Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold480
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: 956445
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 7
Found at i:3469 original size:18 final size:18
Alignment explanation
Indices: 3446--3480 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3436 GAGAGCCATC
*
3446 AAAGGAGGAGGAACGAAA
1 AAAGGAGGAGAAACGAAA
*
3464 AAAGGATGAGAAACGAA
1 AAAGGAGGAGAAACGAA
3481 GGGACACACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.34, T:0.03
Consensus pattern (18 bp):
AAAGGAGGAGAAACGAAA
Found at i:5841 original size:1 final size:1
Alignment explanation
Indices: 5831--5935 Score: 75
Period size: 1 Copynumber: 105.0 Consensus size: 1
5821 TTGCAATTGG
* * * * * * * ** *
5831 AAAAAGAAAAAAAAACAAAACAAAAAAAGAAAAAGAAAAAAAGAAAAAGAAAAAAACCAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** *
5896 AAAAAAGGAAAAGGAAAAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5936 GTGAAGATTT
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:5857 original size:14 final size:13
Alignment explanation
Indices: 5837--5935 Score: 85
Period size: 14 Copynumber: 7.5 Consensus size: 13
5827 TTGGAAAAAG
5837 AAAAAAAAACAAA
1 AAAAAAAAACAAA
* *
5850 ACAAAAAAAGAAA
1 AAAAAAAAACAAA
*
5863 AAGAAAAAAAGAAA
1 AA-AAAAAAACAAA
5877 AAGAAAAAAACCAAA
1 AA-AAAAAAA-CAAA
* **
5892 ACAAAAAAA-AGG
1 AAAAAAAAACAAA
**
5904 AAAAGGAAA-AAA
1 AAAAAAAAACAAA
5916 AAAAAAAAACAAA
1 AAAAAAAAACAAA
5929 AAAAAAA
1 AAAAAAA
5936 GTGAAGATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
12 15 0.22
13 22 0.32
14 28 0.41
15 4 0.06
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:7888 original size:25 final size:24
Alignment explanation
Indices: 7850--7906 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
7840 TTTGGTAAGA
*
7850 TTGATTTTCATTTA-ACTTGATAAT
1 TTGATTTTCATTTATA-TTAATAAT
*
7874 TTGATTTTTATTTTATATTAATAAT
1 TTGATTTTCA-TTTATATTAATAAT
*
7899 TTGCTTTT
1 TTGATTTT
7907 ATTAATCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 18 0.64
26 1 0.04
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.61
Consensus pattern (24 bp):
TTGATTTTCATTTATATTAATAAT
Found at i:8354 original size:80 final size:79
Alignment explanation
Indices: 8130--8365 Score: 228
Period size: 79 Copynumber: 3.0 Consensus size: 79
8120 GTTTAATCCC
* * * *
8130 GTTTTTACTTCTAAAACACTGAATTTTTCATCTCTAAGGATATTCCAACCTCAT-AATCTTTGA-
1 GTTTTTACTTCTAAAACACTAAATTTTTCATCTC-AAGGATACTCCAA-CTCCTCCATCTTTGAG
* * *
8193 GGGACACTCGAACCTT
64 GGGATACTCCAACCAT
* * * * * * *
8209 ATTTTTATTTCTAAAATA-TAGAATTTTTCATCTC-TGTGATACTCCAACCCCACCATATTTGAG
1 GTTTTTACTTCTAAAACACTA-AATTTTTCATCTCAAG-GATACTCCAACTCCTCCATCTTTGAG
*
8272 GGGATATTCCAACCAT
64 GGGATACTCCAACCAT
* **
8288 GTTTTTACTTCTAAAACACTAAAATTTTCATCTTCAAGGATACTCCAACTCCTCCATCTCCGAGG
1 GTTTTTACTTCTAAAACACTAAATTTTTCATC-TCAAGGATACTCCAACTCCTCCATCTTTGAGG
*
8353 GGATACTCTAACC
65 GGATACTCCAACC
8366 CCTCCATCTC
Statistics
Matches: 123, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
77 3 0.02
78 17 0.14
79 65 0.53
80 37 0.30
81 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
GTTTTTACTTCTAAAACACTAAATTTTTCATCTCAAGGATACTCCAACTCCTCCATCTTTGAGGG
GATACTCCAACCAT
Found at i:8357 original size:28 final size:28
Alignment explanation
Indices: 8324--8396 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
8314 TTCATCTTCA
* *
8324 AGGATACTCCAACTCCTCCATCTCCGAG
1 AGGATACTCCAACCCCTCCATCTCCAAG
* *
8352 GGGATACTCTAACCCCTCCATCTCCAAG
1 AGGATACTCCAACCCCTCCATCTCCAAG
*
8380 AGGATACTCCAATCCCT
1 AGGATACTCCAACCCCT
8397 GTTTTTACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (28 bp):
AGGATACTCCAACCCCTCCATCTCCAAG
Found at i:8442 original size:109 final size:108
Alignment explanation
Indices: 8246--8476 Score: 268
Period size: 109 Copynumber: 2.1 Consensus size: 108
8236 TCATCTCTGT
* * *** * * *
8246 GATACTCCAACCCCACCATATTTGAGGGGATATTCCAACCATGTTTTTACTTCTAAAACACTAAA
1 GATACTCCAACCCCTCCATCTCCAAGAGGATACTCCAACCATGTTTTTACTTCCAAAACACTAAA
* *
8311 ATTTTCATCTTCAAGGATACTCCAACTCCTCCATCTCCGAGGG
66 ATTTTCATCTTCAAGGATACTCCAACCCCACCATCTCCGAGGG
* * * *
8354 GATACTCTAACCCCTCCATCTCCAAGAGGATACTCCAATCCCTGTTTTTACTTCCACAAC-GTCA
1 GATACTCCAACCCCTCCATCTCCAAGAGGATACTCCAA-CCATGTTTTTACTTCCAAAACACT-A
* * *
8418 AATTTTTCATC-TCTAGGGATACTCCAACCCCACCATCTTCGAGGG
64 AAATTTTCATCTTC-AAGGATACTCCAACCCCACCATCTCCGAGGG
8463 GATACTCCAACCCC
1 GATACTCCAACCCC
8477 ATTTTTACTT
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
108 33 0.32
109 69 0.68
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (108 bp):
GATACTCCAACCCCTCCATCTCCAAGAGGATACTCCAACCATGTTTTTACTTCCAAAACACTAAA
ATTTTCATCTTCAAGGATACTCCAACCCCACCATCTCCGAGGG
Found at i:10838 original size:35 final size:35
Alignment explanation
Indices: 10780--10846 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10770 AATTTTCTTG
* *
10780 TGTTGTACAAAGAGGAAGTAACTAAATGTTATATA
1 TGTTATACAAAGAGGAAGCAACTAAATGTTATATA
10815 TGTTATACAAA-AGGAATGCAACTAAATGTTAT
1 TGTTATACAAAGAGGAA-GCAACTAAATGTTAT
10847 TTTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.31
Consensus pattern (35 bp):
TGTTATACAAAGAGGAAGCAACTAAATGTTATATA
Found at i:13712 original size:20 final size:20
Alignment explanation
Indices: 13687--13736 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13677 TTTATAAACT
13687 TGTTTATTTTATTTAACTTA
1 TGTTTATTTTATTTAACTTA
* * *
13707 TGTTTAATTTATTTGATTTA
1 TGTTTATTTTATTTAACTTA
*
13727 TTTTTATTTT
1 TGTTTATTTT
13737 GATCATTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (20 bp):
TGTTTATTTTATTTAACTTA
Found at i:16488 original size:10 final size:9
Alignment explanation
Indices: 16456--16485 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
16446 AATATTCAAG
16456 AAGAAAATGA
1 AAGAAAAT-A
16466 AAGAAAATA
1 AAGAAAATA
16475 AAGAAAATA
1 AAGAAAATA
16484 AA
1 AA
16486 AGAGAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (9 bp):
AAGAAAATA
Found at i:17057 original size:32 final size:32
Alignment explanation
Indices: 17021--17081 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
17011 TTTATGAGTG
* * *
17021 ATTATGTCTAATATTTTTTAAATTTAAAAATA
1 ATTATATCTAATATTTATAAAATTTAAAAATA
17053 ATTATATCTAATATTTATAAAATTTAAAA
1 ATTATATCTAATATTTATAAAATTTAAAA
17082 TCAATCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTATATCTAATATTTATAAAATTTAAAAATA
Found at i:17788 original size:29 final size:29
Alignment explanation
Indices: 17754--17814 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
17744 TAATTAATCA
*
17754 TAAAAAATAATATTTAATAAATTTAAA-ATT
1 TAAAATATAA-ATTTAA-AAATTTAAATATT
* *
17784 TAAAATTTAAATTTAAATATTTAAATATT
1 TAAAATATAAATTTAAAAATTTAAATATT
17813 TA
1 TA
17815 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 11 0.41
30 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TAAAATATAAATTTAAAAATTTAAATATT
Found at i:17807 original size:8 final size:7
Alignment explanation
Indices: 17772--17814 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
17762 AATATTTAAT
17772 AAATTTA
1 AAATTTA
17779 AAATTTA
1 AAATTTA
17786 AAATTT-
1 AAATTTA
17792 AAATTTA
1 AAATTTA
17799 AATATTTA
1 AA-ATTTA
17807 AATATTTA
1 AA-ATTTA
17815 TTTTTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.18
7 15 0.44
8 13 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AAATTTA
Found at i:21505 original size:15 final size:15
Alignment explanation
Indices: 21485--21514 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21475 CATAATGAAC
21485 CCAGGTAAAGTTTAT
1 CCAGGTAAAGTTTAT
21500 CCAGGTAAAGTTTAT
1 CCAGGTAAAGTTTAT
21515 GCACCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
CCAGGTAAAGTTTAT
Found at i:24180 original size:52 final size:52
Alignment explanation
Indices: 24097--24203 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
24087 AAATGGTAAA
* * *
24097 GAATAGAGATGAGAAATAGCAGAAGGATTAGAGAGGGAAAGAAGGGAAAA-AG
1 GAATAGAGATGAGAAAGAGAAGAAGGATTAGAGAGGAAAAGAA-GGAAAAGAG
*
24149 GAATAGAGATGAGAAACGA-AAGAAGGTTTAGAGAGGAAAAGAAGGAAAAGAG
1 GAATAGAGATGAGAAA-GAGAAGAAGGATTAGAGAGGAAAAGAAGGAAAAGAG
24201 GAA
1 GAA
24204 GCTTGACCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
51 6 0.12
52 42 0.86
53 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.36, T:0.09
Consensus pattern (52 bp):
GAATAGAGATGAGAAAGAGAAGAAGGATTAGAGAGGAAAAGAAGGAAAAGAG
Found at i:24196 original size:27 final size:26
Alignment explanation
Indices: 24117--24196 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
24107 GAGAAATAGC
24117 AGAAGGATTAGAGAGGGAAAGAAGGGAA
1 AGAAGGATTAGAGA-GGAAAGAA-GGAA
* * * *
24145 A-AAGGAATAGAGATGAGA-AACGAA
1 AGAAGGATTAGAGAGGAAAGAAGGAA
*
24169 AGAAGGTTTAGAGAGGAAAAGAAGGAA
1 AGAAGGATTAGAGAGG-AAAGAAGGAA
24196 A
1 A
24197 AGAGGAAGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
24 4 0.10
25 13 0.32
26 5 0.12
27 17 0.43
