Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 162 of 228
Found at i:48616388 original size:11 final size:11
Alignment explanation
Indices: 48616374--48616399 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48616364 TAATAAATAT
48616374 ATTTATTTTTA
1 ATTTATTTTTA
48616385 ATTTATTTTTA
1 ATTTATTTTTA
48616396 ATTT
1 ATTT
48616400 TAAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:48616400 original size:17 final size:17
Alignment explanation
Indices: 48616368--48616413 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
48616358 CCGATATAAT
* *
48616368 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
**
48616385 ATTTATTTTTAATTTTA
1 AAATATTTTTAATTTTA
48616402 AAATATTTTTAA
1 AAATATTTTTAA
48616414 AATACTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:48616411 original size:11 final size:11
Alignment explanation
Indices: 48616397--48616516 Score: 87
Period size: 11 Copynumber: 11.4 Consensus size: 11
48616387 TTATTTTTAA
48616397 TTTTAAAATAT
1 TTTTAAAATAT
48616408 TTTTAAAATACT
1 TTTTAAAATA-T
** *
48616420 TTTTTTATTAT
1 TTTTAAAATAT
*
48616431 TTTT----TAA
1 TTTTAAAATAT
48616438 TTTTAAAATAT
1 TTTTAAAATAT
48616449 TTTTAAAATACTT
1 TTTTAAAATA--T
* *
48616462 TTTTAAAAAAA
1 TTTTAAAATAT
48616473 TTTT---A-A-
1 TTTTAAAATAT
48616479 TTTTAAAATAT
1 TTTTAAAATAT
48616490 TTTTAAAATAT
1 TTTTAAAATAT
48616501 TTTTAAAATACT
1 TTTTAAAATA-T
48616513 TTTT
1 TTTT
48616517 TTAATTTTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 25
0.74 0.06 0.21
Matches are distributed among these distances:
6 4 0.04
7 7 0.08
8 1 0.01
9 1 0.01
10 1 0.01
11 52 0.58
12 13 0.15
13 10 0.11
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:48616436 original size:41 final size:41
Alignment explanation
Indices: 48616390--48616531 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 41
48616380 TTTTAATTTA
* *
48616390 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTATTAT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
* *
48616431 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAAAA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
* *
48616472 ATTTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATA--T
48616514 TTTTTAATTTTTAAAATA
1 TTTTTAA-TTTTAAAATA
48616532 AATTTTTTGT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 9 0.10
41 64 0.72
42 6 0.07
43 10 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (41 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATAT
Found at i:48616464 original size:30 final size:30
Alignment explanation
Indices: 48616408--48616467 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48616398 TTTAAAATAT
** *
48616408 TTTTAAAATACTTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAAATATTTTTTAA
48616438 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTTAA
48616468 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:48616523 original size:21 final size:20
Alignment explanation
Indices: 48616473--48616531 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
48616463 TTTAAAAAAA
48616473 TTTTAA-TTTTAAAATATTT
1 TTTTAATTTTTAAAATATTT
**
48616492 TTAAAATATTTTTAAAATACTTT
1 TT-TTA-ATTTTTAAAATA-TTT
48616515 TTTTAATTTTTAAAATA
1 TTTTAATTTTTAAAATA
48616532 AATTTTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.06
20 1 0.03
21 13 0.41
22 11 0.34
23 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATTTTTAAAATATTT
Found at i:48616537 original size:22 final size:22
Alignment explanation
Indices: 48616498--48616557 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
48616488 ATTTTTAAAA
*
48616498 TATTTTTAAAAT-ACTTTTTT-
1 TATTTTTAAAATAAATTTTTTG
48616518 TAATTTTTAAAATAAATTTTTTG
1 T-ATTTTTAAAATAAATTTTTTG
48616541 TATTTATTAAAA-AAATT
1 TATTT-TTAAAATAAATT
48616558 GGATGGGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 16 0.46
23 7 0.20
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTTG
Found at i:48617701 original size:32 final size:31
Alignment explanation
Indices: 48617656--48617751 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
48617646 CTTAGATAAT
*
48617656 TTTAAAGAGTTTTATTAAGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
48617687 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
48617719 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
48617750 TT
1 TT
48617752 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:48618062 original size:4 final size:4
Alignment explanation
Indices: 48618053--48618086 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
48618043 ATCTATCCTT
48618053 TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
48618087 ACTAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:48618312 original size:44 final size:46
Alignment explanation
Indices: 48618278--48618394 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 46
48618268 ATTAGTTAAT
48618278 AAAAAAAGCAAA-AA-G-AAAAAAAA-AGTTGAGAAAAA-T-CTAC
1 AAAAAAAGCAAACAACGAAAAAAAAAGAGTTGAGAAAAATTACTAC
48618318 AAAAAAAGCAAACAACGTAAAAAAAAAGAGTTGAGAAAAATTA--A-
1 AAAAAAAGCAAACAACG-AAAAAAAAAGAGTTGAGAAAAATTACTAC
* *
48618362 AAAAAAAGCAAACAGCGCAAAAAAAAAAAGTTG
1 AAAAAAAGCAAACAACG-AAAAAAAAAGAGTTG
48618395 CCTACCTCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
40 12 0.18
41 2 0.03
42 1 0.01
44 38 0.57
45 13 0.19
46 1 0.01
ACGTcount: A:0.68, C:0.09, G:0.14, T:0.09
Consensus pattern (46 bp):
AAAAAAAGCAAACAACGAAAAAAAAAGAGTTGAGAAAAATTACTAC
Found at i:48618344 original size:45 final size:44
Alignment explanation
Indices: 48618293--48618394 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
48618283 AAGCAAAAAG
* *
48618293 AAAAAAAAAGTTGAGAAAAATCTACAAAAAAAGCAAACAACGTAA
1 AAAAAAAAAGTTGAGAAAAAT-TAAAAAAAAAGCAAACAACGCAA
* *
48618338 AAAAAAAGAGTTGAGAAAAATTAAAAAAAAAGCAAACAGCGCAA
1 AAAAAAAAAGTTGAGAAAAATTAAAAAAAAAGCAAACAACGCAA
48618382 AAAAAAAAAGTTG
1 AAAAAAAAAGTTG
48618395 CCTACCTCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
44 32 0.62
45 20 0.38
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.11
Consensus pattern (44 bp):
AAAAAAAAAGTTGAGAAAAATTAAAAAAAAAGCAAACAACGCAA
Found at i:48622585 original size:32 final size:32
Alignment explanation
Indices: 48622544--48622652 Score: 202
Period size: 32 Copynumber: 3.4 Consensus size: 32
48622534 CGGGAATGCA
48622544 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
48622576 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
*
48622608 ATTCAATTACTCTTGAAAGAG-TTTTATTAGG
1 ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
48622639 ATTCAATTACTCTT
1 ATTCAATTACTCTT
48622653 GTAATTTGCC
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 24 0.32
32 52 0.68
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (32 bp):
ATTCAATTACTCTTTAAAGAGTTTTTATTAGG
Found at i:48624742 original size:13 final size:13
Alignment explanation
Indices: 48624724--48624780 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
48624714 ATAAAACTTT
48624724 TTAAATATATATA
1 TTAAATATATATA
48624737 TTAAATATATAT-
1 TTAAATATATATA
48624749 TT---T-T-TA-A
1 TTAAATATATATA
*
48624756 TCAAATATATATA
1 TTAAATATATATA
48624769 TTAAATATATAT
1 TTAAATATATAT
48624781 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 1 0.03
10 1 0.03
11 1 0.03
12 4 0.11
13 24 0.69
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAAATATATATA
Found at i:48624763 original size:17 final size:18
Alignment explanation
Indices: 48624739--48624825 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 18
48624729 TATATATATT
48624739 AAATATATATTTTTTAATC
1 AAATATATA-TTTTTAATC
* *
48624758 AAATATATATATTAAAT-
1 AAATATATATTTTTAATC
* *
48624775 ATATATTTTTATTTTTAATC
1 A-A-ATATATATTTTTAATC
*
48624795 AAATATA-CTTTTTAATC
1 AAATATATATTTTTAATC
48624812 AAATATATATTTTT
1 AAATATATATTTTT
48624826 TTGGTGTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
17 17 0.31
18 15 0.28
19 21 0.39
20 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATATATTTTTAATC
Found at i:48625328 original size:51 final size:51
Alignment explanation
Indices: 48625228--48625328 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 51
48625218 AATAATAAAT
* * *
48625228 TTAACCCTCAAATTTTACATATTAAATCAATTTGATCATAATTTTAAAAAA
1 TTAACCCTCAAACTTTACATAATAAATCAATTTGATCATAATTTAAAAAAA
*
48625279 TTAACCCTCAAACTTTACA-AATAATCTCAAATTT-ATC-TAATTCTAAAAAA
1 TTAACCCTCAAACTTTACATAATAA-ATC-AATTTGATCATAATT-TAAAAAA
48625329 TATATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
50 9 0.21
51 29 0.67
52 5 0.12
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (51 bp):
TTAACCCTCAAACTTTACATAATAAATCAATTTGATCATAATTTAAAAAAA
