Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 39 of 93
Found at i:4668593 original size:25 final size:26
Alignment explanation
Indices: 4668563--4668624 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
4668553 TATTAATATA
4668563 ATTATTAAAATAGTAAAAATTA-TTT
1 ATTATTAAAATAGTAAAAATTATTTT
* * **
4668588 ATTATTAAAGTATTTGAAATTATTTT
1 ATTATTAAAATAGTAAAAATTATTTT
4668614 ATTATTAAAAT
1 ATTATTAAAAT
4668625 TATTAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
ATTATTAAAATAGTAAAAATTATTTT
Found at i:4669063 original size:32 final size:31
Alignment explanation
Indices: 4669026--4669109 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 31
4669016 TTTAACATTA
*
4669026 ATTATTACAATAATAAAAATATTATTGTATTT
1 ATTATTA-AATAATAAAAATATTATAGTATTT
* *
4669058 ATTATT-AA-AATAATAATATAATAGTATTT
1 ATTATTAAATAATAAAAATATTATAGTATTT
*
4669087 ATTATTGAAATACTAAAAATATT
1 ATTATT-AAATAATAAAAATATT
4669110 TATGTTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 24 0.56
30 2 0.05
31 2 0.05
32 15 0.35
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (31 bp):
ATTATTAAATAATAAAAATATTATAGTATTT
Found at i:4669229 original size:20 final size:18
Alignment explanation
Indices: 4669195--4669231 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4669185 TTTAATTAAA
4669195 ATTAAATAAAATATTTTT
1 ATTAAATAAAATATTTTT
4669213 ATTAACATAATAATATTTT
1 ATTAA-ATAA-AATATTTT
4669232 AAGTAGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTAAATAAAATATTTTT
Found at i:4670402 original size:14 final size:14
Alignment explanation
Indices: 4670383--4670412 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4670373 AACATTATGC
*
4670383 AACAACAATAATAT
1 AACAACAATAACAT
4670397 AACAACAATAACAT
1 AACAACAATAACAT
4670411 AA
1 AA
4670413 TGCAATAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (14 bp):
AACAACAATAACAT
Found at i:4670795 original size:106 final size:104
Alignment explanation
Indices: 4670469--4670785 Score: 302
Period size: 106 Copynumber: 3.0 Consensus size: 104
4670459 CAACAACAAA
* * * * * * *
4670469 ATAACAATAACAACCAATGCCAAGCAAAACAGCAAGCAAAATGTTATTTAAC-TGCAAC--TGAA
1 ATAACAACAATAACCAATACCAAGCAAAGCAGCAAGCAAAATGCTATTT-TCTTACAACTATGAA
* * * *
4670531 TGGTTCTATCATAGTAATAACATTATGTAACAATAGCGAT
65 TGGTTCTATCATAGCAATAATATTATGCAACAATAGCAAT
* * * * *
4670571 ATAACAACAATAATCAATGCCAAGCAAAGCAGCAAGTAGAATGCTATTTTCTTGCAACTA-G-AT
1 ATAACAACAATAACCAATACCAAGCAAAGCAGCAAGCAAAATGCTATTTTCTTACAACTATGAAT
* * * *
4670634 GGTTCAATAACCAACACCAATAATATTATGCAACAATAGTAAT
66 GGTTC--T-ATC-ATAGCAATAATATTATGCAACAATAGCAAT
* * *
4670677 ATAACAGCAATAACCAATACTAAGCAAAGTAGCAAGCAAAATGCTATTTTCTTACAACTGGATGA
1 ATAACAACAATAACCAATACCAAGCAAAGCAGCAAGCAAAATGCTATTTTCTTACAACT--ATGA
* * *
4670742 ATGGTTCTATCATAGCAATAATATTATACAACAACAACAAT
64 ATGGTTCTATCATAGCAATAATATTATGCAACAATAGCAAT
4670783 ATA
1 ATA
4670786 GTACCAATAA
Statistics
Matches: 173, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
101 1 0.01
102 55 0.32
103 1 0.01
104 1 0.01
105 2 0.01
106 101 0.58
107 2 0.01
108 2 0.01
109 1 0.01
110 7 0.04
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (104 bp):
ATAACAACAATAACCAATACCAAGCAAAGCAGCAAGCAAAATGCTATTTTCTTACAACTATGAAT
GGTTCTATCATAGCAATAATATTATGCAACAATAGCAAT
Found at i:4670995 original size:3 final size:3
Alignment explanation
Indices: 4670987--4671033 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4670977 TTTCCAAGAT
4670987 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4671034 TCCAAGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4671524 original size:15 final size:15
Alignment explanation
Indices: 4671504--4671612 Score: 89
Period size: 15 Copynumber: 7.1 Consensus size: 15
4671494 AATATATTAA
4671504 TATTTATTAATATAT
1 TATTTATTAATATAT
*
4671519 TATTTATTTATTAAATAT
1 TATTTA-TTA--ATATAT
* *
4671537 AATATTATTAATATAA
1 TAT-TTATTAATATAT
**
4671553 TAAATA-TAATA-A-
1 TATTTATTAATATAT
4671565 TATTTATTAATATAT
1 TATTTATTAATATAT
* *
4671580 TATTTATTAATGTAA
1 TATTTATTAATATAT
4671595 TATTTATATAATATAT
1 TATTTAT-TAATATAT
4671611 TA
1 TA
4671613 ATATAATAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
12 4 0.05
13 6 0.08
14 6 0.08
15 28 0.38
16 16 0.22
18 10 0.14
19 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
TATTTATTAATATAT
Found at i:4671530 original size:23 final size:22
Alignment explanation
Indices: 4671504--4671583 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 22
4671494 AATATATTAA
4671504 TATTTATT-A-ATA-TATTATT
1 TATTTATTAATATATTATTATT
*
4671523 TATTTATTAAATATAATATTATT
1 TATTTATT-AATATATTATTATT
* * * * *
4671546 AATATAATAA-ATA-TAATA-A
1 TATTTATTAATATATTATTATT
4671565 TATTTATTAATATATTATT
1 TATTTATTAATATATTATT
4671584 TATTAATGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
19 15 0.33
20 7 0.15
21 7 0.15
22 5 0.11
23 12 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTATTAATATATTATTATT
Found at i:4671571 original size:61 final size:66
Alignment explanation
Indices: 4671494--4671621 Score: 194
Period size: 61 Copynumber: 2.0 Consensus size: 66
4671484 TAATAATGTT
* *
4671494 AATATATTAATATTTATTAATATATTATTTATTTAT-TAA-ATATA-AT-AT-TATTAATATAAT
1 AATATAATAATATTTATTAATATATTATTTATTAATGTAATATATATATAATATATTAATATAAT
4671554 A
66 A
*
4671555 AATATAATAATATTTATTAATATATTATTTATTAATGTAATATTTATATAATATATTAATATAAT
1 AATATAATAATATTTATTAATATATTATTTATTAATGTAATATATATATAATATATTAATATAAT
4671620 A
66 A
4671621 A
1 A
4671622 TTTTAGCGTC
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
61 34 0.58
62 3 0.05
63 4 0.07
64 2 0.03
65 2 0.03
66 14 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (66 bp):
AATATAATAATATTTATTAATATATTATTTATTAATGTAATATATATATAATATATTAATATAAT
A
Found at i:4671587 original size:42 final size:42
Alignment explanation
Indices: 4671523--4671622 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
4671513 ATATATTATT
4671523 TATTTATTAA-ATATAATATTATTAATATAATAAATATAATAA
1 TATTTATTAATATATAATATTATTAATATAATAAATAT-ATAA
* * **
4671565 TATTTATTAATATATTAT-TTATTAATGTAATATTTATATAA
1 TATTTATTAATATATAATATTATTAATATAATAAATATATAA
4671606 TA--TATTAATATAATAAT
1 TATTTATTAATAT-ATAAT
4671623 TTTAGCGTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 9 0.18
40 4 0.08
41 6 0.12
42 26 0.51
43 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (42 bp):
TATTTATTAATATATAATATTATTAATATAATAAATATATAA
Found at i:4671598 original size:11 final size:11
Alignment explanation
Indices: 4671497--4671620 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 11
4671487 TAATGTTAAT
4671497 ATATTAATAT-
1 ATATTAATATA
*
4671507 TTATTAATATA
1 ATATTAATATA
*
4671518 TTATT--TAT-
1 ATATTAATATA
*
4671526 TTATTAAATATA
1 ATATT-AATATA
4671538 ATATT-AT-TA
1 ATATTAATATA
4671547 ATA-TAATA-A
1 ATATTAATATA
4671556 ATA-T-A-ATA
1 ATATTAATATA
*
4671564 ATATTTAT-TA
1 ATATTAATATA
*
4671574 ATA-TATTAT-
1 ATATTAATATA
* *
4671583 TTATTAATGTA
1 ATATTAATATA
*
4671594 ATATTTATATAA
1 ATATTAATAT-A
4671606 TATATTAATATA
1 -ATATTAATATA
4671618 ATA
1 ATA
4671621 ATTTTAGCGT
Statistics
Matches: 87, Mismatches: 11, Indels: 31
0.67 0.09 0.24
Matches are distributed among these distances:
7 1 0.01
8 11 0.13
9 20 0.23
10 22 0.25
11 18 0.21
12 6 0.07
13 9 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
ATATTAATATA
Found at i:4671621 original size:57 final size:58
Alignment explanation
Indices: 4671476--4671626 Score: 182
Period size: 61 Copynumber: 2.6 Consensus size: 58
4671466 TATTTGTTAT
* * *
4671476 TAATAATATAATAATGTTAATATATTAATATTTATTAATATATTATTTATTTATTAAATA
1 TAAT-ATATAAT-ATATTAATATAATAATATTTATTAATATATTATTTATTAATTAAATA
*
4671536 TAATATTATTAATATAATAAATATAATAATATTTATTAATATATTATTTATTAATGT-AATA
1 TAATA-TA-TAATAT-ATTAATATAATAATATTTATTAATATATTATTTATTAAT-TAAATA
*
4671597 T-TTATATAATATATTAATATAATAAT-TTTA
1 TAATATATAATATATTAATATAATAATATTTA
4671627 GCGTCACTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
56 4 0.05
57 13 0.16
58 6 0.07
59 3 0.04
60 10 0.12
61 44 0.54
62 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (58 bp):
TAATATATAATATATTAATATAATAATATTTATTAATATATTATTTATTAATTAAATA
Found at i:4675466 original size:8 final size:8
Alignment explanation
