Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 351 of 356
Found at i:112292028 original size:15 final size:14
Alignment explanation
Indices: 112292006--112292048 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
112291996 TCTATTTTAT
112292006 TTATATTAGGATAA
1 TTATATTAGGATAA
*
112292020 TTAATATTAAGATAA
1 TT-ATATTAGGATAA
112292035 -T-TATTAGGATAA
1 TTATATTAGGATAA
112292047 TT
1 TT
112292049 TAATTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 3 0.12
15 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
TTATATTAGGATAA
Found at i:112292065 original size:27 final size:26
Alignment explanation
Indices: 112292004--112292066 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
112291994 ACTCTATTTT
112292004 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* *
112292031 ATAATTATTAGGATAATTTAATTTTAAG
1 AT-TTTATTAGGATAA-TTAATATTAAG
112292059 ATTTTATT
1 ATTTTATT
112292067 TTAATTATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:112293974 original size:12 final size:12
Alignment explanation
Indices: 112293957--112293981 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112293947 TGTACGTAAA
112293957 ATATATATGTAT
1 ATATATATGTAT
112293969 ATATATATGTAT
1 ATATATATGTAT
112293981 A
1 A
112293982 AGTAGTAATA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:112294015 original size:23 final size:23
Alignment explanation
Indices: 112293989--112294063 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 23
112293979 ATAAGTAGTA
112293989 ATAGTGTTAGAAATATACTACAT
1 ATAGTGTTAGAAATATACTACAT
* *
112294012 ATAGTGTTTGAAGTATATACTTAAGAT
1 ATAGTGTTAGAA--ATATAC-T-ACAT
*
112294039 AGTAATGTTA-AAATATA-TACAT
1 A-TAGTGTTAGAAATATACTACAT
112294061 ATA
1 ATA
112294064 TATGTATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
21 2 0.05
22 4 0.10
23 12 0.29
25 11 0.26
26 1 0.02
27 6 0.14
28 6 0.14
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.37
Consensus pattern (23 bp):
ATAGTGTTAGAAATATACTACAT
Found at i:112300361 original size:13 final size:13
Alignment explanation
Indices: 112300343--112300367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112300333 CGATCCCTGT
112300343 ATGGTCACCTTGC
1 ATGGTCACCTTGC
112300356 ATGGTCACCTTG
1 ATGGTCACCTTG
112300368 GCTGCTGCAT
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:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
ATGGTCACCTTGC
Found at i:112301507 original size:21 final size:21
Alignment explanation
Indices: 112301475--112301515 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
112301465 AGGCTCGAGG
112301475 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
112301496 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
112301516 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:112304848 original size:13 final size:13
Alignment explanation
Indices: 112304830--112304857 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
112304820 GCACGATCCC
112304830 TGCATGGTCACCT
1 TGCATGGTCACCT
112304843 TGCATGGTCACCT
1 TGCATGGTCACCT
112304856 TG
1 TG
112304858 GCTGCTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (13 bp):
TGCATGGTCACCT
Found at i:112307582 original size:30 final size:30
Alignment explanation
Indices: 112307546--112307605 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
112307536 GATGGACAGT
112307546 AGCGTATATGTAAGTACTCAAGAAGACAAG
1 AGCGTATATGTAAGTACTCAAGAAGACAAG
*
112307576 AGCGTATATGTAAGTGCTCAAGAAGACAAG
1 AGCGTATATGTAAGTACTCAAGAAGACAAG
112307606 TGTTGCTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (30 bp):
AGCGTATATGTAAGTACTCAAGAAGACAAG
Found at i:112315147 original size:27 final size:27
Alignment explanation
Indices: 112315100--112315153 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
112315090 ATGAAAAAAA
*
112315100 GGTGGTGTAGGTGCCAGAGGCGGCACC
1 GGTGGTGTAGGTGCCAGAGGCAGCACC
* *
112315127 GGTGGTGTGGGT-CGCATAGGCAGCACC
1 GGTGGTGTAGGTGC-CAGAGGCAGCACC
112315154 TTTGTTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.17
Consensus pattern (27 bp):
GGTGGTGTAGGTGCCAGAGGCAGCACC
Found at i:112315337 original size:12 final size:12
Alignment explanation
Indices: 112315320--112315428 Score: 55
Period size: 12 Copynumber: 8.7 Consensus size: 12
112315310 TTTTCAGATT
112315320 TTATTTTTTATA
1 TTATTTTTTATA
112315332 TTATTTTTTATA
1 TTATTTTTTATA
* *
112315344 CT-TTTTTCATA
1 TTATTTTTTATA
*
112315355 TT-TTATTGTAT-
1 TTATT-TTTTATA
* *
112315366 TT-TTTTCATATT
1 TTATTTT-TTATA
112315378 TTATTTCTTTTCATA
1 TTA-TT-TTTT-ATA
*
112315393 TTTTTTTTTTCATA
1 -TTATTTTTT-ATA
112315407 TTTTATTTTTTATA
1 --TTATTTTTTATA
112315421 TTATTTTT
1 TTATTTTT
112315429 GTAAAATAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
10 2 0.03
11 18 0.23
12 27 0.35
14 14 0.18
15 15 0.19
16 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (12 bp):
TTATTTTTTATA
Found at i:112315382 original size:16 final size:16
Alignment explanation
Indices: 112315358--112315417 Score: 88
Period size: 16 Copynumber: 3.8 Consensus size: 16
112315348 TTTCATATTT
*
112315358 TATTGTATTTTTTTCA
1 TATTTTATTTTTTTCA
112315374 TATTTTATTTCTTTTCA
1 TATTTTATTT-TTTTCA
112315391 TA-TTT-TTTTTTTCA
1 TATTTTATTTTTTTCA
112315405 TATTTTATTTTTT
1 TATTTTATTTTTT
112315418 ATATTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
14 8 0.20
15 6 0.15
16 18 0.45
17 8 0.20
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:112315400 original size:21 final size:20
Alignment explanation
Indices: 112315318--112315400 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 20
112315308 AATTTTCAGA
112315318 TTTTA-TTTTTT-ATATTATT
1 TTTTATTTTTTTCATATT-TT
112315337 TTTTATACTTTTTTCATATTTT
1 TTTTAT--TTTTTTCATATTTT
*
112315359 ATTGTATTTTTTTCATA----
1 -TTTTATTTTTTTCATATTTT
112315376 TTTTATTTCTTTTCATATTTT
1 TTTTATTT-TTTTCATATTTT
112315397 TTTT
1 TTTT
112315401 TTCATATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
16 7 0.13
17 8 0.15
19 5 0.10
21 14 0.27
22 8 0.15
23 10 0.19
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTTATTTTTTTCATATTTT
Found at i:112315410 original size:10 final size:9
Alignment explanation
Indices: 112315318--112315398 Score: 51
Period size: 10 Copynumber: 8.4 Consensus size: 9
112315308 AATTTTCAGA
112315318 TTTTAT-TT
1 TTTTATATT
112315326 TTTATATTATT
1 TTT-TA-TATT
112315337 TTTTATACTT
1 TTTTATA-TT
112315347 TTTTCATATT
1 TTTT-ATATT
*
112315357 TTATTGTATT
1 TT-TTATATT
*
112315367 TTTT-TCATA
1 TTTTAT-ATT
112315376 TTTTAT-TT
1 TTTTATATT
112315384 CTTTTCATATT
1 -TTTT-ATATT
112315395 TTTT
1 TTTT
112315399 TTTTCATATT
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
8 5 0.08
9 16 0.27
10 26 0.44
11 12 0.20
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTTATATT
Found at i:112315410 original size:11 final size:11
Alignment explanation
Indices: 112315323--112315384 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
112315313 TCAGATTTTA
112315323 TTTTTT-ATAT
1 TTTTTTCATAT
* *
112315333 TATTTTTTATAC
1 T-TTTTTCATAT
112315345 TTTTTTCATAT
1 TTTTTTCATAT
* *
112315356 TTTATT-GTAT
1 TTTTTTCATAT
112315366 TTTTTTCATAT
1 TTTTTTCATAT
112315377 TTTATTTC
1 TTT-TTTC
112315385 TTTTCATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 9 0.22
11 24 0.59
12 8 0.20
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTTCATAT
Found at i:112315743 original size:11 final size:11
Alignment explanation
Indices: 112315727--112315758 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
112315717 AATAAATTTA
112315727 TAAATTAAATT
1 TAAATTAAATT
112315738 TAAATTAAATT
1 TAAATTAAATT
*
112315749 AAAATTAAAT
1 TAAATTAAAT
112315759 CAACAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:112315748 original size:16 final size:16
Alignment explanation
Indices: 112315727--112315758 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
112315717 AATAAATTTA
*
112315727 TAAATTAAATTTAAAT
1 TAAATTAAAATTAAAT
112315743 TAAATTAAAATTAAAT
1 TAAATTAAAATTAAAT
112315759 CAACAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATTAAAATTAAAT
Found at i:112315917 original size:8 final size:8
Alignment explanation
Indices: 112315904--112315943 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
112315894 CTGCTTGCTC
112315904 CTTCTTCT
1 CTTCTTCT
*
112315912 CTTCTTTT
1 CTTCTTCT
112315920 CTTCTTCT
1 CTTCTTCT
112315928 CTTCTT-T
1 CTTCTTCT
112315935 CTT-TTCT
1 CTTCTTCT
112315942 CT
1 CT
112315944 CATTTCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 2 0.07
7 7 0.24
8 20 0.69
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (8 bp):
CTTCTTCT
Found at i:112315949 original size:14 final size:15
Alignment explanation
Indices: 112315904--112315952 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