28 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.36, T:0.09
Consensus pattern (26 bp):
AGAAGGATTAGAGAGGAAAGAAGGAA
Found at i:30359 original size:34 final size:34
Alignment explanation
Indices: 30320--30399 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
30310 CTTACAACAT
* *
30320 TATCTTTTCGAAGGCTAAGATAAAACCTTTTTC-C
1 TATCTTTTCGAAGGCTAAGATAAAACC-TCTACAC
*
30354 TATCTTTTTGAAGGCTAAGATAAAACCTCTACAC
1 TATCTTTTCGAAGGCTAAGATAAAACCTCTACAC
30388 TATCTTTTCGAA
1 TATCTTTTCGAA
30400 AGTTAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 3 0.07
34 38 0.93
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (34 bp):
TATCTTTTCGAAGGCTAAGATAAAACCTCTACAC
Found at i:31034 original size:20 final size:19
Alignment explanation
Indices: 31018--31053 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31008 TGATACATTG
31018 CAACT-TGTATCGATACAT
1 CAACTGTGTATCGATACAT
*
31036 CTACTGTGTATCGATACA
1 CAACTGTGTATCGATACA
31054 AATAAGGATT
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:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (19 bp):
CAACTGTGTATCGATACAT
Found at i:31382 original size:15 final size:14
Alignment explanation
Indices: 31362--31404 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
31352 AACATAATTA
31362 ATAAATATATTATT
1 ATAAATATATTATT
31376 GATAAATATA-TATT
1 -ATAAATATATTATT
* *
31390 ATTAATATATAATT
1 ATAAATATATTATT
31404 A
1 A
31405 ATATGACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 8 0.32
15 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
ATAAATATATTATT
Found at i:31450 original size:16 final size:16
Alignment explanation
Indices: 31429--31471 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
31419 AAACAAGTAA
*
31429 TATTTATTTTTAATTT
1 TATTTATTTTTAATTC
31445 TATTTAATCTTTTAATTC
1 TATTT-AT-TTTTAATTC
31463 T-TTTATTTT
1 TATTTATTTT
31472 AAAGGTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 5 0.21
18 9 0.38
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTATTTTTAATTC
Found at i:31655 original size:23 final size:25
Alignment explanation
Indices: 31629--31674 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31619 GTCTTACTTA
*
31629 TATT-ATTTTTT-TAAATTACTTTT
1 TATTGATTTTTTATAAATAACTTTT
31652 TATTGATTTTTTATAAATAACTT
1 TATTGATTTTTTATAAATAACTT
31675 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTGATTTTTTATAAATAACTTTT
Found at i:32113 original size:23 final size:23
Alignment explanation
Indices: 32069--32131 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
32059 TTAATATTTT
* *
32069 TTTAATTATATATT-TGATATATAA
1 TTTAATTATTTATTAT-AAATAT-A
*
32093 TTT-ATTATTTATTATAAATATT
1 TTTAATTATTTATTATAAATATA
32115 TTTAATTATTTATTATA
1 TTTAATTATTTATTATA
32132 TGTTCATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 3 0.09
23 27 0.79
24 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTATTTATTATAAATATA
Found at i:36027 original size:14 final size:14
Alignment explanation
Indices: 36010--36038 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36000 CAAACACCTC
36010 ATTCCAGTCTAAAA
1 ATTCCAGTCTAAAA
36024 ATTCCAGTCTAAAA
1 ATTCCAGTCTAAAA
36038 A
1 A
36039 GCTAACTCAT
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:0.45, C:0.21, G:0.07, T:0.28
Consensus pattern (14 bp):
ATTCCAGTCTAAAA
Found at i:37540 original size:333 final size:333
Alignment explanation
Indices: 36625--37966 Score: 2473
Period size: 332 Copynumber: 4.0 Consensus size: 333
36615 TTGATATTTT
36625 AAAAAAGCATAT--AAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
1 AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
36688 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
66 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
36753 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
131 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
36818 GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
196 GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
36883 GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
261 GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
36948 TATTAAAC
326 TATTAAAC
36956 AAAAAAGCATAT-AAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
1 AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
37020 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
66 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
37085 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
131 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
*
37150 GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAACATATG
196 GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
*
37215 GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTTGAGTATTTTA
261 GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
37280 TATTAAAC
326 TATTAAAC
37288 AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
1 AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
*
37353 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATAAATAAATATGGCC
66 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
*
37418 GACTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
131 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
*
37483 GGATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
196 GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
*
37548 GTTTACTTGATGTTTAAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
261 GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
37613 TATTAAAC
326 TATTAAAC
* * *
37621 AAAAAAGCATATC-AAAAAAATAAATAATATTAGAAATTTTAAACAATATAAATAAGTATACTTA
1 AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
**
37685 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATAT-GTT
66 TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
* **
37749 GGCTTATCTAATTAAAAAAATATTTTTATACTAAGATTAATATCTTAGTAGTGTCTTAGTCTATT
131 GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
37814 -AGATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATAT
196 GA-ATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATAT
* *
37878 GGTTTACTTGATGCTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTTGAGTATTTT
260 GGTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTT
37943 ATATTAAAC
325 ATATTAAAC
*
37952 -AAAAATCATATCAAA
1 AAAAAAGCATATCAAA
37967 TTAAATCTTT
Statistics
Matches: 984, Mismatches: 23, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
330 11 0.01
331 209 0.21
332 437 0.44
333 327 0.33
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (333 bp):
AAAAAAGCATATCAAAAAAAATTAATAATATTAGAAATCTTAAACAATATAAAGAAGTATACTTA
TATATCATATCAAGTAGTTGAGTAACAAATGTCACAATTATTTAACTATATTAATAAATATGGCC
GGCTTATCTAATTAAAAAAATATCTTTATACTAAGATTAATATCTTAACAGTGTCTTAGTCTATT
GAATAAAATTAATAAATAAATTTAACTAAAAAAGAATAAATAAATAATAAAAATTAAAAAATATG
GTTTACTTGATGTTTGAATAATTAATTATAATATCTATTTTTTTCTCAATTGCTCGAGTATTTTA
TATTAAAC
Found at i:38900 original size:20 final size:20
Alignment explanation
Indices: 38871--38946 Score: 91
Period size: 20 Copynumber: 3.7 Consensus size: 20
38861 CACTCTTCAT
38871 GTATCGATACATTGTGAATA
1 GTATCGATACATTGTGAATA
* **
38891 GTATCAATACATCACTGTTCAT-
1 GTATCGATACAT---TGTGAATA
38913 GTATCGATACATTGTGAATA
1 GTATCGATACATTGTGAATA
38933 GTATCGATACATTG
1 GTATCGATACATTG
38947 AGTCCAACAG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.11
20 25 0.54
22 11 0.24
23 5 0.11
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTGTGAATA
Found at i:38917 original size:42 final size:42
Alignment explanation
Indices: 38858--38944 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
38848 CACCACTATT
38858 CATCACTCTTCATGTATCGATACATTGTGAATAGTATCAATA
1 CATCACTCTTCATGTATCGATACATTGTGAATAGTATCAATA
* *
38900 CATCACTGTTCATGTATCGATACATTGTGAATAGTATCGATA
1 CATCACTCTTCATGTATCGATACATTGTGAATAGTATCAATA
38942 CAT
1 CAT
38945 TGAGTCCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (42 bp):
CATCACTCTTCATGTATCGATACATTGTGAATAGTATCAATA
Found at i:38922 original size:22 final size:22
Alignment explanation
Indices: 38858--38924 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
38848 CACCACTATT
*
38858 CATCACTCTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
** *
38880 CAT---TGTGAATAGTATCAATA
1 CATCACTGTTCAT-GTATCGATA
38900 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
38922 CAT
1 CAT
38925 TGTGAATAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 4 0.12
20 11 0.32
22 14 0.41
23 5 0.15
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:41061 original size:22 final size:22
Alignment explanation
Indices: 41001--41061 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
40991 AAATTAGAGG
41001 AGAAAATGAATGAGTTAG-AAA
1 AGAAAATGAATGAGTTAGCAAA
41022 AGAAAA-GAAATGAG-TAGCAAA
1 AGAAAATG-AATGAGTTAGCAAA
41043 ATGAAAATG-ATGAGTTAGC
1 A-GAAAATGAATGAGTTAGC
41062 TAATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 4 0.11
