Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 11 of 126
Found at i:2587716 original size:16 final size:16
Alignment explanation
Indices: 2587695--2587727 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2587685 GCCATAAACA
2587695 TGGACATCGCAGAGTT
1 TGGACATCGCAGAGTT
2587711 TGGACATCGCAGAGTT
1 TGGACATCGCAGAGTT
2587727 T
1 T
2587728 CAGACTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (16 bp):
TGGACATCGCAGAGTT
Found at i:2589727 original size:16 final size:15
Alignment explanation
Indices: 2589708--2589737 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2589698 ATTGTTAGTA
2589708 TAAATTATTATTTTAT
1 TAAATTATT-TTTTAT
2589724 TAAATTATTTTTTA
1 TAAATTATTTTTTA
2589738 CATTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAAATTATTTTTTAT
Found at i:2589800 original size:14 final size:14
Alignment explanation
Indices: 2589771--2589820 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
2589761 AAATCAAATG
*
2589771 TAATATTTAATATAA
1 TAATA-TTATTATAA
2589786 TAATATTATTATAA
1 TAATATTATTATAA
*
2589800 TATTATTATTATAA
1 TAATATTATTATAA
2589814 TAATATT
1 TAATATT
2589821 TTAACTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 27 0.84
15 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTATTATAA
Found at i:2590706 original size:24 final size:24
Alignment explanation
Indices: 2590679--2590749 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
2590669 GTTTTGCTAA
2590679 ATCTTCTGAACACTGTAAGAACTT
1 ATCTTCTGAACACTGTAAGAACTT
2590703 ATCTTCTGAACACTGTAAGAACTT
1 ATCTTCTGAACACTGTAAGAACTT
*
2590727 ATCTTCTAAACACT-TGAAGAACT
1 ATCTTCTGAACACTGT-AAGAACT
2590750 CATCGACAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (24 bp):
ATCTTCTGAACACTGTAAGAACTT
Found at i:2602103 original size:20 final size:23
Alignment explanation
Indices: 2602078--2602119 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2602068 TAAAGAGATC
2602078 TAATA-TAAAA-TG-TTATTAAT
1 TAATATTAAAATTGATTATTAAT
2602098 TAATATTAAAATTGATTATTAA
1 TAATATTAAAATTGATTATTAA
2602120 AAAGACCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 2 0.11
23 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
TAATATTAAAATTGATTATTAAT
Found at i:2603043 original size:26 final size:26
Alignment explanation
Indices: 2603000--2603050 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2602990 CATTAAAAGA
*
2603000 AATACAAATAAATCAAATAAAATTAC
1 AATACAAATAAATAAAATAAAATTAC
*
2603026 AATATCAAAT-AATAAAATAAGATTA
1 AATA-CAAATAAATAAAATAAAATTA
2603051 TTCATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (26 bp):
AATACAAATAAATAAAATAAAATTAC
Found at i:2603274 original size:31 final size:29
Alignment explanation
Indices: 2603214--2603282 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 29
2603204 ATATTTATAT
* *
2603214 TTATATTTTATTTTATATTAAAATTATTTA
1 TTATATTTTAATTTATATT-AAATAATTTA
2603244 GTTATATTTTAATTTATTAATT-AATAATTTA
1 -TTATATTTTAATTTA-T-ATTAAATAATTTA
2603275 TTA-ATTTT
1 TTATATTTT
2603283 TTATATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 5 0.15
30 3 0.09
31 22 0.65
32 1 0.03
33 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TTATATTTTAATTTATATTAAATAATTTA
Found at i:2608075 original size:14 final size:14
Alignment explanation
Indices: 2608056--2608082 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2608046 TATAAATAAT
2608056 TAATTTTTATTATA
1 TAATTTTTATTATA
2608070 TAATTTTTATTAT
1 TAATTTTTATTAT
2608083 TGACAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTTTTATTATA
Found at i:2610819 original size:16 final size:15
Alignment explanation
Indices: 2610788--2610882 Score: 55
Period size: 13 Copynumber: 6.7 Consensus size: 15
2610778 AAGCGTAACG
2610788 AAGATAAGAAAGATA
1 AAGATAAGAAAGATA
2610803 AAGATAAAGAGAA-ATA
1 AAGAT-AAGA-AAGATA
2610819 AA-A-AA-AAAGAATA
1 AAGATAAGAAAG-ATA
*
2610832 AGGAT-AGAAA-A-A
1 AAGATAAGAAAGATA
*
2610844 AATGATAAGAAAAATA
1 AA-GATAAGAAAGATA
* *
2610860 AA-A-AAGAAAAAAA
1 AAGATAAGAAAGATA
2610873 AAGATAAGAA
1 AAGATAAGAA
2610883 GAAAAAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 26
0.69 0.03 0.28
Matches are distributed among these distances:
11 2 0.03
12 3 0.05
13 21 0.33
14 9 0.14
15 15 0.23
16 12 0.19
17 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGATAAGAAAGATA
Found at i:2610874 original size:31 final size:28
Alignment explanation
Indices: 2610839--2610895 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
2610829 ATAAGGATAG
*
2610839 AAAAAAATGATAAGAA-AAATAAAAAAGA
1 AAAAAAAAGATAAGAAGAAA-AAAAAAGA
2610867 AAAAAAAAGATAAGAAGAAAAAAAAAGA
1 AAAAAAAAGATAAGAAGAAAAAAAAAGA
2610895 A
1 A
2610896 TAAGGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (28 bp):
AAAAAAAAGATAAGAAGAAAAAAAAAGA
Found at i:2610898 original size:19 final size:18
Alignment explanation
Indices: 2610863--2610899 Score: 65
Period size: 18 Copynumber: 2.0 Consensus size: 18
2610853 AAAAATAAAA
2610863 AAGAAAAAAAAAGATAAG
1 AAGAAAAAAAAAGATAAG
2610881 AAGAAAAAAAAAGAATAAG
1 AAGAAAAAAAAAG-ATAAG
2610900 GATAAAGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAGAAAAAAAAAGATAAG
Found at i:2611240 original size:15 final size:15
Alignment explanation
Indices: 2611200--2611242 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2611190 ACAAAGAGGT
2611200 AGAGAAAGAAAGAAAAA
1 AGAGAAA-AAA-AAAAA
*
2611217 AGATAAAAAAAAAAA
1 AGAGAAAAAAAAAAA
2611232 AGAGGAAAAAA
1 AGA-GAAAAAA
2611243 CAAAGCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 9 0.39
17 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (15 bp):
AGAGAAAAAAAAAAA
Found at i:2611310 original size:36 final size:36
Alignment explanation
Indices: 2611255--2611348 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
2611245 AAGCACAAAG
*
2611255 ACAAAGAAGAAGAAACAAATGAAAAGAAAAAAAAGAA
1 ACAAA-AAGAAGAAGCAAATGAAAAGAAAAAAAAGAA
* * * *
2611292 ACAAAAAGAAGAAGCAAATGAAAAGGAGAAGAATAA
1 ACAAAAAGAAGAAGCAAATGAAAAGAAAAAAAAGAA
*
2611328 ACAAAGAGAAGAAGCAAATGA
1 ACAAAAAGAAGAAGCAAATGA
2611349 CATGAAGTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 46 0.90
37 5 0.10
ACGTcount: A:0.69, C:0.06, G:0.20, T:0.04
Consensus pattern (36 bp):
ACAAAAAGAAGAAGCAAATGAAAAGAAAAAAAAGAA
Found at i:2612411 original size:27 final size:27
Alignment explanation
Indices: 2612381--2612454 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
2612371 AGAGGTAGAG
* *
2612381 AAAGAAAAAAAAAAGAAAGATAAAAAA
1 AAAGAAAAAAAAAAGAAAAAGAAAAAA
* * * *
2612408 AAAGAGAAGACAAAGAAAAAGAAACAA
1 AAAGAAAAAAAAAAGAAAAAGAAAAAA
*
2612435 ATAGAAAAGAGAAAAAGAAA
1 AAAGAAAA-A-AAAAAGAAA
2612455 CAAAGAGAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 27 0.77
29 8 0.23
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (27 bp):
AAAGAAAAAAAAAAGAAAAAGAAAAAA
Found at i:2612414 original size:33 final size:32
Alignment explanation
Indices: 2612377--2612503 Score: 89
Period size: 32 Copynumber: 3.8 Consensus size: 32
2612367 AAAAAGAGGT
2612377 AGAGAAAGAAAAAAAAAAGAAAGATAAAAAAAA
1 AGAGAAAGAAAAAAAAAAGAAAGA-AAAAAAAA
* * * *
2612410 AGAG-AAGACAAAGAAAAAGAAACAAATAGAAA
1 AGAGAAAGA-AAAAAAAAAGAAAGAAAAAAAAA
* *
2612442 AGAGAAA-AAGAAACAAAGAGAAGAAACAAATGAAA
1 AGAGAAAGAAAAAAAAAAGA-AAGAAA-AAA--AAA
*
2612477 AG-GAGAAGAATAAAACAAAGAGAAGAA
1 AGAGA-AAGAA-AAAAAAAAGA-AAGAA
2612504 GCAAATGACA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
31 8 0.11
32 20 0.27
33 20 0.27
34 2 0.03
35 7 0.09
36 2 0.03
37 15 0.20
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (32 bp):
AGAGAAAGAAAAAAAAAAGAAAGAAAAAAAAA
Found at i:2612417 original size:17 final size:16
Alignment explanation
Indices: 2612377--2612503 Score: 98
Period size: 17 Copynumber: 7.6 Consensus size: 16
2612367 AAAAAGAGGT
2612377 AGAGAAAGAAAAAAAAA
1 AGAG-AAGAAAAAAAAA
2612394 AGA-AAGATAAAAAAAA
1 AGAGAAGA-AAAAAAAA
*
2612410 AGAGAAGACAAAGAAAA
1 AGAGAAGA-AAAAAAAA
* * *
2612427 AGA-AACAAATAGAAA
1 AGAGAAGAAAAAAAAA
*
2612442 AGAGAA-AAAGAAACAA
1 AGAGAAGAAA-AAAAAA
2612458 AGAGAAGAAACAAATGAAA
1 AGAGAAGAAA-AAA--AAA
*
2612477 AGGAGAAGAATAAAACAA
1 A-GAGAAGAA-AAAAAAA
2612495 AGAGAAGAA
1 AGAGAAGAA
2612504 GCAAATGACA
Statistics
Matches: 89, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
15 15 0.17
16 25 0.28
17 31 0.35
18 3 0.03
19 3 0.03
20 11 0.12
21 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.03
Consensus pattern (16 bp):
AGAGAAGAAAAAAAAA
Found at i:2612502 original size:37 final size:35
Alignment explanation
Indices: 2612407--2612511 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 35
2612397 AAGATAAAAA
*
2612407 AAAAGAGAAGACAAAGAAAAAGAAACAAATAGAAAAGAG
1 AAAA-AGAA-ACAAAG-AGAAGAAACAAAT-GAAAAGAG
2612446 AAAAAGAAACAAAGAGAAGAAACAAATGAAAAGGAG