112315894 CTGCTTGCTC
112315904 CTTCTTCTCTTCTTTT
1 CTTCTTCTCTTC-TTT
112315920 CTTCTTCTCTTCTTT
1 CTTCTTCTCTTCTTT
112315935 CTT-TTCTC-TCATTT
1 CTTCTTCTCTTC-TTT
112315949 CTTC
1 CTTC
112315953 CCCAAATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.06
14 11 0.35
15 6 0.19
16 12 0.39
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (15 bp):
CTTCTTCTCTTCTTT
Found at i:112316148 original size:18 final size:17
Alignment explanation
Indices: 112316122--112316182 Score: 79
Period size: 16 Copynumber: 3.5 Consensus size: 17
112316112 CAGTCTACTT
112316122 CAGCTTTTTTCTTTTCAG
1 CAGCTTTTTT-TTTTCAG
*
112316140 CAGCCTTTTTTTTTTCAA
1 CAG-CTTTTTTTTTTCAG
112316158 CAG-TTTTTTTTTTCAG
1 CAGCTTTTTTTTTTCAG
*
112316174 CATCTTTTT
1 CAGCTTTTT
112316183 AGCGTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 14 0.37
17 5 0.13
18 12 0.32
19 7 0.18
ACGTcount: A:0.13, C:0.20, G:0.08, T:0.59
Consensus pattern (17 bp):
CAGCTTTTTTTTTTCAG
Found at i:112318653 original size:2 final size:2
Alignment explanation
Indices: 112318646--112318676 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
112318636 TATGGGTCTG
*
112318646 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112318677 CACCTCAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112321227 original size:40 final size:39
Alignment explanation
Indices: 112321071--112321229 Score: 221
Period size: 40 Copynumber: 4.0 Consensus size: 39
112321061 TTGATTCCAC
* * *
112321071 TCCCCCCATGCTACTTTGTTTTATTATTAATTAAAACTA
1 TCCCCCCATACTATTTTGTTTTATTATTAATTAAAACCA
* *
112321110 -CTCTCCCATACTATTTTGTTTTATTATTAATTAAAACTA
1 TC-CCCCCATACTATTTTGTTTTATTATTAATTAAAACCA
* *
112321149 TTCCCTCATACTATTTTGTTTTTATTATTAATTAAAACCA
1 TCCCCCCATACTATTTTG-TTTTATTATTAATTAAAACCA
112321189 TCCCCCCATACTATTTTGTTTTTATTATTAATTAAAACCA
1 TCCCCCCATACTATTTTG-TTTTATTATTAATTAAAACCA
112321229 T
1 T
112321230 ACTTTATTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 48 0.44
40 59 0.55
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (39 bp):
TCCCCCCATACTATTTTGTTTTATTATTAATTAAAACCA
Found at i:112322355 original size:13 final size:13
Alignment explanation
Indices: 112322337--112322361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112322327 GAGTTTTGAG
112322337 TTCTTCGATCTGC
1 TTCTTCGATCTGC
112322350 TTCTTCGATCTG
1 TTCTTCGATCTG
112322362 TTCCCTATAA
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:112322408 original size:44 final size:44
Alignment explanation
Indices: 112322344--112322824 Score: 430
Period size: 44 Copynumber: 11.0 Consensus size: 44
112322334 GAGTTCTTCG
* *
112322344 ATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGACGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
112322387 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
112322429 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAT
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
112322475 ATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
112322519 ATCTGCTGTTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
112322562 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
112322608 ATCTGCTATCTTCGATCTGTTCTCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
112322652 ATCTGCTGTTTTC-AACTTGTT-CCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
112322693 ATGC-GAAATCTTCGATCTGCTTCACTCTAAGCATAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
112322738 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
112322782 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAAGGATGCCA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
112322825 TGCTGAAATC
Statistics
Matches: 349, Mismatches: 66, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
41 9 0.03
42 7 0.02
43 66 0.19
44 190 0.54
45 73 0.21
46 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:112322588 original size:133 final size:132
Alignment explanation
Indices: 112322343--112322887 Score: 866
Period size: 133 Copynumber: 4.2 Consensus size: 132
112322333 TGAGTTCTTC
* *
112322343 GATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGACGCCAAATCTGCTATCTTCAACTTGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
* *
112322407 TCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGT
66 TCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
112322472 CA
131 CA
* * * *
112322474 TATCTACTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT-ATCTTCAACTTG
*
112322539 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATG
65 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
112322604 TCA
130 TCA
* * *
112322607 GATCTGCTATCTTCGATCTGTTCTCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
* *
112322672 T-CCTATAAGCACAGGGATGCCATGC-GAAATCTTCGATCTGCTTCACTCTAAGCATAGGAATGT
66 TCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
112322735 CA
131 CA
112322737 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
* * *
112322802 TCCCTATAAGCACAAGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAA-CTCAGGAA-GG
66 TCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
112322865 CGA
131 C-A
* *
112322868 TATCTGCTATCTTTGATCTG
1 GATCTGCTATCTTCGATCTG
112322888 CCCCCCGTCT
Statistics
Matches: 385, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
130 102 0.26
131 78 0.20
132 79 0.21
133 126 0.33
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGT
TCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
CA
Found at i:112323292 original size:205 final size:203
Alignment explanation
Indices: 112322922--112323707 Score: 1191
Period size: 205 Copynumber: 3.8 Consensus size: 203
112322912 AAATCTATTT
* * * * ** *
112322922 CTTCGATT-TTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
* * * * *
112322986 GTGAAAGCTAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
112323050 GGATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAG--TAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
112323115 AGATGCCAAA
194 AGATGCCAAA
*
112323125 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
*
112323190 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
112323255 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGTTATGTGTCTGCTCTCCATCAAAGTAA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
112323320 AGATGCCAAA
194 AGATGCCAAA
* *
112323330 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATTATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
* *
112323395 GTGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
112323460 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTTCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
112323525 AGATGCCAAA
194 AGATGCCAAA
* *
112323535 CTTCGATTCATTCTCTGACAATACAGAGACGACAAATCATCTTAAATTTGC-TTCATCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
* *
112323599 CGTGAAAGCCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATCCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
* * * *
112323664 TGGATCTACTTCAGTATAACATCTGCAGGCCAGATCTGTTATGT
130 TGGATCTGCTTCAGTA-AACATCTGAAGGCGAGATCTGCTATGT
112323708 TGCGGCCTAT
Statistics
Matches: 540, Mismatches: 37, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
203 9 0.02
204 95 0.18
205 436 0.81
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (203 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAA
Found at i:112328076 original size:205 final size:203
Alignment explanation
Indices: 112327704--112328276 Score: 889
Period size: 205 Copynumber: 2.8 Consensus size: 203
112327694 AGCATAACAG
*
112327704 ATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGG
1 ATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGG
* *
112327769 AGCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGTAAATCTAAGATGATT
65 AGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATT
*
112327834 TGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGAC
130 TGTCATCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGAC
112327899 ACATAGCAA
195 ACATAGCAA
112327908 ATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
1 ATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
*
112327973 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
64 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
*
112328038 TTGTCATCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
129 TTGTCATCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
*
112328103 CACATAGCAG
194 CACATAGCAA
* * * * * *
112328113 ATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATAGTTTGGCATCCTTATGCTTACAAG
1 ATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
* * * * *
112328178 GAGCAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTAC-ATTAAAGCAAATCTAAGATGA