21 21 0.60
22 9 0.26
23 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.25, T:0.18
Consensus pattern (22 bp):
AGAAAATGAATGAGTTAGCAAA
Found at i:42581 original size:13 final size:13
Alignment explanation
Indices: 42563--42588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42553 ACAATCAAAT
42563 TTATATCGATATA
1 TTATATCGATATA
42576 TTATATCGATATA
1 TTATATCGATATA
42589 ATTTTAATGT
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTATATCGATATA
Found at i:45125 original size:21 final size:21
Alignment explanation
Indices: 45099--45155 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
45089 AAATTATCCA
45099 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
45120 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
45141 AATGTATCGATACAT
1 AATGTATCGATACAT
45156 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:45235 original size:19 final size:19
Alignment explanation
Indices: 45211--45278 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
45201 AATTCAACAA
45211 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
45230 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
45245 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
45262 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
45279 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:45250 original size:13 final size:13
Alignment explanation
Indices: 45232--45256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45222 ACATAAGTTT
45232 TGTATCGATACAA
1 TGTATCGATACAA
45245 TGTATCGATACA
1 TGTATCGATACA
45257 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45254 original size:32 final size:32
Alignment explanation
Indices: 45213--45275 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
45203 TTCAACAATT
*
45213 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
45245 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
45276 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:45336 original size:13 final size:13
Alignment explanation
Indices: 45318--45343 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45308 CATTTTTCTA
45318 TGTATCGATACAT
1 TGTATCGATACAT
45331 TGTATCGATACAT
1 TGTATCGATACAT
45344 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:45340 original size:33 final size:33
Alignment explanation
Indices: 45298--45364 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
45288 GCCAAGGAAA
***
45298 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
45331 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
45364 T
1 T
45365 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:46568 original size:21 final size:21
Alignment explanation
Indices: 46539--46595 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
46529 AAATTATCCA
46539 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
46560 AATGGATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
46581 AATGTATCGATACAT
1 AATGTATCGATACAT
46596 CCTACAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:46675 original size:19 final size:19
Alignment explanation
Indices: 46651--46718 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
46641 AATTCAACAA
46651 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
46670 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
46685 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
46702 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
46719 TTACCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:46690 original size:13 final size:13
Alignment explanation
Indices: 46672--46696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46662 ACATAAGTTT
46672 TGTATCGATACAA
1 TGTATCGATACAA
46685 TGTATCGATACA
1 TGTATCGATACA
46697 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46694 original size:32 final size:32
Alignment explanation
Indices: 46653--46715 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
46643 TTCAACAATT
*
46653 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
46685 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
46716 TAATTACCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:46776 original size:13 final size:13
Alignment explanation
Indices: 46758--46783 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46748 CATTTTTCTG
46758 TGTATCGATACAT
1 TGTATCGATACAT
46771 TGTATCGATACAT
1 TGTATCGATACAT
46784 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46780 original size:33 final size:33
Alignment explanation
Indices: 46738--46804 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
46728 GCCAAGGAAA
***
46738 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
46771 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
46804 T
1 T
46805 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:48005 original size:21 final size:21
Alignment explanation
Indices: 47979--48035 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
47969 AAATTATCCA
47979 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
48000 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
48021 AATGTATCGATACAT
1 AATGTATCGATACAT
48036 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:48115 original size:19 final size:19
Alignment explanation
Indices: 48091--48158 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
48081 AATTCAACAA
48091 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
48110 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
48125 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
48142 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
48159 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:48130 original size:13 final size:13
Alignment explanation
Indices: 48112--48136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48102 ACATAAGTTT
48112 TGTATCGATACAA
1 TGTATCGATACAA
48125 TGTATCGATACA
1 TGTATCGATACA
48137 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48134 original size:32 final size:32
Alignment explanation
Indices: 48093--48155 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
48083 TTCAACAATT
*
48093 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
48125 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
48156 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:48216 original size:13 final size:13
Alignment explanation
Indices: 48198--48223 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48188 CATTTTTCTA
48198 TGTATCGATACAT
1 TGTATCGATACAT
48211 TGTATCGATACAT
1 TGTATCGATACAT
48224 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48220 original size:33 final size:33
Alignment explanation
Indices: 48178--48244 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
48168 GCCAAGGAAA
***
48178 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
48211 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
48244 T
1 T
48245 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:49444 original size:21 final size:21
Alignment explanation
Indices: 49418--49474 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
49408 AAATTATCCA
49418 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
49439 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
*
49460 AATGTACCGATACAT
1 AATGTATCGATACAT
49475 CCTACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:49554 original size:19 final size:19
Alignment explanation
Indices: 49530--49661 Score: 129
Period size: 19 Copynumber: 7.9 Consensus size: 19
49520 AATTCAACAA
49530 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
49549 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
49564 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
49581 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
49596 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
49613 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
49628 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
49645 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
49662 TTAGCTACTG
Statistics
Matches: 95, Mismatches: 0, Indels: 36
0.73 0.00 0.27
Matches are distributed among these distances:
13 33 0.35
15 6 0.06
17 6 0.06
19 50 0.53
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:49569 original size:13 final size:13
Alignment explanation
Indices: 49551--49639 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
49541 ACATAAGTTT
49551 TGTATCGATACAA
1 TGTATCGATACAA
49564 TGTATCGATACATAA
1 TGTATCGATAC--AA
49579 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
49596 TGTATCGATACATAA
1 TGTATCGATAC--AA
49611 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
49628 TGTATCGATACA
1 TGTATCGATACA
49640 TAAGTATTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49573 original size:32 final size:32
Alignment explanation
Indices: 49532--49658 Score: 245
Period size: 32 Copynumber: 4.0 Consensus size: 32