Indices: 4675455--4675497 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
4675445 TAAAAACTCT
4675455 AAACCTTA
1 AAACCTTA
4675463 AAA-CTTCA
1 AAACCTT-A
*
4675471 AAACCCTA
1 AAACCTTA
*
4675479 AAACCTTG
1 AAACCTTA
4675487 AAACCTTA
1 AAACCTTA
4675495 AAA
1 AAA
4675498 TCCCGACACC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 3 0.10
8 24 0.83
9 2 0.07
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (8 bp):
AAACCTTA
Found at i:4675528 original size:16 final size:16
Alignment explanation
Indices: 4675445--4675530 Score: 77
Period size: 16 Copynumber: 5.4 Consensus size: 16
4675435 CCCTAAAACA
* *
4675445 TAAAAACTCTAAACCT
1 TAAAACCTCGAAACCT
* * *
4675461 TAAAACTTCAAAACCC
1 TAAAACCTCGAAACCT
*
4675477 TAAAACCTTGAAACCT
1 TAAAACCTCGAAACCT
*
4675493 TAAAATCC-CGACACCT
1 TAAAA-CCTCGAAACCT
4675509 TAAAACCTCGAAATCC-
1 TAAAACCTCGAAA-CCT
4675525 TAAAAC
1 TAAAAC
4675531 AAGACCCTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
15 2 0.04
16 50 0.89
17 4 0.07
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAACCTCGAAACCT
Found at i:4676569 original size:13 final size:13
Alignment explanation
Indices: 4676551--4676576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4676541 CATTTTTTAT
4676551 CATTTTATTAAAA
1 CATTTTATTAAAA
4676564 CATTTTATTAAAA
1 CATTTTATTAAAA
4676577 AGATAAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CATTTTATTAAAA
Found at i:4688162 original size:35 final size:35
Alignment explanation
Indices: 4688123--4688235 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
4688113 TTGATTCACT
** * *
4688123 ATTCAATCCTGGTCATTTTTATTTTTTAACTTGCG
1 ATTCAATCCTAATCATCTTTATTTTTTGACTTGCG
* *
4688158 ATTCAGTCCTAATCATCTTTATTTTTTGACTTGTG
1 ATTCAATCCTAATCATCTTTATTTTTTGACTTGCG
* * *
4688193 GTTCAATCCTAATCATCTTTATTCTTTGACTTACG
1 ATTCAATCCTAATCATCTTTATTTTTTGACTTGCG
*
4688228 GTTCAATC
1 ATTCAATC
4688236 TTGACCATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (35 bp):
ATTCAATCCTAATCATCTTTATTTTTTGACTTGCG
Found at i:4688252 original size:35 final size:35
Alignment explanation
Indices: 4688140--4688254 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 35
4688130 CCTGGTCATT
* * * * * *
4688140 TTTATTTTTTAACTTGCGATTCAGTCCTAATCATC
1 TTTATTCTTTGACTTACGGTTCAATCCTAACCATC
* ** *
4688175 TTTATTTTTTGACTTGTGGTTCAATCCTAATCATC
1 TTTATTCTTTGACTTACGGTTCAATCCTAACCATC
* *
4688210 TTTATTCTTTGACTTACGGTTCAATCTTGACCAT-
1 TTTATTCTTTGACTTACGGTTCAATCCTAACCATC
4688244 TTTCATTCTTT
1 TTT-ATTCTTT
4688255 AACATGTGAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 3 0.04
35 66 0.96
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.51
Consensus pattern (35 bp):
TTTATTCTTTGACTTACGGTTCAATCCTAACCATC
Found at i:4688929 original size:7 final size:7
Alignment explanation
Indices: 4688914--4688987 Score: 64
Period size: 7 Copynumber: 10.7 Consensus size: 7
4688904 GCCTTTTTTT
4688914 CAAAAAA
1 CAAAAAA
4688921 -AACAAAA
1 CAA-AAAA
*
4688928 -AAAAAT
1 CAAAAAA
*
4688934 CAAAAAT
1 CAAAAAA
*
4688941 C-AAAAT
1 CAAAAAA
4688947 CAAAAAA
1 CAAAAAA
*
4688954 TCAAAAAT
1 -CAAAAAA
*
4688962 CAAAAAT
1 CAAAAAA
4688969 CAAAAAA
1 CAAAAAA
4688976 CAAAAAA
1 CAAAAAA
4688983 CAAAA
1 CAAAA
4688988 TAAAACAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.19
7 42 0.71
8 6 0.10
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (7 bp):
CAAAAAA
Found at i:4688945 original size:14 final size:14
Alignment explanation
Indices: 4688928--4688987 Score: 86
Period size: 14 Copynumber: 4.3 Consensus size: 14
4688918 AAAAACAAAA
4688928 AAAAATCAAAAATC
1 AAAAATCAAAAATC
4688942 -AAAATCAAAAAATC
1 AAAAATC-AAAAATC
4688956 AAAAATCAAAAATC
1 AAAAATCAAAAATC
* *
4688970 AAAAAACAAAAAAC
1 AAAAATCAAAAATC
4688984 AAAA
1 AAAA
4688988 TAAAACAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.14
14 30 0.71
15 6 0.14
ACGTcount: A:0.77, C:0.13, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAATCAAAAATC
Found at i:4688951 original size:21 final size:21
Alignment explanation
Indices: 4688927--4688992 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
4688917 AAAAAACAAA
4688927 AAAAAATCAAAAATCAAAATC
1 AAAAAATCAAAAATCAAAATC
4688948 AAAAAATCAAAAATCAAAAATC
1 AAAAAATCAAAAATC-AAAATC
*
4688970 AAAAAA-CAAAAAACAAAAT-
1 AAAAAATCAAAAATCAAAATC
4688989 AAAA
1 AAAA
4688993 CAAAAAGAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 4 0.09
20 5 0.12
21 22 0.51
22 12 0.28
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.11
Consensus pattern (21 bp):
AAAAAATCAAAAATCAAAATC
Found at i:4691822 original size:23 final size:23
Alignment explanation
Indices: 4691792--4691840 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
4691782 ATTTTTGTTG
*
4691792 AAACCTTAAAAC-ACTAAAACCTT
1 AAACCTTAAAACAAC-AAAACCCT
4691815 AAACCTTAAAACAACAAAACCCT
1 AAACCTTAAAACAACAAAACCCT
4691838 AAA
1 AAA
4691841 ATGTTGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (23 bp):
AAACCTTAAAACAACAAAACCCT
Found at i:4691850 original size:16 final size:16
Alignment explanation
Indices: 4691831--4691890 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
4691821 TAAAACAACA
*
4691831 AAACCCTAAAATGTTG
1 AAACCCTAAAATCTTG
*
4691847 AAACCCTAAAATCCTG
1 AAACCCTAAAATCTTG
* * *
4691863 ACACCTTAAAACCTTG
1 AAACCCTAAAATCTTG
*
4691879 AAATCCTAAAAT
1 AAACCCTAAAAT
4691891 GAGATCTTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (16 bp):
AAACCCTAAAATCTTG
Found at i:4696394 original size:62 final size:62
Alignment explanation
Indices: 4696323--4696450 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
4696313 GCATCTTGGC
*
4696323 TTGAAGATTAAGGATGGTTTGATGACTACTCATTTTTTGTTCAATCATTTTAGGTCTTGTCA
1 TTGAAGATTAAGGATGGTTTGATGACTACTCATTTTTTGTTCAATCATGTTAGGTCTTGTCA
*
4696385 TTGAAGATTAAGGATGGTTTGGTGACTACTCATTTTTTGTTCAATCATGTTAGGTCTTGTCA
1 TTGAAGATTAAGGATGGTTTGATGACTACTCATTTTTTGTTCAATCATGTTAGGTCTTGTCA
4696447 TTGA
1 TTGA
4696451 TATTAACTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (62 bp):
TTGAAGATTAAGGATGGTTTGATGACTACTCATTTTTTGTTCAATCATGTTAGGTCTTGTCA
Found at i:4700999 original size:22 final size:21
Alignment explanation
Indices: 4700956--4701007 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
4700946 AAATAATCAA
*
4700956 TTTTTCTCTTTTTCAGCCTTT
1 TTTTTATCTTTTTCAGCCTTT
4700977 TTTTTATCTTTCTT-AGCCTTTT
1 TTTTTATCTTT-TTCAGCC-TTT
4700999 TTTTTATCT
1 TTTTTATCT
4701008 CTACATGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTATCTTTTTCAGCCTTT
Found at i:4701017 original size:22 final size:22
Alignment explanation
Indices: 4700970--4701017 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4700960 TCTCTTTTTC
* *
4700970 AGCC-TTTTTTTTATCTTTCTT
1 AGCCTTTTTTTTTATCTTACAT
4700991 AGCCTTTTTTTTTATCTCTACAT
1 AGCCTTTTTTTTTATCT-TACAT
4701014 -GCCT
1 AGCCT
4701018 CAAAAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 16 0.70
23 3 0.13
ACGTcount: A:0.12, C:0.23, G:0.06, T:0.58
Consensus pattern (22 bp):
AGCCTTTTTTTTTATCTTACAT
Found at i:4709159 original size:20 final size:20
Alignment explanation
Indices: 4709112--4709197 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
4709102 AGTAAATGTA
*
4709112 AAATATAAAAATATAATAGT
1 AAATATAAAAATATAATAAT
*
4709132 AAATATAACAATATAATAAT
1 AAATATAAAAATATAATAAT
* * *
4709152 ATAA-ATAATAA-ATAACAAA
1 A-AATATAAAAATATAATAAT
*
4709171 AAAGTAAAAAAATATAA-AA-
1 AAA-TATAAAAATATAATAAT
4709190 AAATATAA
1 AAATATAA
4709198 GGAGAAGGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.11
19 10 0.19
20 32 0.59
21 6 0.11
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATATAAAAATATAATAAT
Found at i:4716115 original size:23 final size:22
Alignment explanation
Indices: 4716074--4716116 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4716064 AACTGGTTGA
*
4716074 TTAACAAAAAATAATTTATTGT
1 TTAACAAAAAATAAGTTATTGT
4716096 TTAACAAAAAATAGAGTTATT
1 TTAACAAAAAATA-AGTTATT
4716117 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAACAAAAAATAAGTTATTGT
Found at i:4716304 original size:20 final size:19
Alignment explanation
Indices: 4716274--4716364 Score: 70
Period size: 19 Copynumber: 5.1 Consensus size: 19
4716264 TTATTTTAAG
4716274 TATTTTT-ATATTAACATAA
1 TATTTTTAATATTAA-ATAA