64 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-TGAAGCAAATCTAAGATGA
* * *
112328241 TTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
128 TTTGTCATCTCTGTATTGTCAGAGAACGAATCGAAG
112328277 AAATAGATTT
Statistics
Matches: 341, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
203 2 0.01
204 95 0.28
205 244 0.72
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
ATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGA
GCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTT
GTCATCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACA
CATAGCAA
Found at i:112328427 original size:87 final size:87
Alignment explanation
Indices: 112328311--112328540 Score: 279
Period size: 87 Copynumber: 2.7 Consensus size: 87
112328301 AGACGGGGGG
*
112328311 CAGATCAAAGATAGCAGATATCGCCTTCCTGAG-TTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCAAAGATAGCAGATATCGCATTCCTGAGCTTACAGTGAAGCAGATCGAAGATTTC-GCAT
112328375 GGCATCCCTGTGCTTATAGGGAA
65 GGCATCCCTGTGCTTATAGGGAA
* * * *
112328398 CAGATCGAAGATAGCAGATCT-GACATTCCTGTGCTTAGAGTGAAGCAGATCGAAGATTTCGCAT
1 CAGATCAAAGATAGCAGATATCG-CATTCCTGAGCTTACAGTGAAGCAGATCGAAGATTTCGCAT
112328462 GGCATCCCTGTGCTTATAGGGAA
65 GGCATCCCTGTGCTTATAGGGAA
* * * * * * * * *
112328485 CAAGTTGAAA-ACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
1 C-AGATCAAAGATAGCAGATATCGCATTCCTGAGCTTACAGTGAAGCAGATCGAAGAT
112328541 AGCAGATCTG
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
86 13 0.10
87 82 0.65
88 31 0.25
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (87 bp):
CAGATCAAAGATAGCAGATATCGCATTCCTGAGCTTACAGTGAAGCAGATCGAAGATTTCGCATG
GCATCCCTGTGCTTATAGGGAA
Found at i:112328524 original size:44 final size:44
Alignment explanation
Indices: 112328374--112328721 Score: 270
Period size: 44 Copynumber: 8.0 Consensus size: 44
112328364 GATTTCAGCA
* *
112328374 TGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATT
* * * * * **
112328418 TGACATTCCTGTGCTTAGAGTGAAGC-AGATCGAAGATTTC-GCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAGATAGCAG-ATT
* *
112328461 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
* *
112328505 TGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATT
* * * * * **
112328549 TGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAGATAGCAG-ATT
* *
112328593 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCATATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
* * * *
112328637 TGGCATCCCTATGTTTAT-GGGAACAAGTTGAAGACAGTAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
* * *
112328680 TGGCATCCCTGTGTTTATAAGGAACATA-TCGAAGA-AGCAGAT
1 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAGAT
112328722 CGAAGAACTC
Statistics
Matches: 248, Mismatches: 42, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
42 9 0.04
43 80 0.32
44 128 0.52
45 30 0.12
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATT
Found at i:112328524 original size:131 final size:132
Alignment explanation
Indices: 112328374--112328661 Score: 499
Period size: 131 Copynumber: 2.2 Consensus size: 132
112328364 GATTTCAGCA
*
112328374 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAGAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
112328439 GAAGCAGATCGAAGATTTC-GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
112328503 TT
131 TT
112328505 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * *
112328570 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCATA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
112328635 TT
131 TT
* *
112328637 TGGCATCCCTATGTTTAT-GGGAACA
1 TGGCATCCCTGTGCTTATAGGGAACA
112328662 AGTTGAAGAC
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
131 90 0.60
132 59 0.40
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:112329189 original size:22 final size:22
Alignment explanation
Indices: 112329172--112329217 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
112329162 GAGAGGGGGG
112329172 ATCGATGGTATTTTGAGGAAGA
1 ATCGATGGTATTTTGAGGAAGA
* *
112329194 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGA-AGA
112329217 A
1 A
112329218 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (22 bp):
ATCGATGGTATTTTGAGGAAGA
Found at i:112329223 original size:23 final size:22
Alignment explanation
Indices: 112329179--112329228 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
112329169 GGGATCGATG
**
112329179 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
112329201 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
112329224 GTATT
1 GTATT
112329229 AGAAGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:112329812 original size:20 final size:19
Alignment explanation
Indices: 112329788--112329852 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
112329778 TTTTTTTCCT
112329788 TAAAAAAGGTTTTTTATGA
1 TAAAAAAGGTTTTTTATGA
112329807 TAAAAAAGGTTTTTTATGA
1 TAAAAAAGGTTTTTTATGA
112329826 TAAAAAAGGTTTTTTTATGA
1 TAAAAAAGG-TTTTTTATGA
112329846 TAAAAAA
1 TAAAAAA
112329853 AAAAGAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 28 0.62
20 17 0.38
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (19 bp):
TAAAAAAGGTTTTTTATGA
Found at i:112329932 original size:79 final size:79
Alignment explanation
Indices: 112329845--112330015 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 79
112329835 TTTTTTTATG
* * *
112329845 ATAA-AAAAAAAAGAAAAAAT-AAAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGG
1 ATAATAAAAAAAAGAAAAAATGAAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTATGGGA
*
112329908 GAATGGTTTTAATTA
65 GAATAGTTTTAATTA
* * ** ***
112329923 ATGATAAAAACAAA-ATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGA
1 ATAATAAAAA-AAAGAAAAAATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGA
*
112329987 GAGTAGTTTTAATTA
65 GAATAGTTTTAATTA
*
112330002 ATAATAAAACAAAG
1 ATAATAAAAAAAAG
112330016 TAGCATGGGG
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
78 6 0.08
79 48 0.64
80 21 0.28
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.28
Consensus pattern (79 bp):
ATAATAAAAAAAAGAAAAAATGAAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGAG
AATAGTTTTAATTA
Found at i:112329983 original size:39 final size:40
Alignment explanation
Indices: 112329873--112330027 Score: 242
Period size: 39 Copynumber: 3.9 Consensus size: 40
112329863 ATAAAGTATG
*
112329873 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
112329913 GTTTTAATTAATGATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
112329953 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGAGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
112329992 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
112330028 GTGGAATCAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 55 0.51
40 52 0.49
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:112330496 original size:25 final size:25
Alignment explanation
Indices: 112330462--112330519 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
112330452 TTTATATTAT
112330462 TATTACTACTATATGTATATATTTACAA
1 TATTACTA--ATA-GTATATATTTACAA
* * *
112330490 TATTACTAATAGTTTATTTTTACAT
1 TATTACTAATAGTATATATTTACAA
112330515 TATTA
1 TATTA
112330520 TGTATATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.59
26 3 0.11
28 8 0.30
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TATTACTAATAGTATATATTTACAA
Found at i:112333855 original size:21 final size:21
Alignment explanation
Indices: 112333831--112333879 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
112333821 TCTTTTAATG
112333831 TTTACATTATAATATTATAT-A
1 TTTACATT-TAATATTATATAA
*
112333852 TTTA-ATTTAATTTTATATAA
1 TTTACATTTAATATTATATAA
*
112333872 ATTACATT
1 TTTACATT
112333880 CTATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACATTTAATATTATATAA
Found at i:112335713 original size:17 final size:18
Alignment explanation
Indices: 112335683--112335720 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
112335673 GGATGCTAAG
112335683 AATGAGTAAAAAACTTTT
1 AATGAGTAAAAAACTTTT
112335701 AATGAGT-AAAAACTTTT
1 AATGAGTAAAAAACTTTT
112335718 AAT
1 AAT
112335721 AAAATCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (18 bp):
AATGAGTAAAAAACTTTT
Found at i:112339042 original size:27 final size:27
Alignment explanation
Indices: 112338990--112339045 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
112338980 TTGGTTTGAG
* **
112338990 AAAAAAAAATTAAAAAATTCGAAACAC
1 AAAAAAAAAGTAAAAAAAGCGAAACAC
112339017 AAAAAAGAAAGTAAAAAAAGCG-AACAC
1 AAAAAA-AAAGTAAAAAAAGCGAAACAC
112339044 AA
1 AA
112339046 TGATATACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.71, C:0.11, G:0.09, T:0.09
Consensus pattern (27 bp):
AAAAAAAAAGTAAAAAAAGCGAAACAC