49522 TTCAACAATT
49532 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
49564 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
49596 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
49628 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
49659 TAATTAGCTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:49719 original size:13 final size:13
Alignment explanation
Indices: 49701--49726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49691 CATTTTTCTG
49701 TGTATCGATACAT
1 TGTATCGATACAT
49714 TGTATCGATACAT
1 TGTATCGATACAT
49727 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49723 original size:33 final size:33
Alignment explanation
Indices: 49681--49747 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49671 GCCAAGGAAA
***
49681 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
49714 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
49747 T
1 T
49748 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:52378 original size:52 final size:50
Alignment explanation
Indices: 52259--52480 Score: 174
Period size: 52 Copynumber: 4.3 Consensus size: 50
52249 TTATTTCCGA
* * * * *** *
52259 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCAATTTTA-TTCTAAAACACCAATTTTTCACAATC
* ** *
52310 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATT-CTAAAACACCAATTTTT-CACAATC
* * * * **
52362 GGGGATACTCCAACCCCAGTTTTATTTTCGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCAATTTTATTCT-AAAACACCAATTTTTC-ACAATC
* * * *
52414 GGGGATACTCCAACTCCAATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCAATTTTA-TT-CTAAAACACCAATTTTTCACAATC
*
52466 GAGGATACTCCAACC
1 GGGGATACTCCAACC
52481 TTGTTATTTC
Statistics
Matches: 137, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
50 2 0.01
51 36 0.26
52 84 0.61
53 15 0.11
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCAATTTTATTCTAAAACACCAATTTTTCACAATC
Found at i:52500 original size:28 final size:28
Alignment explanation
Indices: 52468--52539 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
52458 TCACAGTCGA
** * **
52468 GGATACTCCAACCTTGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
52496 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
52524 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
52540 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:52571 original size:263 final size:263
Alignment explanation
Indices: 52090--52590 Score: 776
Period size: 263 Copynumber: 1.9 Consensus size: 263
52080 TTCTCAATTC
* * *
52090 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTCCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGA
*
52155 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTACAACCC
66 TACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTACAACCC
*
52220 CGTTGATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATT
131 CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
* * * *
52285 TCCAAAATATTGATTTTTCATAATCGGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATAATGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
52350 TTT
261 TTT
* *
52353 TCCACAATCGGGGATACTCCAACCCC-AGTTTTATTTTCGAAACACCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTCAAAACACCAA-TTTCCTATAATCGGG
* * *
52417 GATACTCCAACTCCAATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAAC
64 GATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTACAAC
** *
52480 CTTGTT-ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCCGTTGA--TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTT
*
52544 TATTCCCAAAATAATGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATAATGATTTCTCATAATCGGGGATACTCCAACCCCG
52591 TTATTTTCGA
Statistics
Matches: 216, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
261 1 0.00
262 26 0.12
263 150 0.69
264 39 0.18
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCCTATAATCGGGGA
TACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTACAACCC
CGTTGATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATT
CCCAAAATAATGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:52642 original size:79 final size:79
Alignment explanation
Indices: 52493--52697 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
52483 GTTATTTCAT
* * *
52493 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAA
* *
52558 TGATTTCTCATAAT
66 TGATTTCTCACAAC
* * * * ** * *
52572 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAA
52636 TCGATTTCTCACAAC
66 T-GATTTCTCACAAC
* * * * * *
52651 CGGAGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCTAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
52698 TTATTATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 5 0.05
79 99 0.95
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAA
TGATTTCTCACAAC
Found at i:54221 original size:20 final size:19
Alignment explanation
Indices: 54194--54266 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
54184 ATCACTGTTC
54194 ATGTATCGATATATTGTGA
1 ATGTATCGATATATTGTGA
* **
54213 ATGGTATCGATACATCACTGTTC
1 AT-GTATCGAT--AT-ATTGTGA
54236 ATGTATCGATATATTGTGA
1 ATGTATCGATATATTGTGA
54255 ATAGTATCGATA
1 AT-GTATCGATA
54267 CATCACTGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
19 8 0.19
20 19 0.44
22 10 0.23
23 6 0.14
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
ATGTATCGATATATTGTGA
Found at i:54243 original size:42 final size:42
Alignment explanation
Indices: 54184--54275 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
54174 TTCACTATTT
*
54184 ATCACTGTTCATGTATCGATATATTGTGAATGGTATCGATAC
1 ATCACTGTTCATGTATCGATATATTGTGAATAGTATCGATAC
54226 ATCACTGTTCATGTATCGATATATTGTGAATAGTATCGATAC
1 ATCACTGTTCATGTATCGATATATTGTGAATAGTATCGATAC
54268 ATCACTGT
1 ATCACTGT
54276 CGCAACGTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (42 bp):
ATCACTGTTCATGTATCGATATATTGTGAATAGTATCGATAC
Found at i:55349 original size:79 final size:79
Alignment explanation
Indices: 55244--55445 Score: 246
Period size: 79 Copynumber: 2.6 Consensus size: 79
55234 GAGATAATAA
* ** * *
55244 CGGGGTTGGAGTATCCCCT-TGAAAATAACGGGGTTGGAGTATCCCCGCTTGTGAAAAATCGATG
1 CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-
*
55308 A-TTAGGAAATAAAAT
64 ATTTAGAAAATAAAAT
* *
55323 CGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* *
55388 TTTGAAAATAAAGT
66 TTAGAAAATAAAAT
* * **
55402 CGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCC
55446 ACGATGAAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 104 0.98
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTAGAAAATAAAAT
Found at i:55521 original size:52 final size:52
Alignment explanation
Indices: 55462--56120 Score: 272
Period size: 52 Copynumber: 12.6 Consensus size: 52
55452 AAATAACGAG
* *
55462 GTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
* * * * *
55514 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTTG-GAAATAAAATC-GGA
* * *
55567 GTTGGAGTATCCCCGATTGTGAAAAATT-A-GTGTTTTAGAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGT-TTTTGGAAATAAAATCGGA
* ** * ** *
55617 GGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGG-AATAAAGCCGGG
1 -GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
* *** ***
55668 GTTGGAGTATCCCC--TTGGAGGTAACGGGGTTGGA-GTATCCCCGATGAAAT--AA-C-GA
1 GTTGGAGTATCCCCGATT--ATG-AA--AAATT-GATGT-T-TTTG--GAAATAAAATCGGA
* * * * * *
55723 GGCTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGAA
1 -GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
* * * * *
55776 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTTG-GAAATAAAATCGGA
* * *
55829 GTTGGAGTATCCCCGATTATGAAAAATT-A-GTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGT-TTTTGGAAATAAAATCGGA
* * ** * * * *
55880 GTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAAT-AAAGCCGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
* *** **** *
55930 GGTTGGAGTATCCCCTCAGAGGTAATG--GGGTTGGA-GTATCCCCGACAA-AATAA-C-AA
1 -GTTGGAGTAT-CCC-C-GA--TTATGAAAAATT-GATGT-TTTTGGA-AATAA-AATCGGA
* * * *
55986 GGCTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
* * * * *
56039 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
*
56091 GTTGGAGTATCCCCGATTATGAACAATTGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGA
56121 GAAACTTAAC
Statistics
Matches: 444, Mismatches: 108, Indels: 111
0.67 0.16 0.17
Matches are distributed among these distances:
48 2 0.00
49 5 0.01
50 30 0.07
51 114 0.26
52 132 0.30
53 103 0.23
54 6 0.01
55 7 0.02
56 32 0.07
57 5 0.01
58 5 0.01
59 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTTGGAAATAAAATCGGA
Found at i:55571 original size:53 final size:51
Alignment explanation
Indices: 55461--56108 Score: 310
Period size: 51 Copynumber: 12.4 Consensus size: 51
55451 GAAATAACGA
* * * *
55461 GGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTTG-GAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGAGAAAAATTGGTG-TTTTGAGAAATAAAACCG