1 AAAAAGAAACAAAGAGAAGAAACAAATGAAAA-GAG
*
2612482 AAGAATA-AAACAAAGAGAAGAAGCAAATGA
1 AA-AA-AGAAACAAAGAGAAGAAACAAATGA
2612512 CATGAAGTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
35 5 0.08
36 17 0.28
37 30 0.49
38 5 0.08
39 4 0.07
ACGTcount: A:0.70, C:0.06, G:0.21, T:0.04
Consensus pattern (35 bp):
AAAAAGAAACAAAGAGAAGAAACAAATGAAAAGAG
Found at i:2616910 original size:15 final size:16
Alignment explanation
Indices: 2616876--2616913 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2616866 GAAGAAAGAA
*
2616876 AAGAAGATGACGGATG
1 AAGAAGAAGACGGATG
*
2616892 AAGAAGAAGA-GGGTG
1 AAGAAGAAGACGGATG
2616907 AAGAAGA
1 AAGAAGA
2616914 GAAAGGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.50, C:0.03, G:0.39, T:0.08
Consensus pattern (16 bp):
AAGAAGAAGACGGATG
Found at i:2617037 original size:17 final size:17
Alignment explanation
Indices: 2617015--2617058 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
2617005 GATGAAGATG
2617015 AAGAAAAG-GAAGAGAAA
1 AAGAAAAGAGAAGA-AAA
2617032 AAG-AAAGAGAAGAAAA
1 AAGAAAAGAGAAGAAAA
2617048 AAGACAAAGAG
1 AAGA-AAAGAG
2617059 GCAAAGGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.42
17 8 0.33
18 6 0.25
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAGAAGAAAA
Found at i:2617139 original size:11 final size:11
Alignment explanation
Indices: 2617123--2617157 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2617113 GATGAAGATG
2617123 AAGAAAAAGAA
1 AAGAAAAAGAA
2617134 AAGAAAAAGAA
1 AAGAAAAAGAA
*
2617145 AGAGAAGAAGAA
1 A-AGAAAAAGAA
2617157 A
1 A
2617158 GATAAGGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:2617150 original size:12 final size:12
Alignment explanation
Indices: 2617124--2617159 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2617114 ATGAAGATGA
2617124 AGAAAAAGAAA-
1 AGAAAAAGAAAG
2617135 AGAAAAAGAAAG
1 AGAAAAAGAAAG
*
2617147 AGAAGAAGAAAG
1 AGAAAAAGAAAG
2617159 A
1 A
2617160 TAAGGAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAG
Found at i:2617153 original size:108 final size:111
Alignment explanation
Indices: 2616920--2617189 Score: 309
Period size: 108 Copynumber: 2.4 Consensus size: 111
2616910 AAGAGAAAGG
* * * *
2616920 AGAGAAGAATAAAGAGAAAGGTGGCAAA-GAGAAGAAGAAGGAAAAGAAGCTGAAGGATAAAGAG
1 AGAGAAGAAAAAAGACAAA-GAGGCAAAGGAGAAGAAGAAAGAAAAGAA---GAAGGATAAAGAG
* *
2616984 GAAGAGGTAGAAGGAGATGAAGATGAAGATGAAGAAAAGGAAGAGAAAAAGAA
62 GAAGAGGTAGAA-GAGAT--AGATGAAGATGAAGAAAAAGAAAAGAAAAAGAA
*
2617037 AGAGAAGAAAAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAA-AAGGGATAAAGAGGAT
1 AGAGAAGAAAAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAA-GGATAAAGAGGAA
2617101 GAGGTAG-A-AGAT-GATGAAGATGAAGAAAAAGAAAAGAAAAAGAA
65 GAGGTAGAAGAGATAGATGAAGATGAAGAAAAAGAAAAGAAAAAGAA
* * * * *
2617145 AGAGAAGAAGAAAGATAAGGAGG-AGAAGGATAAGAGGAAAGAAAA
1 AGAGAAGAAAAAAGACAAAGAGGCA-AAGGAGAAGAAGAAAGAAAA
2617190 AATGATCAAG
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
107 1 0.01
108 68 0.49
111 4 0.03
113 3 0.02
114 19 0.14
116 7 0.05
117 36 0.26
ACGTcount: A:0.59, C:0.01, G:0.33, T:0.06
Consensus pattern (111 bp):
AGAGAAGAAAAAAGACAAAGAGGCAAAGGAGAAGAAGAAAGAAAAGAAGAAGGATAAAGAGGAAG
AGGTAGAAGAGATAGATGAAGATGAAGAAAAAGAAAAGAAAAAGAA
Found at i:2623522 original size:12 final size:11
Alignment explanation
Indices: 2623498--2623532 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2623488 CCACCTCTTG
*
2623498 TCTCTGTTTTT
1 TCTCTTTTTTT
2623509 TCTCTTTCTTTT
1 TCTCTTT-TTTT
2623521 TCTCTTTTTTT
1 TCTCTTTTTTT
2623532 T
1 T
2623533 ATAAATAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (11 bp):
TCTCTTTTTTT
Found at i:2640057 original size:14 final size:14
Alignment explanation
Indices: 2640037--2640089 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
2640027 ACGAGAGACT
2640037 ATTTTAAAATTT-A
1 ATTTTAAAATTTAA
* *
2640050 ATTTTTAAATATAA
1 ATTTTAAAATTTAA
2640064 ATTTTAAAATTTTAAA
1 ATTTTAAAA-TTT-AA
*
2640080 ATATTAAAAT
1 ATTTTAAAAT
2640090 GAAAACAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 10 0.31
14 9 0.28
15 3 0.09
16 10 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAAAATTTAA
Found at i:2644263 original size:107 final size:106
Alignment explanation
Indices: 2644069--2644291 Score: 333
Period size: 107 Copynumber: 2.1 Consensus size: 106
2644059 TTATTATTTA
*
2644069 AAACATCTTAGCCCAAACATCACAATCAATAATATTTAAAACATCTTAATTAAGATGTTTGACAA
1 AAACATC--AGCCCAAACATCACAATCAATAATATTTAAAACATCTTAACTAAGATGTTTGACAA
* * *
2644134 TAAAAAGAAATGAAAAAATGCTGAATGAAACCTGCCTTAACCT
64 TAAAAAGAAATAAAAAAATGCTGAATAAAACCTGACTTAACCT
* *
2644177 AAACATCAGCCCAAACATCACAATCAATTATTATTTAAAACATCTTAGCTAAGATGTTTGTA-AA
1 AAACATCAGCCCAAACATCACAATCAA-TAATATTTAAAACATCTTAACTAAGATGTTTG-ACAA
2644241 T-AAAAGAAATAAAAGAAATGCTGAATAAAACCTGACTTAACCT
64 TAAAAAGAAATAAAA-AAATGCTGAATAAAACCTGACTTAACCT
2644284 AAACATCA
1 AAACATCA
2644292 CAATCAATTA
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
106 32 0.30
107 66 0.62
108 8 0.08
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (106 bp):
AAACATCAGCCCAAACATCACAATCAATAATATTTAAAACATCTTAACTAAGATGTTTGACAATA
AAAAGAAATAAAAAAATGCTGAATAAAACCTGACTTAACCT
Found at i:2644382 original size:240 final size:239
Alignment explanation
Indices: 2643936--2644388 Score: 644
Period size: 240 Copynumber: 1.9 Consensus size: 239
2643926 ATTAATATTT
* * *
2643936 TAAACATCTTAGCTCAAACATCACAATCAATAATATTTAAAGCATCTTAATTAAGATGTTTGAAA
1 TAAACATC-TAGCCCAAACATCACAATCAATAATATTTAAAACATCTTAACTAAGATGTTTGAAA
* ** *
2644001 ATAAAAAGAAATGAAATTTGTTGAACAAAACCTACCTAAACCTAAACATCACAATCAATTATTAT
65 ATAAAAAGAAATAAAAAATGCTGAACAAAACCTACCTAAACCTAAACATCACAATCAATTATTAT
* * *
2644066 TTAAAACATCTTAGCCCAAACATCACAATCAATAATATTTAAAACATCTTAATTAAGATGTTTGA
130 TTAAAACATCTTAGCCCAAACATCACAATCAATAATAGTTAAAACATCTCAACTAAGATGTTTGA
*
2644131 CAATAAAAAGAAATGAAAAAATGCTGAATGAAACCTGCCTTAACC
195 AAATAAAAAGAAATGAAAAAATGCTGAATGAAACCTGCCTTAACC
* * *
2644176 TAAACATC-AGCCCAAACATCACAATCAATTATTATTTAAAACATCTTAGCTAAGATGTTTGTAA
1 TAAACATCTAGCCCAAACATCACAATCAA-TAATATTTAAAACATCTTAACTAAGATGTTTGAAA
* *
2644240 AT-AAAAGAAATAAAAGAAATGCTGAATAAAACCTGA-CTTAACCTAAACATCACAATCAATTAT
65 ATAAAAAGAAAT-AAA-AAATGCTGAACAAAACCT-ACCTAAACCTAAACATCACAATCAATTAT
** * *
2644303 TATTTAAAACATCTTAGCCCAAACATTTCAATCAATTAATCGTTAAAACATCTCAGCTAAGATGT
127 TATTTAAAACATCTTAGCCCAAACATCACAATCAA-TAATAGTTAAAACATCTCAACTAAGATGT
2644368 TTGAAAAT-AAAAGAAATGAAA
191 TTGAAAATAAAAAGAAATGAAA
2644389 GAAAATTGTT
Statistics
Matches: 188, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
238 28 0.15
239 34 0.18
240 94 0.50
241 32 0.17
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (239 bp):
TAAACATCTAGCCCAAACATCACAATCAATAATATTTAAAACATCTTAACTAAGATGTTTGAAAA
TAAAAAGAAATAAAAAATGCTGAACAAAACCTACCTAAACCTAAACATCACAATCAATTATTATT
TAAAACATCTTAGCCCAAACATCACAATCAATAATAGTTAAAACATCTCAACTAAGATGTTTGAA
AATAAAAAGAAATGAAAAAATGCTGAATGAAACCTGCCTTAACC
Found at i:2644812 original size:27 final size:27
Alignment explanation
Indices: 2644774--2644825 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2644764 ATCTCCATTA
**
2644774 AAAAAAACTTTTATTTAGAAATGTTTT
1 AAAAAAACTTTTACCTAGAAATGTTTT
*
2644801 AAAAAAATTTTTACCTAGAAATGTT
1 AAAAAAACTTTTACCTAGAAATGTT
2644826 AGCTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (27 bp):
AAAAAAACTTTTACCTAGAAATGTTTT
Found at i:2651308 original size:18 final size:17
Alignment explanation
Indices: 2651285--2651323 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2651275 TCTTCATTTT
*
2651285 TTATGATTTTAAGAATTA
1 TTATGAGTTTAA-AATTA
*
2651303 TTATGAGTTTGAAATTA
1 TTATGAGTTTAAAATTA
2651320 TTAT
1 TTAT
2651324 TTCATTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGAGTTTAAAATTA
Found at i:2652850 original size:17 final size:17
Alignment explanation
Indices: 2652824--2652870 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2652814 AATGGATCGC
*
2652824 ATATTTAAAAAAT-TAAA
1 ATATTAAAAAAATCT-AA
*
2652841 ATATTAAAAATATCTAA
1 ATATTAAAAAAATCTAA
2652858 ATATTTAAAAAAA
1 ATA-TTAAAAAAA
2652871 AAGTAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATTAAAAAAATCTAA
Found at i:2661930 original size:27 final size:26
Alignment explanation
Indices: 2661900--2661954 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
2661890 ATTTCACTTC
*
2661900 TTATATTTATATAATAAATTAAAT-AAA
1 TTATATTAATAT-A-AAATTAAATGAAA
2661927 TTATATTAATATAAAATTAAATGAAA
1 TTATATTAATATAAAATTAAATGAAA
2661953 TT
1 TT
2661955 TACACAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 9 0.35
26 6 0.23
27 11 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TTATATTAATATAAAATTAAATGAAA
Found at i:2663469 original size:13 final size:12
Alignment explanation
