Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 25 of 311
Found at i:7027315 original size:29 final size:30
Alignment explanation
Indices: 7027256--7027313 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7027246 TCCGAGCCTT
*
7027256 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
7027286 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
7027314 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:7027543 original size:13 final size:13
Alignment explanation
Indices: 7027525--7027556 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7027515 TTTCCAGCAA
7027525 TTATGAATTTATT
1 TTATGAATTTATT
7027538 TTATGAATTTATT
1 TTATGAATTTATT
*
7027551 TGATGA
1 TTATGA
7027557 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:7027780 original size:49 final size:50
Alignment explanation
Indices: 7027651--7027891 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 50
7027641 ATTTGGGTAA
* * *
7027651 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
7027707 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
7027757 AGAGGT-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
7027806 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
7027856 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
7027892 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
49 46 0.28
50 44 0.27
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:7027837 original size:99 final size:104
Alignment explanation
Indices: 7027655--7027899 Score: 349
Period size: 99 Copynumber: 2.4 Consensus size: 104
7027645 GGGTAAAGAG
*
7027655 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* *
7027720 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * *
7027761 GT-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
7027822 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
7027861 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
7027900 GTTATTATCA
Statistics
Matches: 127, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 51 0.40
100 4 0.03
101 34 0.27
104 2 0.02
105 34 0.27
106 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:7030713 original size:46 final size:46
Alignment explanation
Indices: 7030660--7030831 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
7030650 TGGGCATCCA
7030660 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
7030706 AACTCGTTGAGTTGAG-CCTGAGTTC-GTGA--GATG-TAACTAGACATCCG
1 AACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCGAA-T-G---TCCG
* * *
7030753 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
7030799 AGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7030832 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 56 0.54
47 25 0.24
48 4 0.04
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:7035984 original size:21 final size:20
Alignment explanation
Indices: 7035958--7036009 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
7035948 AGCGGTGGCG
7035958 GTGAGATTAATTACTGTAACA
1 GTGAGATTAA-TACTGTAACA
* *
7035979 GTGAGATTAGATACTGTAGCG
1 GTGAGATTA-ATACTGTAACA
7036000 GTGAGATTAA
1 GTGAGATTAA
7036010 AAACAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (20 bp):
GTGAGATTAATACTGTAACA
Found at i:7040321 original size:18 final size:18
Alignment explanation
Indices: 7040300--7040334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7040290 CTGAATAATT
*
7040300 GACTGTTACAGAATAAAA
1 GACTGATACAGAATAAAA
*
7040318 GACTGATACGGAATAAA
1 GACTGATACAGAATAAA
7040335 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (18 bp):
GACTGATACAGAATAAAA
Found at i:7042571 original size:7 final size:7
Alignment explanation
Indices: 7042559--7042590 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7042549 TCACCATTTT
7042559 ACCCTAA
1 ACCCTAA
7042566 ACCCTAA
1 ACCCTAA
*
7042573 ACCTTAA
1 ACCCTAA
7042580 ACCCTAA
1 ACCCTAA
7042587 ACCC
1 ACCC
7042591 GCATTAGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:7043214 original size:24 final size:24
Alignment explanation
Indices: 7043187--7043236 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
7043177 ACAGTCCCGC
*
7043187 AACCTATGGGGACCACTACAAAAG
1 AACCTATGGAGACCACTACAAAAG
*
7043211 AACCTATGTAGACCACTACAAAAG
1 AACCTATGGAGACCACTACAAAAG
7043235 AA
1 AA
7043237 GCACTCTATT
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:0.46, C:0.24, G:0.16, T:0.14
Consensus pattern (24 bp):
AACCTATGGAGACCACTACAAAAG
Found at i:7052438 original size:2 final size:2
Alignment explanation
Indices: 7052431--7052455 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7052421 GAAGAAGAAG
7052431 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
7052456 GCACACAATT
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:7054740 original size:31 final size:31
Alignment explanation
Indices: 7054705--7054787 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
7054695 CTTTCTGCAT
* *
7054705 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
7054736 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
7054767 TAAAAATTACAACCAAAAACA
1 T-AAAA-TCCAACCAAAAACA
7054788 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
32 4 0.10
33 12 0.29
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:7060554 original size:9 final size:9
Alignment explanation
Indices: 7060540--7060571 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7060530 TTTTTATGTT
7060540 TTATGTAAG
1 TTATGTAAG
*
7060549 TTATGTAAA
1 TTATGTAAG
7060558 TTATGTAAG
1 TTATGTAAG
7060567 TTATG
1 TTATG
7060572 AAATTTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:7060563 original size:18 final size:17
Alignment explanation
Indices: 7060540--7060576 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
7060530 TTTTTATGTT
7060540 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATG-AAA
7060558 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATGAAA
7060575 TT
1 TT
7060577 TGAACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (17 bp):
TTATGTAAGTTATGAAA
Found at i:7060648 original size:9 final size:9
Alignment explanation
Indices: 7060634--7060761 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
7060624 ATGTATTAGT
7060634 TAAGTTATG
1 TAAGTTATG
7060643 TAAGTTGTTATG
1 TAA---GTTATG
*
7060655 TACGTTATG
1 TAAGTTATG
*
7060664 TGAGTTATG
1 TAAGTTATG
*
7060673 TAAATTATG
1 TAAGTTATG
7060682 TAAGTTATG
1 TAAGTTATG
*
7060691 TGAGTTATG
1 TAAGTTATG
7060700 TAAGTTGTTATG
1 TAA---GTTATG
*
7060712 TAAATTATG
1 TAAGTTATG
*
7060721 TAAGTTATA
1 TAAGTTATG
**
7060730 CGAGTTATG
1 TAAGTTATG
7060739 TAAGTTATG
1 TAAGTTATG
* *
7060748 TAATTTATT
1 TAAGTTATG
7060757 TAAGT
1 TAAGT
7060762 AATGATCAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 77 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7060761 original size:57 final size:57
Alignment explanation
Indices: 7060634--7060761 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
7060624 ATGTATTAGT
** * **
7060634 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATACAAATTATGTAAGTTATG
* * *
7060691 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATACGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATACAAATTATGTAAGTTATG
* *
7060748 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
7060762 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATACAAATTATGTAAGTTATG
Found at i:7062950 original size:5 final size:5
Alignment explanation
Indices: 7062924--7062981 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
7062914 ATGTGTTAAA
* *
7062924 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
7062973 ATATT ATAT
1 ATATT ATAT
7062982 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:7062960 original size:10 final size:9
Alignment explanation
Indices: 7062925--7062982 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
7062915 TGTGTTAAAA
7062925 TATATATAT
1 TATATATAT
*
7062934 TAAAT-TAT
1 TATATATAT
7062942 TAT-TATAT
1 TATATATAT
7062950 TATAGTATAT
1 TATA-TATAT
7062960 TATAT-TA-
1 TATATATAT
7062967 TATATTATAT
1 TATA-TATAT
7062977 TATATA
1 TATATA
7062983 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:7062972 original size:12 final size:12
Alignment explanation
Indices: 7062927--7062982 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
7062917 TGTTAAAATA
*
7062927 TATATATTAAAT
1 TATATATTATAT
7062939 TAT-TATTATATT
1 TATATATTATA-T
7062951 ATAGTATATTATAT
1 -TA-TATATTATAT
7062965 TATATATTATAT
1 TATATATTATAT
7062977 TATATA
1 TATATA
7062983 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:7063356 original size:18 final size:19
Alignment explanation
Indices: 7063335--7063373 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
7063325 ATATATAGAT
7063335 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
7063353 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
7063372 AT
1 AT
7063374 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:7063723 original size:39 final size:39
Alignment explanation
Indices: 7063613--7063747 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
7063603 GACCTCGAGT
* * * *
7063613 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
7063654 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
7063692 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
7063731 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