* * *
55512 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAAATAAAACCAG
1 G-GTTGGAGTATCCCCGATT-GAGAAAAATTGGTGTTTTGAGAAATAAAACC-G
* *
55566 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAACCG
1 GGTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTGAGAAATAAAACCG
* *** * *
55616 AGGTTGGAGTATCCCCGATT-ATGAGAAATCAATATTTTG-G-AATAAAGCCGG
1 -GGTTGGAGTATCCCCGATTGA-GAAAAATTGGTGTTTTGAGAAATAAAACC-G
*** * **
55667 GGTTGGAGTATCCCC--TTGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAT--AA-CG
1 GGTTGGAGTATCCCCGATT-GA-G-AA--AAATTGGTGT-T--TTGA-GAAATAAAACCG
* * * *
55722 AGGCTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGA-AAATAAAATCG
1 -GGTTGGAGTATCCCCGATTGAGAAAAATTGGTG-TTTTGAGAAATAAAACCG
* * * * *
55774 AAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAAATAAAATCGG
1 -GGTTGGAGTATCCCCGATT-GAGAAAAATTGGTGTTTTGAGAAATAAAA-CCG
*
55828 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGA-GAAAAATTGGTGTTTTGAGAAATAAAACC-G
* * *** * * *
55879 GGTTGGAGTATCCCCAATT-ATGAGAAATCAATATTTTG-GGAATAAAGCCG
1 GGTTGGAGTATCCCCGATTGA-GAAAAATTGGTGTTTTGAGAAATAAAACCG
* *** * ** * * **
55929 AGGTTGGAGTATCCCC--TCAGAGGTAATGGGGTTGGAGTATCCCCGACAAA-ATAACAA
1 -GGTTGGAGTATCCCCGAT-TGA-G-AA--AAATTGGTGT-T--TTGAGAAATAAAACCG
* * * *
55986 GGCTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTG-GAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGAGAAAAATTGGTG-TTTTGAGAAATAAAACCG
* * *
56037 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAATCGG
1 G-GTTGGAGTATCCCCGATT-GAGAAAAATTGGTGTTTTGAGAAATAAAA-CCG
56090 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
56109 ATGAACAATT
Statistics
Matches: 446, Mismatches: 101, Indels: 99
0.69 0.16 0.15
Matches are distributed among these distances:
48 2 0.00
49 5 0.01
50 31 0.07
51 124 0.28
52 123 0.28
53 101 0.23
54 8 0.02
55 6 0.01
56 30 0.07
57 7 0.02
58 6 0.01
59 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTGAGAAATAAAACCG
Found at i:55720 original size:28 final size:29
Alignment explanation
Indices: 55664--55740 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
55654 GGAATAAAGC
* **
55664 CGGGGTTGGAGTATCCCC-TTGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
55692 CGGGGTTGGAGTATCCCCGAT-GAAATAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
* * *
55720 CGAGGCTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
55741 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCGATGGAAATAA
Found at i:56062 original size:263 final size:263
Alignment explanation
Indices: 55351--56118 Score: 1324
Period size: 262 Copynumber: 2.9 Consensus size: 263
55341 TCAGAAATAA
** * *
55351 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGAAAATAAAGTCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* *
55416 CCCCTCGGAGGTAACGGGGTTGGAGTATCCACGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGCTGGAGTATCCTCGATTG
*
55481 TGAAAAATTGATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
* * *
55546 GTTTTGAAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAA
196 GTTTTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAA
55611 AAC
261 AAC
* *
55614 CGAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT-GGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
*
55678 CCCCTTGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGCTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGCTGGAGTATCCTCGATTG
* *
55743 TGAAAAATTGGTGTTTTTGAAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
55808 GTTTTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAA
196 GTTTTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAA
55873 AAC
261 AAC
*
55876 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* * ** *
55941 CCCCTCAGAGGTAATGGGGTTGGAGTATCCCCGACAAAATAACAAGGCTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGCTGGAGTATCCTCGATTG
56006 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
*
56071 GTTTTG-AAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAACAATT
196 GTTTTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATT
56119 GAGAAACTTA
Statistics
Matches: 477, Mismatches: 27, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
262 288 0.60
263 189 0.40
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGCTGGAGTATCCTCGATTG
TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
GTTTTGAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAA
AAC
Found at i:58485 original size:20 final size:20
Alignment explanation
Indices: 58460--58513 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
58450 AACTTCCTAA
*
58460 ATGTATCGATACAAAGATTG
1 ATGTATCGATACAAAGATCG
58480 ATGTATCGATACAAAGATCG
1 ATGTATCGATACAAAGATCG
58500 ATGTATCGATACAA
1 ATGTATCGATACAA
58514 TGTATCGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCG
Found at i:58518 original size:13 final size:13
Alignment explanation
Indices: 58500--58525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58490 ACAAAGATCG
58500 ATGTATCGATACA
1 ATGTATCGATACA
58513 ATGTATCGATACA
1 ATGTATCGATACA
58526 TTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:58536 original size:21 final size:21
Alignment explanation
Indices: 58512--58553 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
58502 GTATCGATAC
58512 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
*
58533 AATGTATCGATAGATTTCCTT
1 AATGTATCGATACATTTCCTT
58554 GGTAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:60312 original size:38 final size:35
Alignment explanation
Indices: 60249--60334 Score: 86
Period size: 38 Copynumber: 2.4 Consensus size: 35
60239 TTTTTTAAAT
60249 TTAATTAA-ATATTATTTTTTATTTTATAAAAATAA
1 TTAATTAATATATTATTTTTTATTTTA-AAAAATAA
* **
60284 -TAATTAATATATTATTTATTAATTTTTTAAAATTTAA
1 TTAATTAATATATTATTT-TT--TATTTTAAAAAATAA
*
60321 TTAATTTATATATT
1 TTAATTAATATATT
60335 GAAAAATCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
34 7 0.17
35 9 0.21
36 2 0.05
37 6 0.14
38 18 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TTAATTAATATATTATTTTTTATTTTAAAAAATAA
Found at i:60617 original size:16 final size:15
Alignment explanation
Indices: 60596--60644 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
60586 CGGGCAGATG
60596 AGAAAGAAAGAAGGAA
1 AGAAAGAAAGAA-GAA
*
60612 AGAAAGAAAGGAGAA
1 AGAAAGAAAGAAGAA
*
60627 AAAAAGAAA-AA-AA
1 AGAAAGAAAGAAGAA
60640 AGAAA
1 AGAAA
60645 AAAATTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 6 0.21
14 1 0.03
15 11 0.38
16 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAGAA
Found at i:60639 original size:9 final size:9
Alignment explanation
Indices: 60610--60648 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
60600 AGAAAGAAGG
*
60610 AAAGAAAGA
1 AAAGAAAAA
*
60619 AAGGAGAAAA
1 AAAGA-AAAA
60629 AAAGAAAAA
1 AAAGAAAAA
60638 AAAGAAAAA
1 AAAGAAAAA
60647 AA
1 AA
60649 TTATATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:61201 original size:22 final size:21
Alignment explanation
Indices: 61155--61201 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
61145 CATATTCATG
* *
61155 TTATTTTTTATTATGTTTTAA
1 TTATTTTTTATTATATTATAA
*
61176 TTATTTTTTATTTATATTATAT
1 TTATTTTTTA-TTATATTATAA
61198 TTAT
1 TTAT
61202 ATCATATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTTTTTATTATATTATAA
Found at i:61838 original size:17 final size:19
Alignment explanation
Indices: 61818--61859 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
61808 TATATTTGTA
*
61818 TTATATCTTA-ATTTA-TT
1 TTATATCTTATATATATTT
*
61835 TTATATTTTATATATATTT
1 TTATATCTTATATATATTT
61854 TTATAT
1 TTATAT
61860 GATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATCTTATATATATTT
Found at i:62082 original size:4 final size:4
Alignment explanation
Indices: 62073--62139 Score: 88
Period size: 4 Copynumber: 17.8 Consensus size: 4
62063 ATTTTTAGGT
* *
62073 AAAG AAAG AAAG AAAG AAAG AAA- AAAG AAAG AATG AAAG AAAA AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
62120 AAAG -AAG AAA- AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAA
62140 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
3 12 0.21
4 44 0.79
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:62101 original size:19 final size:18
Alignment explanation
Indices: 62077--62156 Score: 94
Period size: 17 Copynumber: 4.4 Consensus size: 18
62067 TTAGGTAAAG
62077 AAAGAAAGAAAGAAAGAAA
1 AAAGAAAGAAAGAAA-AAA
*
62096 AAAGAAAGAATGAAAGAAAA
1 AAAGAAAGAAAG-AA-AAAA
62116 AAAGAAAG-AAGAAAAAA
1 AAAGAAAGAAAGAAAAAA
62133 AAAGAAA-AAA-AATAAAA
1 AAAGAAAGAAAGAA-AAAA
62150 AAAGAAA
1 AAAGAAA
62157 AAATTATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.04
17 24 0.44
18 2 0.04
19 13 0.24
20 13 0.24
21 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAAGAAAAAA
Found at i:62103 original size:23 final size:23