Indices: 2663436--2663475 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
2663426 ATTAATGAAA
2663436 TTATTAAA-TTT
1 TTATTAAATTTT
2663447 TTA-TAAATTTT
1 TTATTAAATTTT
2663458 TTATTAAAATTTT
1 TTATT-AAATTTT
2663471 TTATT
1 TTATT
2663476 TTTTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.15
11 9 0.35
12 1 0.04
13 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTAAATTTT
Found at i:2666480 original size:11 final size:12
Alignment explanation
Indices: 2666464--2666511 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
2666454 ATCGTATAAA
2666464 ATATTAT-ATTT
1 ATATTATAATTT
2666475 ATATTATAATTT
1 ATATTATAATTT
* * *
2666487 ATGTAAAAATTAT
1 ATATTATAATT-T
2666500 ATATTATAATTT
1 ATATTATAATTT
2666512 TTATCAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 7 0.24
12 13 0.45
13 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
ATATTATAATTT
Found at i:2668755 original size:2 final size:2
Alignment explanation
Indices: 2668748--2668776 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2668738 TATTACCATA
2668748 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 A
2668777 CACTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2669954 original size:22 final size:21
Alignment explanation
Indices: 2669913--2669959 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2669903 ATAAAAAATT
*
2669913 TTTTAAATATAAAAATTTAAA
1 TTTTAAAAATAAAAATTTAAA
2669934 TTTTAAAAATAATTAAA-TTAAA
1 TTTTAAAAATAA--AAATTTAAA
2669956 TTTT
1 TTTT
2669960 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 9 0.39
23 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAAAATAAAAATTTAAA
Found at i:2670089 original size:12 final size:12
Alignment explanation
Indices: 2670074--2670111 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2670064 TAACAATCAC
2670074 TTAAACATTTAA
1 TTAAACATTTAA
*
2670086 TTAAACATTTAC
1 TTAAACATTTAA
2670098 TTAAA-ATTTCAA
1 TTAAACATTT-AA
2670110 TT
1 TT
2670112 CTTTATGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAACATTTAA
Found at i:2670891 original size:1 final size:1
Alignment explanation
Indices: 2670887--2670912 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
2670877 TTCTTCAATT
2670887 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
2670913 CTCACCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2671766 original size:16 final size:16
Alignment explanation
Indices: 2671718--2671766 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2671708 CTAAACCTAA
2671718 TTTACTAATAAATAAATT
1 TTTAC-AATAAA-AAATT
*
2671736 TTTACAACTATAAAATT
1 TTTACAA-TAAAAAATT
*
2671753 TTTAGAATAAAAAA
1 TTTACAATAAAAAA
2671767 AGTCACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.22
17 13 0.48
18 8 0.30
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (16 bp):
TTTACAATAAAAAATT
Found at i:2672473 original size:31 final size:31
Alignment explanation
Indices: 2672438--2672500 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
2672428 ATAGCAGCTG
2672438 AATCTAAAATTCAACATTTATCACCTTTCAA
1 AATCTAAAATTCAACATTTATCACCTTTCAA
2672469 AATCTAAAATTCAACATTTATCACCTTTCAA
1 AATCTAAAATTCAACATTTATCACCTTTCAA
2672500 A
1 A
2672501 GTCTGAGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (31 bp):
AATCTAAAATTCAACATTTATCACCTTTCAA
Found at i:2673653 original size:139 final size:139
Alignment explanation
Indices: 2673403--2673654 Score: 353
Period size: 139 Copynumber: 1.8 Consensus size: 139
2673393 AGACATCTTG
* * *
2673403 AAATACTTGCTTCATGTTTTTTGGGGCCTACCTCTTTTCTTCATGAATCTCGCTCTAATATCACT
1 AAATACTTACTTCATGTTTTTTGGGGCCTACCTCTTTTCTTCACGAATCTCACTCTAATATCACT
* * ** * *
2673468 TGTTGAAAAATCAATAGGCATATGCAGTATCCATATACAAAATAGCAAGCTCAAATAAAAAATAA
66 TGTTAAAAAATCAATAGGCACACACAGTATCCACACACAAAATAGCAAGCTCAAATAAAAAATAA
2673533 GAACACATA
131 GAACACATA
** * *
2673542 AAATACTTACTTCATGTTCTTTT-GTTCCTACCTTTTTTCTTCACGAATGTCACTCTAATATCAC
1 AAATACTTACTTCATGTT-TTTTGGGGCCTACCTCTTTTCTTCACGAATCTCACTCTAATATCAC
* *
2673606 TTGTTAAAAAATTAATAGGCACACACAGTATCCACACAGAAAATAGCAA
65 TTGTTAAAAAATCAATAGGCACACACAGTATCCACACACAAAATAGCAA
2673655 ATTCAAATCA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
139 93 0.96
140 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (139 bp):
AAATACTTACTTCATGTTTTTTGGGGCCTACCTCTTTTCTTCACGAATCTCACTCTAATATCACT
TGTTAAAAAATCAATAGGCACACACAGTATCCACACACAAAATAGCAAGCTCAAATAAAAAATAA
GAACACATA
Found at i:2677984 original size:18 final size:18
Alignment explanation
Indices: 2677958--2677999 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2677948 TTAGTTTCTC
* *
2677958 TAAAAAAATGTATTATAA
1 TAAAGAAATGTACTATAA
2677976 TAAAGAAATGTACTATAA
1 TAAAGAAATGTACTATAA
2677994 TAAAGA
1 TAAAGA
2678000 TTATTATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
TAAAGAAATGTACTATAA
Found at i:2683791 original size:2 final size:2
Alignment explanation
Indices: 2683784--2683813 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2683774 CTCATTTGCC
2683784 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2683814 AATTAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2687995 original size:2 final size:2
Alignment explanation
Indices: 2687990--2688022 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2687980 ATATATACAT
2687990 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2688023 TCATATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2691877 original size:11 final size:11
Alignment explanation
Indices: 2691861--2691894 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2691851 ATGATACGAC
2691861 ATAAAAATAAT
1 ATAAAAATAAT
*
2691872 ATAAAAATGAT
1 ATAAAAATAAT
*
2691883 ATAATAATAAT
1 ATAAAAATAAT
2691894 A
1 A
2691895 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:2700271 original size:22 final size:22
Alignment explanation
Indices: 2700217--2700271 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
2700207 CCCCTTTTTT
*
2700217 TTTAATTTTAAAAGTTTAATTGA
1 TTTAATTTT-AAAGATTAATTGA
2700240 TTATAA-TTTAAAGATTAATTGA
1 TT-TAATTTTAAAGATTAATTGA
2700262 TTTAATTTTA
1 TTTAATTTTA
2700272 TCATATGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 18 0.62
23 5 0.17
24 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TTTAATTTTAAAGATTAATTGA
Found at i:2703080 original size:31 final size:31
Alignment explanation
Indices: 2703045--2703103 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2703035 TAAAGAACCA
*
2703045 AGACATTCTTACCTATGAAAAGAAATTTTAC
1 AGACATTATTACCTATGAAAAGAAATTTTAC
2703076 AGACATTATTACCTATGAAAAGAAATTT
1 AGACATTATTACCTATGAAAAGAAATTT
2703104 GACAATGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (31 bp):
AGACATTATTACCTATGAAAAGAAATTTTAC
Found at i:2706473 original size:15 final size:15
Alignment explanation
Indices: 2706447--2706484 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2706437 TGTCTTACAT
*
2706447 GTTGAG-ATGTGATT
1 GTTGAGAATGTGATG
*
2706461 TTTGAGAATGTGATG
1 GTTGAGAATGTGATG
2706476 GTTGAGAAT
1 GTTGAGAAT
2706485 TAAATTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.39
Consensus pattern (15 bp):
GTTGAGAATGTGATG
Found at i:2708336 original size:21 final size:21
Alignment explanation
Indices: 2708296--2708342 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
2708286 AAATATGATT
2708296 TAAAATTTTAAAATTTTAATA
1 TAAAATTTTAAAATTTTAATA
2708317 -AAAATTTATATAAA-TTTAATA
1 TAAAATTT-TA-AAATTTTAATA
2708338 TAAAA
1 TAAAA
2708343 AACTGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAAATTTTAAAATTTTAATA
Found at i:2714746 original size:26 final size:28
Alignment explanation
Indices: 2714717--2714778 Score: 87
Period size: 26 Copynumber: 2.3 Consensus size: 28
2714707 ATTTGAGACA
2714717 AATTTTATTCAT-TT-TAAATTT-AATTT
1 AATTTTATT-ATGTTATAAATTTGAATTT
2714743 AATTTTA-TATGTTATAAATTTGAATTT
1 AATTTTATTATGTTATAAATTTGAATTT
2714770 AATTTTATT
1 AATTTTATT
2714779 TAAATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.06
25 3 0.09
26 14 0.44
27 12 0.38
28 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (28 bp):
AATTTTATTATGTTATAAATTTGAATTT
Found at i:2714779 original size:16 final size:16
Alignment explanation
Indices: 2714760--2714795 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2714750 TATGTTATAA
*
2714760 ATTTGAATTTAATTTT
1 ATTTAAATTTAATTTT
*
2714776 ATTTAAATTTTATTTT
1 ATTTAAATTTAATTTT
2714792 ATTT
1 ATTT
2714796 TTTTATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTAAATTTAATTTT
Found at i:2714895 original size:22 final size:21
Alignment explanation
Indices: 2714863--2714916 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
2714853 ACTCGAAATT
2714863 AATA-AAATATTTATTTTTTAA
1 AATATAAATATTTATTTTTT-A
2714884 AATATAAATA-TTATTTTTTA