7063748 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:7063883 original size:13 final size:12
Alignment explanation
Indices: 7063860--7063908 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
7063850 GAGCTATTGG
*
7063860 AATGAAATGAGA
1 AATGAATTGAGA
7063872 AATTGAATTGAGA
1 AA-TGAATTGAGA
7063885 AATGAAATTGAGA
1 AATG-AATTGAGA
*
7063898 TATGAGATTGA
1 AATGA-ATTGA
7063909 AAACATGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 27 0.84
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (12 bp):
AATGAATTGAGA
Found at i:7066630 original size:11 final size:11
Alignment explanation
Indices: 7066616--7066665 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
7066606 AATATTTTAA
7066616 AAATTCTTGAC
1 AAATTCTTGAC
* *
7066627 AAATTATTTTGTC
1 AAA-T-TCTTGAC
7066640 AAATTCTTGAC
1 AAATTCTTGAC
7066651 AAATTCTTGAC
1 AAATTCTTGAC
7066662 AAAT
1 AAAT
7066666 ATACAAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 23 0.70
12 2 0.06
13 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:7067065 original size:18 final size:19
Alignment explanation
Indices: 7067044--7067079 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7067034 TTTGAAATTC
7067044 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
7067062 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
7067080 CAGAAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:7067714 original size:40 final size:41
Alignment explanation
Indices: 7067663--7067763 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
7067653 TTTAGTGGCG
**
7067663 TTTTACAAAAGCTTCACTAATTCTCAATTTTT-GCGGCGTT
1 TTTTACAAAAGCGCCACTAATTCTCAATTTTTAGCGGCGTT
* * *
7067703 TTTTACGAAAGCGCCACTAATTCTCTATTTTTAGTGGCGTT
1 TTTTACAAAAGCGCCACTAATTCTCAATTTTTAGCGGCGTT
*
7067744 TTTGTA-AAAA-CGCCGCTAAT
1 TTT-TACAAAAGCGCCACTAAT
7067764 GCCTCTGCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 37 0.71
41 13 0.25
42 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (41 bp):
TTTTACAAAAGCGCCACTAATTCTCAATTTTTAGCGGCGTT
Found at i:7068898 original size:41 final size:40
Alignment explanation
Indices: 7068825--7068911 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 40
7068815 CCCGGCCCAT
*
7068825 ACCATTAACTTAATATATATACTATACCATTGAACTGGCCTAA
1 ACCATAAACTTAATATATATACTATACCATTGAAC---CCTAA
* *
7068868 ACCATAAACTTAA-A-ATATATTCTACCATTGAACCCTAA
1 ACCATAAACTTAATATATATACTATACCATTGAACCCTAA
7068906 ACCATA
1 ACCATA
7068912 GGCTTTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 11 0.27
41 17 0.41
42 1 0.02
43 12 0.29
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (40 bp):
ACCATAAACTTAATATATATACTATACCATTGAACCCTAA
Found at i:7069120 original size:28 final size:28
Alignment explanation
Indices: 7069084--7069150 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
7069074 AGTTTATGGA
* *
7069084 TTAGTGTTTATGGTTT-ATGTTTTAAAAT
1 TTAGGGTTTAGGGTTTAATG-TTTAAAAT
*
7069112 TTAGGGTTTAGGGTTTAATGTTTAAGAT
1 TTAGGGTTTAGGGTTTAATGTTTAAAAT
7069140 TTAAGGGTTTA
1 TT-AGGGTTTA
7069151 CAGAAAGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTAATGTTTAAAAT
Found at i:7069135 original size:21 final size:21
Alignment explanation
Indices: 7069058--7069150 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
7069048 TTTTTGAGGG
* *
7069058 GGGTTTAAGGTTTTGGAGTTTA
1 GGGTTTAATGTTTAGG-GTTTA
* * * *
7069080 TGGATTAGTGTTTATGGTTTA
1 GGGTTTAATGTTTAGGGTTTA
* * **
7069101 TGTTTTAAAATTTAGGGTTTA
1 GGGTTTAATGTTTAGGGTTTA
* *
7069122 GGGTTTAATGTTTAAGATTTAA
1 GGGTTTAATGTTTAGGGTTT-A
7069144 GGGTTTA
1 GGGTTTA
7069151 CAGAAAGCCA
Statistics
Matches: 52, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
21 34 0.65
22 18 0.35
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
GGGTTTAATGTTTAGGGTTTA
Found at i:7069498 original size:41 final size:41
Alignment explanation
Indices: 7069452--7069769 Score: 270
Period size: 41 Copynumber: 7.8 Consensus size: 41
7069442 CGTTTGGACC
* *
7069452 AAAAACGCCGCTATTAATCAGTTTTTAGTGGCATTTTGGAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* *** * * ** *
7069493 AAAAACGCCAC-AAAAAACTAATCAATT-GTGGCGTTTT-TAT
1 AAAAACGCCGCTATTGATC-AGT-TTTTAGTGGCGTTTTGGAT
* * * * *
7069533 CCAAAACGTCACAATTGATCAGTTTTTAGTGGCGTTTGGGAT
1 -AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* *
7069575 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCGTTTGGGAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
*
7069616 AAAAACGCCGCAATTGATCAGTTTTTAGTGGCG-TTTGGAAT
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGG-AT
* *
7069657 TAAAACGCCGCTATTGATCAGCTTTTAGTGGCG-TTTGG-T
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * **
7069696 GAAAAACGCCACTATTGACCAATTTTTAGTGGCGTTTTGGCC
1 -AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
* * * * *
7069738 AAAAACACCGTTATAGTTTAGTTTTTAGTGGC
1 AAAAACGCCGCTATTGATCAGTTTTTAGTGGC
7069770 ATTTCGGACA
Statistics
Matches: 226, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.00
40 40 0.18
41 178 0.79
42 7 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (41 bp):
AAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGAT
Found at i:7073337 original size:55 final size:55
Alignment explanation
Indices: 7073274--7073386 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
7073264 TCAGTGTATT
7073274 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
1 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
7073329 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
1 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
7073384 TAT
1 TAT
7073387 CTATCCTTGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.37
Consensus pattern (55 bp):
TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
Found at i:7080483 original size:27 final size:27
Alignment explanation
Indices: 7080453--7080506 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7080443 TCATACAACC
* *
7080453 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
7080480 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
7080507 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:7090447 original size:21 final size:21
Alignment explanation
Indices: 7090421--7090461 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7090411 ATCTGCTCAA
* *
7090421 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7090442 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7090462 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7106074 original size:23 final size:23
Alignment explanation
Indices: 7106048--7106096 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
7106038 AATTAAAATA
*
7106048 AAATAATTAAGTA-ATAATTAATT
1 AAATAATTAAG-AGATAACTAATT
*
7106071 AAATTATTAAGAGATAACTAATT
1 AAATAATTAAGAGATAACTAATT
7106094 AAA
1 AAA
7106097 AAAAAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
AAATAATTAAGAGATAACTAATT
Found at i:7109834 original size:17 final size:18
Alignment explanation
Indices: 7109808--7109846 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7109798 GTATTATATA
*
7109808 ATAATGATAATAGTTA-T
1 ATAATAATAATAGTTAGT
7109825 ATAATAATAATAGTTAGT
1 ATAATAATAATAGTTAGT
7109843 ATAA
1 ATAA
7109847 AAGAAAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAGTTAGT
Found at i:7111076 original size:21 final size:21
Alignment explanation
Indices: 7111052--7111092 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7111042 TTTTTATTTA
* *
7111052 ATTAGTAAATAGATATTTATT
1 ATTAGTAAAAAAATATTTATT
*
7111073 ATTATTAAAAAAATATTTAT
1 ATTAGTAAAAAAATATTTAT
7111093 GAGATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTAGTAAAAAAATATTTATT
Found at i:7112583 original size:41 final size:38
Alignment explanation
Indices: 7112538--7112649 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 38
7112528 TGACTCTAAG
*
7112538 TTGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGA
1 TTGATGAGACACTGGGTGTCA-AAT-TTACTTCGGATAGA
** * ** *
7112578 TTTGATGAGGTACGGGGTACCAAATTTACTTCGGCTAGA
1 -TTGATGAGACACTGGGTGTCAAATTTACTTCGGATAGA
* *
7112617 TCGATGAGACATTGGGTGTCAAATATTACTTCG
1 TTGATGAGACACTGGGTGTCAAAT-TTACTTCG
7112650 AACTATCCGA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
38 17 0.30
39 21 0.38
40 2 0.04
41 16 0.29
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (38 bp):
TTGATGAGACACTGGGTGTCAAATTTACTTCGGATAGA
Found at i:7124220 original size:22 final size:21
Alignment explanation
Indices: 7124191--7124231 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7124181 AAAAATCTAC
7124191 ATATTAATTAGAATATTTTAA
1 ATATTAATTAGAATATTTTAA
* *
7124212 ATATATAATTTGAATTTTTT
1 ATAT-TAATTAGAATATTTT
7124232 TTTAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
ATATTAATTAGAATATTTTAA
Found at i:7124593 original size:44 final size:44
Alignment explanation
Indices: 7124529--7124741 Score: 258
Period size: 44 Copynumber: 4.9 Consensus size: 44
7124519 ATAAATAGAG
* * *
7124529 AGGATAGATACATAGAAAAAACTGAAGCAAGATAACTTTTAATC
1 AGGATAGACACATAGCAAAAACTGAAGCAAGATAGCTTTTAATC
* *
7124573 AGGATAGACACA-AGGCAAAAACTGGAGCAAGATAGCTATTAATC
1 AGGATAGACACATA-GCAAAAACTGAAGCAAGATAGCTTTTAATC
* *
7124617 AGGATAGATACATAGCAAAAACTGGAA-CAAGATTGCTTTTAATC
1 AGGATAGACACATAGCAAAAACT-GAAGCAAGATAGCTTTTAATC
*
7124661 AGGATAGACACA-AGGC--AAACTGGAGCAAGATAGCTTTTAATC
1 AGGATAGACACATA-GCAAAAACTGAAGCAAGATAGCTTTTAATC
* *