*
4716293 TATTTTTAATATTAAATAT
1 TATTTTTAATATTAAATAA
* * *
4716312 TATTATTAA-AATATAATTA
1 TATTTTTAATATTA-AATAA
4716331 T-TTTTTAATATT-AAT-A
1 TATTTTTAATATTAAATAA
*
4716347 -A-TTTTAATAATAAATAA
1 TATTTTTAATATTAAATAA
4716364 T
1 T
4716365 TTTAATATAC
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
15 9 0.16
16 4 0.07
17 4 0.07
18 9 0.16
19 24 0.42
20 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTTAATATTAAATAA
Found at i:4716312 original size:16 final size:16
Alignment explanation
Indices: 4716291--4716372 Score: 67
Period size: 16 Copynumber: 4.9 Consensus size: 16
4716281 ATATTAACAT
4716291 AATATTTTTAATATTA
1 AATATTTTTAATATTA
*
4716307 AATATTATTATTAAAATATA
1 AATA-T-TT-TTAATAT-TA
*
4716327 ATTATTTTTTAATATT-
1 AATA-TTTTTAATATTA
* *
4716343 AATAATTTTAATAATA
1 AATATTTTTAATATTA
*
4716359 AATAATTTTAATAT
1 AATATTTTTAATAT
4716373 ACTTTAATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 9 0.17
16 20 0.37
17 2 0.04
18 8 0.15
19 8 0.15
20 7 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTTTAATATTA
Found at i:4716369 original size:25 final size:25
Alignment explanation
Indices: 4716336--4716408 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
4716326 AATTATTTTT
* *
4716336 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAATAACTTTAATAATAAA
*
4716361 TAATTTTAATATACTTTAATAGTAAA
1 TAATTTTAATA-ACTTTAATAATAAA
*
4716387 TAATTTTTAAT-AGTTTAATAAT
1 TAA-TTTTAATAACTTTAATAAT
4716409 TATATTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 19 0.46
26 15 0.37
27 7 0.17
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (25 bp):
TAATTTTAATAACTTTAATAATAAA
Found at i:4717002 original size:17 final size:17
Alignment explanation
Indices: 4716976--4717009 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4716966 TTATTATATG
*
4716976 AAAAAGTAAAACATAAT
1 AAAAAGTAAAAAATAAT
*
4716993 AAAAATTAAAAAATAAT
1 AAAAAGTAAAAAATAAT
4717010 TTACATCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAAGTAAAAAATAAT
Found at i:4717568 original size:23 final size:23
Alignment explanation
Indices: 4717525--4717571 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4717515 TTAATTATTT
* *
4717525 TTATTTTTATTTAATTATTGATA
1 TTATTCTTATTTAAATATTGATA
4717548 TTATTCTTACTTTAAAT-TTGATA
1 TTATTCTTA-TTTAAATATTGATA
4717571 T
1 T
4717572 AAAAGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
TTATTCTTATTTAAATATTGATA
Found at i:4717669 original size:20 final size:19
Alignment explanation
Indices: 4717623--4717669 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
4717613 AATAATTGAA
*
4717623 ATTTTTAATGGAATATTTT
1 ATTTTTAATGAAATATTTT
4717642 -TTAGTTTAGATGAAATATTTT
1 ATT--TTTA-ATGAAATATTTT
4717663 ATTTTTA
1 ATTTTTA
4717670 TCCATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
18 2 0.09
20 8 0.35
21 11 0.48
22 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
ATTTTTAATGAAATATTTT
Found at i:4718359 original size:2 final size:2
Alignment explanation
Indices: 4718352--4718377 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4718342 GAAAGAGGAA
4718352 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
4718378 TAAAAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4722043 original size:2 final size:2
Alignment explanation
Indices: 4722038--4722068 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4722028 TGCTTATGAG
4722038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4722069 GGTAAATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4724999 original size:26 final size:25
Alignment explanation
Indices: 4724962--4725038 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
4724952 CAATTAAATT
*
4724962 AATAAATCAATAGGTAAAATAATAAA
1 AATAAATAAATA-GTAAAATAATAAA
* *
4724988 AATAAATAAATAAATATAAAT-ATACA
1 AATAAATAAAT-AGTA-AAATAATAAA
*
4725014 AATAAATAAATCAGTAAAAAAATAA
1 AATAAATAAAT-AGTAAAATAATAA
4725039 CAAAACAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.07
26 33 0.80
27 5 0.12
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (25 bp):
AATAAATAAATAGTAAAATAATAAA
Found at i:4725003 original size:18 final size:18
Alignment explanation
Indices: 4724978--4725023 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4724968 TCAATAGGTA
*
4724978 AAAT-AATAAAAATAAAT
1 AAATAAATAAAAATAAAC
* *
4724995 AAATAAATATAAATATAC
1 AAATAAATAAAAATAAAC
4725013 AAATAAATAAA
1 AAATAAATAAA
4725024 TCAGTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAAATAAAC
Found at i:4729776 original size:6 final size:6
Alignment explanation
Indices: 4729765--4729815 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
4729755 TTTTCTTAAA
* *
4729765 CTTTTT CTTTTT TTTTTT CTTTTT CTTCTTCTT CTTCTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-T-TT-TT CTTTTT CTTTTT CTTTTT
4729816 ATGGATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 30 0.79
7 2 0.05
8 3 0.08
9 3 0.08
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:4729787 original size:9 final size:9
Alignment explanation
Indices: 4729765--4729815 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
4729755 TTTTCTTAAA
4729765 CTTTTTCTTT
1 CTTTTT-TTT
4729775 -TTTTTTTT
1 CTTTTTTTT
*
4729783 CTTTTTCTT
1 CTTTTTTTT
* *
4729792 CTTCTTCTT
1 CTTTTTTTT
*
4729801 CTTCTTTTT
1 CTTTTTTTT
4729810 CTTTTT
1 CTTTTT
4729816 ATGGATTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 3 0.08
9 33 0.92
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:4732326 original size:8 final size:8
Alignment explanation
Indices: 4732300--4732338 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
4732290 CCAATAACTA
4732300 AACTAAAG
1 AACTAAAG
*
4732308 AAATGAAAG
1 AACT-AAAG
4732317 AACTAAAG
1 AACTAAAG
4732325 AACT-AAG
1 AACTAAAG
4732332 AACTAAA
1 AACTAAA
4732339 AGAGGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (8 bp):
AACTAAAG
Found at i:4732334 original size:15 final size:16
Alignment explanation
Indices: 4732300--4732338 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4732290 CCAATAACTA
4732300 AACTAAAGAAATGAAAG
1 AACTAAAGAAAT-AAAG
*
4732317 AACTAAAGAACT-AAG
1 AACTAAAGAAATAAAG
4732332 AACTAAA
1 AACTAAA
4732339 AGAGGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
17 11 0.52
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (16 bp):
AACTAAAGAAATAAAG
Found at i:4733458 original size:24 final size:23
Alignment explanation
Indices: 4733431--4733644 Score: 123
Period size: 22 Copynumber: 9.3 Consensus size: 23
4733421 CATTTTGAAA
*
4733431 AAGGTTCTCAAATGATGATACCCG
1 AAGGTTTTCAAA-GATGATACCCG
* * *
4733455 AAGGTTTTCAAAAAAAGATACTCG
1 AAGGTTTTC-AAAGATGATACCCG
* *
4733479 GAGGTTTT-AAAGATGATACCCA
1 AAGGTTTTCAAAGATGATACCCG
* *
4733501 AAGGTTTTTAAAGATGATAGCCG
1 AAGGTTTTCAAAGATGATACCCG
* * * *
4733524 AAAGTTTTTAGA-ATGATACCAG
1 AAGGTTTTCAAAGATGATACCCG
* * **
4733546 AAGGTTTTTAAAGATAATACTTG
1 AAGGTTTTCAAAGATGATACCCG
* * * *
4733569 AAGGTTTTTAGA-ACGATACCTG
1 AAGGTTTTCAAAGATGATACCCG
** * *
4733591 AAGGTTTT-AAAGACAATATACCT
1 AAGGTTTTCAAAGATGATA-CCCG
**
4733614 AGAGGTTTT-AAAGATGATACCTA
1 A-AGGTTTTCAAAGATGATACCCG
4733637 AAGGTTTT
1 AAGGTTTT
4733645 TAGAACTATA
Statistics
Matches: 149, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
21 2 0.01
22 62 0.42
23 44 0.30
24 38 0.26
25 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (23 bp):
AAGGTTTTCAAAGATGATACCCG
Found at i:4733550 original size:45 final size:45
Alignment explanation
Indices: 4733445--4733608 Score: 147
Period size: 45 Copynumber: 3.6 Consensus size: 45
4733435 TTCTCAAATG
* * * * * * *
4733445 ATGATACCCGAAGGTTTTCAAAAAAAGATACTCG-GAGGTTTTAAA
1 ATGATACCAGAAGGTTTTTAAAGATA-ATACTCGAAAGTTTTTAGA
*
4733490 GATGATACCCA-AAGGTTTTTAAAGATGATAGC-CGAAAGTTTTTAGA
1 -ATGATA-CCAGAAGGTTTTTAAAGATAATA-CTCGAAAGTTTTTAGA
* *
4733536 ATGATACCAGAAGGTTTTTAAAGATAATACTTGAAGGTTTTTAGA
1 ATGATACCAGAAGGTTTTTAAAGATAATACTCGAAAGTTTTTAGA
* * *
4733581 ACGATACCTGAAGG-TTTTAAAGACAATA
1 ATGATACCAGAAGGTTTTTAAAGATAATA
4733609 TACCTAGAGG
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
44 17 0.17
45 53 0.54
46 27 0.27
47 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (45 bp):
ATGATACCAGAAGGTTTTTAAAGATAATACTCGAAAGTTTTTAGA