1 AATATAAATATTTATTTTTTA
2714904 AATATAAATATTT
1 AATATAAATATTT
2714917 TAAAATATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.35
21 15 0.48
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATAAATATTTATTTTTTA
Found at i:2714906 original size:20 final size:21
Alignment explanation
Indices: 2714863--2714915 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
2714853 ACTCGAAATT
2714863 AATA-AAATATTTATTTTTTAA
1 AATATAAATA-TTATTTTTTAA
2714884 AATATAAATATTATTTTTT-A
1 AATATAAATATTATTTTTTAA
2714904 AATATAAATATT
1 AATATAAATATT
2714916 TTAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.42
21 13 0.42
22 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:2715596 original size:22 final size:22
Alignment explanation
Indices: 2715543--2715596 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
2715533 CCCTTTTTTC
*
2715543 TTAATTTTAAAAGTTTAATTGAT
1 TTAATTTT-AAAGATTAATTGAT
2715566 TATAA-TTTAAAGATTAATTGAT
1 T-TAATTTTAAAGATTAATTGAT
2715588 TTAATTTTA
1 TTAATTTTA
2715597 TCATATGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 18 0.64
23 4 0.14
24 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TTAATTTTAAAGATTAATTGAT
Found at i:2717662 original size:7 final size:7
Alignment explanation
Indices: 2717650--2717675 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2717640 ATGAAAAAGA
2717650 GAAATAT
1 GAAATAT
2717657 GAAATAT
1 GAAATAT
2717664 GAAATAT
1 GAAATAT
2717671 GAAAT
1 GAAAT
2717676 GCAAGAAGTC
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:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (7 bp):
GAAATAT
Found at i:2718415 original size:31 final size:31
Alignment explanation
Indices: 2718380--2718438 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2718370 TAAAGAACCA
* *
2718380 AGACATTCTTACCTATGAAAAGAAATTTTAC
1 AGACATTATTACCTACGAAAAGAAATTTTAC
2718411 AGACATTATTACCTACGAAAAGAAATTT
1 AGACATTATTACCTACGAAAAGAAATTT
2718439 GACAATGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
AGACATTATTACCTACGAAAAGAAATTTTAC
Found at i:2721171 original size:25 final size:24
Alignment explanation
Indices: 2721108--2721176 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
2721098 TTTCTTTTTT
* *
2721108 TTTTTCCCAAACTTTTGA-TGATC
1 TTTTTCCCAAATTTTTTATTGATC
** *
2721131 TTTTTACCCATTTTTTTTATTGTTC
1 TTTTT-CCCAAATTTTTTATTGATC
*
2721156 TATTTTCCCAAATTTTGTATT
1 T-TTTTCCCAAATTTTTTATT
2721177 AGTATTTTAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 5 0.14
24 9 0.26
25 17 0.49
26 4 0.11
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (24 bp):
TTTTTCCCAAATTTTTTATTGATC
Found at i:2727949 original size:12 final size:12
Alignment explanation
Indices: 2727932--2727972 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
2727922 ATCATAATAA
2727932 AAAAATTTATAT
1 AAAAATTTATAT
2727944 AAAAATTTATAT
1 AAAAATTTATAT
2727956 ATAAAATTT-TA-
1 A-AAAATTTATAT
2727967 AAAAAT
1 AAAAAT
2727973 AAAATTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.18
11 1 0.04
12 15 0.54
13 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAAATTTATAT
Found at i:2728789 original size:22 final size:23
Alignment explanation
Indices: 2728744--2728789 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
2728734 TATCTGAAAA
* **
2728744 GAGAGAGAGAAGAGATGGGGTGT
1 GAGAGAAAGAAGAGATGGACTGT
2728767 GAGAGAAAG-AGAGATGGACTGT
1 GAGAGAAAGAAGAGATGGACTGT
2728789 G
1 G
2728790 TGGATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.48, T:0.13
Consensus pattern (23 bp):
GAGAGAAAGAAGAGATGGACTGT
Found at i:2737143 original size:13 final size:12
Alignment explanation
Indices: 2737125--2737165 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
2737115 TTTCGATAGG
2737125 ATATAAAAATATA
1 ATATAAAAA-ATA
2737138 ATAT-AAAAATA
1 ATATAAAAAATA
*
2737149 ATATAAAAAATT
1 ATATAAAAAATA
2737161 ATATA
1 ATATA
2737166 TATGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 7 0.27
12 15 0.58
13 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAAAAAATA
Found at i:2739046 original size:18 final size:18
Alignment explanation
Indices: 2739003--2739046 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2738993 TTTTGGTGTA
* *
2739003 TTTTTTTATTTTTTTATC
1 TTTTTTTGTTTTTTTAGC
**
2739021 TTGGTTTGTTTTTTTAGC
1 TTTTTTTGTTTTTTTAGC
2739039 TTTTTTTG
1 TTTTTTTG
2739047 GGAAATTGAC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.05, G:0.11, T:0.77
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTAGC
Found at i:2746495 original size:12 final size:12
Alignment explanation
Indices: 2746479--2746524 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
2746469 CATACTCCGA
2746479 CTCTTCCTCCTC
1 CTCTTCCTCCTC
*
2746491 TTCTTCCTCCGCTTC
1 CTCTTCCT-C-C-TC
2746506 CTCTTCCTCCTC
1 CTCTTCCTCCTC
2746518 CTCTTCC
1 CTCTTCC
2746525 AACAATGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 16 0.55
13 2 0.07
14 2 0.07
15 9 0.31
ACGTcount: A:0.00, C:0.54, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTTCCTCCTC
Found at i:2746509 original size:18 final size:18
Alignment explanation
Indices: 2746486--2746524 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2746476 CGACTCTTCC
*
2746486 TCCTCTTCTTCCTCCGCT
1 TCCTCTTCCTCCTCCGCT
*
2746504 TCCTCTTCCTCCTCCTCT
1 TCCTCTTCCTCCTCCGCT
2746522 TCC
1 TCC
2746525 AACAATGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.03, T:0.44
Consensus pattern (18 bp):
TCCTCTTCCTCCTCCGCT
Found at i:2748889 original size:14 final size:15
Alignment explanation
Indices: 2748870--2748900 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2748860 ATTACAAACA
2748870 TATATTTG-TTCATT
1 TATATTTGATTCATT
2748884 TATATTTGATTCATT
1 TATATTTGATTCATT
2748899 TA
1 TA
2748901 CAGCCCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TATATTTGATTCATT
Found at i:2756137 original size:15 final size:16
Alignment explanation
Indices: 2756083--2756137 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
2756073 TTAGTTATTT
* *
2756083 AAATTTAAATCAATTA
1 AAATTTATATCAAATA
*
2756099 AAAATTA-A-CAAATA
1 AAATTTATATCAAATA
*
2756113 AAATTTATATCAAATT
1 AAATTTATATCAAATA
2756129 AAA-TTATAT
1 AAATTTATAT
2756138 TAAAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 11 0.33
15 8 0.24
16 14 0.42
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTTATATCAAATA
Found at i:2762945 original size:2 final size:2
Alignment explanation
Indices: 2762938--2762965 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2762928 TCTTGGGATA
2762938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2762966 TATGAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2764651 original size:19 final size:21
Alignment explanation
Indices: 2764627--2764675 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
2764617 AAATAATAAT
2764627 TTATATTATT-TA-ATAAAAA
1 TTATATTATTATATATAAAAA
2764646 TTATATTTATTAAATATATAAAAA
1 TTATA-TTATT--ATATATAAAAA
2764670 TTATAT
1 TTATAT
2764676 ATGTACACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
23 3 0.12
24 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATATTATTATATATAAAAA
Found at i:2764655 original size:20 final size:22
Alignment explanation
Indices: 2764618--2764677 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 22
2764608 AGTAATTTAA
*
2764618 AATAATAATT-TATATTATT-T
1 AATAAAAATTATATATTATTAT
2764638 AATAAAAATTATAT-TTATTAAAT
1 AATAAAAATTATATATTATT--AT
2764661 ATATAAAAATTATATAT
1 A-ATAAAAATTATATAT
2764678 GTACACTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 14 0.42
21 3 0.09
23 2 0.06
24 13 0.39
25 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATAAAAATTATATATTATTAT
Found at i:2764858 original size:4 final size:4
Alignment explanation
Indices: 2764849--2764880 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
2764839 GATATCCTTA
2764849 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
2764881 AACTCCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2764866 original size:12 final size:13
Alignment explanation
Indices: 2764847--2764880 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
2764837 TTGATATCCT
2764847 TAAAATAAATAAA
1 TAAAATAAATAAA
2764860 T-AAATAAATAAA
1 TAAAATAAATAAA
2764872 TAAAATAAA
1 TAAAATAAA
2764881 AACTCCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:2771881 original size:23 final size:23
Alignment explanation
Indices: 2771851--2771908 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
2771841 CTAACTATCA
2771851 GTTTTCTTCTTAAATTTGATGTC
1 GTTTTCTTCTTAAATTTGATGTC
2771874 GTTTTCTTCTTAAATTTGATGTC
1 GTTTTCTTCTTAAATTTGATGTC
*
2771897 ATTTTCTTCTTA
1 GTTTTCTTCTTA
2771909 CACTTGGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59