Found at i:112350693 original size:19 final size:20
Alignment explanation
Indices: 112350650--112350693 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
112350640 AAATACATTT
*
112350650 AAAAACATAAAAACAAATAT
1 AAAAACATAAAAACAAATAA
*
112350670 TAAAACA-AAAAACAAATAA
1 AAAAACATAAAAACAAATAA
112350689 AAAAA
1 AAAAA
112350694 TGAGACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAACATAAAAACAAATAA
Found at i:112351725 original size:10 final size:10
Alignment explanation
Indices: 112351696--112351736 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
112351686 TTAAATTCTA
112351696 AAAGATAAATT
1 AAAGATAAA-T
112351707 AAAGATAAAT
1 AAAGATAAAT
*
112351717 AAGGATAAAT
1 AAAGATAAAT
112351727 AAAGATAAAT
1 AAAGATAAAT
112351737 GCTAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:112352536 original size:15 final size:15
Alignment explanation
Indices: 112352518--112352547 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
112352508 AAATTTTAAT
112352518 TTTTTATAATTTATA
1 TTTTTATAATTTATA
112352533 TTTTTATAATTTATA
1 TTTTTATAATTTATA
112352548 AAGGATTAAA
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:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:112365932 original size:26 final size:26
Alignment explanation
Indices: 112365896--112365950 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
112365886 ATTCACTGAA
*
112365896 TCATCTCTAAACTATTTTTAACTAAT
1 TCATCTCTAAACCATTTTTAACTAAT
112365922 TCATCTCTAAACCATTTTTAACTAAT
1 TCATCTCTAAACCATTTTTAACTAAT
112365948 TCA
1 TCA
112365951 ATCAACTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.44
Consensus pattern (26 bp):
TCATCTCTAAACCATTTTTAACTAAT
Found at i:112367190 original size:3 final size:3
Alignment explanation
Indices: 112367182--112367212 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
112367172 TTATAGAGTT
*
112367182 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
112367213 CAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:112379902 original size:21 final size:21
Alignment explanation
Indices: 112379878--112379926 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
112379868 CCTTTTAATG
112379878 TTTACATTATAATATTATAT-A
1 TTTACATT-TAATATTATATAA
*
112379899 TTTA-ATTTAATTTTATATAA
1 TTTACATTTAATATTATATAA
*
112379919 ATTACATT
1 TTTACATT
112379927 GTATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACATTTAATATTATATAA
Found at i:112383324 original size:46 final size:46
Alignment explanation
Indices: 112383306--112383462 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
112383296 TGACAAGTGG
* * *
112383306 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
112383352 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
112383398 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
112383450 AAAGTGATAAGTG
1 AAAGTGATAAGTG
112383463 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:112383325 original size:52 final size:51
Alignment explanation
Indices: 112383254--112383462 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
112383244 ATCAAGTGAC
* **
112383254 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
112383306 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
112383352 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
112383403 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
112383456 ATAAGTG
1 A-AAGTG
112383463 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:112383360 original size:98 final size:98
Alignment explanation
Indices: 112383240--112383463 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
112383230 TTTGAGTACT
*
112383240 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
112383305 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
112383338 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
112383403 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
112383436 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
112383464 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:112383472 original size:37 final size:37
Alignment explanation
Indices: 112383425--112383534 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
112383415 TGATAGCTTC
*
112383425 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
112383462 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
112383499 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
112383534 G
1 G
112383535 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:112384693 original size:10 final size:10
Alignment explanation
Indices: 112384674--112384723 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
112384664 TGAAATTTTA
112384674 AAAGATAAAT
1 AAAGATAAAT
112384684 ACAA-ATAAAT
1 A-AAGATAAAT
112384694 AAAGATAAAT
1 AAAGATAAAT
112384704 AAAGATAAAT
1 AAAGATAAAT
112384714 GAAA-ATAAAT
1 -AAAGATAAAT
112384724 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:112391557 original size:36 final size:36
Alignment explanation
Indices: 112391510--112391580 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
112391500 TCCCTTATTT
112391510 CTAAGCGCTCAAGAAGACAAGTGCTGCTACTCATAA
1 CTAAGCGCTCAAGAAGACAAGTGCTGCTACTCATAA
112391546 CTAAGCGCTCAAGAAGACAAGTGCTGCTACTCATA
1 CTAAGCGCTCAAGAAGACAAGTGCTGCTACTCATA
112391581 CTCTTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (36 bp):
CTAAGCGCTCAAGAAGACAAGTGCTGCTACTCATAA
Found at i:112403669 original size:21 final size:21
Alignment explanation
Indices: 112403628--112403670 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
112403618 TTTATATATT
* *
112403628 TATTTATATAAATATATTAAA
1 TATTTAGATAAATATAATAAA
112403649 TATTTAGA-AAATATCAATAAA
1 TATTTAGATAAATAT-AATAAA
112403670 T
1 T
112403671 TCGAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTTAGATAAATATAATAAA
Found at i:112405473 original size:22 final size:22
Alignment explanation
Indices: 112405433--112405474 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
112405423 GCACAAATGA
112405433 ACAGAGAGCACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
*
112405455 ACAGAGGGCA-TGAATGTGCT
1 ACAGAGAGCACTGAA-GTGCT
112405475 GAACGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (22 bp):
ACAGAGAGCACTGAAGTGCTAT
Found at i:112409458 original size:28 final size:30
Alignment explanation
Indices: 112409418--112409486 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
112409408 TGTGCTAATT
*
112409418 TGGTGTGTTTGGGAGGA-CTATG-TGATTC
1 TGGTGTGTTTGGGAGGATATATGATGATTC
*
112409446 TGGTGTGTTTGGGAGGATTATATGATTATTC
1 TGGTGTGTTTGGGAGGA-TATATGATGATTC
112409477 TGGTGTGTTT
1 TGGTGTGTTT
112409487 TGGTTGGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 17 0.47
30 4 0.11
31 15 0.42
ACGTcount: A:0.14, C:0.04, G:0.36, T:0.45
Consensus pattern (30 bp):
TGGTGTGTTTGGGAGGATATATGATGATTC
Found at i:112409828 original size:24 final size:23
Alignment explanation
Indices: 112409797--112409843 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
112409787 ATGACATGAT
*
112409797 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
112409820 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
112409844 ATCCATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:112413649 original size:18 final size:18
Alignment explanation
Indices: 112413617--112413651 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
112413607 ATGTTTTCTT
**
112413617 AAATGGAAATGGAAAATG
1 AAATGGAAAAAGAAAATG
112413635 AAATGGAAAAAGAAAAT
1 AAATGGAAAAAGAAAAT
112413652 ATGTGACCAA
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:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (18 bp):
AAATGGAAAAAGAAAATG
Found at i:112414968 original size:25 final size:25
Alignment explanation
Indices: 112414940--112414988 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
112414930 GATGAATAGT
* *
112414940 TTTATATTTAATAT-TTATATATTTC
1 TTTATA-TAAATATATTAAATATTTC
112414965 TTTATATAAATATATTAAATATTT
1 TTTATATAAATATATTAAATATTT
112414989 AGAAAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTATATAAATATATTAAATATTTC
Found at i:112423138 original size:19 final size:18
Alignment explanation
Indices: 112423103--112423138 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
112423093 GAAGCAAGCA
*
112423103 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
112423121 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
112423139 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:112428204 original size:12 final size:12
Alignment explanation
Indices: 112428187--112428211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112428177 AGCTAAAAAG
112428187 ATGAAAAATTAA
1 ATGAAAAATTAA
112428199 ATGAAAAATTAA
1 ATGAAAAATTAA
112428211 A
1 A
112428212 ATAGCTTTTT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGAAAAATTAA
Found at i:112431784 original size:27 final size:25
Alignment explanation
Indices: 112431754--112431803 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
112431744 AGCTCCTGGA
*
112431754 ACAAGAAACAAAAATAAGAAGACATCT
1 ACAAG-AAC-AAAATAACAAGACATCT
*
112431781 ACAAGAGCAAAATAACAAGACAT
1 ACAAGAACAAAATAACAAGACAT
112431804 ACAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 2 0.10
27 5 0.24
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.10
Consensus pattern (25 bp):
ACAAGAACAAAATAACAAGACATCT
Found at i:112440323 original size:27 final size:27
Alignment explanation
Indices: 112440293--112440346 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
112440283 CAACTAAATT
112440293 GATATTTAGTTAAACTCGTGAATCTAA
1 GATATTTAGTTAAACTCGTGAATCTAA
112440320 GATATTTAGTTAAACTCGTGAATCTAA
1 GATATTTAGTTAAACTCGTGAATCTAA
112440347 CTCAATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (27 bp):
GATATTTAGTTAAACTCGTGAATCTAA
Found at i:112454279 original size:64 final size:64
Alignment explanation
Indices: 112454178--112454305 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
112454168 CCCGTTGTAC
*
112454178 TCTGCTGCATAAAACAGTAGATCATTCCAGCATCATCCACTCTGCTTCAGCAGCAAATCACCAA
1 TCTGCTGCATAAAACAGTAGATCATTCCAGCATCATCCACTCTGCTTCAGCAGAAAATCACCAA
112454242 TCTGCTGCATAAAACAGTAGATCATTCCAGCATCATCCACTCTGCTTCAGCAGAAAATCACCAA
1 TCTGCTGCATAAAACAGTAGATCATTCCAGCATCATCCACTCTGCTTCAGCAGAAAATCACCAA
112454306 GCAGCTTTAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.23
Consensus pattern (64 bp):
TCTGCTGCATAAAACAGTAGATCATTCCAGCATCATCCACTCTGCTTCAGCAGAAAATCACCAA
Found at i:112463804 original size:152 final size:153
Alignment explanation
Indices: 112463640--112463958 Score: 489
Period size: 153 Copynumber: 2.1 Consensus size: 153
112463630 TATTTTTAAA
* * * * * *
112463640 ATTTTTACAATTTTCGAATTTTATTTTT-AAAATATATTATTTTTGTATTTTGTTTTTTTATATT
1 ATTTTTAAAATTTTCGAATCTTATTTTTAAAAATATACTATTTTCGTATTTTATTCTTTTATATT
* * * *
112463704 ATTTTAGTACATATTGTTTCAAATATATTATTTTAGCT-TTTTTTAATATTAATTTAGTAAATAA
66 ATTTTAGTACATAATGATTCAAACATATTATTTTA-ATATTTTTTAATATTAATTTAGTAAATAA
* *
112463768 CTCTAATTTTGTCCCTTTGTTTGT
130 CCCTAATTTTGACCCTTTGTTTGT
112463792 ATTTTTAAAATTTTCGAATCTTATTTTTAAAAATATACTATTTTCGTATTTTATTCTTTTATATT
1 ATTTTTAAAATTTTCGAATCTTATTTTTAAAAATATACTATTTTCGTATTTTATTCTTTTATATT
* *
112463857 ATTTTAGTACATAATGATTCAAACGTATTATTTTAATATTTTTTTATATTAATTTAGTAAATAAC
66 ATTTTAGTACATAATGATTCAAACATATTATTTTAATATTTTTTAATATTAATTTAGTAAATAAC
112463922 CCTAATTTTGACCCTTTGTTTGT
131 CCTAATTTTGACCCTTTGTTTGT
112463945 ATTTTTAAAATTTT
1 ATTTTTAAAATTTT
112463959 TGGATCTAGA
Statistics
Matches: 151, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
152 27 0.18
153 124 0.82
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.57
Consensus pattern (153 bp):
ATTTTTAAAATTTTCGAATCTTATTTTTAAAAATATACTATTTTCGTATTTTATTCTTTTATATT
ATTTTAGTACATAATGATTCAAACATATTATTTTAATATTTTTTAATATTAATTTAGTAAATAAC
CCTAATTTTGACCCTTTGTTTGT
Found at i:112469602 original size:12 final size:13
Alignment explanation
Indices: 112469582--112469612 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
112469572 TTTTGGATTG
112469582 AGAAAAAAAATTA
1 AGAAAAAAAATTA
112469595 AGAAAAAAAATTA
1 AGAAAAAAAATTA
112469608 AGAAA
1 AGAAA
112469613 TTTGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (13 bp):
AGAAAAAAAATTA
Found at i:112487963 original size:13 final size:13
Alignment explanation
Indices: 112487945--112487978 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
112487935 GACCTAAGTG
112487945 CTTTTTTTTTCTT
1 CTTTTTTTTTCTT
112487958 CTTTTTTTTTCTT
1 CTTTTTTTTTCTT
112487971 -TTTTTTTT
1 CTTTTTTTT
112487979 CATTCCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
CTTTTTTTTTCTT
Found at i:112487975 original size:10 final size:10
Alignment explanation
Indices: 112487948--112487977 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
112487938 CTAAGTGCTT
112487948 TTTTTTTCTTC
1 TTTTTTT-TTC
112487959 TTTTTTTTTC
1 TTTTTTTTTC
112487969 TTTTTTTTT
1 TTTTTTTTT
112487978 TCATTCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:112488475 original size:6 final size:6
Alignment explanation
Indices: 112488464--112488490 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
112488454 CAGTAAAGTA
112488464 ACCTTG ACCTTG ACCTTG ACCTTG ACC
1 ACCTTG ACCTTG ACCTTG ACCTTG ACC
112488491 AACATGGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.37, G:0.15, T:0.30
Consensus pattern (6 bp):
ACCTTG
Found at i:112495485 original size:301 final size:298
Alignment explanation
Indices: 112494993--112495627 Score: 984
Period size: 301 Copynumber: 2.1 Consensus size: 298
112494983 TAAGCATATC
* ** *
112494993 AATAAACCCAATTTATTCCCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATTAGATTA
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATCAGATTA
* * *
112495058 TGAACAGAAACAGGCTAATGACTTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACCCA
66 TGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACACA
112495123 TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
131 TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
* *
112495188 AAGGACCAGCAAGTTAAGCACAAAACTAACTACAACACAATTCTTCTAAGATATTCCATATTTAT
196 AAGGACCAGCAAGTTAAACACAAAACTAACTAC-ACACAATTCTTCTAAGAAATTCCATATTTAT
* * * **
112495253 AGGGATAGCTTTAGGGCACAAGCATATCAACGTATTGCA
260 AAGGATAGCATTAAGGCACAAGCATATCAACACATTGCA
*
112495292 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTTGATAAGTAAATATCAGA
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGAT-A--AAATATCAGA
* *
112495357 TTATGAACAGAAACAAGCTAATGAATTCATTATCGTCATTGAAAGCATAAATCCAATT-AAAAAC
63 TTATGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAAC
* *
112495421 ACATAAAATTTCAACAACTACAAACCGTTTGAACAACACATTTATCAACAGAAAATAGAACCTAC
128 ACATAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTAC
* * * *
112495486 CAAAAGGACCAGCAAGTTAAACACTAAATTAACTACAGACAATTCTTCTAAGAAATTCCATTTTT
193 CAAAAGGACCAGCAAGTTAAACACAAAACTAACTACACACAATTCTTCTAAGAAATTCCATATTT
* ** *
112495551 GTAAGGATAGCATTAAGGCAGTAGCATATCAATACATTGCA
258 ATAAGGATAGCATTAAGGCACAAGCATATCAACACATTGCA
112495592 AATAAACCCAACTTATTTTCAAATTCTTCTGAACAT
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACAT
112495628 TAGACTATGA
Statistics
Matches: 306, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
299 47 0.15
300 95 0.31
301 101 0.33
302 63 0.21
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.26
Consensus pattern (298 bp):
AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATCAGATTA
TGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACACA
TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
AAGGACCAGCAAGTTAAACACAAAACTAACTACACACAATTCTTCTAAGAAATTCCATATTTATA
AGGATAGCATTAAGGCACAAGCATATCAACACATTGCA
Found at i:112496756 original size:31 final size:32
Alignment explanation
Indices: 112496720--112496786 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
112496710 TTATAAAATG
* *
112496720 GTCACTGAACTATTCGAAAG-TTTTAATTTAA
1 GTCACTAAACTATTCAAAAGTTTTTAATTTAA
* *
112496751 GTCACTAAATTATTCAAAAGTTTTTTATTTAA
1 GTCACTAAACTATTCAAAAGTTTTTAATTTAA
112496783 GTCA
1 GTCA
112496787 ATGGGCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (32 bp):
GTCACTAAACTATTCAAAAGTTTTTAATTTAA
Found at i:112498292 original size:18 final size:19
Alignment explanation
Indices: 112498251--112498292 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
112498241 TAACATTTAT
*
112498251 AAGATACAAATTACCAATAT
1 AAGATACAAA-TACCAATAC
*
112498271 AAGATACAAA-ACCAGTAC
1 AAGATACAAATACCAATAC
112498289 AAGA
1 AAGA
112498293 GATATGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.17
Consensus pattern (19 bp):
AAGATACAAATACCAATAC
Found at i:112504223 original size:33 final size:32
Alignment explanation
Indices: 112504164--112504228 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
112504154 AGTTTTATTG
*
112504164 GGTAAGGTTCGATTTAATTTTATGATAACATAA
1 GGTAAGGTTCGATTTAATTGTATGATAA-ATAA
*
112504197 GGTACGGTTCGATTTAATATGT-TGATAAATAA
1 GGTAAGGTTCGATTTAAT-TGTATGATAAATAA
112504229 TTATGAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.79
34 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (32 bp):
GGTAAGGTTCGATTTAATTGTATGATAAATAA
Found at i:112504710 original size:17 final size:17
Alignment explanation
Indices: 112504688--112504720 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
112504678 TTTTTTACTT
112504688 AAAAAAATGGGTAATTA
1 AAAAAAATGGGTAATTA
112504705 AAAAAAATGGGTAATT
1 AAAAAAATGGGTAATT
112504721 TAGTCATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAAAAAATGGGTAATTA
Found at i:112509187 original size:4 final size:4