Alignment explanation
Indices: 62073--62142 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
62063 ATTTTTAGGT
62073 AAAGAAAGAAAGAAAGAAAGAAA
1 AAAGAAAGAAAGAAAGAAAGAAA
* *
62096 AAAGAAAGAATGAAAGAAAAAAA
1 AAAGAAAGAAAGAAAGAAAGAAA
62119 GAAAG-AAGAAA-AAA-AAAGAAA
1 -AAAGAAAGAAAGAAAGAAAGAAA
62140 AAA
1 AAA
62143 AATAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 3 0.07
21 6 0.14
22 3 0.07
23 26 0.62
24 4 0.10
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAGAAAGAAA
Found at i:62111 original size:27 final size:27
Alignment explanation
Indices: 62073--62156 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 27
62063 ATTTTTAGGT
*
62073 AAAGAAAGAAAGAAAGAAAGAAAAAAG
1 AAAGAAAGAAAGAAAAAAAGAAAAAAG
* *
62100 AAAGAATGAAAGAAAAAAAGAAAGAAG
1 AAAGAAAGAAAGAAAAAAAGAAAAAAG
*
62127 AAA-AAA-AAAGAAAAAAA-ATAAAA-
1 AAAGAAAGAAAGAAAAAAAGAAAAAAG
62150 AAAGAAA
1 AAAGAAA
62157 AAATTATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.06
24 7 0.14
25 11 0.22
26 2 0.04
27 27 0.54
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAGAAAGAAAGAAAAAAAGAAAAAAG
Found at i:62140 original size:8 final size:8
Alignment explanation
Indices: 62077--62159 Score: 71
Period size: 8 Copynumber: 10.2 Consensus size: 8
62067 TTAGGTAAAG
*
62077 AAAGAAAG
1 AAAGAAAA
*
62085 AAAGAAAG
1 AAAGAAAA
*
62093 AAA-AAAG
1 AAAGAAAA
**
62100 AAAGAATG
1 AAAGAAAA
62108 AAAGAAAA
1 AAAGAAAA
62116 AAAGAAAGA
1 AAAGAAA-A
62125 AGAA-AAAA
1 A-AAGAAAA
62133 AAAGAAAAA
1 AAAG-AAAA
*
62142 AAATAAAA
1 AAAGAAAA
62150 AAAGAAAA
1 AAAGAAAA
62158 AA
1 AA
62160 TTATAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
7 9 0.14
8 42 0.65
9 12 0.18
10 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:62157 original size:17 final size:18
Alignment explanation
Indices: 62072--62170 Score: 89
Period size: 17 Copynumber: 5.4 Consensus size: 18
62062 TATTTTTAGG
*
62072 TAAAGAAAGAAAGAAAGAA
1 TAAAAAAAGAAAGAAA-AA
62091 -AGAAAAAAGAAAGAATGAAA
1 TA-AAAAAAGAAAGAA--AAA
* *
62111 GAAAAAAAGAAAGAAGAA
1 TAAAAAAAGAAAGAAAAA
62129 -AAAAAAAGAAA-AAAAA
1 TAAAAAAAGAAAGAAAAA
*
62145 TAAAAAAAGAAA-AAATTA
1 TAAAAAAAGAAAGAAA-AA
62163 TAAAAAAA
1 TAAAAAAA
62171 TTTATATGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.06
17 25 0.36
18 12 0.17
19 12 0.17
20 15 0.21
21 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (18 bp):
TAAAAAAAGAAAGAAAAA
Found at i:62167 original size:15 final size:15
Alignment explanation
Indices: 62073--62160 Score: 65
Period size: 15 Copynumber: 5.7 Consensus size: 15
62063 ATTTTTAGGT
* *
62073 AAAGAAAGAAAGAAAG
1 AAAGAAA-AAATAAAA
* *
62089 AAAGAAAAAAGAAAG
1 AAAGAAAAAATAAAA
*
62104 AATGAAAGAAA-AAAA
1 AAAGAAA-AAATAAAA
62119 GAAAGAAGAAAA-AAAA
1 -AAAGAA-AAAATAAAA
62135 AGAA-AAAAAATAAAA
1 A-AAGAAAAAATAAAA
62150 AAAGAAAAAAT
1 AAAGAAAAAAT
62161 TATAAAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.10
15 32 0.51
16 24 0.38
17 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAATAAAA
Found at i:62167 original size:27 final size:26
Alignment explanation
Indices: 62089--62170 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
62079 AGAAAGAAAG
* *
62089 AAAGAAAAAAGAAAGAATGAAAGAAAA
1 AAAGAAAAAAGAAAAAAT-AAAAAAAA
*
62116 AAAGAAAGAAGAAAAAA-AAAGAAAAA
1 AAAGAAAAAAGAAAAAATAAA-AAAAA
* * *
62142 AAATAAAAAAAGAAAAAATTATAAAAA
1 AAA-GAAAAAAGAAAAAATAAAAAAAA
62169 AA
1 AA
62171 TTTATATGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.07
26 7 0.16
27 34 0.76
28 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (26 bp):
AAAGAAAAAAGAAAAAATAAAAAAAA
Found at i:62235 original size:24 final size:25
Alignment explanation
Indices: 62173--62235 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 25
62163 TAAAAAAATT
* *
62173 TATATGTTTG-TATTTATATTTTTTT
1 TATATTTTTGATA-TTATATTTTTTG
***
62198 TATATTTAAAATATTATA-TTTTTG
1 TATATTTTTGATATTATATTTTTTG
62222 TATATTTTTGATAT
1 TATATTTTTGATAT
62236 ATTAATAATT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
24 16 0.55
25 11 0.38
26 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (25 bp):
TATATTTTTGATATTATATTTTTTG
Found at i:62237 original size:35 final size:37
Alignment explanation
Indices: 62187--62277 Score: 93
Period size: 37 Copynumber: 2.5 Consensus size: 37
62177 TGTTTGTATT
*
62187 TATATTTTTTTTATATTTAA-AA-TATTATATTTT-TG
1 TATA-TTTTTATATATTTAATAATTATTATATTTTATG
*
62222 TATATTTTTGATATA-TTAATAATTTATTTTATTTTATG
1 TATATTTTT-ATATATTTAATAA-TTATTATATTTTATG
62260 TAT-TCTTTTATATATTTA
1 TATAT-TTTTATATATTTA
62278 TTATTTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
34 9 0.19
35 10 0.21
37 16 0.34
38 12 0.26
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (37 bp):
TATATTTTTATATATTTAATAATTATTATATTTTATG
Found at i:62284 original size:16 final size:16
Alignment explanation
Indices: 62245--62291 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
62235 TATTAATAAT
*
62245 TTATTTTATTTTATGTA
1 TTATTTTA-TATATGTA
* *
62262 TTCTTTTATATATTTA
1 TTATTTTATATATGTA
62278 TTATTTTATATATG
1 TTATTTTATATATG
62292 AGAAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (16 bp):
TTATTTTATATATGTA
Found at i:62358 original size:19 final size:19
Alignment explanation
Indices: 62330--62391 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
62320 TATTATTTAA
62330 AATA-TTATAAATTTATGT
1 AATATTTATAAATTTATGT
*
62348 AATATTTATAAATATT-TTT
1 AATATTTATAAAT-TTATGT
* * *
62367 TATATTTGTATATTTATGT
1 AATATTTATAAATTTATGT
*
62386 CATATT
1 AATATT
62392 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.17
19 27 0.77
20 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
AATATTTATAAATTTATGT
Found at i:70251 original size:2 final size:2
Alignment explanation
Indices: 70244--70283 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
70234 CAGTTATTAG
*
70244 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70284 GTTAAGTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:70498 original size:8 final size:9
Alignment explanation
Indices: 70486--70518 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
70476 TTTTGCTCTT
70486 ATATATAT-
1 ATATATATC
70494 ATATATATC
1 ATATATATC
70503 ATAT-TATC
1 ATATATATC
70511 ATATATAT
1 ATATATAT
70519 GTATTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATATATC
Found at i:71625 original size:18 final size:19
Alignment explanation
Indices: 71602--71649 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
71592 TAAAATAGTT
71602 TTTTATAAATTT-AATTTA
1 TTTTATAAATTTAAATTTA
* * *
71620 TTTTATGAGTTTAAAATTTT
1 TTTTATAAATTT-AAATTTA
71640 TTTTATAAAT
1 TTTTATAAAT
71650 ATCAATTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 10 0.43
20 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATAAATTTAAATTTA
Found at i:72143 original size:13 final size:12
Alignment explanation
Indices: 72123--72160 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
72113 ATTAGATATA
*
72123 TAAATTTTCAAT
1 TAAATTTTTAAT
72135 TAAATTTTT-AT
1 TAAATTTTTAAT
72146 TAATATTTTTAAT
1 TAA-ATTTTTAAT
72159 TA
1 TA
72161 TTTTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 5 0.22
12 14 0.61
13 4 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATTTTTAAT
Found at i:76913 original size:15 final size:15
Alignment explanation
Indices: 76893--76923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76883 TATCATATCT
*
76893 TCATACATATATACA
1 TCATACATATAAACA
76908 TCATACATATAAACA
1 TCATACATATAAACA
76923 T
1 T
76924 ACACATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (15 bp):
TCATACATATAAACA
Found at i:77580 original size:13 final size:13
Alignment explanation
Indices: 77562--77586 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77552 CATAAAGTGT
77562 TGTATCGATACAA
1 TGTATCGATACAA
77575 TGTATCGATACA
1 TGTATCGATACA
77587 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:77602 original size:32 final size:33
Alignment explanation
Indices: 77542--77607 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
77532 TTCAACGATT
77542 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
77575 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
77607 T
1 T
77608 AAAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:77666 original size:13 final size:13
Alignment explanation
Indices: 77648--77672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77638 ATTACTCAAA
77648 TGTATCGATACAT
1 TGTATCGATACAT
77661 TGTATCGATACA
1 TGTATCGATACA
77673 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81863 original size:100 final size:99
Alignment explanation
Indices: 81690--81912 Score: 281
Period size: 100 Copynumber: 2.2 Consensus size: 99
81680 CTTCTCGAAG
* * *
81690 GAATGAGGTTGAAGTAT-CTCTGATGATGACAATTTAGGCAAAAAAACAAAATTTAAATCTTGCT
1 GAATGGGGTTGGAGTATCCTC-GATGATGACAATTTAAGCAAAAAAACAAAATTTAAATCTTGCT
* * *
81754 AAGTTTTAAAAACGGGGTTGGAGTATCTCCTTAGAA