Consensus pattern (23 bp):
GTTTTCTTCTTAAATTTGATGTC
Found at i:2775565 original size:6 final size:6
Alignment explanation
Indices: 2775554--2775579 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2775544 GAACGAATCC
2775554 TATGAT TATGAT TATGAT TATGAT TA
1 TATGAT TATGAT TATGAT TATGAT TA
2775580 CTGACTCGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATGAT
Found at i:2782927 original size:60 final size:60
Alignment explanation
Indices: 2782859--2782980 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
2782849 TCAATAATAT
2782859 GAGAAAATTCTATATAAAGGTATTCTATTTAAGTTAAAAAAAAACTTCAACTTACTAAAA
1 GAGAAAATTCTATATAAAGGTATTCTATTTAAGTTAAAAAAAAACTTCAACTTACTAAAA
*
2782919 GAGAAAATTCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTCAACTTACTAAAA
1 GAGAAAATTCTATATAAAGGTATTCTATTTAAGTTAAAAAAAAACTTCAACTTACTAAAA
2782979 GA
1 GA
2782981 AACTAAAACC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (60 bp):
GAGAAAATTCTATATAAAGGTATTCTATTTAAGTTAAAAAAAAACTTCAACTTACTAAAA
Found at i:2783039 original size:163 final size:163
Alignment explanation
Indices: 2782752--2783081 Score: 549
Period size: 163 Copynumber: 2.0 Consensus size: 163
2782742 TGAATAATAT
2782752 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAAAACTTTCACTTACTAAAAGA
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTT--AAAAAAAAAACTTTCACTTACTAAAAGA
* *
2782817 AACTAAAACCAAAAAAAAAAAAAATTCTTTATTCAATAATATGAGAAAATTCTATATAAAGGTAT
64 AACTAAAACCAAAAAAAAAAAAAATTCTTTACTCAATAATATGAGAAAATGCTATATAAAGGTAT
2782882 TCTATTTAAGTTAAAAAAAAACTTCAACTTACTAAAA
129 TCTATTTAAGTTAAAAAAAAAC-TC-ACTTACTAAAA
*
2782919 GAGAAAATTCTATATAAAGGTATTCTATTTATGTT-AAAAAAAAAC-TTCAACTTACTAAAAGAA
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAACTTTC-ACTTACTAAAAGAA
*
2782982 ACTAAAACC-AAAAAAAAAAAAATTCTTTACTGAATAATATGAGAAAATGCTATATAAAGGTATT
65 ACTAAAACCAAAAAAAAAAAAAATTCTTTACTCAATAATATGAGAAAATGCTATATAAAGGTATT
*
2783046 CTATTTATGTTAAAAAAAAACTCACTTACTAAAA
130 CTATTTAAGTTAAAAAAAAACTCACTTACTAAAA
2783080 GA
1 GA
2783082 AACTAAAACC
Statistics
Matches: 157, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
161 13 0.08
162 2 0.01
163 75 0.48
164 33 0.21
167 34 0.22
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (163 bp):
GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAACTTTCACTTACTAAAAGAAA
CTAAAACCAAAAAAAAAAAAAATTCTTTACTCAATAATATGAGAAAATGCTATATAAAGGTATTC
TATTTAAGTTAAAAAAAAACTCACTTACTAAAA
Found at i:2783243 original size:206 final size:205
Alignment explanation
Indices: 2782919--2783394 Score: 809
Period size: 206 Copynumber: 2.3 Consensus size: 205
2782909 CTTACTAAAA
*
2782919 GAGAAAATTCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAC-TTCAACTTACTAAAAGAAA
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTTC-ACTTACTAAAAGAAA
*
2782983 CTAAAACCAAAAAAAAAAAAATTCTTTACTGAATAATATGAGAAAATGCTATATAAAGGTATTCT
65 CTAAAACCAAAAAAAAAAAAATTATTTACTGAATAATATGAGAAAATGCTATATAAAGGTATTCT
*
2783048 ATTTATGTTAAAAAAAAAC-TC-ACTTACTAAAAGAAACTAAAACCAAAAAAAAAAAAA-TCTTT
130 ATTTAAGTT-AAAAAAAACTTCAACTTACTAAAAGAAACTAAAACCAAAAAAAAAAAAATTCTTT
2783110 ATTGAATAATAT
194 ATTGAATAATAT
*
2783122 GAGAAAATGCTATATAAAGGTCTTCTATTTATGTTAAAAAAAAAAAACTTTCACTTACTAAAAGA
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTT---AAAAAAAAACTTTCACTTACTAAAAGA
* *
2783187 AACTAAAACCAAAAAAAAAAAAATTATTTATTGAATAATATGAGAAAATTCTATATAAAGGTATT
63 AACTAAAACCAAAAAAAAAAAAATTATTTACTGAATAATATGAGAAAATGCTATATAAAGGTATT
2783252 CTATTTAAGTTAAAAAAAACTTCAACTTACTAAAAGAAACTAAAACCAAAAAAAAAAAAATTCTT
128 CTATTTAAGTTAAAAAAAACTTCAACTTACTAAAAGAAACTAAAACCAAAAAAAAAAAAATTCTT
2783317 TATTGAATAATAT
193 TATTGAATAATAT
*
2783330 GAGAAAATGCTATATAAAGGTATTCTATTTATGCT-AAAAAAAACTTTCACTTACTAAAAGAAAC
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTTCACTTACTAAAAGAAAC
2783394 T
66 T
2783395 TAGGAGAAAA
Statistics
Matches: 258, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
203 33 0.13
204 30 0.12
205 9 0.03
206 97 0.38
207 39 0.15
208 50 0.19
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (205 bp):
GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTTCACTTACTAAAAGAAAC
TAAAACCAAAAAAAAAAAAATTATTTACTGAATAATATGAGAAAATGCTATATAAAGGTATTCTA
TTTAAGTTAAAAAAAACTTCAACTTACTAAAAGAAACTAAAACCAAAAAAAAAAAAATTCTTTAT
TGAATAATAT
Found at i:2783405 original size:102 final size:102
Alignment explanation
Indices: 2782919--2783394 Score: 798
Period size: 102 Copynumber: 4.6 Consensus size: 102
2782909 CTTACTAAAA
*
2782919 GAGAAAATTCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTCAACTTACTAAAAGAAAC
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTC-ACTTACTAAAAGAAAC
*
2782984 TAAAACCAAAAAAAAAAAAATTCTTTACTGAATAATAT
65 TAAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
2783022 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAC-TCACTTACTAAAAGAAACT
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTCACTTACTAAAAGAAACT
2783086 AAAACCAAAAAAAAAAAAA-TCTTTATTGAATAATAT
66 AAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
*
2783122 GAGAAAATGCTATATAAAGGTCTTCTATTTATGTTAAAAAAAAAAAACTTTCACTTACTAAAAGA
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTT---AAAAAAAAAC-TTCACTTACTAAAAGA
*
2783187 AACTAAAACCAAAAAAAAAAAAATTATTTATTGAATAATAT
62 AACTAAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
* *
2783228 GAGAAAATTCTATATAAAGGTATTCTATTTAAGTT-AAAAAAAACTTCAACTTACTAAAAGAAAC
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTC-ACTTACTAAAAGAAAC
2783292 TAAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
65 TAAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
*
2783330 GAGAAAATGCTATATAAAGGTATTCTATTTATGCT-AAAAAAAACTTTCACTTACTAAAAGAAAC
1 GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAAC-TTCACTTACTAAAAGAAAC
2783394 T
65 T
2783395 TAGGAGAAAA
Statistics
Matches: 354, Mismatches: 11, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
100 50 0.14
101 39 0.11
102 122 0.34
103 57 0.16
105 38 0.11
106 48 0.14
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (102 bp):
GAGAAAATGCTATATAAAGGTATTCTATTTATGTTAAAAAAAAACTTCACTTACTAAAAGAAACT
AAAACCAAAAAAAAAAAAATTCTTTATTGAATAATAT
Found at i:2784984 original size:18 final size:17
Alignment explanation
Indices: 2784954--2784993 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
2784944 ATTTTTCTAG
2784954 GCATATAATATATATAT
1 GCATATAATATATATAT
2784971 GCATATATATATATATAT
1 GCATATA-ATATATATAT
2784989 GCATA
1 GCATA
2784994 GTATTGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (17 bp):
GCATATAATATATATAT
Found at i:2785522 original size:3 final size:3
Alignment explanation
Indices: 2785514--2785539 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2785504 AAGGGAATCA
2785514 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
2785540 ATAGTGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:2785602 original size:52 final size:52
Alignment explanation
Indices: 2785524--2785629 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
2785514 ATCATCATCA
2785524 TCATCATCATCATCATATAGTGCTCTTACTTGATAAATATTGAAAACAATAT
1 TCATCATCATCATCATATAGTGCTCTTACTTGATAAATATTGAAAACAATAT
2785576 TCATCATCATCATCATATAGTGCTCTTACTTGATAAATATTGAAAACAATAT
1 TCATCATCATCATCATATAGTGCTCTTACTTGATAAATATTGAAAACAATAT
2785628 TC
1 TC
2785630 TTTCTTTGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.37
Consensus pattern (52 bp):
TCATCATCATCATCATATAGTGCTCTTACTTGATAAATATTGAAAACAATAT
Found at i:2785717 original size:2 final size:2
Alignment explanation
Indices: 2785710--2785742 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2785700 AACTGTATCT
2785710 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 T
2785743 CTTTACTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2788479 original size:16 final size:16
Alignment explanation
Indices: 2788460--2788492 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2788450 TTTATTAAAA
2788460 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
*
2788476 TTTTATATTATATTAT
1 TTTTAAATTATATTAT
2788492 T
1 T
2788493 ATATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:2788481 original size:11 final size:12
Alignment explanation
Indices: 2788467--2788505 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
2788457 AAATTTTAAA
2788467 TTATATTAT-TT
1 TTATATTATATT
2788478 TTATATTATATT
1 TTATATTATATT
2788490 ATTATATTATATT
1 -TTATATTATATT
2788503 TTA
1 TTA
2788506 AATTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.35
12 5 0.19
13 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTATATT
Found at i:2791575 original size:31 final size:30
Alignment explanation
Indices: 2791521--2791594 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
