Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 27 of 240
Found at i:9531238 original size:18 final size:19
Alignment explanation
Indices: 9531215--9531254 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9531205 CATAATGATA
9531215 TATATAATGTA-AT-TTTAT
1 TATATAAT-TACATATTTAT
9531233 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
9531252 TAT
1 TAT
9531255 TTTATTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 10 0.50
19 8 0.40
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:9531259 original size:95 final size:99
Alignment explanation
Indices: 9531092--9531290 Score: 300
Period size: 95 Copynumber: 2.0 Consensus size: 99
9531082 TTTAAAATAT
9531092 AAAATATATTTAACATAATGATAAATATCACATATATAATTTTCATTATATAATTACATATTTAT
1 AAAATATATTTAACATAATGAT-AATATCACATATATAATTTTCATTATATAATTACATATTTAT
* *
9531157 TGATTTATTTATATAGATAAAAGAGTTATTAATTA
65 TGATTTATTTATATAAATAAAAAAGTTATTAATTA
* *
9531192 AAAATATATTTAACATAATGAT-ATAT-ATA-ATGTAATTTT-ATTATATAATTACATATTTATT
1 AAAATATATTTAACATAATGATAATATCACATATATAATTTTCATTATATAATTACATATTTATT
*
9531253 -ATTTTATTTCTATAAATAAAAAAGTTATTAATTA
66 GA-TTTATTTATATAAATAAAAAAGTTATTAATTA
9531287 AAAA
1 AAAA
9531291 GATGAATTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
94 1 0.01
95 55 0.59
96 9 0.10
97 2 0.02
98 4 0.04
100 22 0.24
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (99 bp):
AAAATATATTTAACATAATGATAATATCACATATATAATTTTCATTATATAATTACATATTTATT
GATTTATTTATATAAATAAAAAAGTTATTAATTA
Found at i:9531463 original size:16 final size:15
Alignment explanation
Indices: 9531428--9531466 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9531418 TATATTAAAG
9531428 AAAAACACATTTTTC
1 AAAAACACATTTTTC
9531443 AAAAATCAC-TTTTTC
1 AAAAA-CACATTTTTC
9531458 AAAAA-ACAT
1 AAAAACACAT
9531467 CCCTCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.09
14 1 0.05
15 16 0.73
16 3 0.14
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAACACATTTTTC
Found at i:9531780 original size:24 final size:24
Alignment explanation
Indices: 9531753--9531804 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
9531743 CAAAGTATAA
*
9531753 AGAGAGAAAAAAAAGTAGAATG-TT
1 AGAGAGAAAAAAAAG-AGAAAGATT
* *
9531777 AGAGAGTAATAAAAGAGAAAGATT
1 AGAGAGAAAAAAAAGAGAAAGATT
9531801 AGAG
1 AGAG
9531805 TGCAATTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (24 bp):
AGAGAGAAAAAAAAGAGAAAGATT
Found at i:9556923 original size:2 final size:2
Alignment explanation
Indices: 9556916--9556940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9556906 ATCAGTTTGC
9556916 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9556941 CAAAGAGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9562974 original size:20 final size:19
Alignment explanation
Indices: 9562949--9562996 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9562939 AAAACAACTG
* *
9562949 TTGTTTTCTTGCATTTTTTA
1 TTGTTTTCTT-AATATTTTA
9562969 TTGTTTTGC-TAATATTTTA
1 TTGTTTT-CTTAATATTTTA
9562988 TTGTTTTCT
1 TTGTTTTCT
9562997 CACTACTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 8 0.33
21 1 0.04
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (19 bp):
TTGTTTTCTTAATATTTTA
Found at i:9568956 original size:26 final size:26
Alignment explanation
Indices: 9568927--9568981 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
9568917 CATGATATTT
9568927 CTTTTTATCAATTACCATGCAAACAA
1 CTTTTTATCAATTACCATGCAAACAA
9568953 CTTTTTATCAATTACCATGCAAACAA
1 CTTTTTATCAATTACCATGCAAACAA
9568979 CTT
1 CTT
9568982 GTAGAGCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
CTTTTTATCAATTACCATGCAAACAA
Found at i:9572262 original size:30 final size:31
Alignment explanation
Indices: 9572217--9572275 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
9572207 ATATTTAGGG
*
9572217 TAAAAAAACACAACAATCACTAAA-TTTGGT
1 TAAAAAAACAAAACAATCACTAAACTTTGGT
*
9572247 TAAAATAACAAAACAATCACTAAACTTTG
1 TAAAAAAACAAAACAATCACTAAACTTTG
9572276 AAAAGTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (31 bp):
TAAAAAAACAAAACAATCACTAAACTTTGGT
Found at i:9572323 original size:30 final size:29
Alignment explanation
Indices: 9572263--9572325 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
9572253 AACAAAACAA
* *
9572263 TCACTAAACTTTGAAAAGTTACAACTTAG
1 TCACTAAACTTTGAAAAATAACAACTTAG
*
9572292 TCACTGAACTTTAGAAAAATAACAAGC-TAG
1 TCACTAAACTTT-GAAAAATAACAA-CTTAG
9572322 TCAC
1 TCAC
9572326 CAATAACCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.38
30 17 0.59
31 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (29 bp):
TCACTAAACTTTGAAAAATAACAACTTAG
Found at i:9578424 original size:37 final size:37
Alignment explanation
Indices: 9578359--9578467 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
9578349 TACGTATAAT
* *
9578359 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9578394 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
9578431 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9578468 AGAAGCTATC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 10 0.15
36 3 0.04
37 55 0.81
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9578484 original size:46 final size:46
Alignment explanation
Indices: 9578431--9578555 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 46
9578421 TAAGTGTAGC
*
9578431 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCAGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCAGAAGCTAT
* *
9578477 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCAGAAGCTAT
*
9578529 CACCTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9578556 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
46 26 0.38
48 1 0.01
50 1 0.01
52 41 0.59
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCAGAAGCTAT
Found at i:9578510 original size:52 final size:52
Alignment explanation
Indices: 9578442--9578541 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
9578432 ACTTATCACT
* *
9578442 TTGTCTCTTGATCAGATAAGTATAGCAGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCAGAAGCTATCACCTATCACTTTCCAC
* *
9578494 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCAGAAGCTATCACCTATCACTTT
9578542 GTCACTTGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCAGAAGCTATCACCTATCACTTTCCAC
Found at i:9581549 original size:16 final size:16
Alignment explanation
Indices: 9581528--9581561 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9581518 TACTTAAAAG
9581528 TTAAAACTAATTCTTA
1 TTAAAACTAATTCTTA
* *
9581544 TTAAAATTAATTGTTA
1 TTAAAACTAATTCTTA
9581560 TT
1 TT
9581562 GAATTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTCTTA
Found at i:9581661 original size:25 final size:25
Alignment explanation
Indices: 9581631--9581678 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
9581621 AAGATTACTT
9581631 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
9581656 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
9581679 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:9582471 original size:9 final size:9
Alignment explanation
Indices: 9582459--9582495 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9582449 ATCATCATCA
9582459 TCATCGTCC
1 TCATCGTCC
*
9582468 TCATCGTCG
1 TCATCGTCC
9582477 TCATCGTCC
1 TCATCGTCC
9582486 TCATCGTCC
1 TCATCGTCC
9582495 T
1 T
9582496 TTTTGCAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.41, G:0.14, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:9584958 original size:13 final size:13
Alignment explanation
Indices: 9584940--9585073 Score: 103
Period size: 13 Copynumber: 10.2 Consensus size: 13
9584930 AATTTAAAAG
*
9584940 TTAAAACATTATA
1 TTAAAACAGTATA
*
9584953 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
9584967 TTATAACAGTATA
1 TTAAAACAGTATA
*
9584980 TTAAAACAATATA
1 TTAAAACAGTATA
*
9584993 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
9585006 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
9585020 TTAAAATAGTATA
1 TTAAAACAGTATA
* * *
9585033 TTATAA-ATTTTA
1 TTAAAACAGTATA
*
9585045 -TAACAATA-TATTA
1 TTAA-AACAGTA-TA
9585058 TTAAAACAGTATA
1 TTAAAACAGTATA
9585071 TTA
1 TTA
9585074 CATTTAAAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
11 2 0.02
12 7 0.07
13 62 0.63
14 27 0.28
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:9584974 original size:27 final size:27
Alignment explanation
Indices: 9584908--9585007 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
9584898 AAATTAAATG
* **
9584908 TATATTTATAACAGTATATTAAAA-TT
1 TATAATTATAACAGTATATTAAAACAA
* * *
9584934 TAAAAGTTAAAACATTATATTAAAACAA
1 TATAA-TTATAACAGTATATTAAAACAA
9584962 TATAATTATAACAGTATATTAAAACAA
1 TATAATTATAACAGTATATTAAAACAA
* *
9584989 TAT-ATTAAAAAAGTATATT
1 TATAATTATAACAGTATATT
9585008 TATAATAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 17 0.28
27 40 0.66
28 4 0.07
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (27 bp):
TATAATTATAACAGTATATTAAAACAA
Found at i:9584985 original size:40 final size:40
Alignment explanation
Indices: 9584940--9585035 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
9584930 AATTTAAAAG
*
9584940 TTAAAACATTATATTAAAACAA-TATAATTATAACAGTATA
