TTTAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTTATTGTTTTAATCTA
Found at i:6898291 original size:15 final size:15
Alignment explanation
Indices: 6898271--6898301 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6898261 GTTTTAATCT
6898271 TTTAGAAAAATTAGC
1 TTTAGAAAAATTAGC
6898286 TTTAGAAAAATTAGC
1 TTTAGAAAAATTAGC
6898301 T
1 T
6898302 ATCAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (15 bp):
TTTAGAAAAATTAGC
Found at i:6900883 original size:11 final size:12
Alignment explanation
Indices: 6900860--6900886 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6900850 ATTATTTAAT
6900860 AATTTGAAAAAA
1 AATTTGAAAAAA
6900872 AATTTGAAAAAA
1 AATTTGAAAAAA
6900884 AAT
1 AAT
6900887 ATAAATCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (12 bp):
AATTTGAAAAAA
Found at i:6901290 original size:2 final size:2
Alignment explanation
Indices: 6901254--6901278 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6901244 ATGTATATGT
6901254 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6901279 GCACATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6903750 original size:19 final size:20
Alignment explanation
Indices: 6903715--6903753 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6903705 ATTTTCTGCC
6903715 AAATATACAAACACAACAAA
1 AAATATACAAACACAACAAA
6903735 AAATA-ACAAA-ATCAACAAA
1 AAATATACAAACA-CAACAAA
6903754 CCTCTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 12 0.67
20 5 0.28
ACGTcount: A:0.72, C:0.18, G:0.00, T:0.10
Consensus pattern (20 bp):
AAATATACAAACACAACAAA
Found at i:6906519 original size:25 final size:25
Alignment explanation
Indices: 6906491--6906544 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
6906481 AAATTTTAAC
**
6906491 AATTACAAGCAGTTCTTTAATTGAA
1 AATTACAAGCAACTCTTTAATTGAA
*
6906516 AATTGCAAGCAACTCTTTAATTGAA
1 AATTACAAGCAACTCTTTAATTGAA
6906541 AATT
1 AATT
6906545 TTGGACGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (25 bp):
AATTACAAGCAACTCTTTAATTGAA
Found at i:6906914 original size:21 final size:20
Alignment explanation
Indices: 6906890--6906976 Score: 68
Period size: 21 Copynumber: 4.2 Consensus size: 20
6906880 TAAAAGTTTA
*
6906890 GTAACATTTAATATAATTTTC
1 GTAAC-TTTAATATAATTTTG
* *
6906911 GTAACTTTCAATATTAGTTTG
1 GTAACTTT-AATATAATTTTG
* *
6906932 ATAACTTATGATATAATTTTG
1 GTAACTT-TAATATAATTTTG
* *
6906953 GTAACAATTGATA-AATTTTG
1 GTAAC-TTTAATATAATTTTG
6906973 GTAA
1 GTAA
6906977 TCTCTCGATA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.26
21 38 0.70
22 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (20 bp):
GTAACTTTAATATAATTTTG
Found at i:6907085 original size:22 final size:22
Alignment explanation
Indices: 6907018--6907088 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
6907008 TGATAACTTA
* *
6907018 TGATATAATTTTGGTAATTTTT
1 TGATATAATTTTAGTAACTTTT
* * *
6907040 TTATAAAATTTTAATAAAC-TTT
1 TGATATAATTTTAGT-AACTTTT
6907062 TGATATAATTTTAGTAACTTTT
1 TGATATAATTTTAGTAACTTTT
6907084 TGATA
1 TGATA
6907089 GTTTATTATA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.08
22 34 0.87
23 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (22 bp):
TGATATAATTTTAGTAACTTTT
Found at i:6907171 original size:20 final size:20
Alignment explanation
Indices: 6907146--6907185 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6907136 TAAATAAATT
6907146 GATAAAATTA-TATATTTAAA
1 GATAAAATTATTA-ATTTAAA
*
6907166 GATAAATTTATTAATTTAAA
1 GATAAAATTATTAATTTAAA
6907186 AATTTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
GATAAAATTATTAATTTAAA
Found at i:6912181 original size:19 final size:20
Alignment explanation
Indices: 6912142--6912184 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
6912132 CAAATTGAAT
*
6912142 TAATATTTTTATTAGTTTTTA
1 TAATATTTTTA-TAATTTTTA
6912163 TAATATTTTTA-AATTTTTA
1 TAATATTTTTATAATTTTTA
6912182 TAA
1 TAA
6912185 ATAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TAATATTTTTATAATTTTTA
Found at i:6915002 original size:21 final size:20
Alignment explanation
Indices: 6914972--6915011 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6914962 AATATATAAA
6914972 AAATAACTAA-ATAATCAAAC
1 AAATAACTAACA-AATCAAAC
6914992 AAATAAACTAACAAATCAAA
1 AAAT-AACTAACAAATCAAA
6915012 ATACATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAACTAACAAATCAAAC
Found at i:6917302 original size:10 final size:10
Alignment explanation
Indices: 6917287--6917318 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6917277 CATACCGTAA
*
6917287 ATATATATAT
1 ATATATACAT
6917297 ATATATACAT
1 ATATATACAT
6917307 ATATATACAT
1 ATATATACAT
6917317 AT
1 AT
6917319 TATGATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATACAT
Found at i:6917435 original size:21 final size:21
Alignment explanation
Indices: 6917411--6917538 Score: 71
Period size: 21 Copynumber: 6.0 Consensus size: 21
6917401 TTGATTTTGA
*
6917411 TAACTTTTGATAAAATTTTAG
1 TAACTTTTGATATAATTTTAG
* *
6917432 TAACATTTAATATAATTTTCA-
1 TAACTTTTGATATAATTTT-AG
** * *
6917453 TAACTTTCAATATTAGTTT-G
1 TAACTTTTGATATAATTTTAG
* *
6917473 ATAACTTATGATATAATTTTGG
1 -TAACTTTTGATATAATTTTAG
** * *
6917495 TAACAATTGATAAAATTTTGG
1 TAACTTTTGATATAATTTTAG
* * *
6917516 TAATCTCTCGATGTAATTTTAG
1 TAA-CTTTTGATATAATTTTAG
6917538 T
1 T
6917539 TATTAACTTT
Statistics
Matches: 80, Mismatches: 22, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
21 65 0.81
22 15 0.19
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (21 bp):
TAACTTTTGATATAATTTTAG