Found at i:4733623 original size:45 final size:44
Alignment explanation
Indices: 4733445--4733760 Score: 137
Period size: 45 Copynumber: 7.0 Consensus size: 44
4733435 TTCTCAAATG
* * * * *
4733445 ATGATACCCGAAGGTTTTCAAAAAAAGATACTCGGAGG-TTTTAAA
1 ATGATACCTGAAGGTTTT-AAAGAAA-ATACTAGAAGGTTTTTAGA
** ** * *
4733490 GATGATACCCAAAGGTTTTTAAAGATGATAGC-CGAAAGTTTTTAGA
1 -ATGATACCTGAAGG-TTTTAAAGAAAATA-CTAGAAGGTTTTTAGA
* * *
4733536 ATGATACCAGAAGGTTTTTAAAGATAATACTTGAAGGTTTTTAGA
1 ATGATACCTGAAGG-TTTTAAAGAAAATACTAGAAGGTTTTTAGA
* *
4733581 ACGATACCTGAAGGTTTTAAAGACAATATACCTAG-AGG-TTTTAAA
1 ATGATACCTGAAGGTTTTAAAGA-AA-ATA-CTAGAAGGTTTTTAGA
* * * *
4733626 GATGATACCTAAAGGTTTT-TAGAACTATACTCA-AAGGTTTTTAAAA
1 -ATGATACCTGAAGGTTTTAAAGAA-AATACT-AGAAGGTTTTT-AGA
* ** * * * * *
4733672 ATGGTACCTAGAATTTTTTTATA-ACAATGCTA-AGAGGTTTTAAAA
1 ATGATACCT-GAA-GGTTTTAAAGAAAATACTAGA-AGGTTTTTAGA
**
4733717 ATGATACCTGAAGGTTTTTAAAGATGATATCT-GAAGGTTTTTAG
1 ATGATACCTGAAGG-TTTTAAAGAAAATA-CTAGAAGGTTTTTAG
4733761 TAAAAGATAT
Statistics
Matches: 211, Mismatches: 38, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.01
44 27 0.13
45 103 0.49
46 65 0.31
47 12 0.06
48 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (44 bp):
ATGATACCTGAAGGTTTTAAAGAAAATACTAGAAGGTTTTTAGA
Found at i:4733655 original size:22 final size:23
Alignment explanation
Indices: 4733483--4733769 Score: 140
Period size: 23 Copynumber: 12.6 Consensus size: 23
4733473 TACTCGGAGG
*
4733483 TTTTA-AAGATGATACCCAAAGGT
1 TTTTAGAA-ATGATACCTAAAGGT
*
4733506 TTTTA-AAGATGATAGCCGAAA-GT
1 TTTTAGAA-ATGATA-CCTAAAGGT
4733529 TTTTAG-AATGATACC-AGAAGGT
1 TTTTAGAAATGATACCTA-AAGGT
* * *
4733551 TTTTA-AAGATAATACTTGAAGGT
1 TTTTAGAA-ATGATACCTAAAGGT
* *
4733574 TTTTAG-AACGATACCTGAAGGT
1 TTTTAGAAATGATACCTAAAGGT
* *
4733596 TTTAAAGACAAT-ATACCTAGAGG-
1 TTT-TAGA-AATGATACCTAAAGGT
4733619 TTTTA-AAGATGATACCTAAAGGT
1 TTTTAGAA-ATGATACCTAAAGGT
*
4733642 TTTTAGAACT-ATA-CTCAAAGGT
1 TTTTAGAAATGATACCT-AAAGGT
* * **
4733664 TTTTAAAAATGGTACCTAGAATTT
1 TTTTAGAAATGATACCTA-AAGGT
* *
4733688 TTTTATAACA--AT-GCTAAGAGG-
1 TTTTAGAA-ATGATACCTAA-AGGT
* *
4733709 TTTTAAAAATGATACCTGAAGGT
1 TTTTAGAAATGATACCTAAAGGT
* *
4733732 TTTTA-AAGATGATATCTGAAGGT
1 TTTTAGAA-ATGATACCTAAAGGT
*
4733755 TTTTAGTAAAAGATA
1 TTTTAG-AAATGATA
4733770 TTCAAAAGTT
Statistics
Matches: 207, Mismatches: 29, Indels: 55
0.71 0.10 0.19
Matches are distributed among these distances:
20 3 0.01
21 17 0.08
22 68 0.33
23 81 0.39
24 33 0.16
25 5 0.02
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (23 bp):
TTTTAGAAATGATACCTAAAGGT
Found at i:4733663 original size:68 final size:65
Alignment explanation
Indices: 4733479--4733666 Score: 179
Period size: 68 Copynumber: 2.8 Consensus size: 65
4733469 AAGATACTCG
* * *
4733479 GAGGTTTTAAAGATGATACCCAAAGGTTTTTA-AAGATGATAGCCGAAA-GTTTTTAGAATGATA
1 GAGGTTTTAAAGATGATACCTAAAGGTTTTTAGAA-CT-ATA-CCGAAAGGTTTTAAGAATGATA
4733542 CCA
63 CCA
* * * *
4733545 GAAGGTTTTTAAAGATAATACTTGAAGGTTTTTAGAACGATACCTG-AAGGTTTTAAAGACAAT-
1 G-AGG-TTTTAAAGATGATACCTAAAGGTTTTTAGAACTATACC-GAAAGGTTTT-AAG--AATG
4733608 ATACCTA
60 ATACC-A
4733615 GAGGTTTTAAAGATGATACCTAAAGGTTTTTAGAACTATACTC-AAAGGTTTT
1 GAGGTTTTAAAGATGATACCTAAAGGTTTTTAGAACTATAC-CGAAAGGTTTT
4733667 TAAAAATGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
66 5 0.05
67 12 0.12
68 67 0.67
69 11 0.11
70 5 0.05
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (65 bp):
GAGGTTTTAAAGATGATACCTAAAGGTTTTTAGAACTATACCGAAAGGTTTTAAGAATGATACCA
Found at i:4734215 original size:115 final size:113
Alignment explanation
Indices: 4733960--4734247 Score: 337
Period size: 115 Copynumber: 2.5 Consensus size: 113
4733950 TCATGCTCGT
* * * * * * *
4733960 AGGTCTTATATATTATTCTCATATTTGAAAAAACTTTTTCTTAACAAAGGCTTTGGAACTTAAGA
1 AGGTATTATAGATCATTTTCATATTTGAAAAAACTCTTCCTTAACAAAGGCTTTGGAACTCAAGA
* * * ** *
4734025 AATTTTAAATCTAAAAGGGTACCTAGAAGTTTTAAGTATCATGCTTTG
66 AATTTAAAATCTAAAAAGGTACCTAGAAGTTTTAAGGATCATGCCCTA
* * * *
4734073 AGGTTTTATAGATCATTCTT-ATTTTTGAAAAAGCTCTTCCTTAACAAAGGCTTTGGCACTCAAG
1 AGGTATTATAGATCATT-TTCATATTTGAAAAAACTCTTCCTTAACAAAGGCTTTGGAACTCAAG
*
4734137 AAAATTTAAAATCTAAAATAGGTACCTA-AAGGTTTTAGGGATCATGCCCTA
65 -AAATTTAAAATCTAAAA-AGGTACCTAGAA-GTTTTAAGGATCATGCCCTA
* * *
4734188 AGGTATTATAGATCATTTTCATATTTGAAAAAAATCTTCTTTAACAAAGGCTTTGAAACT
1 AGGTATTATAGATCATTTTCATATTTGAAAAAACTCTTCCTTAACAAAGGCTTTGGAACT
4734248 TAAAAAAAAT
Statistics
Matches: 146, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
113 52 0.36
114 21 0.14
115 73 0.50
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (113 bp):
AGGTATTATAGATCATTTTCATATTTGAAAAAACTCTTCCTTAACAAAGGCTTTGGAACTCAAGA
AATTTAAAATCTAAAAAGGTACCTAGAAGTTTTAAGGATCATGCCCTA
Found at i:4735652 original size:16 final size:18
Alignment explanation
Indices: 4735633--4735692 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 18
4735623 CATTTTTTTA
4735633 TCTTTTTT-TTTT-CATT
1 TCTTTTTTCTTTTCCATT
4735649 TCTTTTTTCTTTTCCATT
1 TCTTTTTTCTTTTCCATT
**
4735667 T-TTTTAACTTTT---TT
1 TCTTTTTTCTTTTCCATT
4735681 TCTTTTTTCTTT
1 TCTTTTTTCTTT
4735693 CATGTTTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.08
15 8 0.22
16 8 0.22
17 13 0.35
18 5 0.14
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTTTCTTTTCCATT
Found at i:4735681 original size:27 final size:27
Alignment explanation
Indices: 4735638--4735689 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
4735628 TTTTATCTTT
*
4735638 TTTTTTTCATTTCTTTT-TTCTTTTCCA
1 TTTTTTTAATTTCTTTTCTT-TTTTCCA
4735665 TTTTTTTAACTTT-TTTTCTTTTTTC
1 TTTTTTTAA-TTTCTTTTCTTTTTTC
4735690 TTTCATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTTTAATTTCTTTTCTTTTTTCCA
Found at i:4741384 original size:17 final size:16
Alignment explanation
Indices: 4741355--4741391 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
4741345 ACATACAAAG
*
4741355 AAAAGAAAAGAAATGA
1 AAAAGAAAAGAAACGA
4741371 AAAAGAATAAGAAACGA
1 AAAAGAA-AAGAAACGA
4741388 AAAA
1 AAAA
4741392 AAATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAGAAACGA
Found at i:4742565 original size:25 final size:26
Alignment explanation
Indices: 4742520--4742568 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
4742510 GAACATTTGA
*
4742520 ATCATTGTTTTGAATATTGCATTTAC
1 ATCATTGTTTAGAATATTGCATTTAC
4742546 ATCATTG-TTAGAATCA-TGCATTT
1 ATCATTGTTTAGAAT-ATTGCATTT
4742569 GCATAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (26 bp):
ATCATTGTTTAGAATATTGCATTTAC
Found at i:4743294 original size:33 final size:33
Alignment explanation
Indices: 4743257--4743438 Score: 136
Period size: 33 Copynumber: 5.5 Consensus size: 33
4743247 AAGATATATC
*
4743257 ATTTCAATTTTAGATTTTGGCTCAATCCAAGTT
1 ATTTCAATTTTAGACTTTGGCTCAATCCAAGTT
* * *
4743290 ATTTCACTTTTAGACTTTGGCTCAGTCCAAGTC
1 ATTTCAATTTTAGACTTTGGCTCAATCCAAGTT
* * * * *
4743323 ATCTC-ATTTTCA-AGCTTTGGTTTAGTTCAAGTT
1 ATTTCAATTTT-AGA-CTTTGGCTCAATCCAAGTT
* * *
4743356 ATTTCATTTTTATACTTTGGCTCAATCCATGTT
1 ATTTCAATTTTAGACTTTGGCTCAATCCAAGTT
* * ** * *
4743389 ATTT-TATGTTTTGACTTCAGCTCAGTCTAAGTT
1 ATTTCAAT-TTTAGACTTTGGCTCAATCCAAGTT
* *
4743422 ATTTTATTTTTAGACTT
1 ATTTCAATTTTAGACTT
4743439 CATTTCAATC
Statistics
Matches: 114, Mismatches: 29, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
32 6 0.05
33 102 0.89
34 6 0.05
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (33 bp):
ATTTCAATTTTAGACTTTGGCTCAATCCAAGTT
Found at i:4743439 original size:33 final size:33
Alignment explanation
Indices: 4743351--4743464 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
4743341 GGTTTAGTTC
* * ** *
4743351 AAGTTATTTCATTTTTATACTTTGGCTCAATCC
1 AAGTTATTTTATTTTTAGACTTCAGCTCAATCT
* *
4743384 ATGTTATTTTATGTTTT-GACTTCAGCTCAGTCT
1 AAGTTATTTTAT-TTTTAGACTTCAGCTCAATCT
** *
4743417 AAGTTATTTTATTTTTAGACTTCATTTCAATCA
1 AAGTTATTTTATTTTTAGACTTCAGCTCAATCT
*
4743450 AAGTCATTTTATTTT
1 AAGTTATTTTATTTT
4743465 CAAACTTTAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
32 4 0.06
33 58 0.88
34 4 0.06
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.52
Consensus pattern (33 bp):
AAGTTATTTTATTTTTAGACTTCAGCTCAATCT
Found at i:4743737 original size:21 final size:21