65 AAGCTTTAAAAACGGGGTTAGAGTATC-CCATAGAA
* *
81790 GAATGGGGTTGGAGTATCCTCGATGATGACAATTTAAGCAAAAAAATAAGATTTAAATCTTGAC-
1 GAATGGGGTTGGAGTATCCTCGATGATGACAATTTAAGCAAAAAAACAAAATTTAAATCTTG-CT
* *
81854 AAGCTTTAAAAATGGGGTTAGAGTATCCCATCGAA
65 AAGCTTTAAAAACGGGGTTAGAGTATCCCATAGAA
* *
81889 -AGATGGGGTTAGAGTATCCCCGAT
1 GA-ATGGGGTTGGAGTATCCTCGAT
81913 AAATAAAAGT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
98 1 0.01
99 26 0.24
100 77 0.71
101 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (99 bp):
GAATGGGGTTGGAGTATCCTCGATGATGACAATTTAAGCAAAAAAACAAAATTTAAATCTTGCTA
AGCTTTAAAAACGGGGTTAGAGTATCCCATAGAA
Found at i:86963 original size:21 final size:20
Alignment explanation
Indices: 86916--86969 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
86906 CATTTTAGGC
*
86916 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTGACTT
*
86936 ATGTATCGATACATTGCCTT
1 ATGTATCGATACATTGACTT
86956 ATTGTATCGATACA
1 A-TGTATCGATACA
86970 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGACTT
Found at i:87791 original size:52 final size:51
Alignment explanation
Indices: 87728--87863 Score: 121
Period size: 52 Copynumber: 2.6 Consensus size: 51
87718 TGCCTACATG
* * *
87728 TATCGATACATTAAAGAATATATCAATATATTTGGGTCAAAAACCTAGAATA
1 TATCGACACATTAAAGAATATATCAATACATTTAGGTC-AAAACCTAGAATA
* * * * * **
87780 TATCGACACATTGAAGAGTGTATCGATACATTTAGGTCCAAACCTAGAAGG
1 TATCGACACATTAAAGAATATATCAATACATTTAGGTCAAAACCTAGAATA
* * * *
87831 TATCGATACAATGAAA-AATGTATCGATACATTT
1 TATCGACAC-ATTAAAGAATATATCAATACATTT
87864 TCATTCCAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
51 34 0.49
52 35 0.51
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (51 bp):
TATCGACACATTAAAGAATATATCAATACATTTAGGTCAAAACCTAGAATA
Found at i:87835 original size:51 final size:52
Alignment explanation
Indices: 87727--87863 Score: 159
Period size: 51 Copynumber: 2.7 Consensus size: 52
87717 TTGCCTACAT
* * * * * *
87727 GTATCGATACATTAAAGAATATATCAATATATTTGGGTCAAAAACCTAGAAT
1 GTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCTAGAAG
* * * *
87779 ATATCGACACATTGAAGAGTGTATCGATACATTTAGGTC-CAAACCTAGAAG
1 GTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCTAGAAG
* *
87830 GTATCGATACAATGAAAAATGTATCGATACATTT
1 GTATCGATACATTGAAGAATGTATCGATACATTT
87864 TCATTCCAGA
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 39 0.56
52 31 0.44
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (52 bp):
GTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCTAGAAG
Found at i:93829 original size:16 final size:17
Alignment explanation
Indices: 93738--93838 Score: 86
Period size: 16 Copynumber: 5.9 Consensus size: 17
93728 TGTAGATTTC
93738 CAGATTTT-TAGATTTT-
1 CAGATTTTCT-GATTTTG
* *
93754 TAGATTTCCTGATTTCTAG
1 CAGATTTTCTGATTT-T-G
93773 CAGATTTTCTGATTTCTG
1 CAGATTTTCTGATTT-TG
93791 CAGATTTT-TAGA-TTTG
1 CAGATTTTCT-GATTTTG
*
93807 CAAATTTTCTGATTTTG
1 CAGATTTTCTGATTTTG
*
93824 -AGATTTCCTGATTTT
1 CAGATTTTCTGATTTT
93839 TTAGATATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
16 35 0.49
17 10 0.14
18 11 0.15
19 15 0.21
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (17 bp):
CAGATTTTCTGATTTTG
Found at i:97014 original size:52 final size:52
Alignment explanation
Indices: 96925--97053 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
96915 CGAAATATGA
* *
96925 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
* * *
96977 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
*
97029 AAATTTGCCTGTATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
97054 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
Found at i:97066 original size:52 final size:51
Alignment explanation
Indices: 96925--97073 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 51
96915 CGAAATATGA
*
96925 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* * * *
96977 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* *
97029 AAATTTGCCTGTATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
97074 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:97080 original size:13 final size:13
Alignment explanation
Indices: 97062--97086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97052 CAAAGATCAG
97062 TGTATCGATACAA
1 TGTATCGATACAA
97075 TGTATCGATACA
1 TGTATCGATACA
97087 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97170 original size:13 final size:13
Alignment explanation
Indices: 97152--97176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97142 CAAAAAAATA
97152 TGTATCGATACAT
1 TGTATCGATACAT
97165 TGTATCGATACA
1 TGTATCGATACA
97177 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:97172 original size:33 final size:33
Alignment explanation
Indices: 97130--97196 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
97120 AGTAGCTTAA
97130 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
97163 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
97196 A
1 A
97197 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:97995 original size:165 final size:163
Alignment explanation
Indices: 97763--98270 Score: 591
Period size: 165 Copynumber: 3.1 Consensus size: 163
97753 ATTAGACCTC
* * * * *
97763 TAAACTTTTGAAAATTTCATTTCGTACTCAACATAAAA-CCAAAAAGATATGAAAAATCTTGAAA
1 TAAACTTTTGAAAATTTCATTTCATAC-CAACAGAAAATCGAGAAA-ATATGAAAAGTCTTGAAA
97827 ATTTTTATA-CCCTATAGAACTCTATAAGAATAATAAAAATATTTTAAAATGACTAAAATGATGA
64 ATTTTTATACCCCTATAGAACTC-ATAAGAATAATAAAAATATTTTAAAATGACTAAAATGATGA
*
97891 TTATACCTCTAGCAATTAAAATTTGCTATTTAATTCT
128 TTTTACCTCTAG-AATTAAAATTTGCTATTTAATTCT
* * * * *
97928 TAAACTTTTGAAAGTTTCATTTCATGCCCAACGGAAAATTGAGAAAATACT-AAAAGTCTTAAAA
1 TAAACTTTTGAAAATTTCATTTCAT-ACCAACAGAAAATCGAGAAAATA-TGAAAAGTCTTGAAA
* * ** *
97992 ATTTCTATACCCCTACAGAAGGGCATAAGAATAAT-AGAA-ATTTTAAAAGTGACTAAAATGATG
64 ATTTTTATACCCCTATAGAA-CTCATAAGAATAATAAAAATATTTTAAAA-TGACTAAAATGATG
* * *
98055 ATTTTACCTCTAGACATTAAAATTTACTATTTAATCCC
127 ATTTTACCTCTAGA-ATTAAAATTTGCTATTTAATTCT
* * **
98093 TAAACTTTTAAAAATTTCATTTCATACCGACAGAAAATCGAGAGGATATGAAAAGTCTTGAAAAT
1 TAAACTTTTGAAAATTTCATTTCATACCAACAGAAAATCGAGAAAATATGAAAAGTCTTGAAAAT
* * * *
98158 TTTTATACCCCTACTGAAAACTC-TAAGAATAATAGAAAT-TTTTAAAAATGACTTAAATTATGA
66 TTTTATACCCCTA-T-AGAACTCATAAGAATAATAAAAATATTTT-AAAATGACTAAAATGATGA
98221 TTTTACCTCTA-AATACTAAAATTTGCTATTTAATTCT
128 TTTTACCTCTAGAAT--TAAAATTTGCTATTTAATTCT
98258 TAAACTTTTGAAA
1 TAAACTTTTGAAA
98271 TTTTTTATTT
Statistics
Matches: 287, Mismatches: 41, Indels: 30
0.80 0.11 0.08
Matches are distributed among these distances:
163 3 0.01
164 64 0.22
165 186 0.65
166 33 0.11
167 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (163 bp):
TAAACTTTTGAAAATTTCATTTCATACCAACAGAAAATCGAGAAAATATGAAAAGTCTTGAAAAT
TTTTATACCCCTATAGAACTCATAAGAATAATAAAAATATTTTAAAATGACTAAAATGATGATTT
TACCTCTAGAATTAAAATTTGCTATTTAATTCT
Found at i:100021 original size:71 final size:70
Alignment explanation
Indices: 99895--100082 Score: 241
Period size: 71 Copynumber: 2.6 Consensus size: 70
99885 AAAAATCATA
* *** * *
99895 TTTTTACCCAGATGTATCTATACATTGGAAAAATATATCGATACATGTATGAATGTATTGATATA
1 TTTTTACCCAGATGTATCGATACATT--TTTAATATATCGATACATGTATGAATGTATCGATACA
* *
99960 TTTTTTC
64 TTCTGTC
99967 TTTTTTACCCAGATGTATCGATACATTTTTAATATATCGATACATGTATGAATGTATCGATACAT
1 -TTTTTACCCAGATGTATCGATACATTTTTAATATATCGATACATGTATGAATGTATCGATACAT
100032 TCTGTC
65 TCTGTC
* * *
100038 CTTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTT-AATATATCGATACAT
100083 TCTGTCTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
70 27 0.26
71 51 0.50
73 25 0.24
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (70 bp):
TTTTTACCCAGATGTATCGATACATTTTTAATATATCGATACATGTATGAATGTATCGATACATT
CTGTC
Found at i:100026 original size:20 final size:19
Alignment explanation
Indices: 99979--100032 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
99969 TTTTACCCAG
* *
99979 ATGTATCGATACATTTTTA
1 ATGTATCGATACATTATGA
*
99998 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
100018 ATGTATCGATACATT
1 ATGTATCGATACATT
100033 CTGTCCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:100072 original size:51 final size:51
Alignment explanation
Indices: 100017--100133 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
100007 TACATGTATG
* * * **
100017 AATGTATCGATACATTCTGTCCTTTTACCCAGATGTATCGATATATT-TTT
1 AATGTATCGATACATTCTGTCCTTTTACCCAAATGTATCCATACATTGAAT
*
100067 CAATGTATCGATACATTCTGTCTTTTTACCCAAATGTATCCATACATTGAAT
1 -AATGTATCGATACATTCTGTCCTTTTACCCAAATGTATCCATACATTGAAT
100119 AATGTATCGATACAT
1 AATGTATCGATACAT
100134 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (51 bp):
AATGTATCGATACATTCTGTCCTTTTACCCAAATGTATCCATACATTGAAT
Found at i:106282 original size:52 final size:52
Alignment explanation
Indices: 106195--106319 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