Found at i:6917571 original size:21 final size:21
Alignment explanation
Indices: 6917547--6917644 Score: 79
Period size: 21 Copynumber: 4.6 Consensus size: 21
6917537 GTTATTAACT
*
6917547 TTTTGATAACTTATGATATAA
1 TTTTAATAACTTATGATATAA
**
6917568 TTTTAATAACCCATGATATAA
1 TTTTAATAACTTATGATATAA
** * * * *
6917589 TTTTGGTAATTTTTTTATAAAA
1 TTTTAATAA-CTTATGATATAA
*
6917611 TTTTAATAAACTTTTGATATAA
1 TTTTAAT-AACTTATGATATAA
*
6917633 TTTTAGTAACTT
1 TTTTAATAACTT
6917645 TTTGATAGTT
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
21 30 0.52
22 26 0.45
23 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTAATAACTTATGATATAA
Found at i:6917645 original size:21 final size:21
Alignment explanation
Indices: 6917547--6917651 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 21
6917537 GTTATTAACT
* *
6917547 TTTTGATAACTTATGATATAA
1 TTTTAATAACTTTTGATATAA
***
6917568 TTTTAATAACCCATGATATAA
1 TTTTAATAACTTTTGATATAA
** * * *
6917589 TTTTGGTAATTTTTTTATAAAA
1 TTTTAATAA-CTTTTGATATAA
6917611 TTTTAATAAACTTTTGATATAA
1 TTTTAAT-AACTTTTGATATAA
*
6917633 TTTTAGTAACTTTTTGATA
1 TTTTAATAAC-TTTTGATA
6917652 GTTTATTATA
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
21 28 0.44
22 34 0.53
23 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTTAATAACTTTTGATATAA
Found at i:6917734 original size:20 final size:20
Alignment explanation
Indices: 6917709--6917748 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6917699 TAAATAAATT
6917709 GATAAAATTA-TATATTTAAA
1 GATAAAATTATTA-ATTTAAA
*
6917729 GATAAATTTATTAATTTAAA
1 GATAAAATTATTAATTTAAA
6917749 AATTTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
GATAAAATTATTAATTTAAA
Found at i:6922630 original size:11 final size:11
Alignment explanation
Indices: 6922611--6922663 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
6922601 TTGATTTTTT
*
6922611 ATTATATTTAA
1 ATTAAATTTAA
6922622 ATTAAATTTAAA
1 ATTAAATTT-AA
* *
6922634 TATTAAATATAT
1 -ATTAAATTTAA
6922646 ATTAAATTTAA
1 ATTAAATTTAA
*
6922657 ATCAAAT
1 ATTAAAT
6922664 CGGATAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 23 0.68
12 3 0.09
13 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:6922712 original size:17 final size:16
Alignment explanation
Indices: 6922683--6922716 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6922673 TTTTGGATCC
*
6922683 AAAAATAAAAAATTGA
1 AAAAAAAAAAAATTGA
6922699 AAAAAAAAACAAATTGA
1 AAAAAAAAA-AAATTGA
6922716 A
1 A
6922717 TTATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAAAAAAAAAATTGA
Found at i:6922737 original size:10 final size:10
Alignment explanation
Indices: 6922718--6922757 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
6922708 CAAATTGAAT
6922718 TATATTTTTA
1 TATATTTTTA
6922728 T-TAGTTTTTA
1 TATA-TTTTTA
6922738 TATATTTTTA
1 TATATTTTTA
6922748 -A-ATTTTTA
1 TATATTTTTA
6922756 TA
1 TA
6922758 AATAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.26
9 4 0.15
10 14 0.52
11 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TATATTTTTA
Found at i:6926080 original size:14 final size:14
Alignment explanation
Indices: 6926063--6926090 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6926053 TGAAATTTAA
6926063 ATTTTTAAAAATTT
1 ATTTTTAAAAATTT
6926077 ATTTTTAAAAATTT
1 ATTTTTAAAAATTT
6926091 GTATGAAAAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTAAAAATTT
Found at i:6930716 original size:2 final size:2
Alignment explanation
Indices: 6930709--6930756 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6930699 CCCTTTACGG
6930709 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6930751 TA TA TA
1 TA TA TA
6930757 ACTAATAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6931226 original size:21 final size:22
Alignment explanation
Indices: 6931193--6931236 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
6931183 AATTACGATA
6931193 AAATAAAATAAAATGAT-ATTAT
1 AAATAAAATAAAAT-ATCATTAT
6931215 AAATAAAA-AAAATATCATTAT
1 AAATAAAATAAAATATCATTAT
6931236 A
1 A
6931237 TTTTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 11 0.52
22 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATAAAATAAAATATCATTAT
Found at i:6931564 original size:25 final size:25
Alignment explanation
Indices: 6931536--6931591 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
6931526 TAAAATCTTA
* *
6931536 AAAATTGCAAGCAGCTGTTTAATTG
1 AAAATTGCAAGCAACTATTTAATTG
6931561 AAAATTGCAAGCAACTATTTAATTG
1 AAAATTGCAAGCAACTATTTAATTG
6931586 AAAATT
1 AAAATT
6931592 TTGGACTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (25 bp):
AAAATTGCAAGCAACTATTTAATTG
Found at i:6931764 original size:2 final size:2
Alignment explanation
Indices: 6931759--6931803 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
6931749 GTGTGTGCAC
* * *
6931759 AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AC AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6931800 AT AT
1 AT AT
6931804 TTAGAAGGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6933293 original size:42 final size:42
Alignment explanation
Indices: 6933242--6933333 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
6933232 AAATATGTTG
* * *
6933242 CTTCCTGTGCTTGTGATTGCAGGTGTAGTGGAAAAAATACTA
1 CTTCCTGTGCTTCTGACTGCAGGTGCAGTGGAAAAAATACTA
6933284 CTTCCTGTGCTTCTGACTGCAGGTGCAGTGGAAAAAATACTA
1 CTTCCTGTGCTTCTGACTGCAGGTGCAGTGGAAAAAATACTA
6933326 CTTCCTGT
1 CTTCCTGT
6933334 ACTAGCTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (42 bp):
CTTCCTGTGCTTCTGACTGCAGGTGCAGTGGAAAAAATACTA