Alignment explanation
Indices: 112509174--112509204 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
112509164 AAAAAAAAAA
*
112509174 AGGG AAGG AGGG AGGG AGGG AGGG AGGG AGG
1 AGGG AGGG AGGG AGGG AGGG AGGG AGGG AGG
112509205 TGGAAAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:112514351 original size:35 final size:33
Alignment explanation
Indices: 112514283--112514351 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 33
112514273 TGAATTTTTT
*
112514283 TATATTTAATTGAATAAAACTCAAATTTTAATA
1 TATATTTAATTGAAAAAAACTCAAATTTTAATA
* *
112514316 TATATTTAATTGTATAAAAAAGTGAAATTTTAATA
1 TATATTTAATTG-A-AAAAAACTCAAATTTTAATA
112514351 T
1 T
112514352 TTATGCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 12 0.39
34 1 0.03
35 18 0.58
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (33 bp):
TATATTTAATTGAAAAAAACTCAAATTTTAATA
Found at i:112519254 original size:5 final size:5
Alignment explanation
Indices: 112519244--112519281 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
112519234 AAGTTTTATA
112519244 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
112519282 GGCTCATTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:112530937 original size:20 final size:20
Alignment explanation
Indices: 112530912--112530954 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
112530902 CTTTCTCAAC
112530912 AAAAA-TTACAAAAAAATTCA
1 AAAAATTTA-AAAAAAATTCA
*
112530932 AAAAATTTATAAAAAATTCA
1 AAAAATTTAAAAAAAATTCA
112530952 AAA
1 AAA
112530955 TTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAAAATTCA
Found at i:112530954 original size:18 final size:19
Alignment explanation
Indices: 112530922--112530960 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
112530912 AAAAATTACA
112530922 AAAAAATTCAAAAAATTTAT
1 AAAAAATTC-AAAAATTTAT
112530942 AAAAAATTC-AAAATTTAT
1 AAAAAATTCAAAAATTTAT
112530960 A
1 A
112530961 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATTCAAAAATTTAT
Found at i:112539320 original size:21 final size:22
Alignment explanation
Indices: 112539283--112539327 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
112539273 TATAATAATA
112539283 AATTTAATATATTTTTTTA-TT
1 AATTTAATATATTTTTTTAGTT
*
112539304 AATTTAAT-TTTTATTTTTAGTT
1 AATTTAATATATT-TTTTTAGTT
112539326 AA
1 AA
112539328 ATTTGATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
AATTTAATATATTTTTTTAGTT
Found at i:112539551 original size:17 final size:16
Alignment explanation
Indices: 112539525--112539580 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
112539515 ACTTTCAATA
*
112539525 TTTTATATTTTATATTT
1 TTTTAAATTTTATA-TT
*
112539542 TTTTAAATTTTA-AAT
1 TTTTAAATTTTATATT
*
112539557 TTTTAATATTTTATAAT
1 TTTTAA-ATTTTATATT
112539574 TTTTAAA
1 TTTTAAA
112539581 ATATTTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 7 0.20
16 8 0.23
17 20 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTATATT
Found at i:112540866 original size:5 final size:5
Alignment explanation
Indices: 112540856--112540887 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
112540846 TTGTGTGTTC
112540856 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
112540888 TCACATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:112540870 original size:9 final size:9
Alignment explanation
Indices: 112540856--112540886 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
112540846 TTGTGTGTTC
112540856 TTTATTTTA
1 TTTATTTTA
112540865 TTTATTTTA
1 TTTATTTTA
112540874 TTTTATTTTA
1 -TTTATTTTA
112540884 TTT
1 TTT
112540887 TTCACATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:112544087 original size:21 final size:21
Alignment explanation
Indices: 112544063--112544116 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
112544053 GTTAATTGCA
112544063 CTAAACATTCTTAAATT-ATCT
1 CTAAACATT-TTAAATTGATCT
112544084 CT-AA-ATTTTAAATTGATCT
1 CTAAACATTTTAAATTGATCT
*
112544103 CTAAAC-TTTAAAAT
1 CTAAACATTTTAAAT
112544117 ATTCTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
20 11 0.38
21 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (21 bp):
CTAAACATTTTAAATTGATCT
Found at i:112544104 original size:19 final size:18
Alignment explanation
Indices: 112544073--112544123 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
112544063 CTAAACATTC
*
112544073 TTAAATTATCTCTAAATT
1 TTAAATTATCTCTAAACT
112544091 TTAAATTGATCTCTAAACT
1 TTAAATT-ATCTCTAAACT
*
112544110 TTAAAATAT-TCTAA
1 TTAAATTATCTCTAA
112544124 TTTAGTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 16 0.53
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (18 bp):
TTAAATTATCTCTAAACT
Found at i:112547856 original size:18 final size:18
Alignment explanation
Indices: 112547816--112547858 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
112547806 GTTCAATGTA
112547816 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
112547834 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
112547852 TAATTAA
1 TAATTAA
112547859 AGACCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:112549376 original size:40 final size:40
Alignment explanation
Indices: 112549321--112549403 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
112549311 GGTATGAGAG
* *
112549321 AATGTGTACATATTTTGCGTAAATATTAATAGAATGTATA
1 AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
* * *
112549361 AATGTTTATATATTTTGCATAAATATTGACAGAATGTATA
1 AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
112549401 AAT
1 AAT
112549404 AGTATGAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (40 bp):
AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
Found at i:112553003 original size:13 final size:15
Alignment explanation
Indices: 112552970--112553003 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
112552960 TGAAAAGGGC
112552970 TCAAAATATTGTTTT
1 TCAAAATATTGTTTT
112552985 TCAAAATATT-TTTT
1 TCAAAATATTGTTTT
112552999 T-AAAA
1 TCAAAA
112553004 CTTTTAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 5 0.26
15 10 0.53
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (15 bp):
TCAAAATATTGTTTT
Found at i:112555699 original size:21 final size:19
Alignment explanation
Indices: 112555663--112555707 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
112555653 TTCTGACTTT
*
112555663 TTTTTTTAAATTTTGTCAC
1 TTTTATTAAATTTTGTCAC
*
112555682 TTTTATTAAATTAATTGTCAT
1 TTTTATTAAATT--TTGTCAC
112555703 TTTTA
1 TTTTA
112555708 GTCGCCCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTATTAAATTTTGTCAC
Found at i:112556184 original size:29 final size:28
Alignment explanation
Indices: 112556125--112556186 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
112556115 AAGCATCTTG
**
112556125 TATATTTTTATATCTATTTTTAATATTT
1 TATATTTTTATATCTATTTTTAATAAAT
*
112556153 TATATTTTTATGTC-ATTTTTATAATAAAT
1 TATATTTTTATATCTA-TTTT-TAATAAAT
112556182 TATAT
1 TATAT
112556187 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 17 0.59
29 11 0.38
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TATATTTTTATATCTATTTTTAATAAAT
Found at i:112560828 original size:20 final size:20
Alignment explanation
Indices: 112560784--112560822 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
112560774 TCCTAAACTT
112560784 TGAATCTTAAACCTAAACCA
1 TGAATCTTAAACCTAAACCA
*
112560804 TGAATCTTAAACTTAAACC
1 TGAATCTTAAACCTAAACC
112560823 TCGAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (20 bp):
TGAATCTTAAACCTAAACCA
Found at i:112567388 original size:102 final size:100
Alignment explanation
Indices: 112567282--112567606 Score: 363
Period size: 102 Copynumber: 3.1 Consensus size: 100
112567272 AAATTTATAT
* *
112567282 TAAAAAATCACAAAACACTAAACTAAACACTAACAACTTATATAACTTAATCTTAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
* *
112567347 AAAATAGTTATAAAATTATTTAAAAAAATTATATTAC
64 AAAATAATTATAAAATTATTTAAAAAAATTACATTAC
*
112567384 TAAAAAATCACAAAACCCTAAACTAAACACTAACAATTTATAACCTAATCCCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT--CATAAATTACTAAC
* *
112567449 AAAATAAATAACTTATAACATTTTTTAAAAACGAAATTACATTAC
64 ---A-AAATAA-TTATAAAATTATTT-AAAA--AAATTACATTAC
* *
112567494 TAAAAAATAACAAAACAC---A--AAACACTAACAATTTATAACCTAATCATAAACTACTAACAA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
* * *
112567554 AATAACTATAAAATTATTTTTTTAAAAATTTACATTAC
66 AATAATTATAAAATTA---TTTAAAAAAATTACATTAC
*
112567592 TAAAAACTCACAAAA
1 TAAAAAATCACAAAA
112567607 AATAACAATT
Statistics
Matches: 193, Mismatches: 17, Indels: 30
0.80 0.07 0.12
Matches are distributed among these distances:
98 32 0.17
99 6 0.03
100 14 0.07
101 5 0.03
102 48 0.25
103 13 0.07
105 26 0.13
106 5 0.03
107 13 0.07
108 4 0.02
110 27 0.14
ACGTcount: A:0.55, C:0.16, G:0.01, T:0.28