1 TTAAAACAATATATTAAAA-AAGTATAATTATAACAGTATA
* *
9584980 TTAAAACAATATATTAAAAAAGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
* *
9585020 TTAAAATAGTATATTA
1 TTAAAACAATATATTA
9585036 TAAATTTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
Found at i:9586793 original size:38 final size:38
Alignment explanation
Indices: 9586709--9586825 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
9586699 ACATTAACAG
* * * *
9586709 AACACCATTAACAGCAAAAATAAAAAACA-CA-ACCATT
1 AACAACATTAACAGC-AAAATCAAAATCAGAACACCATT
* *
9586746 AACAGCATTAAGAGCAAAATCAAAATCAGAACACCATT
1 AACAACATTAACAGCAAAATCAAAATCAGAACACCATT
*
9586784 AACAACATTAACAGCAAAATCAAAATCAGAGCACCATT
1 AACAACATTAACAGCAAAATCAAAATCAGAACACCATT
9586822 AACA
1 AACA
9586826 GCAAAAATCA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 11 0.16
37 14 0.20
38 45 0.64
ACGTcount: A:0.56, C:0.23, G:0.07, T:0.15
Consensus pattern (38 bp):
AACAACATTAACAGCAAAATCAAAATCAGAACACCATT
Found at i:9593983 original size:33 final size:36
Alignment explanation
Indices: 9593946--9594020 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 36
9593936 AAAAAACATA
* * *
9593946 ATTTAATT-TAATATAAAATTATTTTAA-ATGAT-T
1 ATTTAATTATAATACAAAATCATTTTAATATAATGT
*
9593979 ATTT-ATTATATTACAAAATCATTTTAATATAATGT
1 ATTTAATTATAATACAAAATCATTTTAATATAATGT
9594014 ATTTAAT
1 ATTTAAT
9594021 ACTCATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
32 3 0.09
33 20 0.59
34 4 0.12
35 5 0.15
36 2 0.06
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
ATTTAATTATAATACAAAATCATTTTAATATAATGT
Found at i:9594272 original size:14 final size:15
Alignment explanation
Indices: 9594253--9594281 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9594243 GATATTTGTG
9594253 AATTTAT-AATTTAT
1 AATTTATAAATTTAT
9594267 AATTTATAAATTTAT
1 AATTTATAAATTTAT
9594282 GTAACATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTATAAATTTAT
Found at i:9595398 original size:21 final size:22
Alignment explanation
Indices: 9595369--9595415 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9595359 CTTCTTTAAA
*
9595369 TATCATAAAGTTAATA-TTATT
1 TATCATAAAGTTAAAATTTATT
* *
9595390 TATCTTAAATTTAAAATTTATT
1 TATCATAAAGTTAAAATTTATT
9595412 TATC
1 TATC
9595416 CCTTCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (22 bp):
TATCATAAAGTTAAAATTTATT
Found at i:9595479 original size:15 final size:16
Alignment explanation
Indices: 9595459--9595488 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9595449 TTAGTATATC
9595459 ATTTTAA-ATTTATTA
1 ATTTTAATATTTATTA
9595474 ATTTTAATATTTATT
1 ATTTTAATATTTATT
9595489 TTAAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTAATATTTATTA
Found at i:9596682 original size:6 final size:7
Alignment explanation
Indices: 9596656--9596681 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9596646 ATAAATTTAT
9596656 ATTTTTC
1 ATTTTTC
9596663 ATTTTTC
1 ATTTTTC
9596670 ATTTTTC
1 ATTTTTC
9596677 ATTTT
1 ATTTT
9596682 CCTCATGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTC
Found at i:9605093 original size:45 final size:45
Alignment explanation
Indices: 9604981--9605094 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
9604971 TAGGATATCG
*
9604981 TAGCATCTTTCAGCTATTGTCTTAATCATGTTTACCATGATGCCA
1 TAGCATCTTTCAGCTATTGTCTTAATCATGTTCACCATGATGCCA
* * * * * * *
9605026 TAACGTCTTTCAACCATGGTCTTACTCAT-TTCCATCATGATGCCA
1 TAGCATCTTTCAGCTATTGTCTTAATCATGTT-CACCATGATGCCA
9605071 TAGCATCTTTCAGCTATTGTCTTA
1 TAGCATCTTTCAGCTATTGTCTTA
9605095 TCCATGGTGT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (45 bp):
TAGCATCTTTCAGCTATTGTCTTAATCATGTTCACCATGATGCCA
Found at i:9607814 original size:100 final size:99
Alignment explanation
Indices: 9607641--9607829 Score: 324
Period size: 100 Copynumber: 1.9 Consensus size: 99
9607631 TCTAAATATA
* *
9607641 TTGTTTCAACCAAGGTTAAGTTTTTGTTTGATTTTTAAGAATATTATTTATTTTTATTTCTAGAA
1 TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
9607706 AAACATTTTTATTTTTTTAACATATAGAAATAATT
66 AAACATTTTTATTTTTTTAA-ATATAGAAATAATT
* *
9607741 TTGTTTCAACCAAGGTTAAGTTTTTATTTGGTTTTTAAGAATATTATTTGTTTTTATTTCTAAAA
1 TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
*
9607806 AAACATTTTTCTTTTTTTAAATAT
66 AAACATTTTTATTTTTTTAAATAT
9607830 GTTTGATAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 4 0.05
100 80 0.95
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (99 bp):
TTGTTTCAACCAAGGTTAAGTTTTTATTTGATTTTTAAGAATATTATTTATTTTTATTTCTAAAA
AAACATTTTTATTTTTTTAAATATAGAAATAATT
Found at i:9608915 original size:43 final size:43
Alignment explanation
Indices: 9608707--9608912 Score: 315
Period size: 43 Copynumber: 4.8 Consensus size: 43
9608697 GCGTCGCTAA
*
9608707 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
9608750 CTTTAACGGCGCTTATCCCACAAACGCCACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
9608793 TTTTAGCGGCG-TATTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCT-TTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
9608836 CTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAAACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
**
9608879 CTTTAGCGGTACTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
9608913 AACATGACTT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
42 1 0.01
43 145 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:9609136 original size:18 final size:18
Alignment explanation
Indices: 9609113--9609172 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
9609103 TTAAAACAAG
9609113 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
9609131 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
9609148 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
9609166 TTACATT
1 TTACATT
9609173 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:9613634 original size:7 final size:7
Alignment explanation
Indices: 9613625--9613677 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
9613615 CACTAACTCT
*
9613625 TAACCTT
1 TAACCTC
9613632 TAACCTC
1 TAACCTC
9613639 TAACCTC
1 TAACCTC
*
9613646 TAACCCC
1 TAACCTC
9613653 TAACC-C
1 TAACCTC
*
9613659 TAAACCCC
1 T-AACCTC
*
9613667 TAACCAC
1 TAACCTC
9613674 TAAC
1 TAAC
9613678 TACTAACACC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
6 2 0.05
7 37 0.90
8 2 0.05
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (7 bp):
TAACCTC
Found at i:9613656 original size:21 final size:19
Alignment explanation
Indices: 9613632--9613703 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 19
9613622 TCTTAACCTT
9613632 TAACCTCTAACCTCTAACCCC
1 TAACC-CTAACC-CTAACCCC
*
9613653 TAACCCTAAACCCCTAACCAC
1 TAACCCT-AA-CCCTAACCCC
*
9613674 TAACTACTAACACCTAACCCC
1 TAAC-CCTAAC-CCTAACCCC
*
9613695 CAACCCTAA
1 TAACCCTAA
9613704 ACATTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 7 0.17
21 31 0.74
22 4 0.10
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (19 bp):
TAACCCTAACCCTAACCCC
Found at i:9613706 original size:21 final size:21
Alignment explanation
Indices: 9613645--9613706 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
9613635 CCTCTAACCT
*
9613645 CTAACCCCTAACCCTAAACCC
1 CTAACCCCTAACCCTAAACAC
* *
9613666 CTAACCACTAACTACT-AACAC
1 CTAACCCCTAAC-CCTAAACAC
*
9613687 CTAACCCCCAACCCTAAACA
1 CTAACCCCTAACCCTAAACA
9613707 TTATTTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAACCCCTAACCCTAAACAC
Found at i:9613869 original size:14 final size:15
Alignment explanation
Indices: 9613850--9613882 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
9613840 CTTAAACTAG
9613850 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
9613864 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
9613879 AATC
1 AATC
9613883 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:9614265 original size:20 final size:19
Alignment explanation
Indices: 9614224--9614267 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9614214 AATTTTAATT
*
9614224 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
9614243 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
9614263 AATAT
1 AATAT
9614268 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:9614338 original size:41 final size:41
Alignment explanation
Indices: 9614272--9614547 Score: 313
Period size: 41 Copynumber: 6.7 Consensus size: 41
9614262 AAATATTTTT
* * *
9614272 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTTTGAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* *
9614314 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
9614355 GCGGCGCTTTTCCAAAAACGCTGCTAAAGGTCT-AGGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGA-GCATTA
* *
9614396 GCGGCGCTTTTTCC-AAAACGCCACTAAAAGTCTGAGCATTA
1 GCGGCGC-TTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* ** * * *
9614437 GCGTCGCTTTTTTATAAACCCCACTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * ** *
9614478 GCGGCGCTTTTCCATAAACGTCGCTAAATTTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
9614519 GCGGCGCTTTTTCAAAAATGCCACTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
9614548 CCTCGAAAGG
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.03
41 180 0.90
42 14 0.07