7124703 AGGATAGATACATAGCAAAAACT-AGAGCAAGATTGCTTT
1 AGGATAGACACATAGCAAAAACTGA-AGCAAGATAGCTTT
7124742 AAACCAAAGG
Statistics
Matches: 145, Mismatches: 15, Indels: 18
0.81 0.08 0.10
Matches are distributed among these distances:
41 2 0.01
42 34 0.23
43 3 0.02
44 103 0.71
45 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (44 bp):
AGGATAGACACATAGCAAAAACTGAAGCAAGATAGCTTTTAATC
Found at i:7124719 original size:86 final size:86
Alignment explanation
Indices: 7124529--7124741 Score: 338
Period size: 86 Copynumber: 2.4 Consensus size: 86
7124519 ATAAATAGAG
* **
7124529 AGGATAGATACATAGAAAAAACTGAAGCAAGATAACTTTTAATCAGGATAGACACAAGGCAAAAA
1 AGGATAGATACATAGCAAAAACTGAA-CAAGATTGCTTTTAATCAGGATAGACACAAGGC-AAAA
7124594 CTGGAGCAAGATAGCTATTAATC
64 CTGGAGCAAGATAGCTATTAATC
7124617 AGGATAGATACATAGCAAAAACTGGAACAAGATTGCTTTTAATCAGGATAGACACAAGGC-AAAC
1 AGGATAGATACATAGCAAAAACT-GAACAAGATTGCTTTTAATCAGGATAGACACAAGGCAAAAC
*
7124681 TGGAGCAAGATAGCTTTTAATC
65 TGGAGCAAGATAGCTATTAATC
*
7124703 AGGATAGATACATAGCAAAAACTAGAGCAAGATTGCTTT
1 AGGATAGATACATAGCAAAAACT-GAACAAGATTGCTTT
7124742 AAACCAAAGG
Statistics
Matches: 118, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
86 62 0.53
88 53 0.45
89 3 0.03
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (86 bp):
AGGATAGATACATAGCAAAAACTGAACAAGATTGCTTTTAATCAGGATAGACACAAGGCAAAACT
GGAGCAAGATAGCTATTAATC
Found at i:7127544 original size:17 final size:17
Alignment explanation
Indices: 7127522--7127555 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7127512 AAATGTAATA
7127522 CTGCAAAATGAAATTCT
1 CTGCAAAATGAAATTCT
7127539 CTGCAAAATGAAATTCT
1 CTGCAAAATGAAATTCT
7127556 TAGTACTGAC
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:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
CTGCAAAATGAAATTCT
Found at i:7128761 original size:54 final size:54
Alignment explanation
Indices: 7128691--7128865 Score: 180
Period size: 54 Copynumber: 3.5 Consensus size: 54
7128681 GATGGTCCTC
* *
7128691 AAGAGCTTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTCCTTG
1 AAGAGATTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
7128745 AAGAG-TTTTGTGGTTTTAAGGGAAATTG------A----T--GGTCCTTTCTTG
1 AAGAGATTTT-TGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
* * **
7128787 AAGAGATTTTTGGTTTTAAGGGAATTTGATAAAAAGTTTTGAGATTTTTTCTTG
1 AAGAGATTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
7128841 AAGAG-TTTTGTGGTTTTAAGGGAAA
1 AAGAGATTTT-TGGTTTTAAGGGAAA
7128866 CTTATGGTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 30
0.74 0.04 0.22
Matches are distributed among these distances:
42 33 0.33
43 4 0.04
44 1 0.01
48 2 0.02
52 1 0.01
53 8 0.08
54 51 0.51
ACGTcount: A:0.27, C:0.05, G:0.26, T:0.42
Consensus pattern (54 bp):
AAGAGATTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
Found at i:7128780 original size:42 final size:42
Alignment explanation
Indices: 7128729--7128816 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
7128719 ATAAAAAGTT
7128729 TTGA-GGTCCTTCCTTGAAGAG-TTTTGTGGTTTTAAGGGAAA
1 TTGATGGTCCTTCCTTGAAGAGATTTT-TGGTTTTAAGGGAAA
* *
7128770 TTGATGGTCCTTTCTTGAAGAGATTTTTGGTTTTAAGGGAAT
1 TTGATGGTCCTTCCTTGAAGAGATTTTTGGTTTTAAGGGAAA
7128812 TTGAT
1 TTGAT
7128817 AAAAAGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 4 0.09
42 35 0.81
43 4 0.09
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (42 bp):
TTGATGGTCCTTCCTTGAAGAGATTTTTGGTTTTAAGGGAAA
Found at i:7128841 original size:96 final size:96
Alignment explanation
Indices: 7128606--7128912 Score: 484
Period size: 96 Copynumber: 3.2 Consensus size: 96
7128596 TCAAGAAAGG
*
7128606 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTGTTT-TAGTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGT-TTTGTGGTTT
7128670 TAAGGGAAATTGATGGTCC--TC---AAGAGC
65 TAAGGGAAATTGATGGTCCTTTCTTGAAGAGC
*
7128697 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTCCTTGAAGAGTTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
*
7128762 AAGGGAAATTGATGGTCCTTTCTTGAAGAGA
66 AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
* * **
7128793 TTTTTGGTTTTAAGGGAATTTGATAAAAAGTTTTGAGATTTTTTCTTGAAGAGTTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
7128858 AAGGGAAACTT-ATGGTCCTTTCTTGAAGAGC
66 AAGGGAAA-TTGATGGTCCTTTCTTGAAGAGC
7128889 TTTTTGGTTTTAAGGGAAATTGAT
1 TTTTTGGTTTTAAGGGAAATTGAT
7128913 GGTGCTTTCT
Statistics
Matches: 199, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
90 3 0.02
91 77 0.39
93 2 0.01
96 115 0.58
97 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (96 bp):
TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
Found at i:7128881 original size:42 final size:42
Alignment explanation
Indices: 7128834--7128931 Score: 155
Period size: 42 Copynumber: 2.3 Consensus size: 42
7128824 TTTGAGATTT
7128834 TTTCTTGAAGAG-TTTTGTGGTTTTAAGGGAAACTT-ATGGTCC
1 TTTCTTGAAGAGCTTTT-TGGTTTTAAGGGAAA-TTGATGGTCC
*
7128876 TTTCTTGAAGAGCTTTTTGGTTTTAAGGGAAATTGATGGTGC
1 TTTCTTGAAGAGCTTTTTGGTTTTAAGGGAAATTGATGGTCC
7128918 TTTCTTGAAGAGCT
1 TTTCTTGAAGAGCT
7128932 CTTCTGTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
41 2 0.04
42 47 0.89
43 4 0.08
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (42 bp):
TTTCTTGAAGAGCTTTTTGGTTTTAAGGGAAATTGATGGTCC
Found at i:7130421 original size:24 final size:24
Alignment explanation
Indices: 7130392--7130486 Score: 145
Period size: 24 Copynumber: 4.0 Consensus size: 24
7130382 TCTTTCTAGA
* *
7130392 ATATTTAATATTTATTAGTATAAT
1 ATATTTAACATTTATTAGCATAAT
*
7130416 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAACATTTATTAGCATAAT
7130440 ATATTTAACATTTATTAGCATAAT
1 ATATTTAACATTTATTAGCATAAT
* *
7130464 ATATTTGACATTTATTAGTATAA
1 ATATTTAACATTTATTAGCATAA
7130487 AATCTTTGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (24 bp):
ATATTTAACATTTATTAGCATAAT
Found at i:7140103 original size:25 final size:25
Alignment explanation
Indices: 7140046--7140113 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
7140036 TTTTCTTTTC
** ** *
7140046 TTTTCTTTTCATTTTTTAGATTAGG
1 TTTTCTTTTGTTTTTTTAGAAAAGA
7140071 TTTTCTTTT-TTTTTTTAGAAAAGA
1 TTTTCTTTTGTTTTTTTAGAAAAGA
*
7140095 TTTTACTTTTGTTGTTTTA
1 TTTT-CTTTTGTTTTTTTA
7140114 TTTCTTTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.42
25 14 0.39
26 7 0.19
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (25 bp):
TTTTCTTTTGTTTTTTTAGAAAAGA
Found at i:7154161 original size:5 final size:5
Alignment explanation
Indices: 7154151--7154187 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
7154141 TTGTGTGTTC
7154151 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
7154188 TCACAAACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:7160821 original size:40 final size:40
Alignment explanation
Indices: 7160760--7161005 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
7160750 CGGAATTTAG
* * * *
7160760 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
7160800 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
7160840 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
7160880 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAA-
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
7160919 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
7160959 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
7160999 CCGGATA
1 CCGGATA
7161006 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 40 0.22
40 142 0.76
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:7160962 original size:79 final size:80
Alignment explanation
Indices: 7160756--7161005 Score: 328
Period size: 79 Copynumber: 3.1 Consensus size: 80
7160746 TCTTCGGAAT
* * * * * * * *
7160756 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCA
7160819 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * *
7160835 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCA
7160899 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* *
7160915 TTA-ACCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCAC
*
7160979 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGTC
7160994 TTAGCCCGGATA
1 TTAGCCCGGATA
7161006 TCATTCAAAT
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 74 0.50
80 71 0.48
81 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCAC
AAATGCCTTCGGGTC
Found at i:7162273 original size:33 final size:33
Alignment explanation
Indices: 7162231--7162298 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7162221 GCCTTAGTAC
7162231 ACAACTTGTTAGCCGATTTTTCTCCATTTAGCA
1 ACAACTTGTTAGCCGATTTTTCTCCATTTAGCA
7162264 ACAACTTGTTAGCCGATTTTTCTCCATTTAGCA
1 ACAACTTGTTAGCCGATTTTTCTCCATTTAGCA
7162297 AC
1 AC
7162299 TAATGCACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (33 bp):
ACAACTTGTTAGCCGATTTTTCTCCATTTAGCA
Found at i:7167855 original size:26 final size:26
Alignment explanation
Indices: 7167819--7167870 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
7167809 CACCACTGAA
* *
7167819 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
7167845 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
7167871 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:7168017 original size:78 final size:69
Alignment explanation
Indices: 7167826--7167980 Score: 229
Period size: 69 Copynumber: 2.2 Consensus size: 69
7167816 GAATCGGGGA
*