Found at i:6938943 original size:24 final size:24
Alignment explanation
Indices: 6938915--6938971 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
6938905 TCATCGAGAA
*
6938915 AATCACATAGGGGAAATTTTAAAT
1 AATCACATAGAGGAAATTTTAAAT
*
6938939 AATCACAAAGAGGAAATTTTAAAT
1 AATCACATAGAGGAAATTTTAAAT
*
6938963 AAACACATA
1 AATCACATA
6938972 AGAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (24 bp):
AATCACATAGAGGAAATTTTAAAT
Found at i:6939380 original size:2 final size:2
Alignment explanation
Indices: 6939373--6939402 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6939363 CACTCTTACA
6939373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6939403 GAATTCCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6939625 original size:86 final size:86
Alignment explanation
Indices: 6939515--6939678 Score: 310
Period size: 86 Copynumber: 1.9 Consensus size: 86
6939505 GCCTTAGAGA
*
6939515 CAAAGTTTGATGACTTCATAGAACACAAAACAGACATACACACATCAATCTACCTTTACACAAAT
1 CAAAGTTTGATGACTTCATAGAACACAAAACAGACATACAAACATCAATCTACCTTTACACAAAT
6939580 ATATAAACATAAACATAAAGG
66 ATATAAACATAAACATAAAGG
*
6939601 CAAAGTTTGATGACTTCATAGAACACAAAACAGGCATACAAACATCAATCTACCTTTACACAAAT
1 CAAAGTTTGATGACTTCATAGAACACAAAACAGACATACAAACATCAATCTACCTTTACACAAAT
6939666 ATATAAACATAAA
66 ATATAAACATAAA
6939679 TATACACTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (86 bp):
CAAAGTTTGATGACTTCATAGAACACAAAACAGACATACAAACATCAATCTACCTTTACACAAAT
ATATAAACATAAACATAAAGG
Found at i:6941428 original size:1 final size:1
Alignment explanation
Indices: 6941422--6941448 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
6941412 AAATACCGAG
6941422 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
6941449 CCTAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6942135 original size:12 final size:12
Alignment explanation
Indices: 6942118--6942142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6942108 TCTGGCGCTT
6942118 GCGGCGGAGGAG
1 GCGGCGGAGGAG
6942130 GCGGCGGAGGAG
1 GCGGCGGAGGAG
6942142 G
1 G
6942143 AAGGCGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.68, T:0.00
Consensus pattern (12 bp):
GCGGCGGAGGAG
Found at i:6943967 original size:22 final size:20
Alignment explanation
Indices: 6943934--6944003 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 20
6943924 ATATCTGATG
*
6943934 TTTATATTTTATTTATATATA
1 TTTATAATTTA-TTATATATA
* *
6943955 TTTATCCATTTA-TATAAATA
1 TTTAT-AATTTATTATATATA
*
6943975 TCTATAATTTATAATATATATA
1 TTTATAATTTAT--TATATATA
6943997 TTTATAA
1 TTTATAA
6944004 GCATTGGATG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.13
20 11 0.29
21 5 0.13
22 17 0.45
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATAATTTATTATATATA
Found at i:6952075 original size:20 final size:19
Alignment explanation
Indices: 6952052--6952099 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
6952042 ATTTTTTTGG
*
6952052 TTTTTAATAATTTTTACAAT
1 TTTTTAATAAATTTT-CAAT
*
6952072 TTTTTATTTAAATTTTCAAT
1 TTTTTA-ATAAATTTTCAAT
*
6952092 TTTATAAT
1 TTTTTAAT
6952100 TTTTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAATAAATTTTCAAT
Found at i:6952328 original size:34 final size:35
Alignment explanation
Indices: 6952263--6952329 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
6952253 TGATTTTTTA
*
6952263 AGATTTTTGAGTTTTTTAATTTTTACTATTTTTGG
1 AGATTTTTGAGTTTTTTAATTTTAACTATTTTTGG
* *
6952298 AGATTTTTTA-TTTTTTTATTGTTAAC-ATTTTT
1 AGATTTTTGAGTTTTTTAATT-TTAACTATTTTT
6952330 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.21, C:0.03, G:0.10, T:0.66
Consensus pattern (35 bp):
AGATTTTTGAGTTTTTTAATTTTAACTATTTTTGG
Found at i:6952417 original size:21 final size:21
Alignment explanation
Indices: 6952375--6952430 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
6952365 TTTCAAAAGC
* * *
6952375 TTTTATAATTTTTTTTCTATT
1 TTTTAAAATTTTTTTACAATT
*
6952396 TTTTAAAATTTTTTTAGAATT
1 TTTTAAAATTTTTTTACAATT
*
6952417 TTTCAAAATTTTTT
1 TTTTAAAATTTTTT
6952431 CTATCGTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTAAAATTTTTTTACAATT
Found at i:6952752 original size:5 final size:6
Alignment explanation
Indices: 6952738--6952762 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6952728 ATAGTGTCAA
6952738 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
6952763 AAAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:6954110 original size:19 final size:18
Alignment explanation
Indices: 6954047--6954113 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
6954037 TAGTCGTATT
6954047 TTTATATATATTCGTGTTA
1 TTTATAT-TATTCGTGTTA
* * * *
6954066 ATTATGTTGTTCATGTATA
1 TTTATATTATTCGTGT-TA
*
6954085 TTCATATTATTCGTGCTTA
1 TTTATATTATTCGTG-TTA
6954104 TTTATATTAT
1 TTTATATTAT
6954114 GTTTAAATAG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
18 7 0.19
19 28 0.78
20 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTATATTATTCGTGTTA
Found at i:6954338 original size:12 final size:12
Alignment explanation
Indices: 6954301--6954354 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
6954291 TTACCATATT
*
6954301 TAATTAAATTATA
1 TAATTAAAATA-A
6954314 TAATTAGAAAATAA
1 TAATT--AAAATAA
6954328 TAATTAAAATAA
1 TAATTAAAATAA
6954340 T-ATTAAAAGTAA
1 TAATTAAAA-TAA
6954352 TAA
1 TAA
6954355 GTATATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 7 0.19
12 12 0.33
13 6 0.17
14 6 0.17
15 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (12 bp):
TAATTAAAATAA
Found at i:6962451 original size:3 final size:3