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:9614517 original size:123 final size:123
Alignment explanation
Indices: 9614272--9614546 Score: 381
Period size: 123 Copynumber: 2.2 Consensus size: 123
9614262 AAATATTTTT
* * * * * *
9614272 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTTTGAGCATTAGCGGCGCTTTTCCATAAACGCCG
1 GCGGCGCTTTTTC-AAAAACGCCACTAAAAGTCTGAGCATTAGCGGCGCTTTTCCATAAACCCCA
*
9614337 CTAAAGGTCTAAGCATTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGGTCTAGGCATTA
65 CTAAAGGTCTAAGCATTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGGTCTAAGCATTA
* * **
9614396 GCGGCGCTTTTTCCAAAACGCCACTAAAAGTCTGAGCATTAGCGTCGCTTTTTTATAAACCCCAC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAAGTCTGAGCATTAGCGGCGCTTTTCCATAAACCCCAC
* * **
9614461 TAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACG-TCGCTAAATTTCTAAGCATTA
66 TAAAGGTCTAAGCATTAGCGGCGCTTTTCCAAAAACGCT-GCTAAAGGTCTAAGCATTA
*
9614519 GCGGCGCTTTTTCAAAAATGCCACTAAA
1 GCGGCGCTTTTTCAAAAACGCCACTAAA
9614547 GCCTCGAAAG
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
122 1 0.01
123 119 0.89
124 13 0.10
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (123 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAAAGTCTGAGCATTAGCGGCGCTTTTCCATAAACCCCAC
TAAAGGTCTAAGCATTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGGTCTAAGCATTA
Found at i:9614543 original size:82 final size:82
Alignment explanation
Indices: 9614272--9614547 Score: 358
Period size: 82 Copynumber: 3.4 Consensus size: 82
9614262 AAATATTTTT
* * *
9614272 GCGGCGCTTTTTCAAAAAACACCGCTAAAGGTTTGAGCATTAGCGGCGCTTTTCCATAAACGCCG
1 GCGGCGCTTTTTC-AAAAACGCCACTAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACGCCG
*
9614337 CTAAAGGTCTAAGCATTA
65 CTAAAAGTCTAAGCATTA
* **
9614355 GCGGCGCTTTTCCAAAAACGCTGCTAAAGGTCT-AGGCATTAGCGGCGCTTTTTCCA-AAACGCC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGGTCTGA-GCATTAGCGGCGC-TTTTCCATAAACGCC
* *
9614418 ACTAAAAGTCTGAGCATTA
64 GCTAAAAGTCTAAGCATTA
* * * * *
9614437 GCGTCGCTTTTTTATAAACCCCACTAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACGTCGC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACGCCGC
**
9614502 TAAATTTCTAAGCATTA
66 TAAAAGTCTAAGCATTA
*
9614519 GCGGCGCTTTTTCAAAAATGCCACTAAAG
1 GCGGCGCTTTTTCAAAAACGCCACTAAAG
9614548 CCTCGAAAGG
Statistics
Matches: 165, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
81 8 0.05
82 137 0.83
83 20 0.12
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (82 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACGCCGC
TAAAAGTCTAAGCATTA
Found at i:9614647 original size:40 final size:40
Alignment explanation
Indices: 9614598--9614722 Score: 137
Period size: 41 Copynumber: 3.1 Consensus size: 40
9614588 TTTGCGATGC
* * * *
9614598 TTTTC-TAAAAAACGCCACTAATGCTCATTTTTAGCGGCG
1 TTTTCTTAAAAAGCACCGCTAATGCTGATTTTTAGCGGCG
* * * *
9614637 TTTTCTTAAAAAGCACCGTTAATGCTGGATCTTTAGTGGTG
1 TTTTCTTAAAAAGCACCGCTAATGCT-GATTTTTAGCGGCG
9614678 ATTTT-TTAAAAAGCACCGCTAATGCTTGATTTTTAGCGGCG
1 -TTTTCTTAAAAAGCACCGCTAATGC-TGATTTTTAGCGGCG
9614719 TTTT
1 TTTT
9614723 TTATTCAAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 5 0.07
40 20 0.29
41 40 0.57
42 5 0.07
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTTCTTAAAAAGCACCGCTAATGCTGATTTTTAGCGGCG
Found at i:9614740 original size:41 final size:40
Alignment explanation
Indices: 9614615--9614725 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 40
9614605 AAAAACGCCA
*
9614615 CTAATGC-TCATTTTTAGCGGCGTTTTCTTAAAAAGCACCG
1 CTAATGCTTGATTTTTAGCGGCGTTTT-TTAAAAAGCACCG
* * * * *
9614655 TTAATGCTGGATCTTTAGTGGTGATTTTTTAAAAAGCACCG
1 CTAATGCTTGATTTTTAGCGGCG-TTTTTTAAAAAGCACCG
9614696 CTAATGCTTGATTTTTAGCGGCGTTTTTTA
1 CTAATGCTTGATTTTTAGCGGCGTTTTTTA
9614726 TTCAAACGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 13 0.22
41 41 0.71
42 4 0.07
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (40 bp):
CTAATGCTTGATTTTTAGCGGCGTTTTTTAAAAAGCACCG
Found at i:9619466 original size:9 final size:9
Alignment explanation
Indices: 9619452--9619489 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
9619442 GTAGTGATTC
9619452 AATTCGGTT
1 AATTCGGTT
*
9619461 AATTCGGGT
1 AATTCGGTT
9619470 AATTCGGTT
1 AATTCGGTT
9619479 AATTCGGTT
1 AATTCGGTT
9619488 AA
1 AA
9619490 CCGATCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9621131 original size:110 final size:110
Alignment explanation
Indices: 9620836--9621270 Score: 500
Period size: 110 Copynumber: 3.8 Consensus size: 110
9620826 TTTTTTTTTA
* * * **
9620836 TTTTTTGTGTCAGAATCAGATTTAAAAATACG-AAAAAA-AATAAAAAAATTTTTTGGGTGCTGG
1 TTTTTTGTGTAAGAATCAGA-TAAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTGG
9620899 CCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTTATT
65 CCTGTCAATGGCCGGCACCCAGTACACAGTAC---G-AAAAAAAA-TTATT
*
9620950 TTTTTTGTGTCAA-AATTAGATAAAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTG
1 TTTTTTGTGT-AAGAATCAGAT-AAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTG
**
9621014 GAATGTCAATGGCCGGCACCCAGTACACAGTACGAAAAAAAATTATT
64 GCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAAAAAAATTATT
**
9621061 TTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAAT-TTAAAAAAAAATTTTGGGTGCTGG
1 TTTTTT-GTGTAAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTGG
* ***
9621125 CCTGTCAATGGCCGGCACCCAGTACACAATACGAAAAATTGTTTTTTTTTTTATT
65 CCTGTCAATGGCCGGCACCCAGTACACAGTACGAAAAA---------AAATTATT
*
9621180 TTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAACAAATTTTTTGGGTG
1 TTTTTT-GTGTAAGAATCAGATAAAAAATACGAAAAAAAT-AAAAAAAAA-AAA--TTTTGGGTG
9621245 CTGGCCTGTCAATGGCCGGCACCCAG
61 CTGGCCTGTCAATGGCCGGCACCCAG
9621271 CACCCAAAAA
Statistics
Matches: 281, Mismatches: 20, Indels: 30
0.85 0.06 0.09
Matches are distributed among these distances:
110 57 0.20
111 31 0.11
112 19 0.07
113 2 0.01
114 25 0.09
115 7 0.02
116 52 0.19
119 44 0.16
121 6 0.02
122 3 0.01
124 35 0.12
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (110 bp):
TTTTTTGTGTAAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAATTTTGGGTGCTGGC
CTGTCAATGGCCGGCACCCAGTACACAGTACGAAAAAAAATTATT
Found at i:9621134 original size:226 final size:228
Alignment explanation
Indices: 9620836--9621270 Score: 603
Period size: 226 Copynumber: 1.9 Consensus size: 228
9620826 TTTTTTTTTA
* * **
9620836 TTTTTTGTGTCAGAATCAGATTTAAAAATACGAAAAAAAATAAAAAAATTTTTTGGGTGCTGGCC
1 TTTTTTGTGTAAGAATCAGATTAAAAAATACGAAAAAAAATAAAAAAAAATTTTGGGTGCTGGCC
*
9620901 TGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAA-AAAAAATTTATTTTTTTT-GTGTCAAA
66 TGTCAATGGCCGGCACCCAGTACACAATACGAA-AAATAAAAAATTTATTTTTTTTCGTGTCAAA
*
9620964 ATTAGATAAAAAAATACGAAAAAAAT-AAAAAAAAA-AAA-TTTTGGGTGCTGGAATGTCAATGG
130 ATCAGAT-AAAAAATACGAAAAAAATAAAAAAAAAACAAATTTTTGGGTGCTGGAATGTCAATGG
9621026 CCGGCACCCAGTACACAGTACGAAAAAAAATTATT
194 CCGGCACCCAGTACACAGTACGAAAAAAAATTATT
*
9621061 TTTTTTCGTGTAAGAATCAGA-TAAAAAATACGAAAAAAATTTAAAAAAAAATTTTGGGTGCTGG
1 TTTTTT-GTGTAAGAATCAGATTAAAAAATACGAAAAAAA-ATAAAAAAAAATTTTGGGTGCTGG
******
9621125 CCTGTCAATGGCCGGCACCCAGTACACAATACGAAAAATTGTTTTTTTTTTTATTTTTTTTCGTG
64 CCTGTCAATGGCCGGCACCCAGTACACAATACGAAAAA----TAAAAAATTTATTTTTTTTCGTG
* **
9621190 TCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAACAAATTTTTTGGGTGCTGGCCTGTC
125 TCAAAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAACAAA-TTTTTGGGTGCTGGAATGTC
9621255 AATGGCCGGCACCCAG
189 AATGGCCGGCACCCAG
9621271 CACCCAAAAA
Statistics
Matches: 182, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
225 26 0.14
226 68 0.37
230 30 0.16
231 22 0.12
232 3 0.02
234 33 0.18
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (228 bp):
TTTTTTGTGTAAGAATCAGATTAAAAAATACGAAAAAAAATAAAAAAAAATTTTGGGTGCTGGCC
TGTCAATGGCCGGCACCCAGTACACAATACGAAAAATAAAAAATTTATTTTTTTTCGTGTCAAAA
TCAGATAAAAAATACGAAAAAAATAAAAAAAAAACAAATTTTTGGGTGCTGGAATGTCAATGGCC
GGCACCCAGTACACAGTACGAAAAAAAATTATT
Found at i:9621281 original size:119 final size:117
Alignment explanation
Indices: 9620825--9621310 Score: 421
Period size: 116 Copynumber: 4.2 Consensus size: 117
9620815 AGTAACAAAA
* * * **
9620825 TTTTTTTTTTA--TTTTTT-GTGTCAGAATCAGATTTAAAAATACGAAAAAAA-ATAAAAAAATT
1 TTTTTTTTTTATTTTTTTTCGTGTAAGAATCAGA-TAAAAAATACGAAAAAAATAAAAAAAAAAA
9620886 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAA----
65 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACACA--AC-AA-AAAAATTGT
**** *
9620940 ---AAAATTTATTTTTTTT-GTGTCAA-AATTAGATAAAAAAATACGAAAAAAATAAAAAAAAAA
1 TTTTTTTTTTATTTTTTTTCGTGT-AAGAATCAGAT-AAAAAATACGAAAAAAAT-AAAAAAAAA
**
9621000 AATTTTGGGTGCTGGAATGTCAATGGCCGGCACCCAGTACACAGTACGAAAAAAA----
63 AATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACACA--AC-AAAAAAATTGT
* **
9621055 -------ATTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATTTAAAAAAAAAT
1 TTTTTTTTTTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAT
* *
9621113 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAATACGAAAAATTGT
66 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACACAACA-AAAAAATTGT
*
9621167 TTTTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAACA
1 TTTTTTTTTTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAAT--AAAAAAAA-A
*
9621232 AATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-CAC-CCAAAAAAATTGT
63 AA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACACAACAAAAAAATTGT
9621287 TTTTTTTTTTAAATTTTTTTTCGT
1 TTTTTTTTTT--ATTTTTTTTCGT
9621311 ATTTTTTATC
Statistics
Matches: 317, Mismatches: 27, Indels: 47
0.81 0.07 0.12
Matches are distributed among these distances:
107 1 0.00
108 6 0.02
110 48 0.15
111 31 0.10
112 15 0.05
113 1 0.00
114 32 0.10
115 6 0.02
116 54 0.17
119 44 0.14
120 19 0.06
121 7 0.02
122 18 0.06
124 35 0.11
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (117 bp):
TTTTTTTTTTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACGAAAAAAATAAAAAAAAAAAT
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACACAACAAAAAAATTGT
Found at i:9621423 original size:113 final size:113
Alignment explanation
Indices: 9621287--9621756 Score: 619
Period size: 114 Copynumber: 4.1 Consensus size: 113
9621277 AAAAAATTGT
9621287 TTTTTTTTTTAAATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAT-AA-TTTTT
1 TTTTTTTTTT-AA-TTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTT
9621350 TTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCGAAAAAA
64 TTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-AAAAAA
* *
9621401 TTTTTTTTTTAAATTTTTTTCGTATTTTTTTATCTGATTCTTACATGAAAATAAAATAAAATTTT
1 TTTTTTTTTT-AATTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAA-AAAAT-AAATTTT
*
9621466 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC--CAAA
62 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAA
*
9621516 TTTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTT
1 TTTTTTTTTTAATTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAA---TTTTT
* *
9621581 TTCTTCGTACTGTGTACTGGGTGCCGCCCATTGACAGGCCAGCACCCAAAAA
63 TT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAA
* * *****
9621633 TTTTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTGACAC--AAAAAAATAAAAAAAAAT
1 TTTTTTTTTTAATTTTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAAAT-AAATTTTTT
* ** *
9621696 TTTGGTACTGTACACTGAGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
64 TTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAAA
9621747 TTTTTTTTTT
1 TTTTTTTTTT
9621757 TTGTTTTTTT
Statistics
Matches: 322, Mismatches: 20, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
111 3 0.01
112 5 0.02
113 71 0.22
114 75 0.23
115 60 0.19
116 8 0.02
117 36 0.11
118 64 0.20
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (113 bp):
TTTTTTTTTTAATTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTT
TCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAA
Found at i:9621764 original size:113 final size:112
Alignment explanation
Indices: 9621287--9621766 Score: 615
Period size: 113 Copynumber: 4.2 Consensus size: 112
9621277 AAAAAATTGT
* *
9621287 TTTTTTTTTTAAATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAA-AATAATTTTTT
1 TTTTTTTTTT--ATTTTTTTTCGTATTTTTTATCTGATTCTGACACAAAAAAATAAAAATTTTTT
*
9621351 TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCGAAAAAA
64 TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-CAAAAA
* * * *
9621401 TTTTTTTTTTAAATTTTTTTCGTATTTTTTTATCTGATTCTTACATGAAAATAAAATAAAATTTT
1 TTTTTTTTTT-ATTTTTTTTCGTA-TTTTTTATCTGATTCTGACA--CAAA-AAAATAAAAATTT
9621466 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAA
61 TTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
**
9621516 TTTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTT
1 TTTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACAC--AAAAAAATAAA--AATTTT
*
9621581 TTCTTCGTACTGTGTACTGGGTGCCGCCCATTGACAGGCCAGCACCCAAAAA
62 TT-TTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
* ****
9621633 TTTTTTTTTTATTTTTTTTCGTATTTTTAAATCTGATTCTGACACAAAAAAATAAAAAAAAATTT
1 TTTTTTTTTTATTTTTTTTCGTATTTTT-TATCTGATTCTGACACAAAAAAATAAAAATTTTTTT
* ** *
9621698 TGGTACTGTACACTGAGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
65 TCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAA
*
9621747 TTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTAT-TTTTTTT
9621767 TCTTTCGTAT
Statistics
Matches: 326, Mismatches: 25, Indels: 29
0.86 0.07 0.08
Matches are distributed among these distances:
112 8 0.02
113 74 0.23
114 66 0.20
115 63 0.19
116 13 0.04
117 35 0.11
118 67 0.21
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (112 bp):
TTTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACAAAAAAATAAAAATTTTTTTT
CGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
Found at i:9622165 original size:19 final size:19
Alignment explanation
Indices: 9622143--9622183 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9622133 TTTTTTTAAA
*
9622143 TTTAAAATTTTTATATATT
1 TTTAAAATTTTCATATATT
9622162 TTTAAAATTTTCATATATT
1 TTTAAAATTTTCATATATT
9622181 TTT
1 TTT
9622184 TATTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAAAATTTTCATATATT
Found at i:9622190 original size:27 final size:29
Alignment explanation
Indices: 9622149--9622223 Score: 100
Period size: 27 Copynumber: 2.6 Consensus size: 29
9622139 TAAATTTAAA
9622149 ATTTTTATATATTTTTAAAATTTTCATAT
1 ATTTTTATATATTTTTAAAATTTTCATAT
*
9622178 ATTTTT-TAT-TTTTTAAAATTTTTATAT
1 ATTTTTATATATTTTTAAAATTTTCATAT
*
9622205 ATTTTAATCATATTCTTTA
1 ATTTTTAT-ATATT-TTTA
9622224 TTTTTTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 22 0.55
28 4 0.10
29 8 0.20
30 2 0.05
31 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTATATATTTTTAAAATTTTCATAT
Found at i:9622229 original size:46 final size:45
Alignment explanation
Indices: 9622143--9622256 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
9622133 TTTTTTTAAA
* *
9622143 TTTAAAATTTTTATATATTTTTAAAATTTTCATATATTTTTTATTT
1 TTTAAAATTTTTATATA-TTTTAAAATATTCATATATTTTTAATTT
* *
9622189 TTTAAAATTTTTATATATTTTAATCATATTC-TTTATTTTTTAATTT
1 TTTAAAATTTTTATATATTTTAA-AATATTCATATA-TTTTTAATTT
9622235 TTTAAATATTTTT-TATCATTTT
1 TTTAAA-ATTTTTATAT-ATTTT
9622257 TCGTCATATG
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
45 9 0.15
46 40 0.67
47 11 0.18
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.66
Consensus pattern (45 bp):
TTTAAAATTTTTATATATTTTAAAATATTCATATATTTTTAATTT
Found at i:9622243 original size:26 final size:28
Alignment explanation
Indices: 9622196--9622250 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
9622186 TTTTTTAAAA
9622196 TTTTTATATATTTTAATCATATTCTTTAT
1 TTTTTATATATTTTAA-CATATTCTTTAT
* *
9622225 TTTTTA-ATTTTTTAA-ATATTTTTTAT
1 TTTTTATATATTTTAACATATTCTTTAT
9622251 CATTTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
28 8 0.33
29 6 0.25
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATATATTTTAACATATTCTTTAT
Found at i:9622253 original size:38 final size:37
Alignment explanation
Indices: 9622150--9622246 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
9622140 AAATTTAAAA
* *
9622150 TTTTTATATATTTTTAAA-ATTTTCAT-ATATTTTTTAT
1 TTTTTA-AT-TTTTTAAATATTTTAATCATATTCTTTAT
* *
9622187 TTTTTAAAATTTTTATATATTTTAATCATATTCTTTAT
1 TTTTT-AATTTTTTAAATATTTTAATCATATTCTTTAT
9622225 TTTTTAATTTTTTAAATATTTT
1 TTTTTAATTTTTTAAATATTTT
9622247 TTATCATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
36 7 0.14
37 28 0.55
38 16 0.31
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTTTAATTTTTTAAATATTTTAATCATATTCTTTAT
Found at i:9623561 original size:21 final size:22
Alignment explanation
Indices: 9623537--9623590 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
9623527 ATAGCACTTC
* *
9623537 TTATAAATAATATAATT-TTTT
1 TTATAAATAAGAAAATTATTTT
* *
9623558 TTATAATTTTAGAAAATTATTTT
1 TTATAA-ATAAGAAAATTATTTT
9623581 TTATAAATAA
1 TTATAAATAA
9623591 ATTATAATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
21 6 0.24
22 9 0.36
23 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATAAATAAGAAAATTATTTT
Found at i:9627439 original size:13 final size:13
Alignment explanation
Indices: 9627405--9627442 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9627395 TTACAAGACT
9627405 TGTTATAATTG-A
1 TGTTATAATTGAA
9627417 TAGTTA-AATTGAA
1 T-GTTATAATTGAA
9627430 TGTTATAATTGAA
1 TGTTATAATTGAA
9627443 AATGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (13 bp):
TGTTATAATTGAA
Found at i:9628196 original size:9 final size:10
Alignment explanation
Indices: 9628167--9628211 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
9628157 TTTACATACA
9628167 TAATAAATA-
1 TAATAAATAT
*
9628176 TAA-ATATAT
1 TAATAAATAT
9628185 TAATAAAT-T
1 TAATAAATAT
9628194 TAATAAATAT
1 TAATAAATAT
9628204 ATAATAAA
1 -TAATAAA
9628212 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.13
9 15 0.50
10 4 0.13
11 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAAATAT
Found at i:9629065 original size:49 final size:49
Alignment explanation
Indices: 9629010--9629113 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
9629000 TCATGTGTTA
* * ** * *
9629010 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
*
9629059 TAATTTTATAAAGTGTTCCCCTATTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
9629108 T-ATTTT
1 TAATTTT