Alignment explanation
Indices: 4743711--4743756 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4743701 TTTAAATTTT
*
4743711 TTTTAAATGTGACA-TTTTGAA
1 TTTTAAATGAGA-ATTTTTGAA
4743732 TTTTAAATGAGAATTTTTGAA
1 TTTTAAATGAGAATTTTTGAA
4743753 TTTT
1 TTTT
4743757 TTAAAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (21 bp):
TTTTAAATGAGAATTTTTGAA
Found at i:4745319 original size:4 final size:4
Alignment explanation
Indices: 4745307--4745342 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
4745297 TTAAACAAAC
*
4745307 AAAT AAAAT AAAT ATAT AAAT AAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4745343 AATATGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:4745327 original size:12 final size:12
Alignment explanation
Indices: 4745312--4745347 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4745302 CAAACAAATA
4745312 AAATAAATATAT
1 AAATAAATATAT
*
4745324 AAATAAATAAAT
1 AAATAAATATAT
*
4745336 AAATAAAAATAT
1 AAATAAATATAT
4745348 GAAGGCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATAAATATAT
Found at i:4745433 original size:28 final size:30
Alignment explanation
Indices: 4745389--4745445 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
4745379 AAAAATTGAA
4745389 TAATCAATTAAACCTCTAATA-TTTTATTG
1 TAATCAATTAAACCTCTAATACTTTTATTG
* *
4745418 TAATCAA-TAAAGCTCTTATACTTTTATT
1 TAATCAATTAAACCTCTAATACTTTTATT
4745446 TTTATCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.46
Consensus pattern (30 bp):
TAATCAATTAAACCTCTAATACTTTTATTG
Found at i:4750301 original size:19 final size:19
Alignment explanation
Indices: 4750266--4750309 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4750256 CACAGGCAAA
* *
4750266 TTCATATCAATATATGATT
1 TTCATATCAATACATGAAT
4750285 TTCATATCAA-ACCATGAAT
1 TTCATATCAATA-CATGAAT
4750304 TTCATA
1 TTCATA
4750310 AACATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (19 bp):
TTCATATCAATACATGAAT
Found at i:4750519 original size:43 final size:41
Alignment explanation
Indices: 4750423--4750555 Score: 178
Period size: 43 Copynumber: 3.1 Consensus size: 41
4750413 AAGTTACATC
*
4750423 TTAACATAACTTGTAAAAAATAAAAAAAAAAACCCAAGAAA
1 TTAACATAACTTGTAAAAAATAAAAAAAAATACCCAAGAAA
* * *
4750464 CTAACATAACTTGTAAAAATTGAAAAATAAAATACCTAAGAAA
1 TTAACATAACTTGTAAAAAAT-AAAAA-AAAATACCCAAGAAA
4750507 TTAACATAACTTGTTAAAACTAA-AAAAAAAAATACCCAAGAAA
1 TTAACATAACTTG-TAAAA--AATAAAAAAAAATACCCAAGAAA
4750550 TTAACA
1 TTAACA
4750556 ACCCAATAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
41 19 0.24
42 5 0.06
43 45 0.56
44 10 0.12
46 1 0.01
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (41 bp):
TTAACATAACTTGTAAAAAATAAAAAAAAATACCCAAGAAA
Found at i:4751201 original size:19 final size:20
Alignment explanation
Indices: 4751168--4751206 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4751158 TTTGGGTTTA
*
4751168 GGGATTTCAA-TTTTTATTT
1 GGGATTTCAAGTTTTGATTT
*
4751187 GGGATTTTAAGTTTTGATTT
1 GGGATTTCAAGTTTTGATTT
4751207 AAGATTTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.56
Consensus pattern (20 bp):
GGGATTTCAAGTTTTGATTT
Found at i:4752371 original size:23 final size:23
Alignment explanation
Indices: 4752343--4752386 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4752333 TTTAAATAAA
*
4752343 AAAATATTAGTTTTA-ATTATTCT
1 AAAATAATA-TTTTATATTATTCT
4752366 AAAATAATATTTTATATTATT
1 AAAATAATATTTTATATTATT
4752387 TATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
AAAATAATATTTTATATTATTCT
Found at i:4753266 original size:21 final size:20
Alignment explanation
Indices: 4753240--4753283 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4753230 TTGGTTTTTC
* *
4753240 AAAAATTTATAAAA-AAAATT
1 AAAAAATTA-AAAATAAAAAT
4753260 AAAAAATTAAAAATAAAAAT
1 AAAAAATTAAAAATAAAAAT
4753280 AAAA
1 AAAA
4753284 GAAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAATTAAAAATAAAAAT
Found at i:4754233 original size:77 final size:77
Alignment explanation
Indices: 4754092--4754248 Score: 224
Period size: 77 Copynumber: 2.0 Consensus size: 77
4754082 CGATACTTTA
* * * ** ** *
4754092 TCAATAAGAGGGCATTGACAAAAGTTATTAAGACTAGCACATGGTTATACTCTTGTTTAGGAAGT
1 TCAAAAAGAGGACATTAACAAAAGTTATTAAGACTAGCACATAATTATACTCTCATTTAAGAAGT
4754157 AAGCAACCGATC
66 AAGCAACCGATC
* *
4754169 TCAAAAAGAGGACATTAACAAAAGTTATTGAGACTAGCACATAATTATGCTCTCATTTAAGAAGT
1 TCAAAAAGAGGACATTAACAAAAGTTATTAAGACTAGCACATAATTATACTCTCATTTAAGAAGT
4754234 AAGCAACCGATC
66 AAGCAACCGATC
4754246 TCA
1 TCA
4754249 TAGGTTGAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (77 bp):
TCAAAAAGAGGACATTAACAAAAGTTATTAAGACTAGCACATAATTATACTCTCATTTAAGAAGT
AAGCAACCGATC
Found at i:4756000 original size:20 final size:20
Alignment explanation
Indices: 4755975--4756015 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4755965 GGCAATCAAA
*
4755975 TACTTTCAATTTTGAATAAT
1 TACTTTCAATTTTAAATAAT
4755995 TACTTTCAATTTTAAATAAT
1 TACTTTCAATTTTAAATAAT
4756015 T
1 T
4756016 TGTAGCTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (20 bp):
TACTTTCAATTTTAAATAAT
Found at i:4758328 original size:25 final size:24
Alignment explanation
Indices: 4758276--4758355 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
4758266 TATGGCACGC
*
4758276 TTTTTTTTTTCTTTTTTTAT-ACTA
1 TTTTTTTTTTCTTTTTTT-TCAATA
4758300 TTTTCTTTTTTCTTTTTTTTCAAT-
1 TTTT-TTTTTTCTTTTTTTTCAATA
** *
4758324 TTTTTTATTTAATTTTTTTTCAAAA
1 TTTTTT-TTTTCTTTTTTTTCAATA
*
4758349 TCTTTTT
1 TTTTTTT
4758356 ATATTTAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 24 0.51
25 21 0.45
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTTCTTTTTTTTCAATA
Found at i:4758607 original size:9 final size:9
Alignment explanation
Indices: 4758589--4758635 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
4758579 TTTTATATTA
4758589 TTTTCTTCAT
1 TTTTC-TCAT
4758599 TTTTCTCAT
1 TTTTCTCAT
* *
4758608 TTTTCTTAC
1 TTTTCTCAT
*
4758617 TTTTATCAT
1 TTTTCTCAT
4758626 TTTTCT-AT
1 TTTTCTCAT
4758634 TT
1 TT
4758636 ATTTTTTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 4 0.13
9 22 0.71
10 5 0.16
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTCTCAT
Found at i:4758629 original size:18 final size:19
Alignment explanation
Indices: 4758589--4758631 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4758579 TTTTATATTA
* *
4758589 TTTTCTTCATTTTTCTCAT
1 TTTTCTTCACTTTTATCAT
4758608 TTTTCTT-ACTTTTATCAT
1 TTTTCTTCACTTTTATCAT
4758626 TTTTCT
1 TTTTCT
4758632 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCTTCACTTTTATCAT
Found at i:4758641 original size:12 final size:11
Alignment explanation
Indices: 4758624--4758657 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4758614 TACTTTTATC
4758624 ATTTTTCTATTT
1 ATTTTT-TATTT
*
4758636 ATTTTTTCTTT
1 ATTTTTTATTT
4758647 ATTTTTTATTT
1 ATTTTTTATTT
4758658 TTTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:4758667 original size:18 final size:17
Alignment explanation
Indices: 4758646--4758695 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
4758636 ATTTTTTCTT
*
4758646 TATTTTTTATTTTTTAAA
1 TATTTTTAATTTTTT-AA
*
4758664 TATTTATAATTTTTTAA
1 TATTTTTAATTTTTTAA
*
4758681 TA-TTTTAACTTTTTA
1 TATTTTTAATTTTTTA
4758696 TGTGGAGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTTTAATTTTTTAA
Found at i:4758676 original size:17 final size:17
Alignment explanation
Indices: 4758656--4758695 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4758646 TATTTTTTAT
4758656 TTTTTAAATATTTATAA-
1 TTTTTAAATATTT-TAAC
*
4758673 TTTTTTAATATTTTAAC
1 TTTTTAAATATTTTAAC
4758690 TTTTTA
1 TTTTTA
4758696 TGTGGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAATATTTTAAC
Found at i:4759208 original size:11 final size:11
Alignment explanation
Indices: 4759192--4759216 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4759182 CGTAACTATA
4759192 TATATTAAAAT
1 TATATTAAAAT
4759203 TATATTAAAAT
1 TATATTAAAAT
4759214 TAT
1 TAT
4759217 TTATTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATTAAAAT
Found at i:4764298 original size:14 final size:15
Alignment explanation
Indices: 4764265--4764298 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4764255 GCCATTCATG
*