Found at i:48627807 original size:23 final size:23
Alignment explanation
Indices: 48627781--48628116 Score: 128
Period size: 23 Copynumber: 14.4 Consensus size: 23
48627771 TGGACAACTA
*
48627781 TTATACAACAATTTGGACAGCAT
1 TTATACAAAAATTTGGACAGCAT
* * * *
48627804 TTATATACCAAA-CTAGACAGCAT
1 TTATACA-AAAATTTGGACAGCAT
*
48627827 TT-TCACACCAAAATTTAGACAGCAT
1 TTAT-ACA--AAAATTTGGACAGCAT
* ** *
48627852 ATATACAGCAATTTGGGCAGCAT
1 TTATACAAAAATTTGGACAGCAT
* *
48627875 ATATACAACAATTT-GAGCAGCATTTTT
1 TTATACAAAAATTTGGA-CAGCA----T
* *
48627902 TTTTCACCAAAA-TTGGACAGCAT
1 TTAT-ACAAAAATTTGGACAGCAT
* *
48627925 ATATAC-AAAA-TTGGACTGCAT
1 TTATACAAAAATTTGGACAGCAT
48627946 TTATACATCAAAATTT-GACAGCA-
1 TTATACA--AAAATTTGGACAGCAT
* *
48627969 -TATACATAAATAATTGGACTGCAT
1 TTATACA-AAA-ATTTGGACAGCAT
48627993 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* * * *
48628017 ATATA-TATAA-TTGGACTGCAT
1 TTATACAAAAATTTGGACAGCAT
48628038 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* * * *
48628062 ATATA-TAAAA-TTGAACTGCAT
1 TTATACAAAAATTTGGACAGCAT
48628083 TTATACATCAAAATTT-GACAGCAT
1 TTATACA--AAAATTTGGACAGCAT
* *
48628107 ATGTACAAAA
1 TTATACAAAA
48628117 TTGAACAGCA
Statistics
Matches: 234, Mismatches: 48, Indels: 63
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.02
21 50 0.21
22 16 0.07
23 58 0.25
24 56 0.24
25 29 0.12
26 4 0.02
27 10 0.04
28 7 0.03
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (23 bp):
TTATACAAAAATTTGGACAGCAT
Found at i:48627898 original size:71 final size:70
Alignment explanation
Indices: 48627782--48627952 Score: 172
Period size: 71 Copynumber: 2.4 Consensus size: 70
48627772 GGACAACTAT
*
48627782 TATACAACAATTTGGACAGCATTTATATACCAAACTAGACAGCA-TTTTCACACCAAAATTTAGA
1 TATACAACAATTTGGACAGCA-TTATATACAAAACTAGACAGCATTTTTCACACCAAAA-TTAGA
48627846 CAGCATA
64 CAGCATA
* * * * ** *
48627853 TATACAGCAATTTGGGCAGCA-TATATACAACAATTTGAGCAGCATTTTTTTTTCACCAAAATTG
1 TATACAACAATTTGGACAGCATTATATACAA-AACTAGA-CAGCA--TTTTTCACACCAAAATTA
48627917 GACAGCATA
62 GACAGCATA
*
48627926 TATACAA-AA-TTGGACTGCATT-TATACA
1 TATACAACAATTTGGACAGCATTATATACA
48627953 TCAAAATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
69 8 0.10
70 5 0.06
71 38 0.46
72 3 0.04
73 17 0.20
74 12 0.14
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (70 bp):
TATACAACAATTTGGACAGCATTATATACAAAACTAGACAGCATTTTTCACACCAAAATTAGACA
GCATA
Found at i:48627961 original size:73 final size:72
Alignment explanation
Indices: 48627832--48627969 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 72
48627822 AGCATTTTCA
* * *
48627832 CACCAAAATTTAGACAGCATATATACAGCAATTTGGGCAGCATATATACAACAATTTGAGCAGCA
1 CACCAAAATTTAGACAGCATATATACA-CAAATTGGACAGCATATATACAAAAATTTGA-CAGCA
48627897 TTTTTTTTT
64 TTTTTTTTT
* * *
48627906 CACCAAAA-TTGGACAGCATATATACA-AAATTGGACTGCATTTATACATCAAAATTTGACAGCA
1 CACCAAAATTTAGACAGCATATATACACAAATTGGACAGCATATATACA--AAAATTTGACAGCA
48627969 T
64 T
48627970 ATACATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
71 17 0.30
72 6 0.11
73 25 0.45
74 8 0.14
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (72 bp):
CACCAAAATTTAGACAGCATATATACACAAATTGGACAGCATATATACAAAAATTTGACAGCATT
TTTTTTT
Found at i:48628029 original size:92 final size:90
Alignment explanation
Indices: 48627909--48628119 Score: 350
Period size: 92 Copynumber: 2.3 Consensus size: 90
48627899 TTTTTTTCAC
*
48627909 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
*
48627974 ATAAATAATTGGACTGCATTTATACAT
66 AT-AA-AATTGAACTGCATTTATACAT
* * *
48628001 CAAAATTTGACAGCATATATATATAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
48628066 ATAAAATTGAACTGCATTTATACAT
66 ATAAAATTGAACTGCATTTATACAT
*
48628091 CAAAATTTGACAGCATATGTACAAAATTG
1 CAAAATTTGACAGCATATATACAAAATTG
48628120 AACAGCACAT
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
90 46 0.41
91 2 0.02
92 63 0.57
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (90 bp):
CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACATCAAAATTTGACAGCATATAC
ATAAAATTGAACTGCATTTATACAT
Found at i:48628122 original size:45 final size:45
Alignment explanation
Indices: 48627909--48628119 Score: 334
Period size: 45 Copynumber: 4.6 Consensus size: 45
48627899 TTTTTTTCAC
*
48627909 CAAAATTGGACAGCATATATACAAAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
48627954 CAAAATTTGACAGCATATACATA-AATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATAT--ATACAA-AATTGGACTGCATTTATACAT
* *
48628001 CAAAATTTGACAGCATATATATATAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
* *
48628046 CAAAATTTGACAGCATATATATAAAATTGAACTGCATTTATACAT
1 CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
*
48628091 CAAAATTTGACAGCATATGTACAAAATTG
1 CAAAATTTGACAGCATATATACAAAATTG
48628120 AACAGCACAT
Statistics
Matches: 156, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
45 111 0.71
46 3 0.02
47 42 0.27
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (45 bp):
CAAAATTTGACAGCATATATACAAAATTGGACTGCATTTATACAT
Found at i:48628493 original size:14 final size:15
Alignment explanation
Indices: 48628469--48628503 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
48628459 TATATACATT
48628469 ACCATATAAATACTA
1 ACCATATAAATACTA
48628484 ACCATA-AAATACTA
1 ACCATATAAATACTA
48628498 ATCCAT
1 A-CCAT
48628504 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:48629212 original size:43 final size:43
Alignment explanation
Indices: 48629146--48629261 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
48629136 AACTCGTACA
* *
48629146 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGTCG
48629189 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGTCG
48629232 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
48629262 ATAACATATA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
42 4 0.06
43 59 0.89
44 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGTCG
Found at i:48638190 original size:25 final size:25
Alignment explanation
Indices: 48638162--48638210 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
48638152 GAAAGAAAGA
48638162 AAGTTACAAGTATAAGAAGTTATAC
1 AAGTTACAAGTATAAGAAGTTATAC
48638187 AAGTTACAAGTATAAGAAGTTATA
1 AAGTTACAAGTATAAGAAGTTATA
48638211 AGAATAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (25 bp):
AAGTTACAAGTATAAGAAGTTATAC
Found at i:48646254 original size:83 final size:83
Alignment explanation
Indices: 48646115--48646282 Score: 309
Period size: 83 Copynumber: 2.0 Consensus size: 83
48646105 GGCATCTATC
*
48646115 TGAAACTATGGAAGATGGGATTCCATGTAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
48646180 TTTCCAAAGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
*
48646198 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATTAGAAACATAGCTCTCAGGTAACC
1 TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
*
48646263 TTTCCAAGGAATAAGTAG
66 TTTCCAAAGAATAAGTAG
48646281 TG
1 TG
48646283 TACATTGGCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (83 bp):
TGAAACTATGGAAGATGGGATTCCATGCAGGCGCAATATATCAGAAACATAGCTCTCAGGTAACC
TTTCCAAAGAATAAGTAG
Found at i:48652109 original size:23 final size:22
Alignment explanation
Indices: 48652079--48652128 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
48652069 AATCTTAGAG
*
48652079 GATTTAT-AATCTTAAAAGATTT
1 GATTTATAAATCCT-AAAGATTT
*
48652101 GATTCTATAAATCCTAGAGATTT
1 GATT-TATAAATCCTAAAGATTT
48652124 GATTT
1 GATTT
48652129 TGTAGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
GATTTATAAATCCTAAAGATTT
Found at i:48656072 original size:20 final size:18
Alignment explanation
Indices: 48656028--48656096 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
48656018 AACATAAAAT
*
48656028 TATATTTATAATTTTTTA
1 TATATTTATAATTTTTAA
*
48656046 TAAATTTATATATTTTTAAA
1 TATATTTATA-ATTTTT-AA
*
48656066 TATATTTTTAGA-TTTT-A
1 TATATTTATA-ATTTTTAA
*
48656083 TATATTTTTAATTT
1 TATATTTATAATTT
48656097 CAAAATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.02
17 13 0.30
18 9 0.21
19 10 0.23
20 10 0.23
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
TATATTTATAATTTTTAA
Found at i:48656087 original size:17 final size:16
Alignment explanation
Indices: 48656050--48656096 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 16
48656040 TTTTTATAAA
48656050 TTTATATATTTTTAA-
1 TTTATATATTTTTAAT
48656065 ---ATATATTTTTAGAT
1 TTTATATATTTTTA-AT
48656079 TTTATATATTTTTAAT
1 TTTATATATTTTTAAT
48656095 TT
1 TT
48656097 CAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 11 0.41
13 1 0.04
16 4 0.15
17 11 0.41
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:48656135 original size:2 final size:2