Alignment explanation
Indices: 6962443--6962475 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6962433 TAAGATATTT
6962443 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6962476 CTTTTCCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6963415 original size:12 final size:12
Alignment explanation
Indices: 6963385--6963422 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
6963375 AATCATATCG
*
6963385 ATAATTATTTATT
1 ATAATTATTT-TA
6963398 ATAATTATTTTA
1 ATAATTATTTTA
6963410 ATAATTATTTTA
1 ATAATTATTTTA
6963422 A
1 A
6963423 ATTATCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATAATTATTTTA
Found at i:6963425 original size:22 final size:25
Alignment explanation
Indices: 6963385--6963432 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
6963375 AATCATATCG
*
6963385 ATAATTATTTATTATAATTATTTTA
1 ATAATTATTTATTATAATTATCTTA
6963410 ATAATTA-TT-TTA-AATTATCTTA
1 ATAATTATTTATTATAATTATCTTA
6963432 A
1 A
6963433 ATTATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 3 0.14
24 2 0.09
25 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATAATTATTTATTATAATTATCTTA
Found at i:6963477 original size:25 final size:24
Alignment explanation
Indices: 6963443--6963489 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
6963433 ATTATCAAAT
6963443 ATAATATATTTATTTTAATATTTAA
1 ATAATATATTTATTTT-ATATTTAA
*
6963468 ATAATTTATTTATTTTATATTT
1 ATAATATATTTATTTTATATTT
6963490 TTCTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATAATATATTTATTTTATATTTAA
Found at i:6964546 original size:22 final size:22
Alignment explanation
Indices: 6964518--6964560 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6964508 AATTTATTTT
6964518 ATAAAAATAACTAAAGAAAAAG
1 ATAAAAATAACTAAAGAAAAAG
* *
6964540 ATAAAAATAATTCAAGAAAAA
1 ATAAAAATAACTAAAGAAAAA
6964561 ATTGCTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (22 bp):
ATAAAAATAACTAAAGAAAAAG
Found at i:6964946 original size:14 final size:14
Alignment explanation
Indices: 6964929--6964959 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6964919 ATTTTTTCTT
*
6964929 TTTTATAAAATGTA
1 TTTTATAAAATATA
6964943 TTTTATAAAATATA
1 TTTTATAAAATATA
6964957 TTT
1 TTT
6964960 GAAGAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:6968452 original size:20 final size:19
Alignment explanation
Indices: 6968411--6968455 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6968401 CTAGTTAACA
* *
6968411 AAAAATTTAAAAAAATTGT
1 AAAAATTTAAAAAAAATAT
*
6968430 AAAATTTTAGAAAAAAATAT
1 AAAAATTTA-AAAAAAATAT
6968450 AAAAAT
1 AAAAAT
6968456 AGAGAGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATTTAAAAAAAATAT
Found at i:6970777 original size:18 final size:18
Alignment explanation
Indices: 6970754--6970790 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6970744 AATGATGATT
*
6970754 GATCTGAGGCACATTTCA
1 GATCTGAGGCACATCTCA
6970772 GATCTGAGGCACATCTCA
1 GATCTGAGGCACATCTCA
6970790 G
1 G
6970791 GTCTTTGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (18 bp):
GATCTGAGGCACATCTCA
Found at i:6973372 original size:13 final size:13
Alignment explanation
Indices: 6973354--6973394 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6973344 TATCAATTTT
*
6973354 TTATTTTTATATA
1 TTATTTTAATATA
6973367 TTATTTTAATATA
1 TTATTTTAATATA
**
6973380 AAATTTTAATATA
1 TTATTTTAATATA
6973393 TT
1 TT
6973395 TAAATAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:6973549 original size:2 final size:2
Alignment explanation
Indices: 6973542--6973569 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6973532 TTCGAATCTA
6973542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6973570 TTAATATCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6975527 original size:24 final size:24
Alignment explanation
Indices: 6975485--6975530 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6975475 AGGAACATAA
*
6975485 ATATATTAATTTGTCTTTTTAAAT
1 ATATATTAATTTATCTTTTTAAAT
6975509 ATATATTAATTTAAT-TTTTTAA
1 ATATATTAATTT-ATCTTTTTAA
6975531 TAATTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
ATATATTAATTTATCTTTTTAAAT
Found at i:6975741 original size:19 final size:20
Alignment explanation
Indices: 6975717--6975757 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6975707 TATGTGATTA
6975717 TTATATACTCATA-ATTTAT
1 TTATATACTCATATATTTAT
* *
6975736 TTATATATTTATATATTTAT
1 TTATATACTCATATATTTAT
6975756 TT
1 TT
6975758 TAAATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATATACTCATATATTTAT
Found at i:6976576 original size:30 final size:30
Alignment explanation
Indices: 6976542--6976608 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
6976532 TATGCATTTA
6976542 TTTTAATATATATGTTTTTGACCCATACAT
1 TTTTAATATATATGTTTTTGACCCATACAT
**
6976572 TTTTAATATATATGTTTTTGACTTATACAT
1 TTTTAATATATATGTTTTTGACCCATACAT
*
6976602 TTCTAAT
1 TTTTAAT
6976609 GTATGTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTTAATATATATGTTTTTGACCCATACAT
Found at i:6979599 original size:43 final size:43
Alignment explanation
Indices: 6979546--6979647 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
6979536 CAAATTAAAA
* *
6979546 ATATATTAAAAACATACATTAGAAATGTTTGAGTAAAAAACAT
1 ATATATTAAAAACATACATTAAAAATGTATGAGTAAAAAACAT
*
6979589 ATATATTAAAAACATACATTAAAAATGTATGAGTCAAAAACAT
1 ATATATTAAAAACATACATTAAAAATGTATGAGTAAAAAACAT
*
6979632 ATATATTAAAAGCATA
1 ATATATTAAAAACATA
6979648 TATATATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (43 bp):