7167826 ATCATCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATAACAA
1 ATCA-CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGAACAA
7167891 TGGAT
65 TGGAT
* *
7167896 ATCGCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
1 ATCACACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGA-AC
**
7167961 GGTGGAT
63 AATGGAT
7167968 ATCACACTTAGCA
1 ATCACACTTAGCA
7167981 CCACCAATGA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
69 45 0.59
70 3 0.04
71 10 0.13
72 18 0.24
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.24
Consensus pattern (69 bp):
ATCACACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGAACAAT
GGAT
Found at i:7168023 original size:26 final size:26
Alignment explanation
Indices: 7167993--7168043 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7167983 ACCAATGAAC
*
7167993 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
7168019 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
7168044 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:7168104 original size:103 final size:104
Alignment explanation
Indices: 7167899--7168109 Score: 354
Period size: 103 Copynumber: 2.0 Consensus size: 104
7167889 AATGGATATC
7167899 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGT
* *
7167964 GGATATCACACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCACACATAGCACCACCAATAAACCGGGGAATCA
7168003 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGT
* * *
7168067 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCACACATAGCACCACCAATAAACCGGGGAATCA
7168106 GCAC
1 GCAC
7168110 ACAACAACCC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
103 58 0.57
104 43 0.43
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATATGGT
GGATATCACACATAGCACCACCAATAAACCGGGGAATCA
Found at i:7175100 original size:26 final size:26
Alignment explanation
Indices: 7175070--7175120 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7175060 ACCAATGAAC
*
7175070 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
7175096 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
7175121 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:7175160 original size:103 final size:102
Alignment explanation
Indices: 7174976--7175196 Score: 356
Period size: 103 Copynumber: 2.2 Consensus size: 102
7174966 AATGGATATC
7174976 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
7175041 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACC-CC-ATAAACCGGGGAATCA
7175080 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
7175144 GGATCA-CGCACATAGCACCCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCCCATAAACCGGGGAATCA
**
7175181 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
7175197 TTTATATACA
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
101 28 0.25
102 2 0.02
103 63 0.57
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (102 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCCCATAAACCGGGGAATCA
Found at i:7178634 original size:40 final size:40
Alignment explanation
Indices: 7178573--7178819 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
7178563 CGGAATTTAG
* * * *
7178573 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
7178613 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
7178653 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
7178693 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
7178733 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
7178773 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
7178813 CCGGATA
1 CCGGATA
7178820 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:7185623 original size:18 final size:17
Alignment explanation
Indices: 7185602--7185635 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
7185592 TAGAAGTTGT
7185602 AATAATTATAGATTTAAA
1 AATAATTATA-ATTTAAA
7185620 AATAATTATAATTTAA
1 AATAATTATAATTTAA
7185636 TAGAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:7188822 original size:24 final size:23
Alignment explanation
Indices: 7188786--7188832 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
7188776 TTTCATATTC
**
7188786 TTTTTAATTTTTTTAATTTATTTA
1 TTTTTAAAATTTTTAATTT-TTTA
7188810 TTTTTAAAATTTTTAATTTTTTA
1 TTTTTAAAATTTTTAATTTTTTA
7188833 CTATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAAAATTTTTAATTTTTTA
Found at i:7192861 original size:71 final size:71
Alignment explanation
Indices: 7192745--7192891 Score: 242
Period size: 71 Copynumber: 2.1 Consensus size: 71
7192735 CGAAGACCTA
* * *
7192745 GGTGTGGTAGATGGATGTGTTTTCATGTGTATATGTATTTTCTACCTAC-GAGCTTTGTACTCAT
1 GGTGTCGTAGATGGATGTGTTTGCATGTGTATATGTATTTTCTACCTACAG-GCTTTGCACTCAT
7192809 GTGCTTT
65 GTGCTTT
*
7192816 GGTGTCGTGGATGGATGTGTTTGCATGTGTATATGTATTTTCTACCTACAGGCTTTGCACTCATG
1 GGTGTCGTAGATGGATGTGTTTGCATGTGTATATGTATTTTCTACCTACAGGCTTTGCACTCATG
7192881 TGCTTT
66 TGCTTT
7192887 GGTGT
1 GGTGT
7192892 GGTGTAGTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 70 0.99
72 1 0.01
ACGTcount: A:0.16, C:0.14, G:0.27, T:0.44
Consensus pattern (71 bp):
GGTGTCGTAGATGGATGTGTTTGCATGTGTATATGTATTTTCTACCTACAGGCTTTGCACTCATG
TGCTTT
Found at i:7194022 original size:23 final size:22
Alignment explanation
Indices: 7193992--7194035 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7193982 TCTCAATTCA
*
7193992 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
7194014 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
7194036 ATACGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:7200566 original size:23 final size:22
Alignment explanation
Indices: 7200540--7200595 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
7200530 TCACAATTGG
7200540 GCATTCAAACTCATACCAAATAT
1 GCATTCAAACTCATACCAAA-AT
* * *
7200563 GCATCCAAAGT-ATACCTAAAT
1 GCATTCAAACTCATACCAAAAT
7200584 G-A-TCAAACTCAT
1 GCATTCAAACTCAT
7200596 TTAATAGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 3 0.11
22 7 0.26
23 9 0.33
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (22 bp):
GCATTCAAACTCATACCAAAAT
Found at i:7204006 original size:45 final size:45
Alignment explanation
Indices: 7203926--7204040 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
7203916 TAAAGTCTGA
* * *
7203926 CACTGGACTGTGGATACACAACAAAAATTCGCAGATGAAACCTGC
1 CACTGGACTGTGGGTACACAACAAAAATTCACAGATAAAACCTGC
* **
7203971 CACTGGATTGTGGGTACACAAC-AAAATATCACAGATAAAATTTGC
1 CACTGGACTGTGGGTACACAACAAAAAT-TCACAGATAAAACCTGC
* * *
7204016 CACTAGACTGTAGGTACACTACAAA
1 CACTGGACTGTGGGTACACAACAAA
7204041 CTATTGCAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.09
45 51 0.88
46 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (45 bp):
CACTGGACTGTGGGTACACAACAAAAATTCACAGATAAAACCTGC
Found at i:7204054 original size:45 final size:45
Alignment explanation
Indices: 7203968--7204056 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
7203958 AGATGAAACC
* * * *
7203968 TGCCACTGGATTGTGGGTACACAACAAAATATCACAGATAAAATT
1 TGCCACTAGACTGTAGGTACACAACAAAATATCACAAATAAAATT
* * **
7204013 TGCCACTAGACTGTAGGTACACTACAAACTATTGCAAATAAAAT
1 TGCCACTAGACTGTAGGTACACAACAAAATATCACAAATAAAAT
7204057 CTGTCACTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (45 bp):
TGCCACTAGACTGTAGGTACACAACAAAATATCACAAATAAAATT
Found at i:7204812 original size:29 final size:28
Alignment explanation
Indices: 7204656--7205132 Score: 333
Period size: 28 Copynumber: 17.0 Consensus size: 28
7204646 TTGGTAAAGC
*
7204656 AGGGGACAAAA-TAGTAAAATCT-AAAAAA
1 AGGGG-CAAAACTA-TAAAATCTGAAAAAT
** *
7204684 ATGGGATAAAACTATAAAATCTAAAAAAAT
1 A-GGGGCAAAACTATAAAATCT-GAAAAAT
* * *
7204714 A-GGGAAAAATTGTAAAAT-TGAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* ** * *
7204740 ATGGGCAAAGTTGTAAAA-CATAAAAAAT
1 AGGGGCAAAACTATAAAATC-TGAAAAAT
* * ** *
7204768 A-AGGCTAAGTTGTAAAATCTGAAAACAT
1 AGGGGCAAAACTATAAAATCTGAAAA-AT
*
7204796 AGGGGCAAAACTATAAAATCTAAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * *
7204824 AGTGGAAAAACTATAAAATTTGAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * * *
7204852 AGGAGACAAAATTATAAAATTTGACAAAT
1 AGG-GGCAAAACTATAAAATCTGAAAAAT
* *
7204881 AGGGGCTAAACTATAAAATATGAGAAAAT
1 AGGGGCAAAACTATAAAATCTGA-AAAAT
*
7204910 AGGGGCAAAACTATAAAATCTAAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * *
7204938 AAGGGCTAAACTATAAAATCTAAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * *
7204966 AAGGG-AAAATTATAAAATTTGAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * * **
7204993 ATGAGCAAAACTGTAAAATCTTTAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * * * *
7205021 AGAGGAAAAATTGTAAAATCTAAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* *
7205049 A-GGGCAAAAGTGTAAAATCT-AGAAAAT
1 AGGGGCAAAACTATAAAATCTGA-AAAAT
* * * *
7205076 AGGGGCAAAAGTGTAAAATATGGAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
* * *
7205104 ATGGGAAAAACTATAAAATTTGAAAAAT
1 AGGGGCAAAACTATAAAATCTGAAAAAT
7205132 A
1 A
7205133 AGGGACACAA
Statistics
Matches: 365, Mismatches: 68, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.02
27 77 0.21
28 203 0.56
29 71 0.19
30 6 0.02
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (28 bp):
AGGGGCAAAACTATAAAATCTGAAAAAT
Found at i:7205103 original size:83 final size:82
Alignment explanation
Indices: 7204656--7205132 Score: 315
Period size: 83 Copynumber: 5.7 Consensus size: 82
7204646 TTGGTAAAGC
* *