Alignment explanation
Indices: 48656126--48656154 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48656116 AGTTATATGT
48656126 TA TA -A 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 TA TA
48656155 AATGCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48659887 original size:21 final size:21
Alignment explanation
Indices: 48659863--48659902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48659853 CGGCCGTATA
48659863 TCTCAGCCACATGGTCGTGCC
1 TCTCAGCCACATGGTCGTGCC
**
48659884 TCTCATTCACATGGTCGTG
1 TCTCAGCCACATGGTCGTG
48659903 TACCCCTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.30
Consensus pattern (21 bp):
TCTCAGCCACATGGTCGTGCC
Found at i:48669720 original size:18 final size:16
Alignment explanation
Indices: 48669685--48669724 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48669675 CAGATCCGAT
*
48669685 TCAAATTCAAAAAAAA
1 TCAAAATCAAAAAAAA
48669701 TCAAAATCAAAATTAAAA
1 TCAAAATCAAAA--AAAA
48669719 TCAAAA
1 TCAAAA
48669725 AAGAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (16 bp):
TCAAAATCAAAAAAAA
Found at i:48671512 original size:43 final size:43
Alignment explanation
Indices: 48671463--48671600 Score: 106
Period size: 42 Copynumber: 3.2 Consensus size: 43
48671453 AGATGGTAGA
48671463 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
1 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
* * * * * * *
48671506 TCTTGCC-TCCAT-CGGTT-GCAGTGGAGCTGGT-TAAAGATGGTAAA-
1 TCTTGCCTTCC-TGC-ATTAACAGTGAAGCAGATCGAAA-A---CAAAG
*
48671550 TCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG
1 TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
*
48671593 CCTTGCCT
1 TCTTGCCT
48671601 CCATCAGTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 22
0.64 0.15 0.21
Matches are distributed among these distances:
41 3 0.04
42 18 0.26
43 17 0.25
44 10 0.15
45 17 0.25
46 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (43 bp):
TCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAG
Found at i:48671553 original size:87 final size:87
Alignment explanation
Indices: 48671404--48671758 Score: 505
Period size: 87 Copynumber: 4.1 Consensus size: 87
48671394 AGATCAGTGA
* ** * *
48671404 AGATCAAAAACAAAGCCTTGCCTCCATCCATTGCAGTGGAGCTGGTTAAAGATGGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
48671469 CTTCCTGCATTAACAGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
48671491 AGATCGAAAACAAAGTCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATGGTAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
48671556 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
48671578 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
48671643 CTTCCTGCGTTAATAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
48671665 AGATCAAAAACGAAG-CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * * *
48671729 CCTCCTGCGTCAACAGTGAAGC
66 CTTCCTGCATTAACAGCGAAGC
48671751 AGATCGAA
1 AGATCGAA
48671759 GATTACAAGT
Statistics
Matches: 243, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 70 0.29
87 173 0.71
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:48672013 original size:44 final size:44
Alignment explanation
Indices: 48671962--48672063 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
48671952 AGGTTGCAGC
**
48671962 GGAGCAGACTG-AGAAAGCAGGTCTTATCCCCCTGAAGTCACAGT
1 GGAGCAGACTGAAG-AAGCAAATCTTATCCCCCTGAAGTCACAGT
* * * *
48672006 GGGGCAGACTGAAGAAGTAAATCTTATCTCCCTGAAGTTACAGT
1 GGAGCAGACTGAAGAAGCAAATCTTATCCCCCTGAAGTCACAGT
*
48672050 GGAGCAGATTGAAG
1 GGAGCAGACTGAAG
48672064 CCGATAATCC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 47 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (44 bp):
GGAGCAGACTGAAGAAGCAAATCTTATCCCCCTGAAGTCACAGT
Found at i:48672078 original size:44 final size:44
Alignment explanation
Indices: 48671986--48672298 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
48671976 AAGCAGGTCT
* * * * *
48671986 TATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGTAAATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
**
48672030 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCG-ATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTA-AATCC
* ** * * * * *
48672074 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGAAATAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * ** ** * *
48672118 TATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAG-GGT--CT-C
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTG-A-AGAAGTAAATCC
* * * ** * *
48672160 -ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAACAAGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * * ** * *
48672203 TATCCCCCTGAAATCACAGTGGGGCAGACCGAAGAAGCAAATCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
* * * **
48672247 TATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGTCG-ATAATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTA-AATCC
48672291 TATCTCCC
1 TATCTCCC
48672299 CGACGTTGCG
Statistics
Matches: 195, Mismatches: 64, Indels: 20
0.70 0.23 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 23 0.12
42 1 0.01
43 3 0.02
44 161 0.83
45 3 0.02
46 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAGTAAATCC
Found at i:48672239 original size:217 final size:217
Alignment explanation
Indices: 48671878--48672298 Score: 707
Period size: 217 Copynumber: 1.9 Consensus size: 217
48671868 ATTTACAGTA
* *
48671878 GAGCGGATTAAAGAAATAGATCTTATCTCTTTGAAGTTGCAGCAGAGTGGATTGCATAGGGTCTC
1 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
* * * * *
48671943 ATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAGCAGGTCTTATCCCCCTGAAGTCACAGTGG
66 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
* * * *
48672008 GGCAGACTGAAGAAGTAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATC
131 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
48672073 CTATCTCCCTAAAGTTGTAGTG
196 CTATCTCCCTAAAGTTGTAGTG
48672095 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
1 GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
*
48672160 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
66 ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
* * *
48672225 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGTCGATAATC
131 GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
48672290 CTATCTCCC
196 CTATCTCCC
48672299 CGACGTTGCG
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 189 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (217 bp):
GAGCGGATTAAAGAAATAGATCTTATCTCTCTGAAATTGCAGCAGAGTGGATTGCATAGGGTCTC
ATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAAAAACAAGTCTTATCCCCCTGAAATCACAGTGG
GGCAGACCGAAGAAGCAAATCATATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCCGATAATC
CTATCTCCCTAAAGTTGTAGTG
Found at i:48693774 original size:15 final size:14
Alignment explanation
Indices: 48693746--48693786 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
48693736 CATACCAAAG
48693746 GAATAAAAAAACAC
1 GAATAAAAAAACAC
48693760 GAATAAAAGAAACAC
1 GAATAAAA-AAACAC
*
48693775 AAATAGAAAAAA
1 GAATA-AAAAAA
48693787 AAATTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 13 0.54
16 3 0.12
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (14 bp):
GAATAAAAAAACAC
Found at i:48697820 original size:18 final size:18
Alignment explanation
Indices: 48697786--48697845 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
48697776 TCCTAGTTTG
*
48697786 TTTTTATTT-ATTAAATTA
1 TTTTTCTTTAATT-AATTA
48697804 TTTTTCTTTAATTAATT-
1 TTTTTCTTTAATTAATTA
*
48697821 TTTATT-TTTAAATTTATTA
1 TTT-TTCTTT-AATTAATTA
48697840 TTTTTC
1 TTTTTC
48697846 ATTATCTCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 6 0.17
18 23 0.66
19 6 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTCTTTAATTAATTA
Found at i:48702975 original size:17 final size:17
Alignment explanation
Indices: 48702949--48702982 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48702939 AGAAGTATTT
*
48702949 TTGAATAAAAGTTAAAA
1 TTGAACAAAAGTTAAAA
*
48702966 TTGAACAAAATTTAAAA
1 TTGAACAAAAGTTAAAA
48702983 AATGATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (17 bp):
TTGAACAAAAGTTAAAA
Found at i:48706194 original size:3 final size:3
Alignment explanation
Indices: 48706186--48706211 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48706176 TAGATGTAAA
48706186 AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AG
48706212 GGGTAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
AGT
Found at i:48708976 original size:18 final size:19
Alignment explanation