Consensus pattern (100 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
AATAATTATAAAATTATTTAAAAAAATTACATTAC
Found at i:112567941 original size:15 final size:16
Alignment explanation
Indices: 112567916--112567948 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
112567906 TTGCCTTTTT
112567916 TTTTATTCTTTCTTTC
1 TTTTATTCTTTCTTTC
*
112567932 TTTT-TTCTTTTTTTC
1 TTTTATTCTTTCTTTC
112567947 TT
1 TT
112567949 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTATTCTTTCTTTC
Found at i:112586492 original size:16 final size:16
Alignment explanation
Indices: 112586473--112586503 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112586463 AAATAACATA
*
112586473 ATTTAATTTTAAAAAT
1 ATTTAAATTTAAAAAT
112586489 ATTTAAATTTAAAAA
1 ATTTAAATTTAAAAA
112586504 AAAAAGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAAAAT
Found at i:112587242 original size:22 final size:21
Alignment explanation
Indices: 112587203--112587252 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
112587193 AGTTTTTTTT
*
112587203 AATATTTACATATTTTTAGTTC
1 AATATTTACATATATTTA-TTC
112587225 AATATTTA-ATATAATTTATTC
1 AATATTTACATAT-ATTTATTC
112587246 ATATATT
1 A-ATATT
112587253 AAAATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTTACATATATTTATTC
Found at i:112593021 original size:230 final size:230
Alignment explanation
Indices: 112592611--112593036 Score: 683
Period size: 230 Copynumber: 1.9 Consensus size: 230
112592601 GAGGAGACCA
* * *
112592611 CAACAAGCCGAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACATAAGTTAAGAAGGCCGA
1 CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACAAAAGTTAAGAAGACCGA
* * * * *
112592676 GAACATGACTAGATATAAGACATAAATCAAGTTTCCTTTGTGTAAGACCTATGTTACTCTGGCTC
66 GAACATGACTACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACTC
112592741 TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
131 TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
112592806 TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
196 TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
* * * *
112592841 CAACAAGGCAAAAGTCACCGGAGATATAA-AAAATTCCCATTAAAACAAAAAGTTAAGAATACCG
1 CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAAC-AAAAGTTAAGAAGACCG
*
112592905 AGAACATGACTACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTGCACCGACT
65 AGAACATGACTACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACT
* * * *
112592970 CTTCATTTTTCTTTTAAGTACTCAATTCCAACACTCATGTCTGATGTATATTTGGACATTGGCAT
130 CTTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCAT
112593035 GT
195 GT
112593037 TGTCCAGTGT
Statistics
Matches: 178, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
229 16 0.09
230 162 0.91
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (230 bp):
CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACAAAAGTTAAGAAGACCGA
GAACATGACTACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACTC
TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
Found at i:112593448 original size:187 final size:187
Alignment explanation
Indices: 112593132--112593488 Score: 633
Period size: 187 Copynumber: 1.9 Consensus size: 187
112593122 TGTCGGACAC
* **
112593132 ATATTGTAAAACAATTCCATTACCATGATAAATGCCAGATATAACAGATCAAATTTGTAGTACAA
1 ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
*
112593197 ATAGATATAACAAAGAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTACATGCATC
66 ATAGATATAACAAAGAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
* *
112593262 ACGTAATATAGAGTAGGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
131 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
* *
112593319 ATATTGTAGAACAATTCCATTACCATGATAAATGCCAAATATAACGGATCAAATTCATAGTACAA
1 ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
*
112593384 ATAGATATAACAAATAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
66 ATAGATATAACAAAGAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
112593449 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCA
131 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCA
112593489 ATGTAATGAG
Statistics
Matches: 161, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
187 161 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (187 bp):
ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
ATAGATATAACAAAGAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
Found at i:112600010 original size:23 final size:22
Alignment explanation
Indices: 112599959--112600010 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
112599949 CCTCGTCTTT
*
112599959 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
112599981 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
112600004 TTCTTTT
1 TTCTTTT
112600011 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:112600025 original size:18 final size:18
Alignment explanation
Indices: 112600004--112600042 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
112599994 TTTCTTCAAC
* *
112600004 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
112600022 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
112600040 TTC
1 TTC
112600043 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:112603166 original size:36 final size:36
Alignment explanation
Indices: 112603119--112603191 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
112603109 TACCCAAAAG
112603119 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
1 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
112603155 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
1 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
112603191 A
1 A
112603192 GCCCAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (36 bp):
ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
Found at i:112610611 original size:22 final size:22
Alignment explanation
Indices: 112610586--112610637 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
112610576 ACATTCATAT
112610586 AATAACAATA-AAATAGTAGCAA
1 AATAACAA-AGAAATAGTAGCAA
** *
112610608 AATAGTAAAGAAATAGTGGCAA
1 AATAACAAAGAAATAGTAGCAA
*
112610630 AACAACAA
1 AATAACAA
112610638 CATTTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (22 bp):
AATAACAAAGAAATAGTAGCAA
Found at i:112610826 original size:13 final size:13
Alignment explanation
Indices: 112610808--112610858 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
112610798 TGTTTGGCAA
112610808 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
112610821 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
112610834 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
112610847 TGCTTTTGAAAA
1 TGCTTTTGAAAA
112610859 TTTTAGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:112611045 original size:27 final size:26
Alignment explanation
Indices: 112610997--112611053 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
112610987 AGCAATAATA
*
112610997 TAAAATAATTTATTATAAATT-ATTGT
1 TAAAATAATTAATTATAAATTAATT-T
112611023 TAAAA-AATTAATATATAATATTAATTT
1 TAAAATAATTAAT-TATAA-ATTAATTT
112611050 TAAA
1 TAAA
112611054 TATTTCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 10 0.37
27 8 0.30
28 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAAATAATTAATTATAAATTAATTT
Found at i:112613317 original size:19 final size:19
Alignment explanation
Indices: 112613265--112613323 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
112613255 ATTGGATAAA
* * *
112613265 GACGAATCCAAGACACTCG
1 GACGAATCCAAGAGAGTAG
112613284 GACGAATCCAAGAGAGTAG
1 GACGAATCCAAGAGAGTAG
*
112613303 GACGAATCCAGGAGAGTAG
1 GACGAATCCAAGAGAGTAG
112613322 GA
1 GA
112613324 AAGGGCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (19 bp):
GACGAATCCAAGAGAGTAG
Found at i:112616960 original size:29 final size:29
Alignment explanation
Indices: 112616909--112616979 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
112616899 TCTTCACAAA
*
112616909 TTTAAAATTTAATTTTTGAACTTTT-ATT
1 TTTAAAATTTAATTTTTGAACTTTTAAAT
*
112616937 TTTAAGAATTTAATTTATT-TACTTTTCAAAT
1 TTTAA-AATTTAATTT-TTGAACTTTT-AAAT
112616968 TTTAAAATTTAA
1 TTTAAAATTTAA
112616980 ATCCAATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 16 0.43
30 9 0.24
31 7 0.19
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTAAAATTTAATTTTTGAACTTTTAAAT
Found at i:112617773 original size:29 final size:29
Alignment explanation
Indices: 112617740--112617797 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
112617730 TGTGCAACGA
112617740 AAGATCCCTTCTATTTCCCCATTATTTAT
1 AAGATCCCTTCTATTTCCCCATTATTTAT
112617769 AAGATCCCTTCTATTTCCCCATTATTTAT
1 AAGATCCCTTCTATTTCCCCATTATTTAT
112617798 TCTTTCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.03, T:0.45
Consensus pattern (29 bp):
AAGATCCCTTCTATTTCCCCATTATTTAT