7204656 AGGGGACAAAA-TAGTAAAATCTAAAAAA-ATG-GGATAAAACTATAAAATCTAAAAAAATAGGG
1 AGGGG-CAAAACT-GTAAAATATAAAAAATA-GAGGA-AAAATTATAAAATCT-AAAAAATAGGG
* * *
7204718 AAAAATTGTAAAATT-GAAAAAT
61 CAAAACTATAAAATTAG-AAAAT
* ** * ** * * *
7204740 ATGGGCAAAGTTGTAAAACATAAAAAATA-AGGCTAAGTTGTAAAATCTGAAAACATAGGGGCAA
1 AGGGGCAAAACTGTAAAATATAAAAAATAGAGGAAAAATTATAAAATCT-AAAAAATA-GGGCAA
*
7204804 AACTATAAAATCTAAAAAAT
64 AACTATAAAAT-TAGAAAAT
* * * * * * * * *
7204824 AGTGGAAAAACTATAAAATTTGAAAAATAG-GAGACAAAATTATAAAATTTGACAAATAGGGGCT
1 AGGGGCAAAACTGTAAAATATAAAAAATAGAG-GA-AAAATTATAAAATCTAAAAAATA-GGGCA
7204888 AAACTATAAAATATGAGAAAAT
63 AAACTATAAAAT-T-AGAAAAT
* * ** *
7204910 AGGGGCAAAACTATAAAATCTAAAAAATA-AGGGCTAAACTATAAAATCTAAAAAATAAGGG-AA
1 AGGGGCAAAACTGTAAAATATAAAAAATAGA-GGAAAAATTATAAAATCTAAAAAAT-AGGGCAA
* *
7204973 AATTATAAAATTTGAAAAAT
64 AACTATAAAATTAG-AAAAT
* * * ** *
7204993 ATGAGCAAAACTGTAAAATCTTTAAAATAGAGGAAAAATTGTAAAATCTAAAAAATAGGGCAAAA
1 AGGGGCAAAACTGTAAAATATAAAAAATAGAGGAAAAATTATAAAATCTAAAAAATAGGGCAAAA
* *
7205058 GTGTAAAATCTAGAAAAT
66 CTATAAAAT-TAGAAAAT
* ** * * *
7205076 AGGGGCAAAAGTGTAAAATATGGAAAATATG-GGAAAAACTATAAAATTTGAAAAATA
1 AGGGGCAAAACTGTAAAATATAAAAAATA-GAGGAAAAATTATAAAATCTAAAAAATA
7205133 AGGGACACAA
Statistics
Matches: 305, Mismatches: 70, Indels: 37
0.74 0.17 0.09
Matches are distributed among these distances:
82 23 0.08
83 145 0.48
84 48 0.16
85 44 0.14
86 44 0.14
87 1 0.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (82 bp):
AGGGGCAAAACTGTAAAATATAAAAAATAGAGGAAAAATTATAAAATCTAAAAAATAGGGCAAAA
CTATAAAATTAGAAAAT
Found at i:7206981 original size:16 final size:17
Alignment explanation
Indices: 7206944--7206981 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7206934 TATTACATTC
7206944 AAAA-TTAAAAATATTT
1 AAAATTTAAAAATATTT
*
7206960 ATAATTTAAAAATA-TT
1 AAAATTTAAAAATATTT
7206976 AAAATT
1 AAAATT
7206982 ATTTGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTAAAAATATTT
Found at i:7209921 original size:18 final size:20
Alignment explanation
Indices: 7209898--7209950 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
7209888 TTTTGTTGGC
*
7209898 ATAGGTGAATTGGT-TTAT-
1 ATAGGTGAATTGGTAATATG
7209916 ATAGGTGAATTGGTAATATG
1 ATAGGTGAATTGGTAATATG
*
7209936 ATAAGTGAATTGGTA
1 ATAGGTGAATTGGTA
7209951 TGAGACCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 14 0.45
19 3 0.10
20 14 0.45
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (20 bp):
ATAGGTGAATTGGTAATATG
Found at i:7209945 original size:20 final size:19
Alignment explanation
Indices: 7209902--7209950 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
7209892 GTTGGCATAG
* *
7209902 GTGAATTGGT-TTATATAG
1 GTGAATTGGTAATATATAA
7209920 GTGAATTGGTAATATGATAA
1 GTGAATTGGTAATAT-ATAA
7209940 GTGAATTGGTA
1 GTGAATTGGTA
7209951 TGAGACCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 3 0.11
20 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.39
Consensus pattern (19 bp):
GTGAATTGGTAATATATAA
Found at i:7218977 original size:178 final size:177
Alignment explanation
Indices: 7218660--7219381 Score: 829
Period size: 176 Copynumber: 4.1 Consensus size: 177
7218650 CTTAGAATTA
* * *
7218660 AAGATCTTATCTCCCTGA-AGTTGCAGCGGAGCAGATCTTCGCAG-ATGGTGAATCTTATCTCCA
1 AAGATCTTATTTCACTGAGA-TTGCAGCGAAGCAGA--TTCG-AGAATGGTGAATCTTATCTCCA
* * * *
7218723 TGTATCGACAATGGAACAGATTTTATCACCAGCCTCATCTCTCTAAGGTAGCAAGAAAGCAGGTT
62 TGTATCGACAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGGAAGAGAGCAGGTT
7218788 GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTG
127 GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTG
* * * *
7218839 AAGATCTTATTTCTCTGAG-TTGCACCAAAGCAGATCTTCGCAG-ATGGTGAATCTTATCTTCAT
1 AAGATCTTATTTCACTGAGATTGCAGCGAAGCAGA--TTCG-AGAATGGTGAATCTTATCTCCAT
*
7218902 GTATCGATAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGGAAGAGAGCAGGTTG
63 GTATCGACAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGGAAGAGAGCAGGTTG
* * *
7218967 AAGAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGTAGACTGAGATTTA
128 AAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTG
* * *
7219017 AAGATCTTATTTCACTGAGATTGCAGTGGAA-CAGA-TCGAGAATGGT-AGATATTATCTTCATG
1 AAGATCTTATTTCACTGAGATTGCAG-CGAAGCAGATTCGAGAATGGTGA-ATCTTATCTCCATG
* * * * ** *
7219079 TATTGGCAATGGAGCAGATTTTATCACCGGCCTCATCCCTCTGATATAGTAAGAGAGCAGGTTGA
64 TATCGACAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGGAAGAGAGCAGGTTGA
* * * * * *
7219144 ATAATAAATCTTATCTTCCTGAGGTAGCAATGAAGCAGATTGAGTTTTG
129 AGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTG
* * * * * *
7219193 AATATCTTATTTCACTGAGATTGCTGTGGAGCA-AATCGAGAATGGTGAATCCTATCTCCATGTA
1 AAGATCTTATTTCACTGAGATTGCAGCGAAGCAGATTCGAGAATGGTGAATCTTATCTCCATGTA
* * * * * * * * *
7219257 TCGGCAATGGAGTAGATTTTACCACTAACCTTATTTCTCTGAAGT-GGCAAGAGAGC-GAGTTAA
66 TCGACAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGG-AAGAGAGCAG-GTTGA
7219320 AG-ATGGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGA-TTG
129 AGAAT-GAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG-AGATTTG
7219369 AAGATCTTATTTC
1 AAGATCTTATTTC
7219382 CTCAAGTAAT
Statistics
Matches: 468, Mismatches: 63, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
175 10 0.02
176 263 0.56
177 3 0.01
178 165 0.35
179 25 0.05
180 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (177 bp):
AAGATCTTATTTCACTGAGATTGCAGCGAAGCAGATTCGAGAATGGTGAATCTTATCTCCATGTA
TCGACAATGGAGCAGATTTTATCACCAGCCTCATCTCTCTGAGGTAGGAAGAGAGCAGGTTGAAG
AATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGATTTG
Found at i:7221102 original size:18 final size:18
Alignment explanation
Indices: 7221054--7221103 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7221044 ATTTTTATTA
*
7221054 TATCATTTATATTATTTG
1 TATCATTTATATTAATTG
*
7221072 TAAT-GTTTATATTAATTG
1 T-ATCATTTATATTAATTG
*
7221090 TATCATTTGTATTA
1 TATCATTTATATTA
7221104 TTAGTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (18 bp):
TATCATTTATATTAATTG
Found at i:7225913 original size:130 final size:131
Alignment explanation
Indices: 7225691--7226060 Score: 356
Period size: 130 Copynumber: 2.8 Consensus size: 131
7225681 GTGAGAATGT
* * * * ** * * *
7225691 AAAGGAATGTTCGATCATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATT-C
1 AAAGG-ATATTCGATTATTTTGA-CAAAAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* * * * * *
7225755 TCGAATTGTCAAATACCGAATATTGCCTTCGTTTTAAATAATTTTTAGAAGATATGAATGAAATC
64 ACGAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAATC
7225820 TT-
129 TTG
* *
7225822 AAAGGGATATTTGATTATTTT-A-AATAATCGAAATTGCAACCCAACACGTTAGGGCACGATTCC
1 AAA-GGATATTCGATTATTTTGACAA-AAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* * ** * * * * *
7225885 ACAAATTGCCAAATATCGCGTATCGCCTTCG-TTCAAGGGA-TTTTAAAAGACATGAGTGAAATT
64 ACGAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAATC
7225948 TTG
129 TTG
* * * *
7225951 AAATGATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCG
1 AAAGGATATTCGATTATTTTGA-CAAAAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* * *
7226016 CGAATTGTCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTT
65 CGAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAGAATTTTT
7226061 GAATGAATGA
Statistics
Matches: 188, Mismatches: 42, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
128 38 0.20
129 37 0.20
130 84 0.45
131 23 0.12
132 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (131 bp):
AAAGGATATTCGATTATTTTGACAAAAGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
GAATTGTCAAATATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAATGAAATCTT
G
Found at i:7227262 original size:5 final size:5
Alignment explanation
Indices: 7227252--7227283 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7227242 CATTATGTGA
7227252 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7227284 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:7227277 original size:9 final size:9
Alignment explanation
Indices: 7227253--7227283 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7227243 ATTATGTGAA
7227253 AAATAAAAT
1 AAATAAAAT
7227262 AAAATAAAAT
1 -AAATAAAAT
7227272 AAATAAAAT
1 AAATAAAAT
7227281 AAA
1 AAA
7227284 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:7236191 original size:20 final size:20
Alignment explanation
Indices: 7236166--7236205 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7236156 TTGTCAAATC
7236166 CCTACTGAAGCAACTTGGCT
1 CCTACTGAAGCAACTTGGCT
7236186 CCTACTGAAGCAACTTGGCT
1 CCTACTGAAGCAACTTGGCT
7236206 AAGAGTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (20 bp):
CCTACTGAAGCAACTTGGCT
Found at i:7237074 original size:18 final size:18
Alignment explanation
Indices: 7237050--7237089 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
7237040 GTCTCTCTCA
7237050 ATAAAAATTCAAAATATTT
1 ATAAAAATTCAAAA-ATTT
*
7237069 ATAAAAATTCTAAAATTT
1 ATAAAAATTCAAAAATTT
7237087 ATA
1 ATA
7237090 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAAATTCAAAAATTT
Found at i:7240621 original size:75 final size:76
Alignment explanation
Indices: 7240535--7240682 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 76
7240525 ATTTTTATAT
*
7240535 ATAAAAATAAATTTAAAAAATATAATATATCAAATACACTAAAAATATTAAAATAAGTGTTTCCA
1 ATAAAAATAAATTTAAAAAATATAATATATCAAATACACTAAAAATATTAAAATAAATGTTTCCA
7240600 AA-AAATTTCA