Indices: 48708928--48708977 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
48708918 ATTCACACCT
*
48708928 CATTTCATCATTTCATGTTC
1 CATTTC-TCATTTCATGATC
*
48708948 CATTTCCCATTTCAT-ATC
1 CATTTCTCATTTCATGATC
*
48708966 CATTTTTCATTT
1 CATTTCTCATTT
48708978 TTTTTCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 8 0.31
20 6 0.23
ACGTcount: A:0.20, C:0.26, G:0.02, T:0.52
Consensus pattern (19 bp):
CATTTCTCATTTCATGATC
Found at i:48746504 original size:13 final size:13
Alignment explanation
Indices: 48746486--48746511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48746476 TGCACACTCC
48746486 TAATTAATTTCCT
1 TAATTAATTTCCT
48746499 TAATTAATTTCCT
1 TAATTAATTTCCT
48746512 GACAACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TAATTAATTTCCT
Found at i:48757391 original size:39 final size:40
Alignment explanation
Indices: 48757147--48757409 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
48757137 TTGAATGCTG
* * * * * *
48757147 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
48757187 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
48757227 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
48757267 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
48757307 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
48757347 TCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
48757386 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48757410 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.17
40 156 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:48757429 original size:79 final size:80
Alignment explanation
Indices: 48757213--48757444 Score: 218
Period size: 80 Copynumber: 2.9 Consensus size: 80
48757203 AAGGCCTTTG
* * * * ** * *
48757213 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTAA
1 TGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGGCATTCGAACGAG-GAGCTAAATCCGGGTTAA
*
48757277 GTCCCGAAGGCATTCG
65 GTCCCGAAGGCATTCA
* * * ** ** * *
48757293 TGCGAGTTATTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATG
1 TGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAG
48757358 TCCCGAAGGCATT-A
66 TCCCGAAGGCATTCA
* * * * * *
48757372 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAA
1 TGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAG
48757436 TCCCGAAGG
66 TCCCGAAGG
48757445 TACGTGATTT
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
78 14 0.11
79 45 0.35
80 71 0.55
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TGCGAGTTACTAAAACCGGGCTAAGTCCCAAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAG
TCCCGAAGGCATTCA
Found at i:48760762 original size:41 final size:41
Alignment explanation
Indices: 48760717--48760878 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 41
48760707 TTGTATAAAA
* * * * *
48760717 CACCGGCATAAAGCTTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
48760758 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* *
48760799 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * * *
48760840 CATCGGCATCAAGCCT-CTTAGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGC-TAGACATAAAGTCTGATACAT
48760879 CTTATTTTCA
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 97 0.92
42 2 0.02
43 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:48760847 original size:82 final size:82
Alignment explanation
Indices: 48760717--48760874 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 82
48760707 TTGTATAAAA
* * *
48760717 CACCGGCATAAAGCTTGCTAGGCACAAAGCCCGATACATTTCACCGGCA-CAAAGCCTGC-TAGA
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATC-AAGCCT-CTTAGA
48760780 CATAAAGTCTGAAGTAATT
64 CATAAAGTCTGAAGTAATT
* * * * * *
48760799 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACATTTCATCGGCATCAAGCCTCTTAGACG
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
48760864 TAAAGTCTGAA
66 TAAAGTCTGAA
48760875 ACATCTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 63 0.97
83 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.21
Consensus pattern (82 bp):
CACCGGCATAAAGCCTGCTAGACACAAAGCCCGAAACATTTCACCGGCATCAAGCCTCTTAGACA
TAAAGTCTGAAGTAATT
Found at i:48768553 original size:41 final size:41
Alignment explanation
Indices: 48768508--48768627 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
48768498 TTGTATAAAA
* **
48768508 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* *
48768549 CACCGGCATCAAGCCTGCTCGACATAAAGTCTGAAACATTT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* * *
48768590 CATCGACATCAAGCCT-CTTAGACGTAAAGTCTGAAACA
1 CACCGGCATCAAGCCTGC-TAGACATAAAGTCTGAAACA
48768628 TCTTATTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
Found at i:48776240 original size:41 final size:41
Alignment explanation
Indices: 48776195--48776314 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
48776185 TTGTATAAAA
* **
48776195 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAGTAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* *
48776236 CACCGGCATCAAGCCTGCTCGACATAAAGTCTGAAACATTT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
* * *
48776277 CATCGACATCAAGCCT-CTTAGACGTAAAGTCTGAAACA
1 CACCGGCATCAAGCCTGC-TAGACATAAAGTCTGAAACA
48776315 TCTTATTTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAACAATT
Found at i:48789230 original size:29 final size:27
Alignment explanation
Indices: 48789212--48789281 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48789202 ATATTAAGTC
48789212 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
48789239 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
48789267 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
48789282 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:48789275 original size:28 final size:28
Alignment explanation
Indices: 48789212--48789309 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
48789202 ATATTAAGTC
*
48789212 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48789239 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48789267 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48789296 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48789310 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48793645 original size:30 final size:31
Alignment explanation
Indices: 48793577--48793664 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 31
48793567 AGAATAAGTT
* *
48793577 GCTCACACAAGTTGACATTAT-ATCAAGGTT
1 GCTCACACAAGTTGATATTATAATCAAGGTA
48793607 GCTCACACAAGTTGATATTATAAT--AGAGTA
1 GCTCACACAAGTTGATATTATAATCAAG-GTA
* * *
48793637 GCTTACACAAGCTAATATTAT-ATCAAGG
1 GCTCACACAAGTTGATATTATAATCAAGG
48793665 GTATCCGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.08
30 41 0.84
31 4 0.08
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (31 bp):
GCTCACACAAGTTGATATTATAATCAAGGTA
Found at i:48794816 original size:30 final size:31
Alignment explanation
Indices: 48794782--48794843 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
48794772 TTTAAATATA
48794782 CCTTAATTAACGTTA-TTTAATTAAC-TTAAT
1 CCTTAATTAA-GTTACTTTAATTAACATTAAT
* *
48794812 CCTTAATTAATTTACTTTAATTATCATTAAT
1 CCTTAATTAAGTTACTTTAATTAACATTAAT
48794843 C
1 C
48794844 TCATTAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 19 0.68
31 6 0.21
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (31 bp):
CCTTAATTAAGTTACTTTAATTAACATTAAT
Found at i:48796590 original size:22 final size:22
Alignment explanation
Indices: 48796562--48796608 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
48796552 CTTCGTGACT
48796562 AAATAAGTTTATAATTAAAAGA
1 AAATAAGTTTATAATTAAAAGA
*
48796584 AAATAAGTTTATAATTAAAATA
1 AAATAAGTTTATAATTAAAAGA
48796606 AAA
1 AAA
48796609 ATAATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (22 bp):
AAATAAGTTTATAATTAAAAGA
Found at i:48797198 original size:39 final size:39
Alignment explanation
Indices: 48797155--48797234 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
48797145 ATACCCAAAT
48797155 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
1 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
*
48797194 CCCCATCATAATATATGAGGGGAAGTACACCTTATTAGC
1 CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
48797233 CC
1 CC
48797235 TCCTCTCCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (39 bp):
CCCCATCATAATAGATGAGGGGAAGTACACCTTATTAGC
Found at i:48807874 original size:50 final size:50
Alignment explanation
Indices: 48807799--48808041 Score: 360
Period size: 50 Copynumber: 4.8 Consensus size: 50
48807789 ATTTGGGTAA
* *
48807799 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