9629114 GTTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 5 0.10
49 43 0.90
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTATTGATTCATGATATTAAACTTAATTT
Found at i:9633149 original size:18 final size:18
Alignment explanation
Indices: 9633115--9633161 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
9633105 ATAAGAATAT
9633115 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
9633133 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
*
9633151 TTGAATTATAT
1 TTAAATTATAT
9633162 TTAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:9633162 original size:28 final size:27
Alignment explanation
Indices: 9633126--9633207 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 27
9633116 TAATATTAAT
* *
9633126 AATTTTATTAAATTATATATTTTTATTG
1 AATTATATTAAATTAT-TATTTTTATTA
* * *
9633154 AATTATATTTAATAATTATTATT-TTA
1 AATTATATTAAATTATTATTTTTATTA
*
9633180 AAATATGATTAAATTATTTATTATTTAT
1 AATTAT-ATTAAATTA-TTATT-TTTAT
9633208 ATTAATAATC
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
26 7 0.17
27 13 0.32
28 18 0.44
29 2 0.05
30 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
AATTATATTAAATTATTATTTTTATTA
Found at i:9633412 original size:46 final size:44
Alignment explanation
Indices: 9633320--9633412 Score: 141
Period size: 46 Copynumber: 2.1 Consensus size: 44
9633310 TTACACCTCT
*
9633320 ATTCCATTCAACCAAACACAAGAATACCATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCC
* *
9633364 ATTCCATTCAACCAAACAAAAAGATTACCTATTACGCCTTTATTCC
1 ATTCCATTCAACCAAAC-AAAAGAATACC-ATTACGCCTCTATTCC
9633410 ATT
1 ATT
9633413 ACAGCGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 17 0.39
45 9 0.20
46 18 0.41
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (44 bp):
ATTCCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCC
Found at i:9633423 original size:46 final size:44
Alignment explanation
Indices: 9633328--9633426 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 44
9633318 CTATTCCATT
* * *
9633328 CAACCAAACACAAGAATACCATTACGCCTCTATTCCATTCCATT
1 CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATG
* *
9633372 CAACCAAACAAAAAGATTACCTATTACGCCTTTATTCCATTACA-G
1 CAACCAAAC-AAAAGAATACC-ATTACGCCTCTATTCCATTACATG
9633417 CGAACCAAAC
1 C-AACCAAAC
9633427 GCACCTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 9 0.19
45 10 0.21
46 28 0.60
ACGTcount: A:0.39, C:0.31, G:0.06, T:0.23
Consensus pattern (44 bp):
CAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTACATG
Found at i:9634138 original size:31 final size:30
Alignment explanation
Indices: 9634093--9634157 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
9634083 ATAAATTCAA
*
9634093 AAAAAAAATATTTTTAAGGTTTGAGAAAAGT
1 AAAAAAAATATTTTT-AGGATTGAGAAAAGT
* * * *
9634124 AAAAAGAATTTTTTTAGGATTGGGGAAAGT
1 AAAAAAAATATTTTTAGGATTGAGAAAAGT
9634154 AAAA
1 AAAA
9634158 GTTGTAGGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAAAAAATATTTTTAGGATTGAGAAAAGT
Found at i:9647647 original size:3 final size:3
Alignment explanation
Indices: 9647641--9647699 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
9647631 GTAGAAGAAC
9647641 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9647689 AAT AAT AAT AA
1 AAT AAT AAT AA
9647700 AGGAAAAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9665907 original size:15 final size:15
Alignment explanation
Indices: 9665881--9665918 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9665871 ATCTTGTGTG
9665881 TATAAGTTTTAAATAT
1 TATAA-TTTTAAATAT
*
9665897 TATAATTTTAATTAT
1 TATAATTTTAAATAT
9665912 TATAATT
1 TATAATT
9665919 AGTGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATAATTTTAAATAT
Found at i:9671493 original size:23 final size:23
Alignment explanation
Indices: 9671462--9671535 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
9671452 ACCTACTTTC
*
9671462 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
*
9671485 TTACAGTAGTAATTTTCGGTGTA
1 TTACAGTAGTAATTTTCGGGGTA
* *
9671508 TTATAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGGTA
9671531 TTACA
1 TTACA
9671536 TGCTCAATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:9673878 original size:19 final size:20
Alignment explanation
Indices: 9673844--9673882 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
9673834 ATGGAGGATA
9673844 AATAATTTAAATTTTATCAAC
1 AATAATTT-AATTTTATCAAC
9673865 AATAATTT-ATTTTATCAA
1 AATAATTTAATTTTATCAA
9673883 TGAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTAATTTTATCAAC
Found at i:9677843 original size:17 final size:18
Alignment explanation
Indices: 9677817--9677859 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9677807 ATTTCTATAT
9677817 ATTTTATATTTTTTTAC-A
1 ATTTT-TATTTTTTTACAA
*
9677835 ATTTTTATTTTTTTCCAA
1 ATTTTTATTTTTTTACAA
9677853 ATTTTTA
1 ATTTTTA
9677860 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTTTTTACAA
Found at i:9678103 original size:90 final size:90
Alignment explanation
Indices: 9677952--9678213 Score: 381
Period size: 90 Copynumber: 3.0 Consensus size: 90
9677942 TGATAAAAGC
* * *
9677952 AGGGGCTTAATTACTTTTTTTGAAAAGGTTT----TTCTTTTTGATGCATTTTAAAAGTTTAAAT
1 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAAT
9678013 ACCCAATTGAGTGCAAAAAAATAGT
66 ACCCAATTGAGTGCAAAAAAATAGT
*
9678038 AGGGGATTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAAT
1 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAAT
9678103 ACCCAATTGAGTGCAAAAAAATAGT
66 ACCCAATTGAGTGCAAAAAAATAGT
* * *
9678128 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTTATGTATTTTAAAAGTTCAAG
1 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAA
* * * *
9678192 TACACAAATGAATACAAAAAAA
65 TACCCAATTGAGTGCAAAAAAA
9678214 AAAACAAAGG
Statistics
Matches: 159, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 29 0.18
89 1 0.01
90 129 0.81
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (90 bp):
AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAAT
ACCCAATTGAGTGCAAAAAAATAGT
Found at i:9678238 original size:91 final size:90
Alignment explanation
Indices: 9677955--9678254 Score: 290
Period size: 90 Copynumber: 3.4 Consensus size: 90
9677945 TAAAAGCAGG
* * * *
9677955 GGCTTAATTACTTTTTTTGAAAAGGTTT----TTCTTTTTGATGCATTTTAAAAGTTTAAATACC
1 GGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAATACA
* * * * ** **
9678016 CAATTGAGTGCAAAAAAATAGTAGG
66 CAAATGAATACAAAAAAAAAACAAA
* *
9678041 GGATTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAATACC
1 GGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAATACA
* * * * ** **
9678106 CAATTGAGTGCAAAAAAATAGTAGG
66 CAAATGAATACAAAAAAAAAACAAA
* * *
9678131 GGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTTATGTATTTTAAAAGTTCAAGTAC
1 GGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAATAC
9678195 ACAAATGAATACAAAAAAAAAAACAAA
65 ACAAATGAATAC-AAAAAAAAAACAAA
*
9678222 GGCTTAATTG-TTTTTTTTAATAA-GTTTGAGGGT
1 GGCTTAATTGCTTTTTTTGAA-AAGGTTTGAGGGT
9678255 TTGCACCCTT
Statistics
Matches: 188, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
86 26 0.14
89 1 0.01
90 140 0.74
91 21 0.11
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (90 bp):
GGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAATACA
CAAATGAATACAAAAAAAAAACAAA
Found at i:9678400 original size:31 final size:29
Alignment explanation
Indices: 9678364--9678452 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
9678354 ATTTTAAAAA
*
9678364 TATACATGAATTTT-AGTTTAATGTGCAATTG
1 TATACATGAATTTTGA-TTT--TATGCAATTG
* *
9678395 TATACATGAACTTTGATTTTATGCAATTT
1 TATACATGAATTTTGATTTTATGCAATTG
* *
9678424 TATACATGAAATTTTGATTTGATTCAATT
1 TATACATG-AATTTTGATTTTATGCAATT
9678453 TTCACAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.32
30 17 0.34
31 16 0.32
32 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (29 bp):
TATACATGAATTTTGATTTTATGCAATTG
Found at i:9678427 original size:29 final size:30
Alignment explanation
Indices: 9678387--9678454 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
9678377 TAGTTTAATG
* *
9678387 TGCAATTGTATACATG-AACTTTGATTTTA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
9678416 TGCAATTTTATACATGAAATTTTGATTTGA
1 TGCAATTTTATACATGAAACTTTGATTTGA
*
9678446 TTCAATTTT
1 TGCAATTTT
9678455 CACAAATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (30 bp):
TGCAATTTTATACATGAAACTTTGATTTGA
Found at i:9680331 original size:24 final size:24
Alignment explanation
Indices: 9680258--9680369 Score: 77
Period size: 24 Copynumber: 4.6 Consensus size: 24
9680248 CTTTGTGAGC
* *
9680258 CTCTCCGGAGCTTCCTGATATTAAG
1 CTCTTCGGAGCTTCCTGATATT-GG
* * *
9680283 TTATTCGGAGCTTCCTG-TGAATGG
1 CTCTTCGGAGCTTCCTGAT-ATTGG
*
9680307 CTCTTCGGAGCTACCTGATATTGG
1 CTCTTCGGAGCTTCCTGATATTGG
* *
9680331 CTC-GCATGAGCTTCCTGGATA-TGG
1 CTCTTC-GGAGCTTCCT-GATATTGG
**
9680355 CTCTTATGAGCTTCC
1 CTCTTCGGAGCTTCC
9680370 CATTAAAAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 46 0.68
25 21 0.31
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (24 bp):
CTCTTCGGAGCTTCCTGATATTGG
Found at i:9680425 original size:25 final size:25
Alignment explanation
Indices: 9680397--9680444 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9680387 AAGCTCCCGC