2791511 AATTAAAAAA
* *
2791521 AATTTATTTATTAATGAGATATCATTATTT
1 AATTTATTTATAAATGAGATATCATTATCT
2791551 AATTTATTTCATAAATGA-ATTATCATTATCT
1 AATTTATTT-ATAAATGAGA-TATCATTATCT
*
2791582 AATTTATTAATAA
1 AATTTATTTATAA
2791595 TATATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (30 bp):
AATTTATTTATAAATGAGATATCATTATCT
Found at i:2802927 original size:26 final size:25
Alignment explanation
Indices: 2802894--2802956 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
2802884 CGATTAAATT
*
2802894 TATT-ATTTTAT-CAATCAAATTTAAA
1 TATTAATTTTATGAAATCAAATTT--A
2802919 TATTAATTTTAATGAAATCAAATTTA
1 TATTAATTTT-ATGAAATCAAATTTA
*
2802945 TATAAATTTTAT
1 TATTAATTTTAT
2802957 TAAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.18
26 15 0.45
27 2 0.06
28 10 0.30
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTAATTTTATGAAATCAAATTTA
Found at i:2802962 original size:26 final size:27
Alignment explanation
Indices: 2802906--2802962 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
2802896 TTATTTTATC
* *
2802906 AATCAAATTTAAATATTAATTTTAATGA
1 AATCAAATTT-AATATAAATTTTAATAA
*
2802934 AATCAAATTT-ATATAAATTTTATTAA
1 AATCAAATTTAATATAAATTTTAATAA
2802960 AAT
1 AAT
2802963 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 16 0.62
28 10 0.38
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
AATCAAATTTAATATAAATTTTAATAA
Found at i:2802995 original size:3 final size:3
Alignment explanation
Indices: 2802989--2803016 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2802979 TATTATTTTT
2802989 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2803017 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2805818 original size:22 final size:21
Alignment explanation
Indices: 2805751--2805825 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
2805741 GATTAATTTT
* *
2805751 ATAAAATTTGA-AAAATTTTA
1 ATAAATTTTGATAAAATATTA
**
2805771 ATAAATTTTGATATATTTATTAA
1 ATAAATTTTGATA-AAATATT-A
*
2805794 ATAATATTTTTATAAAATATTA
1 ATAA-ATTTTGATAAAATATTA
2805816 ATAAAATTTT
1 AT-AAATTTT
2805826 ATCGTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 10 0.23
21 1 0.02
22 12 0.28
23 12 0.28
24 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
ATAAATTTTGATAAAATATTA
Found at i:2806812 original size:18 final size:16
Alignment explanation
Indices: 2806777--2806833 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 16
2806767 ATATGAAAAG
*
2806777 TTAATTTTAATTAATTAT
1 TTAATTTT-A-TATTTAT
2806795 TTAATTATATATATTTAT
1 TTAATT-T-TATATTTAT
*
2806813 ATAATTTTATATTTAT
1 TTAATTTTATATTTAT
2806829 ATTAA
1 -TTAA
2806834 AAATAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 9 0.27
17 4 0.12
18 17 0.52
19 2 0.06
20 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAATTTTATATTTAT
Found at i:2806856 original size:21 final size:24
Alignment explanation
Indices: 2806830--2806879 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
2806820 TATATTTATA
2806830 TTAAAAAT-AATATTTTA-T-ATT
1 TTAAAAATAAATATTTTATTAATT
2806851 TTAAAAATAAATATTTTATTAATT
1 TTAAAAATAAATATTTTATTAATT
2806875 TTAAA
1 TTAAA
2806880 TTAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.31
22 9 0.35
23 1 0.04
24 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAAAATAAATATTTTATTAATT
Found at i:2806863 original size:22 final size:23
Alignment explanation
Indices: 2806813--2806879 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
2806803 ATATATTTAT
* *
2806813 ATAAT-TTTATATTTATATTAAAA
1 ATAATATTT-TATTAATTTTAAAA
2806836 ATAATATTTTA-T-ATTTTAAAA
1 ATAATATTTTATTAATTTTAAAA
2806857 ATAAATATTTTATTAATTTTAAA
1 AT-AATATTTTATTAATTTTAAA
2806880 TTAAATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.26
22 10 0.26
23 8 0.21
24 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATATTTTATTAATTTTAAAA
Found at i:2806870 original size:20 final size:20
Alignment explanation
Indices: 2806824--2806867 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2806814 TAATTTTATA
*
2806824 TTTATATTAAAAATAATATT
1 TTTATTTTAAAAATAATATT
2806844 TTATATTTTAAAAATAAATATT
1 TT-TATTTTAAAAAT-AATATT
2806866 TT
1 TT
2806868 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 11 0.52
22 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATTTTAAAAATAATATT
Found at i:2806880 original size:22 final size:21
Alignment explanation
Indices: 2806824--2806885 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
2806814 TAATTTTATA
*
2806824 TTTATA-TTAAAAAT-AATAT
1 TTTATATTTTAAAATAAATAT
2806843 TTTATATTTTAAAAATAAATAT
1 TTTATATTTT-AAAATAAATAT
*
2806865 TTTATTAATTTTAAATTAAAT
1 TTTA-T-ATTTTAAAATAAAT
2806886 TTAATCGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 6 0.17
20 2 0.06
21 5 0.14
22 9 0.25
23 9 0.25
24 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATATTTTAAAATAAATAT
Found at i:2810796 original size:141 final size:141
Alignment explanation
Indices: 2810624--2810899 Score: 367
Period size: 141 Copynumber: 2.0 Consensus size: 141
2810614 ATTAAGCTTT
* *
2810624 TATATACATATATATTATAGCAAATCGACAGAATCT-TCCTATATAAGATTG-GAATGTCACAAA
1 TATATACATATATATTATAACAAATCCACAGAATCTCT-CTATATAAGATTGTG-ATGTCACAAA
* *
2810687 ATTTCCTTGTTAGAGCTTGACTTTCCCATCAAGCTCAACACAAAATACACAAATTCATCGAATCA
64 ATTTCCTCGTTAGAGCTTGACTTTCCCATCAAACTCAACACAAAATACACAAATTCATCGAATCA
2810752 CACCAAATATATA
129 CACCAAATATATA
* * * * * * *
2810765 TATATATATATATATTATAATAGATCCACAGAATCTCTTTATATAGGATTGTGGTGTCACAAATT
1 TATATACATATATATTATAACAAATCCACAGAATCTCTCTATATAAGATTGTGATGTCACAAAAT
* * * ** *
2810830 TTCCTCGTTAGAGCTTGACTTTCCCGTCAAACTTAACATAAAATACACAAATTTGTCGAATCATA
66 TTCCTCGTTAGAGCTTGACTTTCCCATCAAACTCAACACAAAATACACAAATTCATCGAATCACA
2810895 CCAAA
131 CCAAA
2810900 CATTGGGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
141 114 0.98
142 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (141 bp):
TATATACATATATATTATAACAAATCCACAGAATCTCTCTATATAAGATTGTGATGTCACAAAAT
TTCCTCGTTAGAGCTTGACTTTCCCATCAAACTCAACACAAAATACACAAATTCATCGAATCACA
CCAAATATATA
Found at i:2813613 original size:15 final size:16
Alignment explanation
Indices: 2813580--2813618 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2813570 AGAAACATAC
* *
2813580 TTTTTTTCAATATCTT
1 TTTTTTTTAATATCAT
2813596 TTTTTTTTAA-ATCAT
1 TTTTTTTTAATATCAT
2813611 TTTTTTTT
1 TTTTTTTT
2813619 TTAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTTAATATCAT
Found at i:2813619 original size:16 final size:16
Alignment explanation
Indices: 2813580--2813624 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
2813570 AGAAACATAC
*
2813580 TTTTTTTCAATATC-TT
1 TTTTTTTTAA-ATCTTT
2813596 TTTTTTTTAAATCATTT
1 TTTTTTTTAAATC-TTT
2813613 TTTTTTTTAAAT
1 TTTTTTTTAAAT
2813625 TTAAGAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 14 0.54
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTTAAATCTTT
Found at i:2825013 original size:50 final size:52
Alignment explanation
Indices: 2824958--2825060 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
2824948 TTGACAAGAA
* *
2824958 GACTTGTAGAAGAAGAATTCTAA-A-AAAAAAGATTCTTAATAGACAAGTTT
1 GACTTGTAAAAAAAGAATTCTAAGAGAAAAAAGATTCTTAATAGACAAGTTT
* * * *
2825008 GACTTGTAAAAAAAGAATTCTAAGAGGAGAGAGATTCTTAATAGGCAAGTTT
1 GACTTGTAAAAAAAGAATTCTAAGAGAAAAAAGATTCTTAATAGACAAGTTT
2825060 G
1 G
2825061 TATGGTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 21 0.47
51 1 0.02
52 23 0.51
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTGTAAAAAAAGAATTCTAAGAGAAAAAAGATTCTTAATAGACAAGTTT
Found at i:2825807 original size:22 final size:22
Alignment explanation
Indices: 2825782--2825828 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
2825772 AAATCCTATA
2825782 AGAGATTTATTTGAAATTTGTT
1 AGAGATTTATTTGAAATTTGTT
*
2825804 AGAGATTTATTTGGAATTTGTT
1 AGAGATTTATTTGAAATTTGTT
2825826 AGA
1 AGA
2825829 TATTGCTTGA
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:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (22 bp):
AGAGATTTATTTGAAATTTGTT
Found at i:2829953 original size:38 final size:38
Alignment explanation
Indices: 2829900--2830066 Score: 129
Period size: 38 Copynumber: 4.4 Consensus size: 38
2829890 AAAGGTTTAC
* *
2829900 TAACTTTAAAAATAAGGGCTT-ATTATAACAGAGGTACA
1 TAACTTTAAAAATAAGGG-TTCATCATAACAGAGGCACA
* * * *
2829938 TTACTTTAAAAATAAGGGTTCCTCGTGACAGAGGCACA
1 TAACTTTAAAAATAAGGGTTCATCATAACAGAGGCACA
* * * * *
2829976 TAACTTTAAAAATAAGAGCTCTTCGTAACAAAGGCACA
1 TAACTTTAAAAATAAGGGTTCATCATAACAGAGGCACA
* * * * * * * **
2830014 CAATTTTAAAAATAAAGGCTCTTCTTAATAGAGGCTTA
1 TAACTTTAAAAATAAGGGTTCATCATAACAGAGGCACA
*
2830052 CAACTTTAAAAATAA
1 TAACTTTAAAAATAA
2830067 ATAAATACCT
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
37 2 0.02
38 104 0.98