106185 ATATAAAAAG
* * *
106195 TTGCTTGCTTGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
106247 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
106299 TTGCCTGCCTGTATCGATACA
1 TTGCCTGCATGTATCGATACA
106320 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:106332 original size:52 final size:52
Alignment explanation
Indices: 106195--106339 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
106185 ATATAAAAAG
* * *
106195 TTGCTTGCTTGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAAT
*** *
106247 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
*
106299 TTGCCTGCCTGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
106340 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 78 0.95
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:106346 original size:13 final size:13
Alignment explanation
Indices: 106328--106352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106318 CAAAGATCAG
106328 TGTATCGATACAA
1 TGTATCGATACAA
106341 TGTATCGATACA
1 TGTATCGATACA
106353 TTTGAGTTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106430 original size:33 final size:33
Alignment explanation
Indices: 106393--106459 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
106383 AGTAGCTTAA
106393 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
106426 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
106459 A
1 A
106460 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:106433 original size:13 final size:13
Alignment explanation
Indices: 106415--106439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106405 CAAAAAAATA
106415 TGTATCGATACAT
1 TGTATCGATACAT
106428 TGTATCGATACA
1 TGTATCGATACA
106440 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:117681 original size:8 final size:8
Alignment explanation
Indices: 117668--117748 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
117658 CTTCGTACAA
117668 AAAAAAAC
1 AAAAAAAC
117676 AAAAAAA-
1 AAAAAAAC
*
117683 AAACTAAGA-
1 AAA--AAAAC
117692 AAAAAAAC
1 AAAAAAAC
117700 AAAAAAAC
1 AAAAAAAC
117708 AGAAAAAACC
1 A-AAAAAA-C
*
117718 AAAATAA-
1 AAAAAAAC
117725 AAAAAAAC
1 AAAAAAAC
*
117733 AAATAAAC
1 AAAAAAAC
117741 AAACAAAA
1 AAA-AAAA
117749 AAGGGTCCAG
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 12 0.20
8 26 0.43
9 20 0.33
10 2 0.03
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (8 bp):
AAAAAAAC
Found at i:117711 original size:19 final size:21
Alignment explanation
Indices: 117664--117750 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 21
117654 CGTCCTTCGT
*
117664 ACAAAAAAAAACAAAAAAAAA
1 ACAAGAAAAAACAAAAAAAAA
*
117685 ACTAAGAAAAAA-AACAAAAAA
1 AC-AAGAAAAAACAAAAAAAAA
117706 AC-AGAAAAAACCAAAATAAAAA
1 ACAAGAAAAAA-CAAAA-AAAAA
* * *
117728 AAAACAAATAAACAAACAAAAA
1 ACAAGAAA-AAACAAAAAAAAA
117750 A
1 A
117751 GGGTCCAGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
19 8 0.15
21 15 0.28
22 20 0.37
23 8 0.15
24 3 0.06
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.03
Consensus pattern (21 bp):
ACAAGAAAAAACAAAAAAAAA
Found at i:117721 original size:15 final size:15
Alignment explanation
Indices: 117666--117735 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
117656 TCCTTCGTAC
117666 AAAAA-AAAACAAAAA
1 AAAAACAAAAC-AAAA
117681 AAAAACTAAGAA-AAAA
1 AAAAAC-AA-AACAAAA
*
117697 AACAAA-AAAACAGAA
1 AA-AAACAAAACAAAA
* *
117712 AAAACCAAAATAAAA
1 AAAAACAAAACAAAA
117727 AAAAACAAA
1 AAAAACAAA
117736 TAAACAAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 4 0.09
15 27 0.61
16 6 0.14
17 5 0.11
18 2 0.05
ACGTcount: A:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (15 bp):
AAAAACAAAACAAAA
Found at i:117721 original size:23 final size:23
Alignment explanation
Indices: 117671--117750 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
117661 CGTACAAAAA
* * *
117671 AAAACAAAAAAAAAACTAAGAAAA
1 AAAAC-AAAAAAAAACAAATAAAC
* *
117695 AAAACAAAAAAACAGAAA-AAACC
1 AAAACAAAAAAAAACAAATAAA-C
*
117718 AAAATAAAAAAAAACAAATAAAC
1 AAAACAAAAAAAAACAAATAAAC
117741 -AAACAAAAAA
1 AAAACAAAAAA
117751 GGGTCCAGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 12 0.26
23 26 0.57
24 8 0.17
ACGTcount: A:0.82, C:0.11, G:0.03, T:0.04
Consensus pattern (23 bp):
AAAACAAAAAAAAACAAATAAAC
Found at i:119026 original size:28 final size:28
Alignment explanation
Indices: 118995--119555 Score: 651
Period size: 28 Copynumber: 19.9 Consensus size: 28
118985 TGTTCATCTC
* *
118995 TTCAAAGCCCACAGGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
119023 TTCAAAACCCACAAGTTAGTGACATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
119051 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
119079 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
119107 TTCAAAGCCCAAAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
119135 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
119163 TTTAAAGCACACAAGTTAGTAGCTTCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
119191 TCCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
119219 TTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
119247 TTCAAAGCCCATAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
119275 TCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
119303 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
119331 TTCAAAGCCCACACAAATCAATGGCA-CCC
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
* *
119360 TTCTAAAGCCCACAAGTCAATGGCACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
119389 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
119417 TTCAAAGCCCACAAGTCAATGGTA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
119444 CTTCGAAGCCCACAAGTTAGTGGCACCCT
1 -TTCAAAGCCCACAAGTCAGTGGCATCCT
*
119473 TTCAAAACCCACAAGTCAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
119503 TTCAAAGCCCACAAGTCGGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
119531 TTCAGACCCACACAAGTCGGTGGCA
1 TTCAAAGCC-CACAAGTCAGTGGCA
119556 ACTTTTTTTA
Statistics
Matches: 462, Mismatches: 60, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.01
28 384 0.83
29 33 0.07
30 41 0.09
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:120505 original size:20 final size:19
Alignment explanation
Indices: 120451--120506 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
120441 TTTTTACTCA
*
120451 AATGTATCGATACAATTTTC
1 AATGTATCGATAC-ATTATC
* *
120471 AATGTATCAATACATGTATG
1 AATGTATCGATACAT-TATC
120491 AATGTATCGATACATT
1 AATGTATCGATACATT
120507 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
AATGTATCGATACATTATC
Found at i:120549 original size:20 final size:20
Alignment explanation
Indices: 120524--120669 Score: 121
Period size: 20 Copynumber: 6.8 Consensus size: 20
120514 TTTTACCCAG
* *
120524 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
120544 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
120564 ATGTATCGATACATTCTATCTTTTTACCTA
1 ATGTATCGATACATT-TA------T--C-A
*
120594 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTATCA
* *
120615 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
*
120635 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
120655 ATGTATCGATACATT
1 ATGTATCGATACATT
120670 CTGTCTTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
20 79 0.77
21 3 0.03
22 1 0.01
24 1 0.01
27 1 0.01
30 2 0.02
31 15 0.15
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:120568 original size:40 final size:40
Alignment explanation
Indices: 120524--120668 Score: 175
Period size: 40 Copynumber: 3.9 Consensus size: 40
120514 TTTTACCCAG
*
120524 ATGTATTGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* * *
120564 ATGTATCGATACATTCTATC--T-T-T--TTAC--CTA-G-
1 ATGTATCGATACATT-TTTCAATGTATCGATACATGTATGA
120595 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
120635 ATGTATCGATACATTTTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
120669 TCTGTCTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
30 3 0.03
31 15 0.17
32 2 0.02
33 3 0.03
34 1 0.01
35 3 0.03
36 3 0.03
37 1 0.01
38 3 0.03
39 2 0.02
40 48 0.55
41 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
Found at i:120606 original size:71 final size:72
Alignment explanation
Indices: 120441--120649 Score: 348
Period size: 72 Copynumber: 2.9 Consensus size: 72
120431 AAAAGTCACA
* * * *
120441 TTTTTACTCAAATGTATCGATACAATTTTCAATGTATCAATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
120506 TCTGTCT
66 TCTATCT
*
120513 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
120578 TCTATC-
66 TCTATCT
*
120584 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
120649 T
66 T
120650 TTTCAATGTA
Statistics
Matches: 129, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 64 0.50
72 65 0.50
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (72 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTATCT
Done.