9680397 TACATGGCTCACATGAGCTTCCCTT
1 TACATGGCTCACATGAGCTTCCCTT
*
9680422 TACATGGCTTACATGAGCTTCCC
1 TACATGGCTCACATGAGCTTCCC
9680445 GATTAATGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (25 bp):
TACATGGCTCACATGAGCTTCCCTT
Found at i:9680453 original size:25 final size:25
Alignment explanation
Indices: 9680397--9680456 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
9680387 AAGCTCCCGC
*
9680397 TACATGGCTCACATGAGCTTCCCTT
1 TACATGGCTCACATGAGCTTCCCAT
*
9680422 TACATGGCTTACATGAGCTTCCCGAT
1 TACATGGCTCACATGAGCTTCCC-AT
9680448 TA-ATGGCTC
1 TACATGGCTC
9680457 GAAAGAGTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 28 0.90
26 3 0.10
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
TACATGGCTCACATGAGCTTCCCAT
Found at i:9681136 original size:26 final size:25
Alignment explanation
Indices: 9681106--9681154 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
9681096 CAATTCATTA
*
9681106 ATCAAGTCTTTCATCAAGTGTTTTTC
1 ATCAAGTCTTTAATCAAGT-TTTTTC
*
9681132 ATCAAGTTTTTAATCAAGTTTTT
1 ATCAAGTCTTTAATCAAGTTTTT
9681155 AATTACCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (25 bp):
ATCAAGTCTTTAATCAAGTTTTTTC
Found at i:9681168 original size:15 final size:12
Alignment explanation
Indices: 9681103--9681157 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
9681093 TATCAATTCA
*
9681103 TTAATCAAGTCT
1 TTAATCAAGTTT
*
9681115 TTCATCAAGTGTTT
1 TTAATCAA--GTTT
*
9681129 TTCATCAAGTTT
1 TTAATCAAGTTT
9681141 TTAATCAAGTTT
1 TTAATCAAGTTT
9681153 TTAAT
1 TTAAT
9681158 TACCAAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 27 0.71
14 11 0.29
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATCAAGTTT
Found at i:9686788 original size:16 final size:16
Alignment explanation
Indices: 9686767--9686808 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9686757 AATAATTTGA
*
9686767 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9686783 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9686799 TAGTTTTAAT
1 TAATTTTAAT
9686809 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9686834 original size:6 final size:6
Alignment explanation
Indices: 9686823--9686851 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9686813 TTAAAAAAAC
9686823 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
9686852 AAAAACAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:9687579 original size:107 final size:106
Alignment explanation
Indices: 9687424--9687620 Score: 281
Period size: 108 Copynumber: 1.8 Consensus size: 106
9687414 GAAATTCAAG
* * *
9687424 AGGATATTTGGCTATTTGGTTAAATGAGAAATCGAGACCCAGCACATTA-AGGCACG-TTTCTCG
1 AGGATATTCGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGA-GCACGTTTTCTCG
*
9687487 AATTTCCAAACGCAAAACATTGCCTTATTTGAAATTTTTGAA
65 AATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGAA
* *
9687529 AGGATATTCGGTTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGAGCACGTTTTCTC
1 AGGATATTCGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGAGCACGTTTTCTC
* *
9687594 GAATTTTCAAACGCAAAATATTACCTT
64 GAATTTCCAAACGCAAAACATTACCTT
9687621 TATTATTTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
105 24 0.30
107 25 0.31
108 31 0.39
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
AGGATATTCGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGAGCACGTTTTCTCGA
ATTTCCAAACGCAAAACATTACCTTATTTGAAATTTTTGAA
Found at i:9687964 original size:20 final size:23
Alignment explanation
Indices: 9687939--9687988 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9687929 TAAAATGAGC
9687939 AACAAAT-AAA-ATACAT-AATA
1 AACAAATCAAAGATACATGAATA
*
9687959 AACAAATCAAAGATACATGAATT
1 AACAAATCAAAGATACATGAATA
9687982 AACAAAT
1 AACAAAT
9687989 GAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 3 0.12
22 6 0.23
23 10 0.38
ACGTcount: A:0.64, C:0.12, G:0.04, T:0.20
Consensus pattern (23 bp):
AACAAATCAAAGATACATGAATA
Found at i:9688306 original size:17 final size:18
Alignment explanation
Indices: 9688284--9688320 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9688274 ATGAAGTGTA
9688284 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
9688301 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
9688319 AA
1 AA
9688321 AATAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:9688369 original size:23 final size:23
Alignment explanation
Indices: 9688336--9688413 Score: 124
Period size: 23 Copynumber: 3.5 Consensus size: 23
9688326 ATAAAAAGGT
9688336 TATGTACGTATATATATTATAAA
1 TATGTACGTATATATATTATAAA
*
9688359 TATGTA--TGTATATATTATAAA
1 TATGTACGTATATATATTATAAA
9688380 TATGTACGTATATATATTATAAA
1 TATGTACGTATATATATTATAAA
*
9688403 TATGTATGTAT
1 TATGTACGTAT
9688414 GCGTATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 20 0.40
23 30 0.60
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (23 bp):
TATGTACGTATATATATTATAAA
Found at i:9688372 original size:21 final size:21
Alignment explanation
Indices: 9688346--9688413 Score: 109
Period size: 21 Copynumber: 3.1 Consensus size: 21
9688336 TATGTACGTA
9688346 TATATATTATAAATATGTATG
1 TATATATTATAAATATGTATG
*
9688367 TATATATTATAAATATGTACGTA
1 TATATATTATAAATATGTA--TG
9688390 TATATATTATAAATATGTATG
1 TATATATTATAAATATGTATG
9688411 TAT
1 TAT
9688414 GCGTATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 23 0.53
23 20 0.47
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATATTATAAATATGTATG
Found at i:9688955 original size:36 final size:36
Alignment explanation
Indices: 9688908--9688995 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 36
9688898 AGTCAGGGCC
9688908 AAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGA
1 AAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGA
* *
9688944 AAAACGACGTCGTTTTGGCACCTGACCCCTAAGGGC
1 AAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGA
9688980 AAAACGGCGTCGTTTT
1 AAAACGGCGTCGTTTT
9688996 AAAAAGTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (36 bp):
AAAACGGCGTCGTTTTGGCACCTGACCCCTAAGGGA
Found at i:9692750 original size:20 final size:20
Alignment explanation
Indices: 9692725--9692774 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
9692715 TGGCTTAAAA
9692725 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
9692745 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
9692762 GTGGTAGTGGATT
1 TTGGTAGTGGATT
9692775 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:9697389 original size:20 final size:20
Alignment explanation
Indices: 9697364--9697413 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
9697354 TGGCTTAAAA
9697364 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
9697384 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
9697401 GTGGTAGTGGATT
1 TTGGTAGTGGATT
9697414 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:9713288 original size:26 final size:27
Alignment explanation
Indices: 9713254--9713310 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
9713244 AAGTTAATTT
*
9713254 ATATATTTTTATA-TATATGTATGTATA
1 ATATATTTTT-TACTATAAGTATGTATA
9713281 ATAT-TTTTTTACTATAAGTATGTAT-
1 ATATATTTTTTACTATAAGTATGTATA
9713306 ATATA
1 ATATA
9713311 ATAATACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 17 0.63
27 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (27 bp):
ATATATTTTTTACTATAAGTATGTATA
Found at i:9713305 original size:30 final size:27
Alignment explanation
Indices: 9713254--9713313 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
9713244 AAGTTAATTT
*
9713254 ATATATTTTTATATATATGTATGTATA
1 ATATATTTTTATATATATGTATATATA
*
9713281 ATATTTTTTTACTATAAGTATGTATATATA
1 ATATATTTTTA-TAT-A-TATGTATATATA
9713311 ATA
1 ATA
9713314 ATACATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 3 0.11
29 1 0.04
30 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (27 bp):
ATATATTTTTATATATATGTATATATA
Found at i:9714962 original size:19 final size:20
Alignment explanation
Indices: 9714940--9714978 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9714930 AAAAAAAACA
*
9714940 ATTTTTAAAAATTT-AAAAT
1 ATTTATAAAAATTTCAAAAT
9714959 ATTTATAAAAATTTCAAAAT
1 ATTTATAAAAATTTCAAAAT
9714979 TTATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTATAAAAATTTCAAAAT
Found at i:9715013 original size:18 final size:18
Alignment explanation
Indices: 9714949--9715014 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
9714939 AATTTTTAAA
* *
9714949 AATTTAAAATATTTATAAA
1 AATTTAAAA-AATTATAAT
* * *
9714968 AATTTCAAAATTTATATT
1 AATTTAAAAAATTATAAT
** *
9714986 TTTTTTAAAAATTATAAT
1 AATTTAAAAAATTATAAT
9715004 AATTTAAAAAA
1 AATTTAAAAAA
9715015 AATCTAAAGA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
18 28 0.78
19 8 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTAAAAAATTATAAT
Found at i:9718294 original size:21 final size:21
Alignment explanation
Indices: 9718261--9718300 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9718251 GCGACGGCGG
* *
9718261 CAACGACATCAACACCACCAT
1 CAACAACAACAACACCACCAT
*
9718282 CAACAACAACAACGCCACC
1 CAACAACAACAACACCACC
9718301 TACAGCAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.45, G:0.05, T:0.05