66 AATAAATTTCA
*
7240610 ATAAAAATAAATTTAAAAAATATAATATATCAAATACAGTAAAAATATTAAAATAAATGTTTCCA
1 ATAAAAATAAATTTAAAAAATATAATATATCAAATACACTAAAAATATTAAAATAAATGTTTCCA
7240675 AATAAATT
66 AATAAATT
7240683 GAAAATACAT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 65 0.93
76 5 0.07
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (76 bp):
ATAAAAATAAATTTAAAAAATATAATATATCAAATACACTAAAAATATTAAAATAAATGTTTCCA
AATAAATTTCA
Found at i:7243171 original size:7 final size:7
Alignment explanation
Indices: 7243159--7243194 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
7243149 ACTACAATTT
7243159 ATTTTTA
1 ATTTTTA
7243166 ATTTTTA
1 ATTTTTA
7243173 ATTTTTA
1 ATTTTTA
7243180 ATTTTTA
1 ATTTTTA
7243187 ATTTTTA
1 ATTTTTA
7243194 A
1 A
7243195 ACATTTCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:7254964 original size:18 final size:18
Alignment explanation
Indices: 7254912--7254967 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
7254902 TCATTAACAC
*
7254912 TCAG-AACAATTATTTAT
1 TCAGTAACAATTAATTAT
* * *
7254929 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATTAATTAT
*
7254947 TCGGTAACAATTAATTAT
1 TCAGTAACAATTAATTAT
7254965 TCA
1 TCA
7254968 ATAATAACCA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCAGTAACAATTAATTAT
Found at i:7255031 original size:18 final size:18
Alignment explanation
Indices: 7255005--7255189 Score: 137
Period size: 18 Copynumber: 10.3 Consensus size: 18
7254995 AATTGATCGG
*
7255005 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
7255023 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* * *
7255041 -TATTCAGTAAAAATTAA
1 TTATTCAGTAACAGTCAA
7255058 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
7255076 TTCATTCAGTGACAATCCA
1 TT-ATTCAGTAACAGTCAA
* *
7255095 TTATTCAATAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
7255113 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
7255131 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
7255150 -TATCCAGTAACAGTTAA
1 TTATTCAGTAACAGTCAA
* *
7255167 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAA
7255185 TTATT
1 TTATT
7255190 TTATACTTTT
Statistics
Matches: 131, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
17 19 0.15
18 96 0.73
19 16 0.12
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:7255065 original size:19 final size:18
Alignment explanation
Indices: 7255023--7255069 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7255013 TAACAGTCAA
*
7255023 TTATTCAGT-AAAATCAG
1 TTATTCAGTAAAAATAAG
*
7255040 ATATTCAGTAAAAATTAAG
1 TTATTCAGTAAAAA-TAAG
7255059 TTATTCAGTAA
1 TTATTCAGTAA
7255070 CAGTCATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAAAAATAAG
Found at i:7255069 original size:54 final size:52
Alignment explanation
Indices: 7255005--7255189 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 52
7254995 AATTGATCGG
*
7255005 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAAAAATTAA
1 TTATTCAGTAACAGTCAATTATTCAGTAAAATCA-ATATTCAGTAAAAATTAA
* * * ** *
7255058 GTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCCATTATTCAATAATGATCAA
1 -TTATTCAGTAACAGTCAATT-ATTCAGT-AAAAT-CAATATTCAGTAAAAATTAA
* * * * * * *
7255113 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAATATCCAGTAACAGTTAA
1 TTATTCAGTAACAGTCAATTATTCAGTAA-AATC-AATATTCAGTAAAAATTAA
* *
7255167 TTATTCAGTAATAATCAATTATT
1 TTATTCAGTAACAGTCAATTATT
7255190 TTATACTTTT
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
53 5 0.05
54 78 0.75
55 19 0.18
56 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (52 bp):
TTATTCAGTAACAGTCAATTATTCAGTAAAATCAATATTCAGTAAAAATTAA
Found at i:7255170 original size:72 final size:72
Alignment explanation
Indices: 7255006--7255189 Score: 230
Period size: 72 Copynumber: 2.6 Consensus size: 72
7254996 ATTGATCGGT
7255006 TATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA-TATTCAGTAAAAATTAAGTTATTCAGTA
1 TATCCAGTAACAGTCAATTATTCAGTAATAATCA-ATTATTCAGTAAAAATTAAGTTATTCAGTA
*
7255069 ACAGTCAT
65 ACAGTCAA
* * * * * * * *
7255077 TCATTCAGTGACAATCCATTATTCAATAATGATCAATTATTCAGT-AATATTCAGTTATTCAGTA
1 T-ATCCAGTAACAGTCAATTATTCAGTAATAATCAATTATTCAGTAAAAATTAAGTTATTCAGTA
7255141 ACAGTCTAA
65 ACAGTC-AA
*
7255150 TATCCAGTAACAGTTAATTATTCAGTAATAATCAATTATT
1 TATCCAGTAACAGTCAATTATTCAGTAATAATCAATTATT
7255190 TTATACTTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
71 1 0.01
72 78 0.84
73 14 0.15
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.36
Consensus pattern (72 bp):
TATCCAGTAACAGTCAATTATTCAGTAATAATCAATTATTCAGTAAAAATTAAGTTATTCAGTAA
CAGTCAA
Found at i:7255440 original size:51 final size:45
Alignment explanation
Indices: 7255347--7255445 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
7255337 ACAAATCCAG
* *
7255347 AACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAACGGT
1 AACAGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACGGT
* *
7255392 AACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACGGT
*
7255437 AACGGTAAC
1 AACAGTAAC
7255446 GGTAACAGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACGGT
Found at i:7255815 original size:9 final size:9
Alignment explanation
Indices: 7255801--7255834 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
7255791 ATAAATCAAT
7255801 TCAATATAA
1 TCAATATAA
7255810 TCAATATAA
1 TCAATATAA
7255819 TCAATATAA
1 TCAATATAA
7255828 TCAATAT
1 TCAATAT
7255835 TCAATCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (9 bp):
TCAATATAA
Found at i:7255817 original size:30 final size:32
Alignment explanation
Indices: 7255766--7255832 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 32
7255756 AATATTCATT
* *
7255766 TCAATTCAAACATTCACATATATTC-ATA-AA
1 TCAATTCAAACAATCACATATAATCAATATAA
*
7255796 TCAATTCAATATAATCA-ATATAATCAATATAA
1 TCAATTCAA-ACAATCACATATAATCAATATAA
7255828 TCAAT
1 TCAAT
7255833 ATTCAATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 16 0.52
31 8 0.26
32 7 0.23
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (32 bp):
TCAATTCAAACAATCACATATAATCAATATAA
Found at i:7255821 original size:23 final size:22
Alignment explanation
Indices: 7255777--7255823 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
7255767 CAATTCAAAC
*
7255777 ATTCACATATATTCATAAATCA
1 ATTCACATATAATCATAAATCA
7255799 ATTCA-ATATAATCAATATAATCA
1 ATTCACATATAATC-ATA-AATCA
7255822 AT
1 AT
7255824 ATAATCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 8 0.36
23 7 0.32
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTCACATATAATCATAAATCA
Found at i:7261228 original size:19 final size:20
Alignment explanation
Indices: 7261204--7261254 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
7261194 AAATATTATG
* *
7261204 ATTTTTACAATT-TATAATT
1 ATTTTTAAAATTGCATAATT
7261223 ATTTTTTAAAATTGCATAATT
1 A-TTTTTAAAATTGCATAATT
*
7261244 ATTTTCAAAAT
1 ATTTTTAAAAT
7261255 AATTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTTTAAAATTGCATAATT
Found at i:7261351 original size:19 final size:18
Alignment explanation
Indices: 7261257--7261369 Score: 74
Period size: 19 Copynumber: 6.2 Consensus size: 18
7261247 TTCAAAATAA
7261257 TTTA-AATTATTTAATAGTT
1 TTTACAATT-TTTAATA-TT
* *
7261276 TTTAC-A-TTTTAAAAAT
1 TTTACAATTTTTAATATT
*
7261292 TTAACAATTTTT-ATACTTT
1 TTTACAATTTTTAATA--TT
* *
7261311 TTTACAATTTTTAAGAACT
1 TTTACAATTTTTAA-TATT
7261330 TTTACAACTTTTTAATATT
1 TTTACAA-TTTTTAATATT
*
7261349 TTTA-AATTATTTTATATT
1 TTTACAATT-TTTAATATT
7261367 TTT
1 TTT
7261370 TAAAATAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
16 5 0.07
17 11 0.15
18 18 0.24
19 31 0.42
20 8 0.11
21 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTACAATTTTTAATATT
Found at i:7264374 original size:22 final size:22
Alignment explanation
Indices: 7264349--7264400 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
7264339 TAAAAAGAAA
* *
7264349 ATTATTGTTTTGTTACAATTTT
1 ATTATTATGTTGTTACAATTTT
**
7264371 ATTATTATGTTGTTATTATTTT
1 ATTATTATGTTGTTACAATTTT
*
7264393 ATTGTTAT
1 ATTATTAT
7264401 TGTTTAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.10, T:0.65
Consensus pattern (22 bp):
ATTATTATGTTGTTACAATTTT
Found at i:7264412 original size:22 final size:22
Alignment explanation
Indices: 7264366--7264427 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
7264356 TTTTGTTACA
* *
7264366 ATTTTATTATTA-TGTTGTTATT
1 ATTTTATTATTATTGTT-TAAAT
*
7264388 ATTTTATTGTTATTGTTTAAAT
1 ATTTTATTATTATTGTTTAAAT
* *
7264410 ATTATATAATTATTGTTT
1 ATTTTATTATTATTGTTT
7264428 TATTGTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
ATTTTATTATTATTGTTTAAAT
Found at i:7270883 original size:25 final size:24
Alignment explanation
Indices: 7270829--7270890 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
7270819 TTTACTCTAC
*
7270829 TTTAAAAAT-TGAATGTAATTAAT
1 TTTAAAAATATAAATGTAATTAAT
* *
7270852 TTGAAAAATATAAATTTAATTTAAT
1 TTTAAAAATATAAATGTAA-TTAAT
*
7270877 TTTAAAATTATAAA
1 TTTAAAAATATAAA
7270891 CTATTGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 8 0.25
24 7 0.22
25 17 0.53
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTAAAAATATAAATGTAATTAAT
Found at i:7271327 original size:10 final size:11
Alignment explanation
Indices: 7271307--7271349 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
7271297 TAATCTAGAA
7271307 AAAAAATTTAT
1 AAAAAATTTAT
7271318 AAAAAATTATAAT