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (38 bp):
TAACTTTAAAAATAAGGGTTCATCATAACAGAGGCACA
Found at i:2832381 original size:19 final size:19
Alignment explanation
Indices: 2832357--2832395 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2832347 TTCCTCTTCT
2832357 ATATTAGAACAATGAGCTA
1 ATATTAGAACAATGAGCTA
2832376 ATATTAGAACAATGAGCTA
1 ATATTAGAACAATGAGCTA
2832395 A
1 A
2832396 CGTATCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (19 bp):
ATATTAGAACAATGAGCTA
Found at i:2835252 original size:12 final size:12
Alignment explanation
Indices: 2835235--2835259 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2835225 AAAAAATCCA
2835235 TAACTTAAAATT
1 TAACTTAAAATT
2835247 TAACTTAAAATT
1 TAACTTAAAATT
2835259 T
1 T
2835260 TTCATAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACTTAAAATT
Found at i:2840417 original size:12 final size:12
Alignment explanation
Indices: 2840400--2840433 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2840390 CAATAAATTT
*
2840400 AAAATTTTTAAA
1 AAAATTTCTAAA
2840412 AAAATTTCTAAA
1 AAAATTTCTAAA
*
2840424 AAAGTTTCTA
1 AAAATTTCTA
2840434 GAAATGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (12 bp):
AAAATTTCTAAA
Found at i:2841023 original size:34 final size:32
Alignment explanation
Indices: 2840954--2841041 Score: 79
Period size: 34 Copynumber: 2.7 Consensus size: 32
2840944 CGCTTCAATA
* * *
2840954 TTAACGACGTTTATATCTGAAATGCCACCATT
1 TTAACGACATTTATATCTGAAACGCCACCACT
* *
2840986 TTAACGACATTTATATCTTTGAGACGCCACTACT
1 TTAACGACATTTATATC--TGAAACGCCACCACT
* *
2841020 TTAAAGGCATTTGA-ATCTGAAA
1 TTAACGACATTT-ATATCTGAAA
2841042 ATGGCTCAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
32 20 0.44
34 24 0.53
35 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (32 bp):
TTAACGACATTTATATCTGAAACGCCACCACT
Found at i:2843487 original size:13 final size:13
Alignment explanation
Indices: 2843471--2843501 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2843461 ACAAAATGTA
2843471 AAATAAAAAATTT
1 AAATAAAAAATTT
2843484 AAATAAAAAATTT
1 AAATAAAAAATTT
*
2843497 TAATA
1 AAATA
2843502 TATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAAAAAATTT
Found at i:2847543 original size:353 final size:358
Alignment explanation
Indices: 2846879--2848120 Score: 1597
Period size: 353 Copynumber: 3.5 Consensus size: 358
2846869 ATCACCACAT
* *
2846879 AAATTTTAACACGGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
1 AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
* * * * * *
2846944 TTTGTATATAATTAGTGAAAGCGGTTGAAAAAAATAATACCTTTAA-AATTTTTCCTAAAA-AAC
66 TTTGTATATAATTACTGAAAGCGGTTGCAGAAAACAATACCTTCAATAATTTTTCCTAAAACAAA
* * * * * *
2847007 TTTTTTCGGATTAGTAAAGGTGTCTCTGATTATGATACGCCTTCAATATACCACGATGATTATGG
131 TTTTTT-GGATTAGTAAAGGTATCTTTTATTATGACACGCCTTCAATATACCACGATGGTTATGA
* * *
2847072 AAGGCGTTTATTCGAAAAGACGCATTCAATATACCTTTAAACTTAATAATCCATTACTAAAGGCG
195 AAGGCGTTTATTCGAAAAGACACATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCG
* * * **
2847137 TTTGTTAATAACAGACACCTTTAAAATTTTTTCATTAAAAATTTTGTAAATTATTAAAGGCATTT
260 TTTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAAAATTTTAAAAATTATTAAAGGCATTT
2847202 TCTACTGTAAAATGCCTTCTATATACTACCATAA
325 TCTACTGTAAAATGCCTTCTATATACTACCATAA
*
2847236 AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTT-TATCACAA
1 AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
* *
2847300 TTTGTATATAATTAGTG-AAGACGGTTGTAGAAAACAATACCTTC-A-AATTTTTCCT-AAA-AA
66 TTTGTATATAATTACTGAAAG-CGGTTGCAGAAAACAATACCTTCAATAATTTTTCCTAAAACAA
* * * *
2847360 CTTTTTTGGATTAGTAAAGGTGTCTTTTATTATGACACGCCTTCAATATATCATGATGGTTATGA
130 ATTTTTTGGATTAGTAAAGGTATCTTTTATTATGACACGCCTTCAATATACCACGATGGTTATGA
* * * *
2847425 AAGGCATTTATTCGAAAAGACACCTTCAATATACCTTTAAACTTAGTAATCTATTACTGAAGGTG
195 AAGGCGTTTATTCGAAAAGACACATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCG
*
2847490 TTTGTTAATAATAGACACCTTCAAAATTTTTCCACTAAAAATTTTAAAAATTATTAAAGGCATTT
260 TTTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAAAATTTTAAAAATTATTAAAGGCATTT
* *
2847555 TCTACTGTAAAATACCTTCTATATACCACCATAA
325 TCTACTGTAAAATGCCTTCTATATACTACCATAA
* * *
2847589 AAATTCTAACACTGTTATTGAAGGTGTATATCCAAAAAAGATACCTTTAATAATTTCTATCATAA
1 AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
* * * * *
2847654 TTTGTAGATAATTACTGAAAGCGATTGCAGAGAACAACACCTTCAATAATTTTT-CTAAAATAAA
66 TTTGTATATAATTACTGAAAGCGGTTGCAGAAAACAATACCTTCAATAATTTTTCCTAAAACAAA
* ** * * * *
2847718 TTTCTTAAATTATTAAAGGTATTTTTTATTATGACACACCTTCAATATACCACGATGGTAATGAA
131 TTTTTTGGATTAGTAAAGGTATCTTTTATTATGACACGCCTTCAATATACCACGATGGTTATGAA
** * * * *
2847783 AGGCGTTTATTAAAAAAGGCACTTTTAATATACTTTTAAACTTAGTAATCCATTACTGAAGGCGT
196 AGGCGTTTATTCGAAAAGACACATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGT
* * * * *
2847848 TTGTTAATAACATACGCCTTCAAAA-TTTTCTCACTAAATATTTTAAGAATTATTAAAGGTATTT
261 TTGTTAATAACAGACACCTTCAAAATTTTTC-CACTAAAAATTTTAAAAATTATTAAAGGCA-TT
* * * * *
2847912 TTTTACTGTAAAATGTCTTCTATATACTGCCACAC
324 TTCTACTGTAAAATGCCTTCTATATACTACCATAA
* ** * * *
2847947 AAATTTTAACACTGTTATCAAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCCATCACAG
1 AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
* ** * * * * * *
2848012 TTTGTGTATAATTACTTTAGGTGGTTACAGATAACAATGCCTTCAATAATTTTT-CAAAAACAAA
66 TTTGTATATAATTACTGAAAGCGGTTGCAGAAAACAATACCTTCAATAATTTTTCCTAAAACAAA
* * * *
2848076 TTTTTTGGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAA
131 TTTTTTGGATTAGTAAAGGTATCTTTTATTATGACACGCCTTCAA
2848121 CATTTTGTTA
Statistics
Matches: 774, Mismatches: 102, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
353 253 0.33
354 53 0.07
355 20 0.03
356 59 0.08
357 215 0.28
358 174 0.22
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (358 bp):
AAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATACCTTTAATAATTTCTATCACAA
TTTGTATATAATTACTGAAAGCGGTTGCAGAAAACAATACCTTCAATAATTTTTCCTAAAACAAA
TTTTTTGGATTAGTAAAGGTATCTTTTATTATGACACGCCTTCAATATACCACGATGGTTATGAA
AGGCGTTTATTCGAAAAGACACATTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGCGT
TTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAAAATTTTAAAAATTATTAAAGGCATTTT
CTACTGTAAAATGCCTTCTATATACTACCATAA
Found at i:2848274 original size:14 final size:14
Alignment explanation
Indices: 2848255--2848292 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
2848245 TTGGACAATT
*
2848255 TTAAAGGCTTATAA
1 TTAAAGGCATATAA
2848269 TTAAAGGCATATAA
1 TTAAAGGCATATAA
2848283 TTAAAGGCAT
1 TTAAAGGCAT
2848293 CTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (14 bp):
TTAAAGGCATATAA
Found at i:2850449 original size:21 final size:21
Alignment explanation
Indices: 2850407--2850449 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
2850397 GCAACAAATT
* * *
2850407 AATGACCAAGAGCAATGCCTC
1 AATGACCAACAGCAAAGACTC
*
2850428 AATGACTAACAGCAAAGACTC
1 AATGACCAACAGCAAAGACTC
2850449 A
1 A
2850450 CTACTTTGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (21 bp):
AATGACCAACAGCAAAGACTC
Found at i:2869029 original size:22 final size:21
Alignment explanation
Indices: 2868952--2869095 Score: 78
Period size: 22 Copynumber: 6.6 Consensus size: 21
2868942 ATATATTAGC
* * *
2868952 AAATTATTGATAATTTTGTTAT
1 AAATTAATGATAA-TTTATAAT
* * *
2868974 AAATCAGTGATAATTT-TGAAA
1 AAATTAATGATAATTTAT-AAT
* * *
2868995 AAATCAATAATAACTTTATACT
1 AAATTAATGATAA-TTTATAAT
*
2869017 AAATTAATGATAATTGTATAGT
1 AAATTAATGATAATT-TATAAT
*
2869039 AAATT-ATGAATAACTTAATAAT
1 AAATTAATG-ATAA-TTTATAAT
* *
2869061 AAATAAATAATAATTTAGTAAT
1 AAATTAATGATAATTTA-TAAT
2869083 AAA-TAATTGATAA
1 AAATTAA-TGATAA
2869096 AATAGTGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 25 0.26
22 64 0.67
23 5 0.05
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (21 bp):
AAATTAATGATAATTTATAAT
Found at i:2869086 original size:44 final size:44
Alignment explanation
Indices: 2869003--2869086 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
2868993 AAAAATCAAT
* * * * *
2869003 AATAACTTTATACTAAATTAATGATAATTGTATAGTAAATTATG
1 AATAACTTAATAATAAATAAATAATAATTGTATAATAAATTATG
2869047 AATAACTTAATAATAAATAAATAATAATT-TAGTAATAAAT
1 AATAACTTAATAATAAATAAATAATAATTGTA-TAATAAAT
2869087 AATTGATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (44 bp):
AATAACTTAATAATAAATAAATAATAATTGTATAATAAATTATG
Found at i:2869101 original size:22 final size:22
Alignment explanation
Indices: 2869057--2869101 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2869047 AATAACTTAA
**
2869057 TAATAAATAAATAATAATTTAG
1 TAATAAATAAATAATAAAATAG
* *
2869079 TAATAAATAATTGATAAAATAG
1 TAATAAATAAATAATAAAATAG
2869101 T
1 T
2869102 GTATGATAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