Consensus pattern (21 bp):
CAACAACAACAACACCACCAT
Found at i:9721898 original size:25 final size:24
Alignment explanation
Indices: 9721844--9721892 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
9721834 ATTTTTTTAC
*
9721844 TTTAATTATTATTATTTTAACTAAA
1 TTTAATTATTAATATTTTAAC-AAA
*
9721869 TTTAATTATTAATCTTTTAA-AAA
1 TTTAATTATTAATATTTTAACAAA
9721892 T
1 T
9721893 AGTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAATTATTAATATTTTAACAAA
Found at i:9724078 original size:4 final size:4
Alignment explanation
Indices: 9724069--9724096 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9724059 CCTTACAGAT
9724069 GATG GATG GATG GATG GATG GATG GATG
1 GATG GATG GATG GATG GATG GATG GATG
9724097 AGATTAACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (4 bp):
GATG
Found at i:9725387 original size:50 final size:50
Alignment explanation
Indices: 9725236--9725390 Score: 116
Period size: 50 Copynumber: 3.0 Consensus size: 50
9725226 GGATTTTTTT
* * *
9725236 TTTACATTCTGGGGTGTCATTTGCCGACACCAGTATACGAAAAATTAAAAAA
1 TTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAA--AAAAAA
** * * * * * * *
9725288 -AAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATG-TAAAAAAAAA
1 TTTACATTT--TGG-GG--TGTCATTGGCCGGCACCA-GTATACGAAAAAAAAAAA
9725342 TTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAAAAA
1 TTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAAAAA
9725391 TTGGTGGTGT
Statistics
Matches: 74, Mismatches: 21, Indels: 18
0.65 0.19 0.16
Matches are distributed among these distances:
49 4 0.05
50 24 0.32
51 4 0.05
52 2 0.03
53 6 0.08
54 8 0.11
55 5 0.07
56 17 0.23
57 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (50 bp):
TTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAAAAAA
Found at i:9725514 original size:107 final size:110
Alignment explanation
Indices: 9725397--9725601 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 110
9725387 AAAATTGGTG
* *
9725397 GTGTCAGCCATTGGCAGG-CTACCA-CCAAATTTTTTTTTTATTT-TTTCG-TATAC-TGGTGCC
1 GTGTCAGCCATTAGCAGGTC-ACCATCAAAATTTTTTTTTTATTTATTTCGTTATACATGGTGCC
9725457 GGCCAATAACACCCCAAAATGTAAAAAAAAAAATTTACATAAAAGTA
65 GGCCAATAACA-CCCAAAATGTAAAAAAAAAAATTTACATAAAAGTA
* * * *
9725504 GTGTCGGCCATTAGCAGGTCACCATCAAAATTTTTTTTTTTTTTAAATTTTGTTGTACATTGGTG
1 GTGTCAGCCATTAGCAGGTCACCATCAAAATTTTTTTTTTATTT--ATTTCGTTATACA-TGGTG
* *
9725569 CTGGCCAATGACACCCAAAATGTAAAAAAAAAA
63 CCGGCCAATAACACCCAAAATGTAAAAAAAAAA
9725602 TTCTGTAAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
107 20 0.24
108 18 0.22
111 4 0.05
112 4 0.05
113 20 0.24
114 16 0.20
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (110 bp):
GTGTCAGCCATTAGCAGGTCACCATCAAAATTTTTTTTTTATTTATTTCGTTATACATGGTGCCG
GCCAATAACACCCAAAATGTAAAAAAAAAAATTTACATAAAAGTA
Found at i:9729311 original size:19 final size:19
Alignment explanation
Indices: 9729289--9729329 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9729279 ACGAAATAGT
9729289 ATATTAACCCAAAAGCTAA
1 ATATTAACCCAAAAGCTAA
9729308 ATATTAACCCAAAAGCTAA
1 ATATTAACCCAAAAGCTAA
9729327 ATA
1 ATA
9729330 CATGGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.20, G:0.05, T:0.22
Consensus pattern (19 bp):
ATATTAACCCAAAAGCTAA
Found at i:9745002 original size:3 final size:3
Alignment explanation
Indices: 9744994--9745025 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9744984 CTACAAGGGC
*
9744994 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9745026 AGGCGGGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9745555 original size:16 final size:16
Alignment explanation
Indices: 9745534--9745564 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9745524 CAAAGCTTAG
9745534 ATAGTATAAGAAAAGA
1 ATAGTATAAGAAAAGA
9745550 ATAGTATAAGAAAAG
1 ATAGTATAAGAAAAG
9745565 TAGGGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
ATAGTATAAGAAAAGA
Found at i:9747298 original size:111 final size:113
Alignment explanation
Indices: 9747114--9747318 Score: 297
Period size: 111 Copynumber: 1.8 Consensus size: 113
9747104 TATTTTTCGT
* *
9747114 TTTTCTTTGCTTAAGAATATATTGAACCTTTTGACGCAAAAAGAGATGACAACCAAGTACCCCAC
1 TTTTCTTTGCTTAAGAATATATTGAAACTTTTGACGCAAAAAGAGATGACAACCAAGCACCCCAC
* *
9747179 CCCAGTTACTCATCCCAACATACTCCTAATTTATTATATTTATATATG
66 CCCAGTTACTCAACCCAACACACTCCTAATTTATTATATTTATATATG
* * * * *
9747227 TTTT-TTT-CTTAAGAATATATTGAAACTTTTGATGCGAAGAGAGATGACAGCCAAGCATCCCAC
1 TTTTCTTTGCTTAAGAATATATTGAAACTTTTGACGCAAAAAGAGATGACAACCAAGCACCCCAC
* *
9747290 CCCGGTTACTCAACCCAACACATTCCTAA
66 CCCAGTTACTCAACCCAACACACTCCTAA
9747319 AATTTTTTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 74 0.91
112 3 0.04
113 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (113 bp):
TTTTCTTTGCTTAAGAATATATTGAAACTTTTGACGCAAAAAGAGATGACAACCAAGCACCCCAC
CCCAGTTACTCAACCCAACACACTCCTAATTTATTATATTTATATATG
Found at i:9748487 original size:7 final size:7
Alignment explanation
Indices: 9748468--9748526 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 7
9748458 TATCGAAAAA
9748468 AATAAAGT
1 AATAAA-T
9748476 AATAAAT
1 AATAAAT
9748483 AAT-AAT
1 AATAAAT
9748489 -A-AAA-
1 AATAAAT
9748493 AATAAAGT
1 AATAAA-T
9748501 AATAAAT
1 AATAAAT
9748508 AATAAAT
1 AATAAAT
9748515 AA-AAAT
1 AATAAAT
9748521 AA-AAAT
1 AATAAAT
9748527 TGGGTTGCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.09
6 16 0.35
7 14 0.30
8 12 0.26
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (7 bp):
AATAAAT
Found at i:9748498 original size:25 final size:24
Alignment explanation
Indices: 9748463--9748523 Score: 104
Period size: 25 Copynumber: 2.5 Consensus size: 24
9748453 ATTAATATCG
9748463 AAAAAAATAAAGTAATAAATAATA
1 AAAAAAATAAAGTAATAAATAATA
9748487 ATAAAAAATAAAGTAATAAATAATA
1 A-AAAAAATAAAGTAATAAATAATA
9748512 AATAAAAATAAA
1 AA-AAAAATAAA
9748524 AATTGGGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAAAAATAAAGTAATAAATAATA
Found at i:9748503 original size:15 final size:15
Alignment explanation
Indices: 9748464--9748513 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
9748454 TTAATATCGA
9748464 AAAAAATAAAGTAAT
1 AAAAAATAAAGTAAT
9748479 ---AAAT-AA-TAAT
1 AAAAAATAAAGTAAT
9748489 AAAAAATAAAGTAAT
1 AAAAAATAAAGTAAT
*
9748504 AAATAATAAA
1 AAAAAATAAA
9748514 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
10 4 0.14
11 2 0.07
12 4 0.14
13 4 0.14
14 2 0.07
15 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (15 bp):
AAAAAATAAAGTAAT
Found at i:9754378 original size:31 final size:31
Alignment explanation
Indices: 9754343--9754417 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
9754333 TAGCCAAATG
*
9754343 AATTTGAAAAGTACAAGGATTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
* *
9754374 AATTTGAAGAGTACATGGACTAAAATTGATT
1 AATTTGAAAAGTACAAGGACTAAAATTGATT
*
9754405 AATTTAAAAAGTA
1 AATTTGAAAAGTA
9754418 AATAGACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (31 bp):
AATTTGAAAAGTACAAGGACTAAAATTGATT
Found at i:9754426 original size:31 final size:31
Alignment explanation
Indices: 9754363--9754428 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
9754353 GTACAAGGAT
* * * *
9754363 TAAAATTGATTAATTTGAAGAGTACATGGAC
1 TAAAATTGATTAATTTAAAAAGTAAATAGAC
9754394 TAAAATTGATTAATTTAAAAAGTAAATAGAC
1 TAAAATTGATTAATTTAAAAAGTAAATAGAC
9754425 TAAA
1 TAAA
9754429 TTTACAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (31 bp):
TAAAATTGATTAATTTAAAAAGTAAATAGAC
Found at i:9755410 original size:13 final size:13
Alignment explanation
Indices: 9755392--9755418 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9755382 CGACTAGAGT
9755392 ATATTGGAGCCAC
1 ATATTGGAGCCAC
9755405 ATATTGGAGCCAC
1 ATATTGGAGCCAC
9755418 A
1 A
9755419 GCGACGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
ATATTGGAGCCAC
Found at i:9764139 original size:16 final size:16
Alignment explanation
Indices: 9764120--9764171 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
9764110 TTATATTATA
9764120 AAAATATTATTAAATT
1 AAAATATTATTAAATT
9764136 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
9764151 ---ATATTAATTAAAATT
1 AAAATATT-ATT-AAATT
9764166 AAAATA
1 AAAATA
9764172 ATATATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 1 0.03
15 11 0.37
16 9 0.30
18 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:9764155 original size:25 final size:26
Alignment explanation
Indices: 9764112--9764164 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
9764102 TTCTTGATTT
9764112 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
9764139 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
9764163 AT
1 AT
9764165 TAAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:9764167 original size:30 final size:27
Alignment explanation
Indices: 9764112--9764176 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
9764102 TTCTTGATTT
9764112 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
*
9764139 ATATTATAAATTATATTAATTAAAATTAAA
1 ATATTATAAA-AATATT-ATT-AAATTAAA
*
9764169 ATAATATA
1 ATATTATA
9764177 TTATAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 3 0.09
30 15 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:9764435 original size:22 final size:22