48807849 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
48807899 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
48807949 AGAGGTCCCCCGTAACACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
48807999 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48808042 TGTTATGATC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 141 0.82
51 32 0.18
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48810146 original size:18 final size:16
Alignment explanation
Indices: 48810101--48810149 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 16
48810091 AACTAAACTC
48810101 AAATAAAATTAAAATAA
1 AAATAAAA-TAAAATAA
48810118 AAAGTAGAAATAAAATAA
1 AAA-TA-AAATAAAATAA
48810136 ATGAATAAAATAAA
1 A--AATAAAATAAA
48810150 CAAAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.11
18 18 0.64
19 5 0.18
20 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:48810166 original size:21 final size:22
Alignment explanation
Indices: 48810140--48810182 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
48810130 AAATAAATGA
* *
48810140 ATAAAATAAACAAA-AAAAGTT
1 ATAAAACAAAAAAATAAAAGTT
48810161 ATAAAACAAAAAAATAAAAGTT
1 ATAAAACAAAAAAATAAAAGTT
48810183 CTTTAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAAAACAAAAAAATAAAAGTT
Found at i:48812678 original size:16 final size:17
Alignment explanation
Indices: 48812653--48812685 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48812643 TTGGGACGAT
*
48812653 AAAATTATTT-AATTGG
1 AAAATCATTTAAATTGG
48812669 AAAATCATTTAAATTGG
1 AAAATCATTTAAATTGG
48812686 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
AAAATCATTTAAATTGG
Found at i:48824937 original size:56 final size:56
Alignment explanation
Indices: 48824870--48824979 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
48824860 AAGCGTTTTG
48824870 AGTATTTCATTTTTAATATGATTTTAACTTTTTATAATATTAAATTAAGTTATTTC
1 AGTATTTCATTTTTAATATGATTTTAACTTTTTATAATATTAAATTAAGTTATTTC
*
48824926 AGTATTTCATTTTTAATATTATTTTAACTTTTTATAATATTAAATTAAGTTATT
1 AGTATTTCATTTTTAATATGATTTTAACTTTTTATAATATTAAATTAAGTTATT
48824980 GCCATTAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (56 bp):
AGTATTTCATTTTTAATATGATTTTAACTTTTTATAATATTAAATTAAGTTATTTC
Found at i:48824973 original size:21 final size:20
Alignment explanation
Indices: 48824935--48824973 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48824925 CAGTATTTCA
**
48824935 TTTTTAATATTATTTTAACT
1 TTTTTAATATTAAATTAACT
48824955 TTTTATAATATTAAATTAA
1 TTTT-TAATATTAAATTAA
48824974 GTTATTGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTAAATTAACT
Found at i:48827169 original size:31 final size:32
Alignment explanation
Indices: 48827134--48827196 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
48827124 AATAAAAGGA
* *
48827134 TAGGTGCCAAATTAAG-AAAAAGTGTCAAGTT
1 TAGGTACCAAATTAAGAAAAAAGTATCAAGTT
* *
48827165 TAGGTATCAATTTAAGAAAAAAGTATCAAGTT
1 TAGGTACCAAATTAAGAAAAAAGTATCAAGTT
48827197 CAAGTACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (32 bp):
TAGGTACCAAATTAAGAAAAAAGTATCAAGTT
Found at i:48831594 original size:20 final size:21
Alignment explanation
Indices: 48831547--48831594 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
48831537 CACGGTTTGC
48831547 CCACACGAGCATGTGGAGTAG
1 CCACACGAGCATGTGGAGTAG
*
48831568 TCACACGAGCAT-TCGGA-TAG
1 CCACACGAGCATGT-GGAGTAG
48831588 CCACACG
1 CCACACG
48831595 GCCATGTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (21 bp):
CCACACGAGCATGTGGAGTAG
Found at i:48834114 original size:23 final size:21
Alignment explanation
Indices: 48834075--48834121 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
48834065 GTTAGATGAA
*
48834075 TTAGGATTTTTGAAATGGCATGT
1 TTAGGATGTTTGAAAT-G-ATGT
48834098 TTAGGTATGTTTG-AATGATGT
1 TTAGG-ATGTTTGAAATGATGT
48834119 TTA
1 TTA
48834122 AACCCTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 8 0.36
24 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (21 bp):
TTAGGATGTTTGAAATGATGT
Found at i:48839161 original size:31 final size:30
Alignment explanation
Indices: 48839123--48839223 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 30
48839113 TAATCACATT
48839123 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
** *
48839154 AATATTAAATTTAATTTAATATCT-TATAAT-
1 AATATTAAA-TTAATAAAATAT-TATCTAATA
*
48839184 AATATTAAATTAATAAAATACTATCTATATA
1 AATATTAAATTAATAAAATATTATCTA-ATA
48839215 AATATTAAA
1 AATATTAAA
48839224 GTAAATTTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
28 1 0.02
29 12 0.21
30 11 0.19
31 20 0.34
32 13 0.22
33 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (30 bp):
AATATTAAATTAATAAAATATTATCTAATA
Found at i:48839187 original size:61 final size:61
Alignment explanation
Indices: 48839122--48839249 Score: 211
Period size: 61 Copynumber: 2.1 Consensus size: 61
48839112 TTAATCACAT
* * * *
48839122 TAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCTTATAA
1 TAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAGTAAATTTAATATCTCATAA
*
48839183 TAATATTAAATTAATAAAATACTATCTATATAAATATTAAAGTAAATTTAATATCTCATAA
1 TAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAGTAAATTTAATATCTCATAA
48839244 TAATAT
1 TAATAT
48839250 ATAGATAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (61 bp):
TAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAGTAAATTTAATATCTCATAA
Found at i:48854329 original size:10 final size:9
Alignment explanation
Indices: 48854290--48854327 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
48854280 TCTGGAACAC
48854290 AAAT-ATAA
1 AAATCATAA
* *
48854298 AAATTATGA
1 AAATCATAA
48854307 AAATCATAA
1 AAATCATAA
48854316 AAATCATAA
1 AAATCATAA
48854325 AAA
1 AAA
48854328 ATATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATCATAA
Found at i:48863320 original size:27 final size:27
Alignment explanation
Indices: 48863282--48863337 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48863272 ACTACCATGC
48863282 AATCATAATATATAAACTTTCTCATTA
1 AATCATAATATATAAACTTTCTCATTA
48863309 AATCATAATATATAAACTTTCTCATTA
1 AATCATAATATATAAACTTTCTCATTA
48863336 AA
1 AA
48863338 AGTGTGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
AATCATAATATATAAACTTTCTCATTA
Found at i:48863980 original size:43 final size:43
Alignment explanation
Indices: 48863868--48863980 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
48863858 GCGACGTTTT
*
48863868 TAGAACATGATCTTTAACGGCGCTTCTCATAAAAACGCCGCTA
1 TAGAACATGATCTTTAACGGCGCTTTTCATAAAAACGCCGCTA
* * *
48863911 AAGAACATGATCTTTAACGGCGCTTTT-ACTGAAAACGCCGCTG
1 TAGAACATGATCTTTAACGGCGCTTTTCA-TAAAAACGCCGCTA
* *
48863954 TAGAACATGATTTTTAGCGGCGCTTTT
1 TAGAACATGATCTTTAACGGCGCTTTT
48863981 TTTTACAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
TAGAACATGATCTTTAACGGCGCTTTTCATAAAAACGCCGCTA
Found at i:48864516 original size:66 final size:65
Alignment explanation
Indices: 48864404--48864529 Score: 150
Period size: 66 Copynumber: 1.9 Consensus size: 65
48864394 GCTGTTGTTG
*
48864404 GAGTTCATCATATTTTCTAGTTGCCTCTGCTTCCCTCACTGTTGCCTTC-GCTTTAAGTTGTAGC
1 GAGTTCATCATATTTTCTA-TTGCCTCTGCTTCCCTCACTGCTGCC-TCAGCTTTAAGTTGTAGC
48864468 TA
64 TA
* * *
48864470 GAGTTCATCATATTTTCT-TTGAGCCTTTGCTTCTCTCGA-TGCTGCCTCAGCTTTGAGTTG
1 GAGTTCATCATATTTTCTATT--GCCTCTGCTTCCCTC-ACTGCTGCCTCAGCTTTAAGTTG
48864530 AGCAATGTGC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
64 2 0.04
65 2 0.04
66 47 0.90
67 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (65 bp):
GAGTTCATCATATTTTCTATTGCCTCTGCTTCCCTCACTGCTGCCTCAGCTTTAAGTTGTAGCTA
Found at i:48869561 original size:18 final size:17
Alignment explanation
Indices: 48869535--48869578 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
48869525 TTCCTCTTCA
*
48869535 TTTTCTCTTA-TTTATT
1 TTTTTTCTTATTTTATT
48869551 TGTTTTATCTTATTTTATT
1 T-TTTT-TCTTATTTTATT
48869570 TTTTTTCTT
1 TTTTTTCTT
48869579 TTGCACATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 7 0.29
18 9 0.38
19 7 0.29
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTATTTTATT
Found at i:48870387 original size:16 final size:15
Alignment explanation
Indices: 48870365--48870407 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
48870355 ATTTAACCGA
48870365 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
48870380 ATTGTTTATTTTTTTT
1 ATT-TTTATTTTTTTT
48870396 ATTTTATATTTT
1 ATTTT-TATTTT
48870408 GTGTCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (15 bp):
ATTTTTATTTTTTTT
Found at i:48874504 original size:18 final size:18
Alignment explanation
Indices: 48874483--48874531 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