ATATATTAAAAACATACATTAAAAATGTATGAGTAAAAAACAT
Found at i:6979601 original size:15 final size:15
Alignment explanation
Indices: 6979581--6979652 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
6979571 TGTTTGAGTA
6979581 AAAAACATATATATT
1 AAAAACATATATATT
*
6979596 AAAAAC--ATACATT
1 AAAAACATATATATT
* *
6979609 -AAAA-ATGTATGAGTC
1 AAAAACATATAT-A-TT
6979624 AAAAACATATATATT
1 AAAAACATATATATT
*
6979639 AAAAGCATATATAT
1 AAAAACATATATAT
6979653 ATTAAAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
12 4 0.09
13 8 0.18
14 1 0.02
15 21 0.48
16 5 0.11
17 5 0.11
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (15 bp):
AAAAACATATATATT
Found at i:6980452 original size:24 final size:24
Alignment explanation
Indices: 6980425--6980485 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
6980415 TTTATTTAAA
*
6980425 ATAAAAAAAATAAATTATGAATAT
1 ATAAAAAAAATAAATTATCAATAT
* * * *
6980449 ATAATAATAATATATTATCTATAT
1 ATAAAAAAAATAAATTATCAATAT
6980473 ATAAGATAAAAAT
1 ATAA-A-AAAAAT
6980486 TTTTATTTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 23 0.82
26 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAAAAAAAATAAATTATCAATAT
Found at i:6980684 original size:25 final size:24
Alignment explanation
Indices: 6980655--6980701 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6980645 ATTAAAATTA
*
6980655 TTAAAAATATTAAATTAATATATAT
1 TTAAAAA-ATCAAATTAATATATAT
*
6980680 TTAAAAAGTCAAATTAATATAT
1 TTAAAAAATCAAATTAATATAT
6980702 TTATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAAAAATCAAATTAATATATAT
Found at i:6980685 original size:24 final size:24
Alignment explanation
Indices: 6980645--6980701 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6980635 TTAATGACTT
* *
6980645 ATTAAAAT-TATTAAAAATA-TTAA
1 ATTAATATATATTAAAAA-AGTCAA
*
6980668 ATTAATATATATTTAAAAAGTCAA
1 ATTAATATATATTAAAAAAGTCAA
6980692 ATTAATATAT
1 ATTAATATAT
6980702 TTATTTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAATATATATTAAAAAAGTCAA
Found at i:6981297 original size:22 final size:23
Alignment explanation
Indices: 6981269--6981311 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6981259 ATATAGTTTC
*
6981269 TTATTATTATAA-ATGTTATTTA
1 TTATTATTATAATATATTATTTA
6981291 TTATTATTATAATATATTATT
1 TTATTATTATAATATATTATT
6981312 GTATATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATTATAATATATTATTTA
Found at i:6983005 original size:11 final size:11
Alignment explanation
Indices: 6982989--6983031 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
6982979 ATTACTATAA
*
6982989 TAAATTATTTT
1 TAAATTTTTTT
6983000 TAAATTTTTTATT
1 TAAA-TTTTT-TT
6983013 TAAATTTTTTT
1 TAAATTTTTTT
6983024 T-AATTTTT
1 TAAATTTTT
6983032 AAATATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.24
11 7 0.24
12 9 0.31
13 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TAAATTTTTTT
Found at i:6983023 original size:14 final size:13
Alignment explanation
Indices: 6982998--6983022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6982988 ATAAATTATT
6982998 TTTAAATTTTTTA
1 TTTAAATTTTTTA
6983011 TTTAAATTTTTT
1 TTTAAATTTTTT
6983023 TTAATTTTTA
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:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTAAATTTTTTA
Found at i:6983057 original size:22 final size:20
Alignment explanation
Indices: 6983016--6983058 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
6983006 TTTTATTTAA
**
6983016 ATTTTTTTTAATTTTTAAAT
1 ATTTTTTTTAATTTCAAAAT
6983036 ATTTATTTTATAATTTCAAAAT
1 ATTT-TTTT-TAATTTCAAAAT
6983058 A
1 A
6983059 AAAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTTTTAATTTCAAAAT
Found at i:6983136 original size:21 final size:21
Alignment explanation
Indices: 6983112--6983153 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6983102 ATAAAGGCAA
6983112 TAAAAATAAGCCTTGAAAGTT
1 TAAAAATAAGCCTTGAAAGTT
*
6983133 TAAAAATTAGCCTTGAAAGTT
1 TAAAAATAAGCCTTGAAAGTT
6983154 GAAACCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (21 bp):
TAAAAATAAGCCTTGAAAGTT
Found at i:6983218 original size:12 final size:13
Alignment explanation
Indices: 6983201--6983232 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6983191 TTTTTATTTA
6983201 AAATAAATAA-AT
1 AAATAAATAATAT
6983213 AAATAAA-AATAT
1 AAATAAATAATAT
6983225 AAATAAAT
1 AAATAAAT
6983233 TATGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 16 0.89
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAATAATAT
Found at i:6984084 original size:22 final size:23
Alignment explanation
Indices: 6984056--6984106 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
6984046 AGATTATTAG
* *
6984056 ATTATTTTTTATTATTATAA-AT
1 ATTATTTATTATCATTATAATAT
*
6984078 GTTATTTATTATCATTATAATAT
1 ATTATTTATTATCATTATAATAT
6984101 ATTATT
1 ATTATT
6984107 ATATATTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTATTTATTATCATTATAATAT
Found at i:6987541 original size:24 final size:25
Alignment explanation
Indices: 6987514--6987566 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
6987504 TTATAAATAT
6987514 TATTATTATTTATAAAA-ATTA-ACA
1 TATTATTATTTATAAAACATTATA-A
*
6987538 TATT-TTATTTTTAAAACATTATAA
1 TATTATTATTTATAAAACATTATAA
6987562 TATTA
1 TATTA
6987567 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 11 0.44
24 13 0.52
25 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTATTATTTATAAAACATTATAA
Found at i:6990388 original size:133 final size:138
Alignment explanation
Indices: 6990172--6990487 Score: 401