Alignment explanation
Indices: 9764396--9764443 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
9764386 AACAAAAAGA
9764396 AAAAGAAACGAAAGAAGA-ACAG
1 AAAAGAAACGAAAGAAGAGAC-G
9764418 AAAAGAAAC-AAAGAAAGAGACG
1 AAAAGAAACGAAAG-AAGAGACG
9764440 AAAA
1 AAAA
9764444 CAGGGGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAGAAACGAAAGAAGAGACG
Found at i:9765389 original size:44 final size:41
Alignment explanation
Indices: 9765338--9765424 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
9765328 GGCTTTGCCG
* *
9765338 ATCAGGCACTTTATGTGTCGTATCTCAAGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTC--ATCTCAAGCAC-TTATGTGTCGT
* * *
9765382 ATCAGGCACCTCGTGTGTCATTTCAGGCACTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCATCTCAAGCACTTATGTGTCGT
9765423 AT
1 AT
9765425 ACTGATTAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 13 0.34
42 9 0.24
44 16 0.42
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCATCTCAAGCACTTATGTGTCGT
Found at i:9765398 original size:21 final size:20
Alignment explanation
Indices: 9765338--9765424 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 20
9765328 GGCTTTGCCG
*
9765338 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCAC-TCATGTGTCGT
* *
9765359 ATCTCAAGCACTTTATGTGTCGT
1 A--TCAGGCAC-TCATGTGTCGT
* *
9765382 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCA-CTCATGTGTCGT
* *
9765403 TTCAGGCACTTATGTGTCGT
1 ATCAGGCACTCATGTGTCGT
9765423 AT
1 AT
9765425 ACTGATTAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 10 0.19
21 22 0.42
22 1 0.02
23 20 0.38
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
ATCAGGCACTCATGTGTCGT
Found at i:9766660 original size:30 final size:32
Alignment explanation
Indices: 9766600--9766663 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
9766590 CACTTATTTT
9766600 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
9766633 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
9766664 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:9766921 original size:41 final size:41
Alignment explanation
Indices: 9766876--9767031 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
9766866 ACCGGCTCTT
*
9766876 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9766917 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9766958 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
9766999 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
9767032 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:9774306 original size:30 final size:32
Alignment explanation
Indices: 9774246--9774309 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
9774236 CACTTATTTT
9774246 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
9774279 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
9774310 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:9774567 original size:41 final size:41
Alignment explanation
Indices: 9774522--9774677 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
9774512 ACCGGCTCTT
*
9774522 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9774563 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9774604 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
9774645 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
9774678 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:9777656 original size:25 final size:25
Alignment explanation
Indices: 9777628--9777713 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
9777618 AAGCTCCTCT
9777628 GAGCTGAATAATGGGAAGCTCATGC
1 GAGCTGAATAATGGGAAGCTCATGC
* *
9777653 GAGCTAAAT-ATCGAGAAGCTCATGC
1 GAGCTGAATAAT-GGGAAGCTCATGC
** ** *
9777678 GAGCTGTGTAACAGAAAGCTCATGC
1 GAGCTGAATAATGGGAAGCTCATGC
*
9777703 GAGCTGTATAA
1 GAGCTGAATAA
9777714 CAGAAATCTC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 2 0.04
25 46 0.94
26 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAATGGGAAGCTCATGC
Found at i:9777714 original size:25 final size:25
Alignment explanation
Indices: 9777643--9777724 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
9777633 GAATAATGGG
** *
9777643 AAGCTCATGCGAGCTAAATATC-GA
1 AAGCTCATGCGAGCTGTATAACAGA
*
9777667 GAAGCTCATGCGAGCTGTGTAACAGA
1 -AAGCTCATGCGAGCTGTATAACAGA
9777693 AAGCTCATGCGAGCTGTATAACAGA
1 AAGCTCATGCGAGCTGTATAACAGA
*
9777718 AATCTCA
1 AAGCTCA
9777725 AGTGAGTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 48 0.96
26 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGTATAACAGA
Found at i:9780132 original size:415 final size:415
Alignment explanation
Indices: 9779362--9780188 Score: 1618
Period size: 415 Copynumber: 2.0 Consensus size: 415
9779352 TAGGCAACAT
9779362 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
1 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
9779427 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
66 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
9779492 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
131 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
9779557 TAAATAAAATTTAAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
196 TAAATAAAATTTAAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
9779622 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
261 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
* *
9779687 CTGTTGATGAGTACTTTACGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATTAA
326 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
9779752 GAGACTATAATGGTGCAGTTTGCAG
391 GAGACTATAATGGTGCAGTTTGCAG
9779777 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
1 TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
9779842 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
66 TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
*
9779907 TATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
131 CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
*
9779972 TAAATAAAATTTTAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
196 TAAATAAAATTTAAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
9780037 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
261 TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
9780102 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
326 CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
9780167 GAGACTATAATGGTGCAGTTTG
391 GAGACTATAATGGTGCAGTTTG
9780189 TAGATGGCTT
Statistics
Matches: 408, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
415 408 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (415 bp):
TTTTTTGCTAAACCAAAGTTCAATTTTCCACCATTCCGAGGTAAGTACGAACTCGAAGCATATTG
TGAGTAGGAATCAAAATTTAAACTTTTGTTTCGTTATTATAAATGTCAAGAAGAGGAAAAAGTCT
CATTTGCGACCCTTGGATTTTCAAATTATGCATTGAGTTGGTGGATTCAACTTGGAATTGATCGT
TAAATAAAATTTAAAAGGGTAATTGAAATATGGGATGAGTTGACACAAATCATACGAAAACGTTT
TATCCCACCTCATTATTATAGAGATATTAAATGGAGACTTCAACGCATTGTTCAAGGTAATCGAT
CTGTTGATGAGTACTTTAAGGAGATGGAGATGCTTATGCATAGAGCAAATGTTCGAGAAGATGAA
GAGACTATAATGGTGCAGTTTGCAG
Found at i:9782755 original size:13 final size:13
Alignment explanation
Indices: 9782737--9782770 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9782727 ACAAAATATT
*
9782737 AAATTTATTCATA
1 AAATTTATTCAAA
*
9782750 AAATTTATTTAAA
1 AAATTTATTCAAA
9782763 AAATTTAT
1 AAATTTAT
9782771 ACATTTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTTATTCAAA
Found at i:9787042 original size:21 final size:21
Alignment explanation
Indices: 9787016--9787056 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9787006 ATCTGCTCAA
* *
9787016 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9787037 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9787057 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9794721 original size:20 final size:20
Alignment explanation
Indices: 9794696--9794733 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9794686 GCAGACCAGG
* *
9794696 AAAAAAAGGTAAAAAGAGAA
1 AAAAAAAAGAAAAAAGAGAA
9794716 AAAAAAAAGAAAAAAGAG
1 AAAAAAAAGAAAAAAGAG
9794734 GGGTCCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAGAGAA
Found at i:9798126 original size:13 final size:13
Alignment explanation
Indices: 9798108--9798132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9798098 TAATAATACA
9798108 ATAATTTATTAAT
1 ATAATTTATTAAT
9798121 ATAATTTATTAA
1 ATAATTTATTAA
9798133 AATTTTATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAATTTATTAAT
Found at i:9798700 original size:18 final size:18
Alignment explanation
Indices: 9798663--9798704 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9798653 TATGATATTG
**
9798663 ATTATCACAAAATATTAT
1 ATTATCACAAAATAAAAT
*
9798681 ATTATTACAAAATAAAAT
1 ATTATCACAAAATAAAAT
9798699 ATTATC
1 ATTATC
9798705 CATTGGGGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATCACAAAATAAAAT
Found at i:9798791 original size:2 final size:2
Alignment explanation
Indices: 9798784--9798809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9798774 AGGAAAAGCT
9798784 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9798810 GGCTCTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.