4764265 ACTTGTCTCTATTCA
1 ACTTGTCTCTAATCA
4764280 ACTTGTCTCTAAT-A
1 ACTTGTCTCTAATCA
4764294 ACTTG
1 ACTTG
4764299 GCTGGCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (15 bp):
ACTTGTCTCTAATCA
Found at i:4766715 original size:14 final size:14
Alignment explanation
Indices: 4766696--4766724 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4766686 TATGATCTTA
4766696 TTGATAGAAGATTT
1 TTGATAGAAGATTT
4766710 TTGATAGAAGATTT
1 TTGATAGAAGATTT
4766724 T
1 T
4766725 AAGAAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TTGATAGAAGATTT
Found at i:4781059 original size:16 final size:18
Alignment explanation
Indices: 4781038--4781075 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4781028 CATTGAAGGA
4781038 ATTTTTA-TTT-ATATAT
1 ATTTTTATTTTAATATAT
4781054 ATTTTTATTTTAATATAT
1 ATTTTTATTTTAATATAT
4781072 ATTT
1 ATTT
4781076 GAAATTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 10 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTATTTTAATATAT
Found at i:4782242 original size:17 final size:18
Alignment explanation
Indices: 4782220--4782253 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4782210 CAAATGTGAT
*
4782220 ATGAATT-TTGGTTGTGC
1 ATGAATTATTGGCTGTGC
4782237 ATGAATTATTGGCTGTG
1 ATGAATTATTGGCTGTG
4782254 TTACTTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (18 bp):
ATGAATTATTGGCTGTGC
Found at i:4782516 original size:15 final size:15
Alignment explanation
Indices: 4782496--4782567 Score: 56
Period size: 14 Copynumber: 4.7 Consensus size: 15
4782486 TTTGTAAGTC
*
4782496 TTTTTATTTTTTATT
1 TTTTTATTTTATATT
4782511 TTTTTATTTTATA-T
1 TTTTTATTTTATATT
* * *
4782525 TATTTATATTATAGAT
1 TTTTTATTTTATA-TT
*
4782541 TTTTTAGATTTATATT
1 TTTTTA-TTTTATATT
*
4782557 ATTTATATTTT
1 -TTTTTATTTT
4782568 TTCATTTTGA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
14 12 0.27
15 12 0.27
16 10 0.23
17 10 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTATTTTATATT
Found at i:4782567 original size:22 final size:22
Alignment explanation
Indices: 4782526--4782567 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4782516 ATTTTATATT
*
4782526 ATTTATATTATAGATTTTTTAG
1 ATTTATATTATAGATATTTTAG
**
4782548 ATTTATATTATTTATATTTT
1 ATTTATATTATAGATATTTT
4782568 TTCATTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTTATATTATAGATATTTTAG
Found at i:4793028 original size:32 final size:30
Alignment explanation
Indices: 4792976--4793036 Score: 70
Period size: 32 Copynumber: 2.0 Consensus size: 30
4792966 GGTTTTATTG
*
4792976 AATAAACTCTTGGACTGGCTA-CTAGAAGCA
1 AATAAACTCCTGGACTGGCTATC-AGAAGCA
*
4793006 AATAAGACTCCTGGATTGGGCTATCAGAAGC
1 AATAA-ACTCCTGGACT-GGCTATCAGAAGC
4793037 TGTAGTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 5 0.19
31 9 0.35
32 11 0.42
33 1 0.04
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (30 bp):
AATAAACTCCTGGACTGGCTATCAGAAGCA
Found at i:4794524 original size:2 final size:2
Alignment explanation
Indices: 4794517--4794555 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4794507 TTTGATTGAT
4794517 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4794556 GTTTTGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4797690 original size:14 final size:14
Alignment explanation
Indices: 4797673--4797702 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4797663 ATTCTCTTTA
*
4797673 TAAAATATTATATT
1 TAAAATAATATATT
4797687 TAAAATAATATATT
1 TAAAATAATATATT
4797701 TA
1 TA
4797703 TATTTCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATAATATATT
Found at i:4797718 original size:28 final size:28
Alignment explanation
Indices: 4797683--4797747 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 28
4797673 TAAAATATTA
*
4797683 TATT-TAAAATAATATATTTATATTTCT
1 TATTATAAAATAATATATTTATATTACT
4797710 TATTAT---A-AA-ATATTTATATTACT
1 TATTATAAAATAATATATTTATATTACT
4797733 TATTATAAAATAATA
1 TATTATAAAATAATA
4797748 GAAAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
23 19 0.61
24 2 0.06
25 1 0.03
26 1 0.03
27 6 0.19
28 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTATAAAATAATATATTTATATTACT
Found at i:4797722 original size:23 final size:23
Alignment explanation
Indices: 4797691--4797744 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
4797681 TATATTTAAA
* *
4797691 ATAATATATTTATATTTCTTATT
1 ATAAAATATTTATATTACTTATT
4797714 ATAAAATATTTATATTACTTATT
1 ATAAAATATTTATATTACTTATT
4797737 ATAAAATA
1 ATAAAATA
4797745 ATAGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAAAATATTTATATTACTTATT
Found at i:4797832 original size:32 final size:32
Alignment explanation
Indices: 4797787--4797879 Score: 120
Period size: 32 Copynumber: 3.0 Consensus size: 32
4797777 AAAATCTTTT
*
4797787 TAAAAAA-ATTATATCATTTTAAAAAATTAAA
1 TAAAAAACTTTATATCATTTTAAAAAATTAAA
* *
4797818 T-AAAAATTTCTATATCAATTT-AAAAATTAAA
1 TAAAAAACTT-TATATCATTTTAAAAAATTAAA
*
4797849 TAAAAAACTTTATATCATTTTAAAATATTAA
1 TAAAAAACTTTATATCATTTTAAAAAATTAA
4797880 GAAGCGGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.09
31 23 0.43
32 25 0.47
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAACTTTATATCATTTTAAAAAATTAAA
Found at i:4797843 original size:31 final size:31
Alignment explanation
Indices: 4797787--4797879 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
4797777 AAAATCTTTT
*
4797787 TAAAAAA-ATTATATCATTTTAAAAAATTAAA
1 TAAAAAACTTTATATCATTTT-AAAAATTAAA
* *
4797818 T-AAAAATTTCTATATCAATTTAAAAATTAAA
1 TAAAAAACTT-TATATCATTTTAAAAATTAAA
4797849 TAAAAAACTTTATATCATTTTAAAATATTAA
1 TAAAAAACTTTATATCATTTTAAAA-ATTAA
4797880 GAAGCGGTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.09
31 27 0.50
32 22 0.41
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAACTTTATATCATTTTAAAAATTAAA
Found at i:4798308 original size:43 final size:41
Alignment explanation
Indices: 4798223--4798309 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
4798213 ATTTGTGAAG
* *
4798223 ATTCAAAAAATTTAAAAATTTAATAAAAATCATAAAAAAAA
1 ATTCAAAAAATTTAAAAATTTAAAAAAAATAATAAAAAAAA
*
4798264 ATTCAAAAACTATTTGAAAA-TTAAAAAAAATAATAAAAATAAA
1 ATTCAAAAA--ATTTAAAAATTTAAAAAAAATAATAAAAA-AAA
4798307 ATT
1 ATT
4798310 TTTGAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 9 0.22
42 17 0.43
43 14 0.35
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.28
Consensus pattern (41 bp):
ATTCAAAAAATTTAAAAATTTAAAAAAAATAATAAAAAAAA
Found at i:4798406 original size:21 final size:22
Alignment explanation
Indices: 4798357--4798406 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
4798347 AGATTGAAAA
4798357 TTAAAAAATCTAAAAATTTTTT
1 TTAAAAAATCTAAAAATTTTTT
* * *
4798379 ATGAAAAATCT-GAAATTTTTT
1 TTAAAAAATCTAAAAATTTTTT
4798400 TTAAAAA
1 TTAAAAA
4798407 TTTTGAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAAAAAATCTAAAAATTTTTT
Found at i:4798716 original size:17 final size:17
Alignment explanation
Indices: 4798690--4798733 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4798680 TGCTTTTTTT
*
4798690 TTTTAA-TTTAAG-AAA
1 TTTTAATTTTTAGAAAA
4798705 TTTTAATTTTTAGTAAAA
1 TTTTAATTTTTAG-AAAA
4798723 TTTTAATTTTT
1 TTTTAATTTTT
4798734 TTGAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 5 0.20
18 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTTAATTTTTAGAAAA
Found at i:4798770 original size:18 final size:19
Alignment explanation
Indices: 4798749--4798784 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4798739 TTTTTTCTAA
*
4798749 TTTT-TAAAAATATTTTAT
1 TTTTGTAAAAACATTTTAT
4798767 TTTTGTAAAAACATTTTA
1 TTTTGTAAAAACATTTTA
4798785 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTGTAAAAACATTTTAT
Found at i:4799979 original size:131 final size:131
Alignment explanation
Indices: 4799779--4800133 Score: 586
Period size: 131 Copynumber: 2.7 Consensus size: 131
4799769 TGTGTATTTA
* * *
4799779 TGCATATATATTTTATTCTATTTATTATTGTTAGAAGTTTATTTTTATAATTATTTATTATTTGA
1 TGCATATATTTTTTATTCTATTTATTATTGTTAGAAGTTTATTTTTATAATTATGTATTATTTGG
* *
4799844 ATGATATTAATTTTTTATAACATTGATTGGGCATTTTATATTTTTCTGTATATTTATGTGGGGTT
66 ATGATATTAATTTTTTATAATATTGATTGGGCATTTTATATTTTTCTATATATTTATGTGGGGTT
4799909 T
131 T
* *
4799910 TGCATATATTTTTTATTTTATTTATTATTGTTAGAAGTTTATTTCTATAATTATGTATTATTTGG