Period size: 133 Copynumber: 2.3 Consensus size: 138
6990162 TCAAAAAAAA
* *
6990172 AGAAAAAGTTGAAAGTATCAATTTTCTTAGAGAATAAAATTTTTTTAAAAAATATATATTTCACA
1 AGAAAAAGTTGAAACTATCAATTTTCTTA-AAAATAAAATTTTTTT-AAAAATATATATTTCACA
* * * * * * *
6990237 AGAAACATTTTTAAGAAAAAATTGAAAGTATTAATTTTTCTTGAAGATAAAATTTTTAAAAGATA
64 AGAAACATTTTTAAGAAAAAATTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAAA
6990302 TATTTTTTGG
129 TATTTTTTGG
* * *
6990312 AGAAAAA-TT-AAGACTATCAATTTT-TT-TAAATAAAATTTTTTT-AAAA-ATGTATTTCTCAA
1 AGAAAAAGTTGAA-ACTATCAATTTTCTTAAAAATAAAATTTTTTTAAAAATATATATTTCACAA
** *
6990371 GAAATTTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAAAT
65 GAAACATTTTTAAGAAAAAATTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAAAT
*
6990436 ATTTTTTTG
130 ATTTTTTGG
*
6990445 AGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT
1 AGAAAAAGTTGAAACTATCAATTTT-CTTAAAAATAAAATTTT
6990488 CAAAAGATAT
Statistics
Matches: 152, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
133 81 0.53
134 17 0.11
135 2 0.01
136 16 0.11
137 12 0.08
138 4 0.03
139 13 0.09
140 7 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (138 bp):
AGAAAAAGTTGAAACTATCAATTTTCTTAAAAATAAAATTTTTTTAAAAATATATATTTCACAAG
AAACATTTTTAAGAAAAAATTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAAATA
TTTTTTGG
Found at i:6990406 original size:30 final size:30
Alignment explanation
Indices: 6990372--6990469 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 30
6990362 ATTTCTCAAG
6990372 AAATTTTTTTAAGAAAAAGTTGAAAGTATC
1 AAATTTTTTTAAGAAAAAGTTGAAAGTATC
* * * * **
6990402 AAATTTTCTTGAAAATAAAAATTTCAAA--AAA
1 AAATTTT-TT--TAAGAAAAAGTTGAAAGTATC
*
6990433 AATATTTTTTTGAGAAAAAGTTGAAAGTATC
1 AA-ATTTTTTTAAGAAAAAGTTGAAAGTATC
6990464 -AATTTT
1 AAATTTT
6990470 CCTTAAAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 13
0.65 0.17 0.17
Matches are distributed among these distances:
29 16 0.33
30 8 0.16
31 8 0.16
32 5 0.10
33 12 0.24
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTTTTTTAAGAAAAAGTTGAAAGTATC
Found at i:6990406 original size:58 final size:58
Alignment explanation
Indices: 6990345--6990527 Score: 192
Period size: 58 Copynumber: 3.1 Consensus size: 58
6990335 TTTTAAATAA
** *
6990345 AATTTT-TTTAAAAATGTATTTCTCAAGAA-ATTTTTTTAAGAAAAAGTTGAAAGTATC
1 AATTTTCTTTAAAAATAAATTTCTCAA-AAGATTTTTTTGAGAAAAAGTTGAAAGTATC
* * ** *
6990402 AAATTTTCTTGAAAATAAAAATTTCAAAAAAAATATTTTTTTGAGAAAAAGTTGAAAGTATC
1 -AATTTTCTTTAAAA-ATAAATTTC--TCAAAAGATTTTTTTGAGAAAAAGTTGAAAGTATC
* * *
6990464 AATTTTCCTTAAAAATAAAATTT-TCAAAAGATATTTTTGAGAAAAAGTTAAAAGTATC
1 AATTTTCTTTAAAAAT-AAATTTCTCAAAAGATTTTTTTGAGAAAAAGTTGAAAGTATC
6990522 AATTTT
1 AATTTT
6990528 TATTGAATAA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
58 42 0.40
59 6 0.06
60 7 0.07
61 20 0.19
62 29 0.28
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (58 bp):
AATTTTCTTTAAAAATAAATTTCTCAAAAGATTTTTTTGAGAAAAAGTTGAAAGTATC
Found at i:6990449 original size:62 final size:60
Alignment explanation
Indices: 6990374--6990534 Score: 211
Period size: 62 Copynumber: 2.7 Consensus size: 60
6990364 TTCTCAAGAA
*
6990374 ATTTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAAAT
1 ATTTTTTTGAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTC--AAAAAAT
* * *
6990436 ATTTTTTTGAGAAAAAGTTGAAAGTATC-AATTTTCCTTAAAAATAAAATTTTCAAAAGAT
1 ATTTTTTTGAGAAAAAGTTGAAAGTATCAAATTTT-CTTGAAAATAAAAATTTCAAAAAAT
* * *
6990496 A--TTTTTGAGAAAAAGTTAAAAGTATCAATTTTTATTGAA
1 ATTTTTTTGAGAAAAAGTTGAAAGTATCAAATTTTCTTGAA
6990535 TAAAGACATT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
58 28 0.31
59 5 0.06
60 7 0.08
61 6 0.07
62 43 0.48
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (60 bp):
ATTTTTTTGAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAAAATTTCAAAAAAT
Found at i:6991543 original size:22 final size:22
Alignment explanation
Indices: 6991517--6991562 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6991507 TTAGTCATTT
6991517 TAAATCCAATGTATTAAAGTTA
1 TAAATCCAATGTATTAAAGTTA
6991539 TAAATCCAATGTATTAAAGTTA
1 TAAATCCAATGTATTAAAGTTA
6991561 TA
1 TA
6991563 TACATAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATCCAATGTATTAAAGTTA
Found at i:6992054 original size:35 final size:35
Alignment explanation
Indices: 6992015--6992129 Score: 94
Period size: 35 Copynumber: 3.3 Consensus size: 35
6992005 TTGTTACCTT
6992015 TAATATAAATTTAATTGAAAGTGATTTAAGATAAA
1 TAATATAAATTTAATTGAAAGTGATTTAAGATAAA
** * ** *
6992050 TAATATAATGATAGCAATT-AAAGT-TTTGTAACCT--T
1 TAATATAA--AT-TTAATTGAAAGTGATT-TAAGATAAA
*
6992085 TAATATAAATTTAATTGATAGTGATTTAAGATAAA
1 TAATATAAATTTAATTGAAAGTGATTTAAGATAAA
6992120 TAATAATAAA
1 TAAT-ATAAA
6992130 AAATAAATAA
Statistics
Matches: 58, Mismatches: 13, Indels: 17
0.66 0.15 0.19
Matches are distributed among these distances:
32 4 0.07
33 10 0.17
34 2 0.03
35 20 0.34
36 7 0.12
37 11 0.19
38 4 0.07
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (35 bp):
TAATATAAATTTAATTGAAAGTGATTTAAGATAAA
Found at i:6992061 original size:70 final size:70
Alignment explanation
Indices: 6991987--6992124 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 70
6991977 TTATTCTATG
*
6991987 ATGATAGCAATTAAAGTTTTGTTACCTTTAATATAAATTTAATTGAAAGTGATTTAAGATAAATA
1 ATGATAGCAATTAAAGTTTTGTAACCTTTAATATAAATTTAATTGAAAGTGATTTAAGATAAATA
6992052 ATATA
66 ATATA
*
6992057 ATGATAGCAATTAAAGTTTTGTAACCTTTAATATAAATTTAATTGATAGTGATTTAAGATAAATA
1 ATGATAGCAATTAAAGTTTTGTAACCTTTAATATAAATTTAATTGAAAGTGATTTAAGATAAATA
6992122 ATA