1 AAAAAATT-T-AT
*
7271331 AATAAAATTTTT
1 AA-AAAATTTAT
7271343 AAAAAAT
1 AAAAAAT
7271350 ACGATAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 13 0.46
12 4 0.14
13 5 0.18
14 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAAATTTAT
Found at i:7271356 original size:24 final size:25
Alignment explanation
Indices: 7271309--7271357 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7271299 ATCTAGAAAA
*
7271309 AAAATTTATAAAAAATTATAATAAT
1 AAAATTTATAAAAAATTACAATAAT
* *
7271334 AAAATTTTTAAAAAA-TACGATAAT
1 AAAATTTATAAAAAATTACAATAAT
7271358 TGAAAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAATTTATAAAAAATTACAATAAT
Found at i:7271455 original size:25 final size:24
Alignment explanation
Indices: 7271409--7271455 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7271399 ATAAAAATTA
* **
7271409 AAATTTTTAAGAATATTTTTTTAG
1 AAATTTTTAACAATATAATTTTAG
7271433 AAATTTTTAACATATATAATTTT
1 AAATTTTTAACA-ATATAATTTT
7271456 TAATACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AAATTTTTAACAATATAATTTTAG
Found at i:7276932 original size:26 final size:25
Alignment explanation
Indices: 7276898--7276951 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
7276888 TTTTGAGTAA
7276898 TTTAATTTT-TTTTCTTTTAT-ATTCT
1 TTTAATTTTCTTTT-TTTT-TCATTCT
7276923 TTTAACTTTTCTTTTTTTTTCATTCT
1 TTTAA-TTTTCTTTTTTTTTCATTCT
7276949 TTT
1 TTT
7276952 TTGCTTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 6 0.23
26 16 0.62
27 4 0.15
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTAATTTTCTTTTTTTTTCATTCT
Found at i:7279532 original size:27 final size:27
Alignment explanation
Indices: 7279439--7279525 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
7279429 GTAATGCAAA
* * *
7279439 AATCTAACCGTTACAATATGATCGTTGG
1 AATCTGACCGTTACAATATG-CCATTGG
* *
7279467 AATCTGACCATTACAATATGCTATTGG
1 AATCTGACCGTTACAATATGCCATTGG
7279494 AATCTGACCGTTACAATATGCCATTGG
1 AATCTGACCGTTACAATATGCCATTGG
7279521 AATCT
1 AATCT
7279526 AGTCGTTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
27 34 0.65
28 18 0.35
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (27 bp):
AATCTGACCGTTACAATATGCCATTGG
Found at i:7292337 original size:49 final size:49
Alignment explanation
Indices: 7292223--7292337 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 49
7292213 GGACGTGTGG
* * *
7292223 GGGA-ACACGAGCGTGTGCGATTACACGGTCAAATTAGGTAGGCCGTGT
1 GGGACACACGAGCGTGTGCAATTACACGGGCAAATCAGGTAGGCCGTGT
* * *
7292271 -GGAGCACACGGGTGTGTGCAATTACACGGGCAAATCAGGTAGGTCGTGT
1 GGGA-CACACGAGCGTGTGCAATTACACGGGCAAATCAGGTAGGCCGTGT
*
7292320 GGGACACACAAGCGTGTG
1 GGGACACACGAGCGTGTG
7292338 AAATCACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
47 3 0.05
49 49 0.89
50 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (49 bp):
GGGACACACGAGCGTGTGCAATTACACGGGCAAATCAGGTAGGCCGTGT
Found at i:7293738 original size:31 final size:31
Alignment explanation
Indices: 7293697--7293755 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
7293687 AAGGTCACTA
* *
7293697 AACTATTTGAACGTTTTCATTTAAGTCATTG
1 AACTAGTTGAAAGTTTTCATTTAAGTCATTG
*
7293728 AACTAGTTGAAAGTTTTTATTTAAGTCA
1 AACTAGTTGAAAGTTTTCATTTAAGTCA
7293756 CTAGACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
AACTAGTTGAAAGTTTTCATTTAAGTCATTG
Found at i:7295453 original size:243 final size:243
Alignment explanation
Indices: 7295021--7295512 Score: 921
Period size: 243 Copynumber: 2.0 Consensus size: 243
7295011 TTCCTCATCC
7295021 GGAATGTCCAAATCCCATACCCTGAAGATATCCACTGTTGATGAATTCATCTCTTCTGCAGATAA
1 GGAATGTCCAAATCCCATACCCTGAAGATATCCACTGTTGATGAATTCATCTCTTCTGCAGATAA
7295086 GCTTGATTTAACTCCTGAATCAACAGCACTATCCTTTCTTTCATTCTCCTTGTAGGTGGGTCGGA
66 GCTTGATTTAACTCCTGAATCAACAGCACTATCCTTTCTTTCATTCTCCTTGTAGGTGGGTCGGA
* *
7295151 AAGGATCTCCCCGAAACATTTTAGTGGAATCTTCCTGAAGAAATTGCAGCTGAGTACCAGTCCTC
131 AAGGATCTCCCCAAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCTGAGTACCAGTCCTC
*
7295216 TTTTTGATAGGAATGTTGTTGGTGTTTATTCCATTGTCTCCATCCACT
196 TTTTTGATAGGAATGTTGTTGGTGTTCATTCCATTGTCTCCATCCACT
*
7295264 GGAATGTCCAAATCCCATACCCTGAAGATATCCGCTGTTGATGAATTCATCTCTTCTGCAGATAA
1 GGAATGTCCAAATCCCATACCCTGAAGATATCCACTGTTGATGAATTCATCTCTTCTGCAGATAA
7295329 GCTTGATTTAACTCCTGAATCAACAGCACTATCCTTTCTTTCATTCTCCTTGTAGGTGGGTCGGA
66 GCTTGATTTAACTCCTGAATCAACAGCACTATCCTTTCTTTCATTCTCCTTGTAGGTGGGTCGGA
* *
7295394 AAGGATCTCCCCAAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCTGCTGGGTACCAGTCCTC
131 AAGGATCTCCCCAAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCTGAGTACCAGTCCTC
*
7295459 TTTTTGATAGGAATGTTGTTGGTGTTCATTCCATTTTCTCCATCCACT
196 TTTTTGATAGGAATGTTGTTGGTGTTCATTCCATTGTCTCCATCCACT
7295507 GGAATG
1 GGAATG
7295513 ACAAGAAGAT
Statistics
Matches: 242, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
243 242 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (243 bp):
GGAATGTCCAAATCCCATACCCTGAAGATATCCACTGTTGATGAATTCATCTCTTCTGCAGATAA
GCTTGATTTAACTCCTGAATCAACAGCACTATCCTTTCTTTCATTCTCCTTGTAGGTGGGTCGGA
AAGGATCTCCCCAAAACATTTCAGTGGAATCTTCCTGAAGAAATTGCAGCTGAGTACCAGTCCTC
TTTTTGATAGGAATGTTGTTGGTGTTCATTCCATTGTCTCCATCCACT
Found at i:7300229 original size:11 final size:10
Alignment explanation
Indices: 7300203--7300227 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7300193 TTTTGTTCTA
7300203 TTTTTCTTTT
1 TTTTTCTTTT
7300213 TTTTTCTTTT
1 TTTTTCTTTT
7300223 TTTTT
1 TTTTT
7300228 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:7301062 original size:21 final size:21
Alignment explanation
Indices: 7301036--7301111 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 21
7301026 TTAGATATTA
7301036 TTATTATCATTACTATTTTTG
1 TTATTATCATTACTATTTTTG
* *
7301057 TTATTATTTTTATTACTATTTCTG
1 TTATTA---TCATTACTATTTTTG
** *
7301081 TTATTATTTTTACTATTATT-
1 TTATTATCATTACTATTTTTG
*
7301101 TTACTATCATT
1 TTATTATCATT
7301112 TTTTTATATG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
20 8 0.18
21 17 0.39
24 19 0.43
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (21 bp):
TTATTATCATTACTATTTTTG
Found at i:7301064 original size:12 final size:12
Alignment explanation
Indices: 7301031--7301102 Score: 72
Period size: 12 Copynumber: 6.0 Consensus size: 12
7301021 TACTATTAGA
*
7301031 TATTATTATTAT
1 TATTATTATTTT
* *
7301043 CATTACTATTTT
1 TATTATTATTTT
*
7301055 TGTTATTATTTT
1 TATTATTATTTT
* *
7301067 TATTACTATTTC
1 TATTATTATTTT
*
7301079 TGTTATTATTTT
1 TATTATTATTTT
*
7301091 TACTATTATTTT
1 TATTATTATTTT
7301103 ACTATCATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTATTATTTT
Found at i:7301071 original size:24 final size:24
Alignment explanation
Indices: 7301033--7301102 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
7301023 CTATTAGATA
* *
7301033 TTATTATTATCATTACTATTTTTG
1 TTATTATTTTTATTACTATTTTTG
*
7301057 TTATTATTTTTATTACTATTTCTG
1 TTATTATTTTTATTACTATTTTTG
* *
7301081 TTATTATTTTTACTATTATTTT
1 TTATTATTTTTATTACTATTTT
7301103 ACTATCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (24 bp):
TTATTATTTTTATTACTATTTTTG
Found at i:7301877 original size:69 final size:70
Alignment explanation
Indices: 7301761--7302025 Score: 401
Period size: 69 Copynumber: 3.8 Consensus size: 70
7301751 TCCTTATTGA
* * * **
7301761 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTACG-TTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCAGTAT-GGATGATACCATACCTACGTTTCACAACTCAGT
*
7301824 ATGGAT
65 ATGGTT
* *
7301830 AATATCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
7301895 TGGTT
66 TGGTT
* *
7301900 AATACCATATCTAC-TTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCGGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
7301964 TGGTT
66 TGGTT
*
7301969 AATACCATACCTACATTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACA
1 AATACCATACCTACATTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACA
7302026 CTTTGCCATG
Statistics
Matches: 180, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
68 3 0.02
69 108 0.60
70 69 0.38
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGATACCATACCTACGTTTCACAACTCAGTA
TGGTT
Found at i:7302038 original size:35 final size:35
Alignment explanation
Indices: 7301761--7302025 Score: 365
Period size: 35 Copynumber: 7.6 Consensus size: 35
7301751 TCCTTATTGA
* *
7301761 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* **
7301796 AATGCCATACCTACG-TTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
7301830 AATATCATACCTACGTTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
7301865 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
7301900 AATACCATATCTAC-TTTCACAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
7301934 GATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
7301969 AATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
7302004 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
7302026 CTTTGCCATG
Statistics
Matches: 203, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
33 3 0.01
34 56 0.28
35 144 0.71
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:7302045 original size:104 final size:104
Alignment explanation
Indices: 7301761--7302027 Score: 378
Period size: 104 Copynumber: 2.6 Consensus size: 104
7301751 TCCTTATTGA
* *
7301761 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTACGTTCTTA-ACTCAGT
1 AATACCATACCTACATTTCACAACTCGGTAT-GGATAATACCATACCTACGTT-TCACACTCAGT