TAATAAATAAATAATAAAATAG
Found at i:2869262 original size:22 final size:22
Alignment explanation
Indices: 2869202--2869319 Score: 110
Period size: 22 Copynumber: 5.4 Consensus size: 22
2869192 TAACACATAT
* *
2869202 TAGTAAATTAATGATATCTTAA
1 TAGTAAATTAATAATAACTTAA
** * * *
2869224 TAAAAAATAAATGATAACTTAG
1 TAGTAAATTAATAATAACTTAA
* * *
2869246 TAGTTAATTATTAATAACTTAG
1 TAGTAAATTAATAATAACTTAA
* * *
2869268 TAATAAATCAATGATAACTTAA
1 TAGTAAATTAATAATAACTTAA
*
2869290 TAGTAAATTAATAATAAATTAA
1 TAGTAAATTAATAATAACTTAA
2869312 TAGTAAAT
1 TAGTAAAT
2869320 AAGGTTTAGT
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 75 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATTAATAATAACTTAA
Found at i:2869300 original size:11 final size:11
Alignment explanation
Indices: 2869286--2869319 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2869276 CAATGATAAC
2869286 TTAATAGTAAA
1 TTAATAGTAAA
*
2869297 TTAATAATAAA
1 TTAATAGTAAA
2869308 TTAATAGTAAA
1 TTAATAGTAAA
2869319 T
1 T
2869320 AAGGTTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:2869319 original size:44 final size:44
Alignment explanation
Indices: 2869202--2869321 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
2869192 TAACACATAT
* * * *
2869202 TAGTAAATTAATGATATCTTAATAAAAAATAAATGATAACTTAG
1 TAGTAAATTAATAATAACTTAATAATAAATAAATGATAACTTAA
* * * *
2869246 TAGTTAATTATTAATAACTTAGTAATAAATCAATGATAACTTAA
1 TAGTAAATTAATAATAACTTAATAATAAATAAATGATAACTTAA
* *
2869290 TAGTAAATTAATAATAAATTAATAGTAAATAA
1 TAGTAAATTAATAATAACTTAATAATAAATAA
2869322 GGTTTAGTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (44 bp):
TAGTAAATTAATAATAACTTAATAATAAATAAATGATAACTTAA
Found at i:2869836 original size:22 final size:22
Alignment explanation
Indices: 2869761--2869837 Score: 55
Period size: 22 Copynumber: 3.3 Consensus size: 22
2869751 AGTTAATCAA
2869761 TAATAATTTAGTATAGTAAATTAG
1 TAATAATTTAG--TAGTAAATTAG
* * * * * *
2869785 AGATATAACTTAATAGTATATCAA
1 -TA-ATAATTTAGTAGTAAATTAG
*
2869809 TTATAATTTAGTAGTAAATTAG
1 TAATAATTTAGTAGTAAATTAG
2869831 TAATAAT
1 TAATAAT
2869838 ATTGTCATAA
Statistics
Matches: 37, Mismatches: 14, Indels: 5
0.66 0.25 0.09
Matches are distributed among these distances:
22 21 0.57
24 8 0.22
25 1 0.03
26 7 0.19
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (22 bp):
TAATAATTTAGTAGTAAATTAG
Found at i:2870415 original size:61 final size:60
Alignment explanation
Indices: 2870319--2870657 Score: 410
Period size: 61 Copynumber: 5.7 Consensus size: 60
2870309 TTGTGCAGGA
2870319 AAAATTGATACTTTCAACTTTT-CCCAAAAA-A----TTTTTTGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTTTAAGG
* * *
2870373 AAAATTGATACTTTCAACTTTTCCCCAAAGATGTTTCTTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTT-TTTTTTT-GAAA-TTT-ATTTTTAAGG
* * **
2870437 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTTGAAACTT-TGATT-AGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTTTAAGG
**
2870494 AAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAA-TTT-ATTTTTAAGG
** * **
2870555 AAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTCAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT-TGAAATTTATTTTTAAGG
*
2870616 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
2870658 GGAATTTTTT
Statistics
Matches: 241, Mismatches: 27, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
54 22 0.09
55 7 0.03
56 9 0.04
57 38 0.16
58 4 0.02
60 3 0.01
61 81 0.34
62 30 0.12
63 8 0.03
64 39 0.16
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTATTTTTAAGG
Found at i:2870451 original size:118 final size:117
Alignment explanation
Indices: 2870319--2870672 Score: 448
Period size: 118 Copynumber: 3.0 Consensus size: 117
2870309 TTGTGCAGGA
2870319 AAAATTGATACTTTCAACTTTTCCCAAAAAA-TTTTTTGAAATTTATTTTTAAGGAAAATTGATA
1 AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAAGGAAAATTGATA
*
2870383 CTTTCAACTTTTCCCCAAAGATGTTTCTTTTTTTGGAAATTTTGATTTTCAAGG
66 CTTTCAACTTTTCCCCAAAAAT-TTT-TTTTTTTGGAAATTTTGATTTTCAAGG
* **
2870437 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTT-TGATT-AGGAAAATT
1 AAAATTGATACTTTCAACTTTTCC-CAAAAA-A--TTTTTTTGAAATTTATTTTTAAGGAAAATT
* *
2870500 GATACTTTCAACTTTT-CCCAAAAATATTTTTTTTTT-GAAACTTTGATTTCCAAGG
62 GATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTTTTGGAAATTTTGATTTTCAAGG
* *
2870555 AAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTCAAAAATTTATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCAAAAAA----TTTTTTT--GAAATTTATTTTTAAGGAAAA
* * * *
2870620 TTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTTGGAATTTTTTATTTT
60 TTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTTTTGGAAATTTTGATTTT
2870673 TGTTTAAAGA
Statistics
Matches: 205, Mismatches: 18, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
116 1 0.00
117 5 0.02
118 74 0.36
119 13 0.06
120 17 0.08
121 28 0.14
122 37 0.18
123 30 0.15
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGAAATTTATTTTTAAGGAAAATTGATA
CTTTCAACTTTTCCCCAAAAATTTTTTTTTTTGGAAATTTTGATTTTCAAGG
Found at i:2870715 original size:6 final size:6
Alignment explanation
Indices: 2870682--2870762 Score: 51
Period size: 6 Copynumber: 12.7 Consensus size: 6
2870672 TTGTTTAAAG
*
2870682 AAAATA GAATAATA AAAA-A GATAAATA AAAATA AAAATA AAGAA-A AGTAGAACA
1 AAAATA -AA-AATA AAAATA -A-AAATA AAAATA AAAATA AA-AATA A--A-AATA
*
2870736 AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
2870763 GAATATTAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
5 6 0.10
6 34 0.55
7 11 0.18
8 9 0.15
9 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:2870716 original size:19 final size:20
Alignment explanation
Indices: 2870678--2870733 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
2870668 ATTTTTGTTT
2870678 AAAGAAAATAGAATAATAAA
1 AAAGAAAATAGAATAATAAA
*
2870698 AAAGATAAATAAAAATAA-AAA
1 AAAGA-AAAT-AGAATAATAAA
2870719 TAAAGAAAAGTAGAA
1 -AAAGAAAA-TAGAA
2870734 CAAAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 5 0.17
21 13 0.43
22 12 0.40
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (20 bp):
AAAGAAAATAGAATAATAAA
Found at i:2870727 original size:27 final size:26
Alignment explanation
Indices: 2870682--2870760 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 26
2870672 TTGTTTAAAG
*
2870682 AAAATAGAATAAT-AAAAAAGATAAATA
1 AAAATA-AA-AATAAAAAAAGATAAACA
2870709 AAAATAAAAATAAAGAAAAG-TAGAACA
1 AAAATAAAAATAAA-AAAAGATA-AACA
2870736 AAAATAAAAATAAAATAAAGATAAA
1 AAAATAAAAATAAAA-AAAGATAAA
2870761 AAGAATATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
25 3 0.07
26 7 0.15
27 34 0.74
28 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (26 bp):
AAAATAAAAATAAAAAAAGATAAACA
Found at i:2870812 original size:20 final size:22
Alignment explanation
Indices: 2870770--2870815 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
2870760 AAAGAATATT
*
2870770 AAATAAATCTAATCTAATAAAA
1 AAATAAATCAAATCTAATAAAA
2870792 AAATAAAT-AAAT-TAATTAAAA
1 AAATAAATCAAATCTAA-TAAAA
2870813 AAA
1 AAA
2870816 AAACTTGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAAATCAAATCTAATAAAA
Found at i:2870816 original size:22 final size:26
Alignment explanation
Indices: 2870769--2870818 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
2870759 AAAAGAATAT
2870769 TAAATAAATCTAATCTAATAAAAAAA
1 TAAATAAATCTAATCTAATAAAAAAA
*
2870795 TAAATAAAT-TAAT-TAAAAAAAAAA
1 TAAATAAATCTAATCTAATAAAAAAA
2870819 CTTGGAGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 4 0.17
26 9 0.39
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATAAATCTAATCTAATAAAAAAA
Found at i:2871341 original size:26 final size:24
Alignment explanation
Indices: 2871308--2871357 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
2871298 AGAATCAAAA
2871308 TTTCCCAAAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCA-AAAAATT
*
2871333 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAATT
2871358 ATTTTCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAATT
Found at i:2871730 original size:12 final size:12
Alignment explanation
Indices: 2871715--2871807 Score: 55
Period size: 12 Copynumber: 7.2 Consensus size: 12
2871705 ATTATAGGAT
2871715 AAATAATAATAA
1 AAATAATAATAA
*
2871727 AAATAACAGATATA
1 AAATAATA-ATA-A
*
2871741 TAATTAGATAAATAA
1 -AAATA-AT-AATAA
2871756 AAATACA-AA-AA
1 AAATA-ATAATAA
*
2871767 TAAATAAAATATAA
1 -AAATAATA-ATAA
*
2871781 AAATTATAATAA
1 AAATAATAATAA
*
2871793 TAATAATAATAA
1 AAATAATAATAA
2871805 AAA
1 AAA
2871808 ATATATAACT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
11 3 0.05
12 31 0.50
13 10 0.16
14 8 0.13
15 5 0.08
16 4 0.06
17 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAATAATAA
Done.