66 ATA
6992125 ATAAAAAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (70 bp):
ATGATAGCAATTAAAGTTTTGTAACCTTTAATATAAATTTAATTGAAAGTGATTTAAGATAAATA
ATATA
Found at i:6992828 original size:7 final size:7
Alignment explanation
Indices: 6992818--6992845 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6992808 GTTTAAAGAA
6992818 TAAATAT
1 TAAATAT
6992825 TAAATAT
1 TAAATAT
6992832 TAAATAT
1 TAAATAT
6992839 TAAATAT
1 TAAATAT
6992846 AATACAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAATAT
Found at i:6995636 original size:20 final size:20
Alignment explanation
Indices: 6995582--6995628 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6995572 CAAGCTTCAC
6995582 ACAAAAAT-T-AA-AAAATA
1 ACAAAAATATGAATAAAATA
6995599 ACAAAAATATGAATAAAATA
1 ACAAAAATATGAATAAAATA
*
6995619 ATAAAAATAT
1 ACAAAAATAT
6995629 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 2 0.08
20 15 0.58
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
ACAAAAATATGAATAAAATA
Found at i:6998386 original size:15 final size:14
Alignment explanation
Indices: 6998366--6998416 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
6998356 AATAATTTTT
6998366 AATTTAAAATTATAA
1 AATTTAAAATTA-AA
*
6998381 AATTTAAACTTAAA
1 AATTTAAAATTAAA
* *
6998395 TTATTAAAAATTAAA
1 -AATTTAAAATTAAA
6998410 AATTTAA
1 AATTTAA
6998417 TATTTTGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTAAAATTAAA
Found at i:6998420 original size:21 final size:22
Alignment explanation
Indices: 6998366--6998420 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
6998356 AATAATTTTT
* *
6998366 AATTTAAAATTATAAAATTTAA
1 AATTTAATATTATAAAATTAAA
* *
6998388 ACTTAAATTATTA-AAAATTAAA
1 AATTTAA-TATTATAAAATTAAA
6998410 AATTTAATATT
1 AATTTAATATT
6998421 TTGTCAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
21 4 0.15
22 18 0.69
23 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAATATTATAAAATTAAA
Found at i:7001489 original size:14 final size:15
Alignment explanation
Indices: 7001466--7001498 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7001456 AGTTATATTG
*
7001466 TATTTTTAAAAATT-
1 TATTTCTAAAAATTA
7001480 TATTTCTAAAAATTA
1 TATTTCTAAAAATTA
7001495 TATT
1 TATT
7001499 ACGTTTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTCTAAAAATTA
Found at i:7003786 original size:4 final size:4
Alignment explanation
Indices: 7003777--7003805 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7003767 TCTAATTCAA
7003777 TTTG TTTG TTTG TTTG -TTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
7003806 AAGAATTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:7008026 original size:79 final size:78
Alignment explanation
Indices: 7007931--7008173 Score: 297
Period size: 79 Copynumber: 3.0 Consensus size: 78
7007921 ATTCTTTAAA
* *
7007931 TATGTCTGAATGTATTGTATCTGCATTATAGTATTATTGTTTGTGTTTCTTTTACCTGTTTTATA
1 TATGTCTGAATGTATTGT-TCTGCAGTATAGTATTATTGTTTGTGTTTCTTTTACCTGCTTTATA
*
7007996 CTGTCATGATGATT
65 CTGTCATGATGACT
* * * *
7008010 TATGTCTGAATGTATTGTTTATGCAGTATACTGTTATTTTTTGTGTTTCTTTTACCTGCTTTATA
1 TATGTCTGAATGTATTG-TTCTGCAGTATAGTATTATTGTTTGTGTTTCTTTTACCTGCTTTATA
*
7008075 CTGTCATGACGACT
65 CTGTCATGATGACT
* * * * *
7008089 TATTTGTGAATGTATTGTCCGTGCAGTGTAGTATTATTGTTTGTGTTTTTTTTTTTTTACCTGCT
1 TATGTCTGAATGTATTGTTC-TGCAGTATAGTATTATTGTTTGTG-----TTTCTTTTACCTGCT
7008154 TTATACTGTCATGATGACT
60 TTATACTGTCATGATGACT
7008173 T
1 T
7008174 CTGTTTTGGC
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 104 0.75
80 1 0.01
84 33 0.24
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (78 bp):
TATGTCTGAATGTATTGTTCTGCAGTATAGTATTATTGTTTGTGTTTCTTTTACCTGCTTTATAC
TGTCATGATGACT
Found at i:7019666 original size:21 final size:21
Alignment explanation
Indices: 7019642--7019681 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7019632 TTTAATAATT
*
7019642 TATAAATTTTTTATCTCAAGA
1 TATAAATTTTTTAACTCAAGA
*
7019663 TATAATTTTTTTAACTCAA
1 TATAAATTTTTTAACTCAA
7019682 AACTTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (21 bp):
TATAAATTTTTTAACTCAAGA
Found at i:7021377 original size:15 final size:17
Alignment explanation
Indices: 7021353--7021385 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7021343 TTACATATTT
7021353 ACTTATAAAAGGA-AAA
1 ACTTATAAAAGGATAAA
7021369 ACTTA-AAAAGGATAAA
1 ACTTATAAAAGGATAAA
7021385 A
1 A
7021386 AAGAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
ACTTATAAAAGGATAAA
Found at i:7021609 original size:22 final size:22
Alignment explanation
Indices: 7021581--7021625 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
7021571 TTAAGAAAAT
*
7021581 AAATATTTTTTATAAT-TTTAAA
1 AAATATTTATTA-AATATTTAAA
7021603 AAATATTTATTAAATATTTAAA
1 AAATATTTATTAAATATTTAAA
7021625 A
1 A
7021626 GAAAAGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTTATTAAATATTTAAA
Found at i:7022856 original size:20 final size:21
Alignment explanation
Indices: 7022814--7022854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7022804 TTATATGTTT
*
7022814 CAAAAGAAAAAGATAAAAAAA
1 CAAAAGAAAAACATAAAAAAA
*
7022835 CAAAGGAAAAACATAAAAAA
1 CAAAAGAAAAACATAAAAAA
7022855 CATAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (21 bp):
CAAAAGAAAAACATAAAAAAA
Found at i:7023435 original size:22 final size:22
Alignment explanation
Indices: 7023410--7023454 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7023400 TTAATTTAAT
* *
7023410 AAAAATGCACAAAAAATAAAGGA
1 AAAAATG-AAAAAAAAGAAAGGA
7023433 AAAAATGAAAAAAAAGAAAGGA