Found at i:112623084 original size:24 final size:23
Alignment explanation
Indices: 112623056--112623102 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
112623046 CGTTAAGACA
112623056 GTCACTCAACTATGATTTTTTTTT
1 GTCACTCAACTATG-TTTTTTTTT
*
112623080 GTCACTCAATTATGTTTTTTTTT
1 GTCACTCAACTATGTTTTTTTTT
112623103 CTTTTTAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (23 bp):
GTCACTCAACTATGTTTTTTTTT
Found at i:112627928 original size:40 final size:41
Alignment explanation
Indices: 112627878--112627963 Score: 165
Period size: 40 Copynumber: 2.1 Consensus size: 41
112627868 CTTAGGCATG
112627878 ACTTCAAAATTGGTAAAGCTGCAGAGATAGTTTTGAGAATA
1 ACTTCAAAATTGGTAAAGCTGCAGAGATAGTTTTGAGAATA
112627919 ACTT-AAAATTGGTAAAGCTGCAGAGATAGTTTTGAGAATA
1 ACTTCAAAATTGGTAAAGCTGCAGAGATAGTTTTGAGAATA
112627959 ACTTC
1 ACTTC
112627964 TATTGGGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (41 bp):
ACTTCAAAATTGGTAAAGCTGCAGAGATAGTTTTGAGAATA
Found at i:112628033 original size:23 final size:23
Alignment explanation
Indices: 112628003--112628048 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
112627993 GAACAACTTC
112628003 CACATTGAGGAAGTTGTGGAGGT
1 CACATTGAGGAAGTTGTGGAGGT
112628026 CACATTGAGGAAGTTGTGGAGGT
1 CACATTGAGGAAGTTGTGGAGGT
112628049 GATCTTAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.39, T:0.26
Consensus pattern (23 bp):
CACATTGAGGAAGTTGTGGAGGT
Found at i:112630240 original size:16 final size:15
Alignment explanation
Indices: 112630219--112630256 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
112630209 TTCTTTTCTA
112630219 TTATTATTATTATTAT
1 TTATTATTATT-TTAT
112630235 TTATTATTTATTTTAT
1 TTATTA-TTATTTTAT
112630251 TT-TTAT
1 TTATTAT
112630257 GTAAAGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 3 0.14
16 12 0.57
17 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATTATTTTAT
Found at i:112630726 original size:16 final size:17
Alignment explanation
Indices: 112630697--112630733 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
112630687 AATTTAATTG
112630697 AAAAATAGTCAAATTGAT
1 AAAAATAGTCAAATT-AT
112630715 AAAAAT-GT-AAATTAT
1 AAAAATAGTCAAATTAT
112630730 AAAA
1 AAAA
112630734 GTTAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 2 0.11
18 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (17 bp):
AAAAATAGTCAAATTAT
Found at i:112630937 original size:25 final size:25
Alignment explanation
Indices: 112630904--112630951 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
112630894 ATAATTATTT
* *
112630904 ATTTTAATATATAT-TTTATAATTAA
1 ATTTAAATAAATATGTTT-TAATTAA
112630929 ATTTAAATAAATATGTTTTAATT
1 ATTTAAATAAATATGTTTTAATT
112630952 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTAAATAAATATGTTTTAATTAA
Found at i:112630998 original size:3 final size:3
Alignment explanation
Indices: 112630992--112631017 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
112630982 AATTAAAAAA
112630992 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
112631018 AGAATCCACA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:112631762 original size:4 final size:4
Alignment explanation
Indices: 112631753--112631781 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
112631743 AGCAAATGTC
112631753 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
112631782 CATGCTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:112635806 original size:4 final size:4
Alignment explanation
Indices: 112635799--112635841 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
112635789 CTATGAAGCA
112635799 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
112635842 CCTCATAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:112641299 original size:17 final size:18
Alignment explanation
Indices: 112641272--112641314 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
112641262 AACATTTACA
112641272 TATTGTGTAATTTAATTTT
1 TATT-TGTAATTTAATTTT
*
112641291 T-TTTGTAATTTTATTTT
1 TATTTGTAATTTAATTTT
112641308 TATTTGT
1 TATTTGT
112641315 GATCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 14 0.64
18 7 0.32
19 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (18 bp):
TATTTGTAATTTAATTTT
Found at i:112641308 original size:18 final size:17
Alignment explanation
Indices: 112641272--112641314 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
112641262 AACATTTACA
112641272 TATTGTGTAATTTAATTT
1 TATT-TGTAATTTAATTT
* *
112641290 TTTTTGTAATTTTATTTT
1 TATTTGTAA-TTTAATTT
112641308 TATTTGT
1 TATTTGT
112641315 GATCTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
TATTTGTAATTTAATTT
Found at i:112644151 original size:52 final size:52
Alignment explanation
Indices: 112644032--112644190 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
112644022 CGGATCACAT
* * ** * * *
112644032 ATCACACTGATGCCATATCCCTAATATGGTCTTACACAGAAGTACATAATCAC
1 ATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACAT-ATCAC
* * * * *
112644085 ATCTCACCGATGCCATAGCCCTGTTATGGTCTTATATGGGAGCACTTATCAC
1 ATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACATATCAC
112644137 ATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACATATCAC
1 ATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACATATCAC
112644189 AT
1 AT
112644191 GTTGCCATGG
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
52 54 0.60
53 36 0.40
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (52 bp):
ATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACATATCAC
Found at i:112651028 original size:30 final size:29
Alignment explanation
Indices: 112650994--112651058 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
112650984 AACCCTCTAA
* *
112650994 AATTACA-CTCATAAATTTTCTTAAAATTTT
1 AATTACAGCTCA-AAATTTT-TGAAAAATTT
*
112651024 AATTAGATGCTCAAAATTTTTGAAAAATTT
1 AATTACA-GCTCAAAATTTTTGAAAAATTT
112651054 AATTA
1 AATTA
112651059 GACCCTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 19 0.63
31 7 0.23
32 4 0.13
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (29 bp):
AATTACAGCTCAAAATTTTTGAAAAATTT
Found at i:112651059 original size:30 final size:32
Alignment explanation
Indices: 112651001--112651060 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
112650991 TAAAATTACA
* *
112651001 CTCATAAATTTTCTTAAAATTTTAATTAGATG
1 CTCATAAATTTTCTGAAAAATTTAATTAGATG
112651033 CTCA-AAATTTT-TGAAAAATTTAATTAGA
1 CTCATAAATTTTCTGAAAAATTTAATTAGA
112651061 CCCTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 15 0.58
31 7 0.27
32 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (32 bp):
CTCATAAATTTTCTGAAAAATTTAATTAGATG
Found at i:112652879 original size:131 final size:131
Alignment explanation
Indices: 112652637--112652880 Score: 391
Period size: 131 Copynumber: 1.9 Consensus size: 131
112652627 TGTTGAAAAT
* * * *
112652637 GAAGAGAATTCAGACCAGCTACAATGATATGGGGTTACCTACTAATGGTTATCGTGATATCGACA
1 GAAGAGAATTCAGACCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAACA
**
112652702 CCCCAAGATTCCCAATCTCAAGACTTTGGTGGGTATTGTGAAACCCAAACTTGGGTATTGGTTAT
66 CCCCAAGATTCCCAATCTCAAGACTTTGGTGGGTACCGTGAAACCCAAACTTGGGTATTGGTTAT
112652767 A
131 A
*
112652768 GAAGAGAATTCA-AGCCAACTACAATGATATGGGGATACCTAGTAATGGTTATCGTGATACCAAC
1 GAAGAGAATTCAGA-CCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAAC
* *
112652832 ACCCCAAGATTCCCAATCTCAAGACTTTTGTGGGTACCGTGACACCCAA
65 ACCCCAAGATTCCCAATCTCAAGACTTTGGTGGGTACCGTGAAACCCAA
112652881 GCCTGAGTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
130 1 0.01
131 102 0.99
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (131 bp):
GAAGAGAATTCAGACCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAACA
CCCCAAGATTCCCAATCTCAAGACTTTGGTGGGTACCGTGAAACCCAAACTTGGGTATTGGTTAT
A
Found at i:112654661 original size:36 final size:36
Alignment explanation
Indices: 112654614--112654686 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
112654604 CCAATATGAT
112654614 GGAGAAATTATTGGAAGTTGTGTGATATCAAGCCGA
1 GGAGAAATTATTGGAAGTTGTGTGATATCAAGCCGA
112654650 GGAGAAATTATTGGAAGTTGTGTGATATCAAGCCGA
1 GGAGAAATTATTGGAAGTTGTGTGATATCAAGCCGA
112654686 G
1 G
112654687 ATGAAAGCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (36 bp):
GGAGAAATTATTGGAAGTTGTGTGATATCAAGCCGA
Found at i:112655068 original size:21 final size:22
Alignment explanation
Indices: 112655017--112655068 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
112655007 AGTTACAAGG
112655017 TCAGCCCACATGGCAGTGTACCA
1 TCAG-CCACATGGCAGTGTACCA
*
112655040 T-AGTCACATGGCAGTGT-CTC-
1 TCAGCCACATGGCAGTGTAC-CA
112655060 TCAGCCACA
1 TCAGCCACA
112655069 CGTCCGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 20 0.80
22 2 0.08
23 1 0.04
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (22 bp):
TCAGCCACATGGCAGTGTACCA
Done.