48874473 AATTCACTTG
48874483 AGAAAAAA-ATAAACAAAA
1 AGAAAAAAGA-AAACAAAA
*
48874501 AGAAAAAAGAAAAGAAAA
1 AGAAAAAAGAAAACAAAA
48874519 ACG-AAAAAGAAAA
1 A-GAAAAAAGAAAA
48874532 GAGAAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (18 bp):
AGAAAAAAGAAAACAAAA
Found at i:48874513 original size:12 final size:12
Alignment explanation
Indices: 48874498--48874538 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
48874488 AAAATAAACA
48874498 AAAAGAAAAAAG
1 AAAAGAAAAAAG
*
48874510 AAAAGAAAAACG
1 AAAAGAAAAAAG
*
48874522 AAAAAGAAAAGAG
1 -AAAAGAAAAAAG
48874535 AAAA
1 AAAA
48874539 ATGAGAGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:48874513 original size:13 final size:13
Alignment explanation
Indices: 48874483--48874539 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
48874473 AATTCACTTG
*
48874483 AGAAAAA-AATAA
1 AGAAAAAGAAAAA
*
48874495 ACAAAAAGAAAAA
1 AGAAAAAGAAAAA
48874508 AG-AAAAGAAAAA
1 AGAAAAAGAAAAA
* *
48874520 CGAAAAAGAAAAG
1 AGAAAAAGAAAAA
48874533 AGAAAAA
1 AGAAAAA
48874540 TGAGAGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 17 0.46
13 20 0.54
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.02
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:48874525 original size:25 final size:25
Alignment explanation
Indices: 48874483--48874539 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
48874473 AATTCACTTG
48874483 AGAAAAAAATAAACAAAAAGAAAAA
1 AGAAAAAAATAAACAAAAAGAAAAA
* *
48874508 AGAAAAGAA-AAACGAAAAAGAAAAG
1 AGAAAAAAATAAAC-AAAAAGAAAAA
48874533 AGAAAAA
1 AGAAAAA
48874540 TGAGAGGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.81, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AGAAAAAAATAAACAAAAAGAAAAA
Found at i:48874878 original size:45 final size:47
Alignment explanation
Indices: 48874811--48874898 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 47
48874801 TCCATTTTAT
* *
48874811 TCATTCTTGTATTTTTGACAAAATACGCCATCTTGATTAATTTATTC
1 TCATTCTTGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
*** *
48874858 TCATT-TTGTATTCTAG-CAAAATTTTCTATCTTGATTAATTT
1 TCATTCTTGTATTCTAGACAAAATACGCCATCTTGATTAATTT
48874899 GTTCATTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
45 21 0.60
46 9 0.26
47 5 0.14
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (47 bp):
TCATTCTTGTATTCTAGACAAAATACGCCATCTTGATTAATTTATTC
Found at i:48875061 original size:108 final size:108
Alignment explanation
Indices: 48874872--48875067 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 108
48874862 TTTGTATTCT
* **
48874872 AGCAAAATTTTCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATCTT
1 AGCAAAATTTTCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAACAAATTTCCATCTT
48874937 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * ** *
48874980 AGCAAAATTTTCTGTCCTGATTGATTTGTTTGTTTAGAGCTTTAATCTCAACAAAATTT-CATTT
1 AGCAAAATTTTCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAAC-AAATTTCCATCT
* * *
48875044 TGTCTATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
48875068 AGCCTTTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
108 70 0.92
109 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTTCTATCCTGATTAATTTGTTCATTTAGAGCTTTAATCTCAACAAATTTCCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:48875561 original size:44 final size:43
Alignment explanation
Indices: 48875510--48875648 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
48875500 AGAAACAGAT
48875510 TCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGTAGA
1 TCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAG-AGA
* * * * * * *
48875554 TCTTGCCTTCC-TGCA-TTAACAGCGAAGCAGATTGAAA-ACA-AAA
1 TCTTGCC-TCCAT-CAGTT-GCAGTGGAGCTGGTT-AAAGATAGAGA
* *
48875597 TCTTGCATCCATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGA
1 TCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAG-AGA
48875641 TCTTGCCT
1 TCTTGCCT
48875649 TCCTGTATTA
Statistics
Matches: 69, Mismatches: 17, Indels: 18
0.66 0.16 0.17
Matches are distributed among these distances:
41 3 0.04
42 16 0.23
43 11 0.16
44 19 0.28
45 17 0.25
46 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGAGA
Found at i:48875808 original size:88 final size:88
Alignment explanation
Indices: 48875511--48876290 Score: 876
Period size: 88 Copynumber: 8.9 Consensus size: 88
48875501 GAAACAGATT
* * * *
48875511 CTTGCCTC-CATCAGTTGCAGTGGAGCTGGTTAAAGATAGTAGATCTTGCCTTCCTGCATTAACA
1 CTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* * *
48875575 GCGAAGCAGATTGAAAACA-AAAT
65 GCGAAGCAGATCGAAGACACAAAC
* * * ** *
48875598 CTTGCATC-CATCAGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGTATTAACA
1 CTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
48875662 GTGAAGCAGATCGAAAACA-AAAC
65 GCGAAGCAGATCGAAGACACAAAC
* ** * * *
48875685 CTTGCCTCTCTCGGGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGCATTCCAGCATTAACAG
1 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
*
48875750 CGAAGCAGATTGAAGACACAAAC
66 CGAAGCAGATCGAAGACACAAAC
* * * * * *
48875773 CTTGCCTCTCTTGGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTACATTGACAG
1 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
*
48875838 CGAAGCAGGTCGAAGACACAAAC
66 CGAAGCAGATCGAAGACACAAAC
* * ** * *
48875861 CTTGCCTCTCTCAGATGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGCCTCCCTGCATTAACAG
1 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
* *
48875926 TGAAGCAGATTGAAGACACAAAC
66 CGAAGCAGATCGAAGACACAAAC
* * * * *
48875949 ATTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACAG
1 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
** *
48876014 CGAATTAGGTCGAAGACACAAAC
66 CGAAGCAGATCGAAGACACAAAC
* * * *
48876037 CTTGCCTCTTTAGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCTTGTATTAACAG
1 CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
*
48876102 CGAAGCAGATCGAAAACA-AAAC
66 CGAAGCAGATCGAAGACACAAAC
* * * * * * *
48876124 CTTACCTC-CATCGGTTGCAGTGGAGCTGGTTAAAAATAGCAGATCTTGCATTCTTGCGTTAACA
1 CTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACA
* *
48876188 GTGAAGTAGATCGAA-A-ACAAAC
65 GCGAAGCAGATCGAAGACACAAAC
* * * * * *
48876210 CTTGCCTC-CATCGGTTGTAGTGGTGCTGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGACG
1 CTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACA
48876274 GCGAAGCAGATCGAAGA
65 GCGAAGCAGATCGAAGA
48876291 AGCCAGTCTT
Statistics
Matches: 588, Mismatches: 100, Indels: 10
0.84 0.14 0.01
Matches are distributed among these distances:
85 1 0.00
86 69 0.12
87 218 0.37
88 300 0.51
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
CTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
CGAAGCAGATCGAAGACACAAAC
Found at i:48875865 original size:44 final size:43
Alignment explanation
Indices: 48875712--48876043 Score: 154
Period size: 44 Copynumber: 7.5 Consensus size: 43
48875702 TAGCAGAGCT
* * * * *
48875712 GGTTGAAGACAGCAGATCTTGCATTCCAGCATTAACAGCGAAGCA
1 GGTTGAAGACA-CAAACCTTGCCTTCC-TCATTGACAGCGAAGCA
* * ** ** * * *
48875757 GATTGAAGACACAAACCTTGCCTCTCTTGGTTG-TGGTGGAGCT
1 GGTTGAAGACACAAACCTTGCCT-TCCTCATTGACAGCGAAGCA
* *
48875800 GGTTGAAGACAACAGATCTTGCCTTCCTACATTGACAGCGAAGCA
1 GGTTGAAGAC-ACAAACCTTGCCTTCCT-CATTGACAGCGAAGCA
* * * *
48875845 GGTCGAAGACACAAACCTTGCC-TCTCTCAGATG-TAGC-AGAGCT
1 GGTTGAAGACACAAACCTTGCCTTC-CTCA-TTGACAGCGA-AGCA
* * * * *
48875888 GGTTGAAGACAGCAGATCTTGCCTCCCTGCATTAACAGTGAAGCA
1 GGTTGAAGACA-CAAACCTTGCCTTCCT-CATTGACAGCGAAGCA
* * * ** * * *
48875933 GATTGAAGACACAAACATTGCC-TCTCTCGGTTG-TGGTGGAGCT
1 GGTTGAAGACACAAACCTTGCCTTC-CTC-ATTGACAGCGAAGCA
* * **
48875976 GGTTGAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAATTA
1 GGTTGAAGAC-ACAAACCTTGCCTTCCT-CATTGACAGCGAAGCA
*
48876021 GGTCGAAGACACAAACCTTGCCT
1 GGTTGAAGACACAAACCTTGCCT
48876044 CTTTAGGTTG
Statistics
Matches: 203, Mismatches: 66, Indels: 37
0.66 0.22 0.12
Matches are distributed among these distances:
42 1 0.00
43 54 0.27
44 88 0.43
45 59 0.29
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (43 bp):
GGTTGAAGACACAAACCTTGCCTTCCTCATTGACAGCGAAGCA
Found at i:48876548 original size:95 final size:95
Alignment explanation
Indices: 48876369--48876553 Score: 275
Period size: 95 Copynumber: 1.9 Consensus size: 95
48876359 GACAGCGGGG
* *
48876369 CAGATCAAATATGGTAGATTTTACCTCCCTGTGACTACAGTGGAGTACGGTGAAGCCGATAATTC
1 CAGATCAAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGATAATTC
***
48876434 TATCTCCCTGGTTGGCAGTGGAATATATTA
66 TATCTCCCTGGTCAACAGTGGAATATATTA
* *
48876464 CAGATCAAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCC-AGTAGTT