1 AAAAATGAAAAAAAAGAAAGGA
7023455 GTTTATGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.07
Consensus pattern (22 bp):
AAAAATGAAAAAAAAGAAAGGA
Found at i:7024323 original size:14 final size:13
Alignment explanation
Indices: 7024304--7024365 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 13
7024294 AAATAAAACC
7024304 TTTTAAAATATATA
1 TTTTAAAATAT-TA
*
7024318 TTTTAATA-ATTA
1 TTTTAAAATATTA
*
7024330 TTTAAAAATATT-
1 TTTTAAAATATTA
* *
7024342 TATT-AAGTATT-
1 TTTTAAAATATTA
7024353 TTTTAAAATATTA
1 TTTTAAAATATTA
7024366 GAAAAACATT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
11 9 0.24
12 16 0.43
13 5 0.14
14 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TTTTAAAATATTA
Found at i:7024347 original size:24 final size:22
Alignment explanation
Indices: 7024304--7024364 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
7024294 AAATAAAACC
7024304 TTTTAAAATATATATTTTAA-TAAT
1 TTTTAAAA-ATAT-TTTTAAGT-AT
7024328 TATTTAAAAATATTTATTAAGTAT
1 T-TTTAAAAATATTT-TTAAGTAT
*
7024352 TTTTTAAAATATT
1 TTTTAAAAATATT
7024365 AGAAAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 13 0.39
24 12 0.36
25 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTAAAAATATTTTTAAGTAT
Found at i:7024649 original size:12 final size:13
Alignment explanation
Indices: 7024621--7024649 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7024611 TTTACCTTAT
7024621 AATTTTATTATAA
1 AATTTTATTATAA
7024634 AATTTTATTA-AA
1 AATTTTATTATAA
7024646 AATT
1 AATT
7024650 ATAAACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTATTATAA
Found at i:7030451 original size:42 final size:38
Alignment explanation
Indices: 7030380--7030520 Score: 99
Period size: 42 Copynumber: 3.5 Consensus size: 38
7030370 AATATAATAT
* *
7030380 ATAAA-AAAT-ATTTTTTAATATGAATTATATTTAATTATA
1 ATAAATAAATAATTTTATAA-ATTAA-TATATTTAATTA-A
*
7030419 CATAAATATAATAATTTTACTAAATTAATATATTAAATTAAAA
1 -ATAAATA-AATAATTTTA-TAAATTAATATATTTAATT--AA
* * *
7030462 AGTTAAA-CAATAATTTTATTAATTAATATATATAATTAA
1 A--TAAATAAATAATTTTATAAATTAATATATTTAATTAA
*
7030501 ATAAATAAAAAATTTATATA
1 ATAAATAAATAATTT-TATA
7030521 TATTTCGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
37 4 0.05
38 7 0.09
39 6 0.07
40 5 0.06
41 17 0.21
42 24 0.30
43 10 0.12
44 8 0.10
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (38 bp):
ATAAATAAATAATTTTATAAATTAATATATTTAATTAA
Found at i:7031139 original size:19 final size:19
Alignment explanation
Indices: 7031115--7031157 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7031105 ATTATATCAA
*
7031115 ATAATAATTATTTATTTAT
1 ATAATAATTATTTATGTAT
*
7031134 ATAATAATTTTTTATGTAT
1 ATAATAATTATTTATGTAT
7031153 -TAATA
1 ATAATA
7031158 TCTACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATAATTATTTATGTAT
Found at i:7033197 original size:18 final size:17
Alignment explanation
Indices: 7033162--7033194 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7033152 TAATATTATT
7033162 TAATTTAATTTTATTTA
1 TAATTTAATTTTATTTA
7033179 TAATATTAA-TTTATTT
1 TAAT-TTAATTTTATTT
7033195 TATCTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATTTAATTTTATTTA
Found at i:7033202 original size:27 final size:27
Alignment explanation
Indices: 7033151--7033202 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7033141 ATAAAATAAA
*
7033151 ATAATATTATTTAATTTAATTTTATTT
1 ATAATATTATTTAATTTAATCTTATTT
*
7033178 ATAATATTAATTT-ATTTTATCTTAT
1 ATAATATT-ATTTAATTTAATCTTAT
7033203 CATAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
ATAATATTATTTAATTTAATCTTATTT
Found at i:7040097 original size:7 final size:8
Alignment explanation
Indices: 7040074--7040106 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
7040064 TTAAAATAAT
7040074 ATTTAAAA
1 ATTTAAAA
7040082 ATTTAAAA
1 ATTTAAAA
7040090 ATTT-AAA
1 ATTTAAAA
7040097 ATTTAAAA
1 ATTTAAAA
7040105 AT
1 AT
7040107 CAATAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTAAAA
Found at i:7040099 original size:15 final size:16
Alignment explanation
Indices: 7040074--7040106 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7040064 TTAAAATAAT
7040074 ATTTAAAAATTTAAAA
1 ATTTAAAAATTTAAAA
7040090 ATTT-AAAATTTAAAA
1 ATTTAAAAATTTAAAA
7040105 AT
1 AT
7040107 CAATAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTAAAAATTTAAAA
Found at i:7040344 original size:21 final size:21
Alignment explanation
Indices: 7040318--7040359 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7040308 TTATTTAAAT
7040318 TTATTACAAATT-AAAATTTAA
1 TTATTA-AAATTAAAAATTTAA
7040339 TTATTAAAATTAAAAATTTAA
1 TTATTAAAATTAAAAATTTAA
7040360 CATTGTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATTAAAATTAAAAATTTAA
Found at i:7050598 original size:17 final size:17
Alignment explanation
Indices: 7050578--7050718 Score: 56
Period size: 17 Copynumber: 8.2 Consensus size: 17
7050568 AAATTCTTAT
7050578 GAATCTAAAGTTCTTGC
1 GAATCTAAAGTTCTTGC
7050595 GAATCTTTAAA-TTCTTGC
1 GAATC--TAAAGTTCTTGC
* * *
7050613 AAAAT-TAAAACTT-TTAC
1 -GAATCT-AAAGTTCTTGC
* * * *
7050630 AAACCTAAAATTATTGC
1 GAATCTAAAGTTCTTGC
* * *
7050647 AAATCTGAGGTTCTTGC
1 GAATCTAAAGTTCTTGC
* * *
7050664 AAAACTAAAACTT-TTGC
1 GAATCT-AAAGTTCTTGC
* * *
7050681 GAACCTGAAGTTCTTAC
1 GAATCTAAAGTTCTTGC
*
7050698 GAATCTAAAGTTCTTAC
1 GAATCTAAAGTTCTTGC
7050715 GAAT
1 GAAT
7050719 TGAAAATTCT
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
16 13 0.14
17 62 0.66
18 12 0.13
19 7 0.07
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (17 bp):
GAATCTAAAGTTCTTGC
Done.