*
7301824 ATGGATAATATCATACCTACGTTTCACAACTCAGTATGGAT
64 ATGGATAATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * *
7301865 GATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATATCTAC-TTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACGTTTCAC-ACTCAGTA
* * *
7301929 TGGATGATACCATACCTACGTTTCACAACTCGGTATGGTT
65 TGGATAATACCATACCTACGTTTCACAACTCAGTATGGAT
*
7301969 AATACCATACCTACATTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACACT
1 AATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACACT
7302028 TTGCCATGGA
Statistics
Matches: 142, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
102 2 0.01
103 4 0.03
104 130 0.92
105 6 0.04
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACGTTTCACACTCAGTAT
GGATAATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:7304314 original size:125 final size:126
Alignment explanation
Indices: 7304045--7304331 Score: 310
Period size: 125 Copynumber: 2.3 Consensus size: 126
7304035 TTGGAAGTTT
* * **
7304045 GAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTACATTCAACTGAAATATGGAATACCTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGA-TTTTTACATTCAACTAAAATACAGAATACCTT
* * * * ** *
7304110 TGTGAAATTTCGTCCACGTTTTCTTAAATTAAAACGAGGCAATATTTTGTGTTCGGGAGTTT
65 TGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTATTCGGAAAATC
* * * *
7304172 GAGAGATCATGCTCAATCGTGCTGGGTTTCGATTTTT-CATTCGAC-AAAAGTACAGAATATCCT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTACATTCAACTAAAA-TACAGAATA-CCT
** * * * *
7304235 TT-TGAAATTTCATTTATGTTTTCTTAAATTAAAATGAGGCAATATTCTGTATTTGTAAAATC
64 TTGTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTATTCGGAAAATC
* * *
7304297 GATAAATCGTGCCCAATCGTGCTAGGTTGCGATTT
1 GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTT
7304332 ATCGTTTGGC
Statistics
Matches: 133, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
124 3 0.02
125 90 0.68
126 10 0.08
127 30 0.23
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (126 bp):
GAGAAATCGTGCCCAATCGTGCTGGGTTTCGATTTTTACATTCAACTAAAATACAGAATACCTTT
GTGAAATTTCATCCACGTTTTCTTAAATTAAAACGAGGCAATATTCTGTATTCGGAAAATC
Found at i:7311908 original size:20 final size:19
Alignment explanation
Indices: 7311880--7311931 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
7311870 TAAATTATAA
*
7311880 AAAATTCATACAAA-TATTT
1 AAAATTCATAAAAACT-TTT
7311899 AAAATGTCATAAAAACTTTT
1 AAAAT-TCATAAAAACTTTT
*
7311919 AAAATTCTTAAAA
1 AAAATTCATAAAA
7311932 CAATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.41
20 16 0.55
21 1 0.03
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTCATAAAAACTTTT
Found at i:7312612 original size:19 final size:20
Alignment explanation
Indices: 7312590--7312633 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7312580 AATTTTAAGT
7312590 TTTTTAATAACTT-TTATAA
1 TTTTTAATAACTTCTTATAA
* * *
7312609 TTTTCAATAATTTCTTATGA
1 TTTTTAATAACTTCTTATAA
7312629 TTTTT
1 TTTTT
7312634 TTATAAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTAATAACTTCTTATAA
Found at i:7312637 original size:31 final size:30
Alignment explanation
Indices: 7312601--7312675 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
7312591 TTTTAATAAC
* *
7312601 TTTTATAA-TTTTCAATAATTTCTTATGATTT
1 TTTTATAAGTTTTCAAGAATTT-TTAT-ATGT
*
7312632 TTTTATAAGTTTTTAAGAATTTTTATATGT
1 TTTTATAAGTTTTCAAGAATTTTTATATGT
7312662 TTTTATAAGATTTT
1 TTTTATAAG-TTTT
7312676 AAATACATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 12 0.31
31 16 0.41
32 11 0.28
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTATAAGTTTTCAAGAATTTTTATATGT
Found at i:7312712 original size:18 final size:18
Alignment explanation
Indices: 7312682--7312780 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
7312672 TTTTAAATAC
7312682 ATTTTATTAATTTTATAAA
1 ATTTTA-TAATTTTATAAA
7312701 ATTTTATAA-TTTATTAACA
1 ATTTTATAATTTTA-TAA-A
* * *
7312720 TTTTTATAATATTATATTA
1 ATTTTATAATTTTATA-AA
*
7312739 ATTTTGAATAATATTT-TAAT
1 ATTTT--ATAAT-TTTATAAA
* *
7312759 ATTTAATAATTTT-TATA
1 ATTTTATAATTTTATAAA
7312776 ATTTT
1 ATTTT
7312781 GTCTTGATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
17 13 0.21
18 11 0.18
19 22 0.35
20 7 0.11
21 7 0.11
22 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
ATTTTATAATTTTATAAA
Found at i:7312740 original size:48 final size:47
Alignment explanation
Indices: 7312686--7312777 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 47
7312676 AAATACATTT
*
7312686 TATTAATTTT-ATAAAATTTT-ATAATTTATTAACATTTTTATAATATTA
1 TATTAATTTTAATAAAATTTTAAT-ATTTAAT-A-ATTTTTATAATATTA
*
7312734 TATTAATTTTGAATAATATTTTAATATTTAATAATTTTTATAAT
1 TATTAATTTT-AATAAAATTTTAATATTTAATAATTTTTATAAT
7312778 TTTGTCTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
48 21 0.54
49 1 0.03
50 15 0.38
51 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (47 bp):
TATTAATTTTAATAAAATTTTAATATTTAATAATTTTTATAATATTA
Found at i:7316731 original size:24 final size:23
Alignment explanation
Indices: 7316704--7316763 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
7316694 TGAAAAAAAT
*
7316704 TTTAAATTAAAATTTTGAGTTGAG
1 TTTAAATTAAAAATTTG-GTTGAG
*
7316728 TTT-AATTAAATAAATTTGTTTGAG
1 TTTAAATT-AA-AAATTTGGTTGAG
7316752 -TTAAATTAAAAA
1 TTTAAATTAAAAA
7316764 AATTAATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 3 0.10
23 8 0.26
24 14 0.45
25 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
TTTAAATTAAAAATTTGGTTGAG
Found at i:7318572 original size:16 final size:16
Alignment explanation
Indices: 7318551--7318582 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7318541 ATATATTTTC
*
7318551 TTTTAAACAGTAATTA
1 TTTTAAACAATAATTA
7318567 TTTTAAACAATAATTA
1 TTTTAAACAATAATTA
7318583 GCCCAATAAA
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:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
TTTTAAACAATAATTA
Found at i:7326235 original size:39 final size:39
Alignment explanation
Indices: 7326187--7326264 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
7326177 TGTGCCTTTT
*
7326187 ATCCCATTTATATAAGCATTCTCATTACATTAAAGAGGG
1 ATCCCATTTATATAAGCATTCTCATTACACTAAAGAGGG
* *
7326226 ATCCTATTTATATAAGCATTCTCCTTACACTAAAGAGGG
1 ATCCCATTTATATAAGCATTCTCATTACACTAAAGAGGG
7326265 GGATAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (39 bp):
ATCCCATTTATATAAGCATTCTCATTACACTAAAGAGGG
Found at i:7326696 original size:21 final size:22
Alignment explanation
Indices: 7326658--7326698 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7326648 GGTAATGTGG
*
7326658 GATTCAAATTTAAGTTTTAACA
1 GATTCAAAATTAAGTTTTAACA
*
7326680 GATT-AAAATTAATTTTTAA
1 GATTCAAAATTAAGTTTTAA
7326699 TAATGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (22 bp):
GATTCAAAATTAAGTTTTAACA
Found at i:7326843 original size:69 final size:69
Alignment explanation
Indices: 7326697--7326845 Score: 185
Period size: 69 Copynumber: 2.2 Consensus size: 69
7326687 ATTAATTTTT
* * * * *
7326697 AATAATGAA-AAGTGAGTTATGGGAGTATTCTCTAGTCAATTTGGGATTAAAATTGACTTTTTAA
1 AATAATGAAGAAGTGAGTTATGAGAGTATTCTCTAGTCAATGTAGGATTAAAATTAAATTTTTAA
* *
7326761 TGAC
66 TAAA
* * *
7326765 TATAGTGAAGAAGTTA-TCTATGAGAGTATTCTCTAGTCAATGTAGGATTAAAATTAAATTTTTA
1 AATAATGAAGAAGTGAGT-TATGAGAGTATTCTCTAGTCAATGTAGGATTAAAATTAAATTTTTA
7326829 ATAAA
65 ATAAA
7326834 AATAATGAAGAA
1 AATAATGAAGAA
7326846 ATTGTCACTT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
68 8 0.12
69 59 0.88
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (69 bp):
AATAATGAAGAAGTGAGTTATGAGAGTATTCTCTAGTCAATGTAGGATTAAAATTAAATTTTTAA
TAAA
Found at i:7330101 original size:70 final size:68
Alignment explanation
Indices: 7329956--7330162 Score: 238
Period size: 70 Copynumber: 3.0 Consensus size: 68
7329946 TAAGGTAAAT
* * * * * * *
7329956 GTGAGATATTGGAGTGTTGTCTAGCCAATGTAGGATTAAAATTAATTTTTAATGAAAACAGTGAA
1 GTGAGCTATAGGAGTATTCTCTAGTCAATGTGGGATTAAAATTAATTTTTAATGAAAATAGTGAA
* *
7330021 TAC
66 GAA
* *
7330024 GTGAGCTAT-GAGAGTATAT-TTTAGTTAATGTGGGATTAAAATTAACTTTTTTAATGAAAATAG
1 GTGAGCTATAG-GAGTAT-TCTCTAGTCAATGTGGGATTAAAATTAA--TTTTTAATGAAAATAG
7330087 TGAAGAA
62 TGAAGAA
* *
7330094 GTTAGCTATAGGAGTATTCTCTAGTCAATGTGGGATTAAAATTAAATTTTTAATAAAAATAGTGA
1 GTGAGCTATAGGAGTATTCTCTAGTCAATGTGGGATTAAAATT-AATTTTTAATGAAAATAGTGA
7330159 AGAA
65 AGAA
7330163 ATTATCATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
67 1 0.01
68 35 0.29
69 24 0.20
70 56 0.47
71 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (68 bp):
GTGAGCTATAGGAGTATTCTCTAGTCAATGTGGGATTAAAATTAATTTTTAATGAAAATAGTGAA
GAA
Found at i:7333674 original size:11 final size:11
Alignment explanation
Indices: 7333641--7333674 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
7333631 GGCAAACAGT
7333641 AAAGAAATTTA
1 AAAGAAATTTA
*
7333652 AAA-AAGTTTA
1 AAAGAAATTTA
7333662 AAAGAAATTTA
1 AAAGAAATTTA
7333673 AA
1 AA
7333675 CATGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (11 bp):
AAAGAAATTTA
Found at i:7338612 original size:21 final size:22
Alignment explanation
Indices: 7338586--7338632 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7338576 CTCTGCTCAA
*
7338586 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
7338607 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
7338629 ACTC
1 ACTC
7338633 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Done.