1 TGCATATATTTTTTATTCTATTTATTATTGTTAGAAGTTTATTTTTATAATTATGTATTATTTGG
*
4799975 ATGATATTAATTTTTTATAATATTGATTGGGCCTTTTATATTTTTCTATATATTTATGTGGGGTT
66 ATGATATTAATTTTTTATAATATTGATTGGGCATTTTATATTTTTCTATATATTTATGTGGGGTT
4800040 T
131 T
* * *
4800041 TGCTTATA-TTTTTATTCTATTCATTATTATTAGAAGTTTATTTTTATAATTATGTATTATTTGG
1 TGCATATATTTTTTATTCTATTTATTATTGTTAGAAGTTTATTTTTATAATTATGTATTATTTGG
* *
4800105 ATGATATAAATTTTTTATAATGTTGATTG
66 ATGATATTAATTTTTTATAATATTGATTG
4800134 ATGATTGGGC
Statistics
Matches: 209, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
130 79 0.38
131 130 0.62
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (131 bp):
TGCATATATTTTTTATTCTATTTATTATTGTTAGAAGTTTATTTTTATAATTATGTATTATTTGG
ATGATATTAATTTTTTATAATATTGATTGGGCATTTTATATTTTTCTATATATTTATGTGGGGTT
T
Found at i:4800389 original size:53 final size:53
Alignment explanation
Indices: 4800312--4800419 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
4800302 GTAGATATTG
*
4800312 TTTATTCTTAGATAATTACAGGAAAAAACTATCTACCATAATGAAAAGAGATA
1 TTTATACTTAGATAATTACAGGAAAAAACTATCTACCATAATGAAAAGAGATA
* * *
4800365 TTTATACTTAGATAATTACTGGAAAAAACTGTGTACCATAATGAAAAGAGATA
1 TTTATACTTAGATAATTACAGGAAAAAACTATCTACCATAATGAAAAGAGATA
4800418 TT
1 TT
4800420 GGTATAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (53 bp):
TTTATACTTAGATAATTACAGGAAAAAACTATCTACCATAATGAAAAGAGATA
Found at i:4801197 original size:24 final size:23
Alignment explanation
Indices: 4801170--4801234 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
4801160 TATTACACTT
4801170 TTATGTTTAAATTTTATATTCAAA
1 TTAT-TTTAAATTTTATATTCAAA
* * *
4801194 TTATTATTATATTTTATGTTTAAA
1 TTATT-TTAAATTTTATATTCAAA
*
4801218 -TATTTTAAATATTATAT
1 TTATTTTAAATTTTATAT
4801235 CTTCTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 10 0.29
23 5 0.15
24 19 0.56
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TTATTTTAAATTTTATATTCAAA
Found at i:4807453 original size:27 final size:26
Alignment explanation
Indices: 4807414--4807465 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
4807404 GATTTTTTTT
*
4807414 ATAAAAACCAATAAATTAAATAAAAA
1 ATAAAAACCAATAAATAAAATAAAAA
*
4807440 ATAAAAACTTAATAAATAAAATAAAA
1 ATAAAAAC-CAATAAATAAAATAAAA
4807466 TAAAATTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (26 bp):
ATAAAAACCAATAAATAAAATAAAAA
Found at i:4807459 original size:26 final size:25
Alignment explanation
Indices: 4807414--4807470 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
4807404 GATTTTTTTT
4807414 ATAAAAACCAATAAATTAAATAAAAA
1 ATAAAAACCAATAAATTAAA-AAAAA
* *
4807440 ATAAAAACTTAATAAA-TAAAATAAA
1 ATAAAAAC-CAATAAATTAAAAAAAA
4807465 ATAAAA
1 ATAAAA
4807471 TTGGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.36
26 12 0.43
27 6 0.21
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (25 bp):
ATAAAAACCAATAAATTAAAAAAAA
Found at i:4807501 original size:18 final size:18
Alignment explanation
Indices: 4807457--4807500 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4807447 CTTAATAAAT
*
4807457 AAAATAAAATAAAATTGG
1 AAAATAAAATAAAATTGA
4807475 AAAATAAAATGAAAA-TGA
1 AAAATAAAAT-AAAATTGA
4807493 AAAA-AAAA
1 AAAATAAAA
4807501 ACTTACGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (18 bp):
AAAATAAAATAAAATTGA
Found at i:4808353 original size:3 final size:3
Alignment explanation
Indices: 4808347--4808465 Score: 69
Period size: 3 Copynumber: 41.7 Consensus size: 3
4808337 AAAAAAAAAA
* ** *
4808347 AAT AAT AAT -AT AAT AAT AAT AAT AAT -AT GAT AAT AAT ACG AA- AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
4808392 AAT ATT ATAT ACT -AT AAT -AT AAT -AT AAT -AT AAT -AT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4808433 -AT AAT CAT ACCAT AAT -AT AAT AAT ATAT AAT AA
1 AAT AAT AAT A--AT AAT AAT AAT AAT A-AT AAT AA
4808466 CATATCAAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 19 0.21
3 64 0.70
4 5 0.05
5 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4808359 original size:5 final size:5
Alignment explanation
Indices: 4808351--4808464 Score: 81
Period size: 5 Copynumber: 22.2 Consensus size: 5
4808341 AAAAAAAATA
* * * * *
4808351 ATAAT ATAAT AATAAT AATAAT ATGAT AATAAT ACGAAA ACAAT ATTAT
1 ATAAT ATAAT -ATAAT -ATAAT ATAAT -ATAAT A-TAAT ATAAT ATAAT
* **
4808400 ATACT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT CATACC ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
4808449 ATAAT A-ATAT ATAAT A
1 ATAAT ATA-AT ATAAT A
4808465 ACATATCAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
3 2 0.02
4 3 0.03
5 59 0.69
6 22 0.26
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:4808359 original size:8 final size:8
Alignment explanation
Indices: 4808348--4808464 Score: 78
Period size: 8 Copynumber: 14.1 Consensus size: 8
4808338 AAAAAAAAAA
4808348 ATAATAAT
1 ATAATAAT
4808356 ATAATAAT
1 ATAATAAT
4808364 AATAATAAT
1 -ATAATAAT
*
4808373 ATGATAAT
1 ATAATAAT
** *
4808381 AATACGAAA
1 -ATAATAAT
*
4808390 ACAATATTAT
1 ATAATA--AT
4808400 ATACTATAAT
1 ATA--ATAAT
4808410 ATAAT-AT
1 ATAATAAT
4808417 A-ATATAAT
1 ATA-ATAAT
4808425 ATAATAAT
1 ATAATAAT
*
4808433 ATAATCAT
1 ATAATAAT
**
4808441 ACCATAAT
1 ATAATAAT
4808449 ATAATAAT
1 ATAATAAT
4808457 AT-ATAAT
1 ATAATAAT
4808464 A
1 A
4808465 ACATATCAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
6 1 0.01
7 11 0.13
8 48 0.57
9 13 0.15
10 8 0.10
12 3 0.04
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:4808419 original size:39 final size:41
Alignment explanation
Indices: 4808362--4808465 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 41
4808352 TAATATAATA
* * *
4808362 ATAATAATAATATGATAATAATACGAAAACAATATTAT-ATACT
1 ATAAT-ATAATA--ATAATAATAAGAAAACAATATAATCATACC
* * *
4808405 ATAATATAAT-ATAAT-ATAATATAATAATATAATCATACC
1 ATAATATAATAATAATAATAAGAAAACAATATAATCATACC
4808444 ATAATATAATAATATATAATAA
1 ATAATATAATAATA-ATAATAA
4808466 CATATCAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
38 13 0.25
39 19 0.37
40 3 0.06
41 2 0.04
42 9 0.18
43 5 0.10
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (41 bp):
ATAATATAATAATAATAATAAGAAAACAATATAATCATACC
Found at i:4808449 original size:16 final size:13
Alignment explanation
Indices: 4808348--4808464 Score: 66
Period size: 14 Copynumber: 8.7 Consensus size: 13
4808338 AAAAAAAAAA
4808348 ATAATAATATAAT
1 ATAATAATATAAT
4808361 AATAATAATA-ATAT
1 -ATAATAATATA-AT
**
4808375 GATAATAATACGA-
1 -ATAATAATATAAT
*
4808388 A-AACAATAT--T
1 ATAATAATATAAT
*
4808398 AT-ATACTATAAT
1 ATAATAATATAAT
4808410 ATAATATAATATAAT
1 AT-A-ATAATATAAT
4808425 ATAATAATATAAT
1 ATAATAATATAAT
4808438 CATACCATAATATAAT
1 -ATA--ATAATATAAT
4808454 AATATATAATA
1 -ATA-ATAATA
4808465 ACATATCAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
10 6 0.07
11 6 0.07
12 4 0.05
13 11 0.13
14 25 0.30
15 17 0.21
16 13 0.16
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:4809860 original size:5 final size:6
Alignment explanation
Indices: 4809795--4809861 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 6
4809785 TGATGAAAAT
* * *
4809795 TTTAAA TTTAAA TTT-TA TTCCAAA TTTATTA TTTAAAA TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TT-TAAA TTTA-AA TTT-AAA TTT-AAA TTTAAA
4809846 TTTAAA TTT-AA TTTAA
1 TTTAAA TTTAAA TTTAA
4809862 GATAAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 8 0.16
6 23 0.46
7 18 0.36
8 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:4813746 original size:13 final size:13
Alignment explanation
Indices: 4813728--4813752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4813718 TTAAGTATTA
4813728 AAATTTAAAATTT
1 AAATTTAAAATTT
4813741 AAATTTAAAATT
1 AAATTTAAAATT
4813753 ATGTATTATT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:4814445 original size:13 final size:14
Alignment explanation
Indices: 4814411--4814447 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
4814401 TTTATTGAAC
4814411 AAAAAAATTTTCAG
1 AAAAAAATTTTCAG
*
4814425 AAAAAAATTTTGA-
1 AAAAAAATTTTCAG
4814438 AAAAAAATTT
1 AAAAAAATTT
4814448 CTTTCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (14 bp):
AAAAAAATTTTCAG
Found at i:4818231 original size:6 final size:7