1 CAGATCAAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGA-TAATT
48876528 CTATCTCCCTGAG-CAACAGTGGAATA
65 CTATCTCCCTG-GTCAACAGTGGAATA
48876554 GATTGAAGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 1 0.01
95 79 0.98
96 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (95 bp):
CAGATCAAATATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACAGTGAAGCCGATAATTC
TATCTCCCTGGTCAACAGTGGAATATATTA
Found at i:48876633 original size:84 final size:84
Alignment explanation
Indices: 48876566--48877354 Score: 1164
Period size: 84 Copynumber: 9.4 Consensus size: 84
48876556 TTGAAGATTA
*
48876566 CAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
48876631 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
48876650 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
48876715 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
48876734 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* *
48876799 TAGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* *
48876818 CAG-TCTTATCTCCCTAGGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
48876882 TAGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * *
48876901 CAGATCTTATCTCCCTAAGCAATAATGGAGCAGATCACATCAAGTCTTATCACCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
* * *
48876966 TAGAGTAGATGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
48876985 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
48877050 TGGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* **
48877069 CAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGGTCTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA---GTCTTATCTCCCTAAGCA
48877132 GTAGTGGAGCAGACGAAAGAAAC
62 GTAGTGGAGCAGACGAAAGAAAC
* * *
48877155 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACCAGATCTTATCTCCCTAAGTAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-TCTTATCTCCCTAAGCAGTA
* *
48877220 GTGGAGCAGATC---A-CATC
65 GTGGAGCAGA-CGAAAGAAAC
* * * * *
48877237 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGTCTTATCTCCATAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAGTCTTATCTCCCTAAGCA
*
48877300 GTAATGGAGCAGACGAAAGAAAC
62 GTAGTGGAGCAGACGAAAGAAAC
* *
48877323 CAGATCTTATCTCCCTAAGTAGTTGTGGAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
48877355 TACGAAAGAA
Statistics
Matches: 648, Mismatches: 39, Indels: 33
0.90 0.05 0.05
Matches are distributed among these distances:
80 1 0.00
81 30 0.05
82 6 0.01
83 143 0.22
84 330 0.51
85 30 0.05
86 48 0.07
87 59 0.09
88 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:48876911 original size:211 final size:210
Alignment explanation
Indices: 48876567--48877444 Score: 1070
Period size: 211 Copynumber: 4.2 Consensus size: 210
48876557 TGAAGATTAC
* * * *
48876567 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAGCAGTAGT
* * *
48876632 GGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAA
66 GGAGCAGAC--AAGAAACCAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCA
48876693 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
127 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGT
*
48876757 AGTGGAGCAGATCACATCA
192 AGTGGAGCAGATCACAACA
* * *
48876776 AG-TCTTATCTCCCTAAGCAGTAGTAGAGTAGA-CGAAAGAAACCAGTCTTATCTCCCTAGGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATC---A-AAACAAGTCTTATCTCCCTAAGCAG
* * * * *
48876839 TAGTGGAGCAGATC-A-CATCAAGTCTTATCTCCCTAAGTAGTAGTAGAGCAGACGAAAGAAACC
62 TAGTGGAGCAGA-CAAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACC
* * * * * *
48876902 AGATCTTATCTCCCTAAGCAATAATGGAGCAGATC---A-CATCAAG-TCTTATCACCCTAAGCA
126 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAGATCTTATCTCCCTAAGCA
* * * * *
48876962 GTAGTAGAGTAGATGAAAGAAACC
190 GTAGTGGAGCAGAT--CA-CAACA
* * *
48876986 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAGCAGTAGT
* *
48877051 GGAGTAGACGAAAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACC-GG
66 GGAGCAGAC--AAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGA
48877115 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
129 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
*
48877180 TGGAGCAGATCACAACC
194 TGGAGCAGATCACAACA
* * * *
48877197 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAGCAGTAGT
* *
48877262 GGAGCAGACGAAAGAAACCAGTCTTATCTCCATAAGCAGTAATGGAGCAGACGAAAGAAACCAGA
66 GGAGCAGAC--AAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGA
* * * *
48877327 TCTTATCTCCCTAAGTAGTTGTGGAGCATACGAAAGAAACCAGATCTTTTCTCCCTAAGCAGTAG
129 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAG
* *
48877392 TGGAGCAGATCGCATCA
194 TGGAGCAGATCACAACA
*
48877409 AG-TCTTATCTCCCTAAGCAATAGTAGAGCAGA-CAAA
1 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAA
48877445 GGAAACCAAT
Statistics
Matches: 577, Mismatches: 66, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
206 1 0.00
207 58 0.10
208 67 0.12
209 8 0.01
210 42 0.07
211 286 0.50
212 83 0.14
213 4 0.01
214 28 0.05
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (210 bp):
AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAGCAGTAGT
GGAGCAGACAAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACAACA
Found at i:48877013 original size:251 final size:251
Alignment explanation
Indices: 48876570--48877354 Score: 1177
Period size: 251 Copynumber: 3.1 Consensus size: 251
48876560 AGATTACAGA
*
48876570 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
48876635 GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
66 GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
*
48876700 CTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
131 CTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
48876765 AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTAGAGTAGACGAAAGAAACCAG
196 AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAG
* * *
48876821 TCTTATCTCCCTAGGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGTAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
* *
48876886 GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAATAATGGAGCAGATCACATCAAGTCTTAT
66 GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
* * *
48876951 CACCCTAAGCAGTAGTAGAGTAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
131 CTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
48877016 AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAG
196 AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAG
* **
48877072 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCGGTCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAA---GTCTTATCTCCCTAAGCAGTAG
* *
48877136 TGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACAACCAGAT
62 TGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG-T
* * * * *
48877201 CTTATCTCCCTAAGTAGTAGTGGAGCAGAT--CA-CATCAAG-TCTTATCTCCCTAAGCAGTAGT
126 CTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGT
* * * * * *
48877262 GGAGCAGA-CGAAAGAAACCAGTCTTATCTCCATAAGCAGTAATGGAGCAGACGAAAGAAACCAG
191 GGAGCAGATC---A-CATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAG
* *
48877326 ATCTTATCTCCCTAAGTAGTTGTGGAGCA
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCA
48877355 TACGAAAGAA
Statistics
Matches: 487, Mismatches: 37, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
250 2 0.00
251 303 0.62
252 4 0.01
253 2 0.00
254 123 0.25
255 53 0.11
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (251 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
GCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAT
CTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
AGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAG
Found at i:48878187 original size:18 final size:17
Alignment explanation
Indices: 48878149--48878191 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48878139 TCCTCTTCAT
*
48878149 TTTTTCTTATTTATTTG
1 TTTTTCTTATTTATTTC
48878166 TTTTATCTTATTT-TATTC
1 TTTT-TCTTATTTAT-TTC
48878184 TTTTTCTT
1 TTTTTCTT
48878192 TTGCACATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTCTTATTTATTTC
Found at i:48878990 original size:7 final size:7
Alignment explanation
Indices: 48878978--48879044 Score: 82
Period size: 7 Copynumber: 9.4 Consensus size: 7
48878968 TTTAACCAAA
48878978 TTTTTAT
1 TTTTTAT
48878985 TTTTTAT
1 TTTTTAT
*
48878992 TTTTATTT
1 TTTT-TAT
48879000 TTATTTAT
1 TT-TTTAT
*
48879008 TGTTTAT
1 TTTTTAT
48879015 TTTTTAT
1 TTTTTAT
48879022 TTTTTA-
1 TTTTTAT
48879028 TTTTTAT
1 TTTTTAT
*
48879035 TTTATAT
1 TTTTTAT
48879042 TTT
1 TTT
48879045 GTGTCCTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
6 6 0.12
7 37 0.71