Alignment explanation
Indices: 4818215--4818240 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4818205 TTGAAAATAG
4818215 TTTTTAT
1 TTTTTAT
4818222 TTTTTAT
1 TTTTTAT
4818229 TTTTTAT
1 TTTTTAT
4818236 TTTTT
1 TTTTT
4818241 GAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:4818719 original size:6 final size:6
Alignment explanation
Indices: 4818708--4818742 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4818698 TATTTTCGTC
*
4818708 ATTTTG ATTTTG ATTTTG ATTTT- ATTTTT ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
4818743 GTGTCTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (6 bp):
ATTTTG
Found at i:4818740 original size:17 final size:18
Alignment explanation
Indices: 4818708--4818742 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4818698 TATTTTCGTC
4818708 ATTTTGATTTTGATTTTG
1 ATTTTGATTTTGATTTTG
*
4818726 ATTTT-ATTTTTATTTTG
1 ATTTTGATTTTGATTTTG
4818743 GTGTCTTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (18 bp):
ATTTTGATTTTGATTTTG
Found at i:4819011 original size:20 final size:21
Alignment explanation
Indices: 4818988--4819026 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4818978 CAATTTTTAG
4818988 GATTTTTGG-GAATTTTTTCA
1 GATTTTTGGAGAATTTTTTCA
*
4819008 GATTTTTGGATAATTTTTT
1 GATTTTTGGAGAATTTTTT
4819027 TCTGGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (21 bp):
GATTTTTGGAGAATTTTTTCA
Found at i:4819524 original size:15 final size:16
Alignment explanation
Indices: 4819492--4819534 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
4819482 TTTTTTTTTT
**
4819492 TTTATTTATATGTTTA
1 TTTATTTATATGAGTA
4819508 TTTATTT-TATGAGTA
1 TTTATTTATATGAGTA
4819523 TTT-TTTATATGA
1 TTTATTTATATGA
4819535 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 14 0.58
16 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTATTTATATGAGTA
Found at i:4819630 original size:26 final size:26
Alignment explanation
Indices: 4819583--4819637 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
4819573 GATAAATATT
4819583 AATTATCAAATGATGAAATTTATAAA
1 AATTATCAAATGATGAAATTTATAAA
*
4819609 AATT-TCAAATGAT-AAATTTTTATAA
1 AATTATCAAATGATGAAATTTATA-AA
4819634 AATT
1 AATT
4819638 TTTAGGTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 15 0.56
26 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (26 bp):
AATTATCAAATGATGAAATTTATAAA
Found at i:4823157 original size:33 final size:34
Alignment explanation
Indices: 4823093--4823158 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
4823083 CCTTAAAGGA
*
4823093 TTTTCAAAAATAAATTTTCGAAAGCTTTTAAAAT
1 TTTTCAAAAATAAATTTTCGAAAGCTCTTAAAAT
* * * *
4823127 TTTTTAAAAATACATTTTTGAGAG-TCTTAAAA
1 TTTTCAAAAATAAATTTTCGAAAGCTCTTAAAA
4823159 AGGTTTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (34 bp):
TTTTCAAAAATAAATTTTCGAAAGCTCTTAAAAT
Found at i:4823246 original size:34 final size:33
Alignment explanation
Indices: 4823175--4823257 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
4823165 TTTGAAAATG
*
4823175 AAAATGAATTTTCAAGAGCCTTAAAGCTTTTTA
1 AAAATGAATTTTCAAGAGCCTTAAAGATTTTTA
* *
4823208 AAAATGGA-TTTCTAAGAGCCTTTAAA-ATTTCTTC
1 AAAATGAATTTTC-AAGAGCC-TTAAAGATTT-TTA
*
4823242 AAAATGTATTTTCAAG
1 AAAATGAATTTTCAAG
4823258 GGGCTTCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
32 4 0.10
33 17 0.40
34 17 0.40
35 4 0.10
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (33 bp):
AAAATGAATTTTCAAGAGCCTTAAAGATTTTTA
Found at i:4825061 original size:15 final size:15
Alignment explanation
Indices: 4825036--4825073 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4825026 CTTTATTAAT
*
4825036 ATAATATATAAATATA
1 ATAATAAATAAATA-A
4825052 A-AATAAATAAATAA
1 ATAATAAATAAATAA
4825066 ATAATAAA
1 ATAATAAA
4825074 ATATATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAAATAAATAA
Found at i:4825847 original size:7 final size:7
Alignment explanation
Indices: 4825835--4825889 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
4825825 AATTTATCTA
4825835 ATAAAAT
1 ATAAAAT
*
4825842 ATAAAAC
1 ATAAAAT
4825849 ATAAAAT
1 ATAAAAT
*
4825856 ATAAATT
1 ATAAAAT
4825863 GATAAAA-
1 -ATAAAAT
4825870 AT-AAA-
1 ATAAAAT
4825875 ATAAAAT
1 ATAAAAT
*
4825882 AAAAAAT
1 ATAAAAT
4825889 A
1 A
4825890 GATAATGGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 5 0.12
6 5 0.12
7 25 0.62
8 5 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:4830414 original size:20 final size:20
Alignment explanation
Indices: 4830389--4830435 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4830379 TAAGTGTCGT
4830389 GGTTTTGCTTTGGAATTTTG
1 GGTTTTGCTTTGGAATTTTG
**
4830409 GGTTTTATTTTGGAATTTTG
1 GGTTTTGCTTTGGAATTTTG
*
4830429 GCTTTTG
1 GGTTTTG
4830436 GTGATTGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.04, G:0.28, T:0.57
Consensus pattern (20 bp):
GGTTTTGCTTTGGAATTTTG
Found at i:4831006 original size:14 final size:14
Alignment explanation
Indices: 4830989--4831027 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
4830979 TCTTTTTTTT
4830989 TTTTTTTTTTCTGA
1 TTTTTTTTTTCTGA
*
4831003 TTTTGTTTTTCTGA
1 TTTTTTTTTTCTGA
4831017 TTTTTATTTTT
1 TTTTT-TTTTT
4831028 TTCTTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTTCTGA
Found at i:4831006 original size:17 final size:17
Alignment explanation
Indices: 4830986--4831057 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
4830976 TTTTCTTTTT
4830986 TTTTTTTTTTTTTCTGA
1 TTTTTTTTTTTTTCTGA
*
4831003 ---TTTTGTTTTTCTGA
1 TTTTTTTTTTTTTCTGA
*
4831017 TTTTTATTTTTTTCT--
1 TTTTTTTTTTTTTCTGA
* *
4831032 TTCTTTTTTTATTCTCTTA
1 TT-TTTTTTT-TTTTCTGA
4831051 TTTTTTT
1 TTTTTTT
4831058 AGTATTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
14 13 0.30
15 2 0.05
16 6 0.14
17 15 0.35
18 5 0.12
19 2 0.05
ACGTcount: A:0.07, C:0.08, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTTTTCTGA
Found at i:4831025 original size:20 final size:20
Alignment explanation
Indices: 4831002--4831044 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4830992 TTTTTTTCTG
4831002 ATTTTGTT-TTTCTGATTTTT
1 ATTTTGTTCTTTCT-ATTTTT
* *
4831022 ATTTTTTTCTTTCTTTTTTT
1 ATTTTGTTCTTTCTATTTTT
4831042 ATT
1 ATT
4831045 CTCTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (20 bp):
ATTTTGTTCTTTCTATTTTT
Found at i:4831054 original size:34 final size:33
Alignment explanation
Indices: 4830975--4831057 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
4830965 CTATCATAGA
*
4830975 TTTTTCTT-TTTTTTTTTTTTTTTTCTGATTTTG
1 TTTTTCTTATTTTTTTTTTTTCTTTCT-ATTTTG
*
4831008 TTTTTCTGATTTTTATTTTTTTCTTTCT-TTTT-
1 TTTTTCTTATTTTT-TTTTTTTCTTTCTATTTTG
4831040 TTATTCTCTTATTTTTTT
1 TT-TT-TCTTATTTTTTT
4831058 AGTATTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
32 2 0.05
33 15 0.35
34 14 0.33
35 12 0.28
ACGTcount: A:0.06, C:0.08, G:0.04, T:0.82
Consensus pattern (33 bp):
TTTTTCTTATTTTTTTTTTTTCTTTCTATTTTG
Found at i:4831107 original size:24 final size:24
Alignment explanation
Indices: 4831080--4831132 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4831070 TTGCATGATT
*
4831080 TTATGACTTTATTTAATTGCT-TGA
1 TTATGAATTTATTTAATTG-TGTGA
* *
4831104 TTATTAATTTATTTATTTGTGTGA
1 TTATGAATTTATTTAATTGTGTGA
4831128 TTATG
1 TTATG
4831133 TTTGATTGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.25, C:0.04, G:0.13, T:0.58
Consensus pattern (24 bp):
TTATGAATTTATTTAATTGTGTGA
Found at i:4831236 original size:17 final size:16
Alignment explanation
Indices: 4831215--4831256 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
4831205 TTGCATGAAT
4831215 ATATTATTTTTGCATTG
1 ATATTATTTTTGCA-TG
* *
4831232 TTATTATTATTGCATG
1 ATATTATTTTTGCATG
4831248 ATATTATTT
1 ATATTATTT
4831257 ACATGATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (16 bp):
ATATTATTTTTGCATG
Found at i:4832140 original size:22 final size:22
Alignment explanation
Indices: 4832115--4832161 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
4832105 GGAAATTATG
4832115 CATGTGACAAGTACAAAAATGT
1 CATGTGACAAGTACAAAAATGT
*
4832137 CATGTGACAATTACAAAAATGT
1 CATGTGACAAGTACAAAAATGT
4832159 CAT
1 CAT
4832162 TAATGATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (22 bp):
CATGTGACAAGTACAAAAATGT
Done.