8 7 0.13
9 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.01, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:48880485 original size:35 final size:35
Alignment explanation
Indices: 48880439--48880506 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
48880429 CTTTTATATT
48880439 CTTTAAATGTTTATGTAAGTTATAATAATCATAAA
1 CTTTAAATGTTTATGTAAGTTATAATAATCATAAA
* *
48880474 CTTTAAATGTTTATGTAAGTTATGATTATCATA
1 CTTTAAATGTTTATGTAAGTTATAATAATCATA
48880507 TTTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATAATAATCATAAA
Found at i:48880821 original size:16 final size:15
Alignment explanation
Indices: 48880785--48880820 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
48880775 TTATGCCTTC
48880785 ATTTTTCTTGATTTT
1 ATTTTTCTTGATTTT
48880800 ATTTTTCTTGATTTT
1 ATTTTTCTTGATTTT
48880815 ATTTTT
1 ATTTTT
48880821 TTTTAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (15 bp):
ATTTTTCTTGATTTT
Found at i:48881410 original size:25 final size:23
Alignment explanation
Indices: 48881361--48881411 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
48881351 ATCTTAATAT
* *
48881361 TTATTTTTTTGTCAATTTAATCC
1 TTATTTTTTTGTAAATTTAACCC
*
48881384 TTATTTTTTTAGCTAAATTTGACCC
1 TTATTTTTTT-G-TAAATTTAACCC
48881409 TTA
1 TTA
48881412 ATCTTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 1 0.04
25 12 0.52
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.57
Consensus pattern (23 bp):
TTATTTTTTTGTAAATTTAACCC
Found at i:48881603 original size:19 final size:19
Alignment explanation
Indices: 48881568--48881604 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48881558 TAAAATTATA
*
48881568 AAAATTAAAAATCAAAATC
1 AAAATTAAAAATAAAAATC
*
48881587 AAAATTAAAATTAAAAAT
1 AAAATTAAAAATAAAAAT
48881605 ATAAAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATTAAAAATAAAAATC
Found at i:48884114 original size:40 final size:40
Alignment explanation
Indices: 48884053--48884172 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 40
48884043 ATTCGCAGCA
* * *
48884053 TTTATGGGCAAAACGCTGCTATTGCTTTACCTTTAGCTGCG
1 TTTATGAG-AAAACGCCGCTATTGCTTTACCTTTAGCGGCG
* *
48884094 TTTATGAGAAAACGCCGCTATTGCTTTACCTTTTGCGGTG
1 TTTATGAGAAAACGCCGCTATTGCTTTACCTTTAGCGGCG
** * * *
48884134 TTTATGCA-AAAACATCGCTATTGTTTTATCTTTTGCGGC
1 TTTATG-AGAAAACGCCGCTATTGCTTTACCTTTAGCGGC
48884173 ATTTTTCTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 60 0.88
41 8 0.12
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (40 bp):
TTTATGAGAAAACGCCGCTATTGCTTTACCTTTAGCGGCG
Found at i:48888338 original size:21 final size:21
Alignment explanation
Indices: 48888301--48888343 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48888291 TTGTATCTTT
*
48888301 TATTTTCTGCATGGTTTTACG
1 TATTTTCTGCATGGTTTCACG
*
48888322 TATTTTCTTTCAT-GTTTCACG
1 TATTTTC-TGCATGGTTTCACG
48888343 T
1 T
48888344 GTATCTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (21 bp):
TATTTTCTGCATGGTTTCACG
Found at i:48889720 original size:41 final size:39
Alignment explanation
Indices: 48889656--48889784 Score: 123
Period size: 41 Copynumber: 3.2 Consensus size: 39
48889646 AGCGGCGCTT
* * *
48889656 TTAGCGGCGATTGGACAACAAACGCCGCTAAAAATTAAGCA
1 TTAGCGGCGATT-TAAAAAAAACGCCGCTAAAAA-TAAGCA
* * *
48889697 TTAGCGGCGATTTAAAAAAAAACGCCGCTAAATATCAGTA
1 TTAGCGGCGATTT-AAAAAAAACGCCGCTAAAAATAAGCA
* * * * * *
48889737 TTACCGGCGCTTTTACAAAAACGCCGCTAATAATGAGCA
1 TTAGCGGCGATTTAAAAAAAACGCCGCTAAAAATAAGCA
48889776 TTAGCGGCG
1 TTAGCGGCG
48889785 TTTCTTAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 28 0.39
40 15 0.21
41 29 0.40
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (39 bp):
TTAGCGGCGATTTAAAAAAAACGCCGCTAAAAATAAGCA
Found at i:48889784 original size:39 final size:38
Alignment explanation
Indices: 48889656--48889784 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 38
48889646 AGCGGCGCTT
**
48889656 TTAGCGGCGATTGGACAACAAACGCCGCTAAAAATTAAGCA
1 TTAGCGGCGATTTAACAA-AAACGCCGCT-AAAA-TAAGCA
* * *
48889697 TTAGCGGCGATTTAAAAAAAAACGCCGCTAAATATCAGTA
1 TTAGCGGCGATTT-AACAAAAACGCCGCTAAA-ATAAGCA
* * * *
48889737 TTACCGGCGCTTTTACAAAAACGCCGCTAATAATGAGCA
1 TTAGCGGCGATTTAACAAAAACGCCGCTAA-AATAAGCA
48889776 TTAGCGGCG
1 TTAGCGGCG
48889785 TTTCTTAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
39 28 0.38
40 19 0.26
41 23 0.32
42 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (38 bp):
TTAGCGGCGATTTAACAAAAACGCCGCTAAAATAAGCA
Found at i:48892632 original size:21 final size:21
Alignment explanation
Indices: 48892606--48892676 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
48892596 CTACAACTTA
* *
48892606 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
48892627 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
48892648 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
48892669 AAGCAGAG
1 AAGCAGAG
48892677 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:48892919 original size:14 final size:14
Alignment explanation
Indices: 48892900--48892933 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48892890 ATTGCTATTG
48892900 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
48892914 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
48892928 TTTGCT
1 GTTGCT
48892934 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:48893108 original size:42 final size:42
Alignment explanation
Indices: 48893049--48893372 Score: 483
Period size: 42 Copynumber: 7.7 Consensus size: 42
48893039 AAAAATGCCA
* **
48893049 CTAAAGAACATGTTCTTTAGCGGCG-TTTTCCCTTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAGCGCCG
**
48893091 CTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAGCGCCG
*
48893133 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
* * * *
48893175 CTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAACGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAGCGCCG
*
48893217 CTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
48893259 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
48893301 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
1 CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
* *
48893343 CTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CTAAAGAACATGATCTTTAGCGGCGTTTTT
48893373 GTTTGTAAAC
Statistics
Matches: 264, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
41 1 0.00
42 257 0.97
43 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCG
Found at i:48893155 original size:84 final size:82
Alignment explanation
Indices: 48893001--48893372 Score: 496
Period size: 84 Copynumber: 4.5 Consensus size: 82
48892991 TTTTGTATAA
* * * ** ** *
48893001 AAGCGCCACTAAAGAACATGTTCTTTTA-CGGCGTTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCT
**
48893065 TTAGCGGCG-TTTTCCCTT
65 TTAGCGGCGTTTTTTTC-T
*
48893083 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTAAGCGCCGCTAAAGAACATGTTC
48893148 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
* * * *
48893167 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--AAGCGCCGCTAAAGAACATGTTC
48893232 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
*
48893251 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TAAGCGCCGCTAAAGAACATGTTC
48893316 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
* *
48893335 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
48893373 GTTTGTAAAC
Statistics
Matches: 259, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
81 4 0.02
82 31 0.12
83 5 0.02
84 207 0.80
85 11 0.04
86 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCTT
TAGCGGCGTTTTTTTCT
Found at i:48893217 original size:126 final size:125
Alignment explanation
Indices: 48893001--48893371 Score: 482
Period size: 126 Copynumber: 3.0 Consensus size: 125
48892991 TTTTGTATAA
* * ** ** * *
48893001 AAGCGCCACTAAAGAACATGTTCTTTTA-CGGCG--TTTGTAAAAATGCCACTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGTTC-TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
*
48893063 CTTTAGCGGCGTTTTCCCTT-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
65 CTTTAGCGGCGTTTT--TTTCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
*
48893125 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* * * * **
48893190 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
66 TTTAGCGGCGTTTTTTT-CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
*
48893251 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
* *
48893316 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
66 TTTAGCGGCGTTTTTTTC-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
48893372 TGTTTGTAAA
Statistics
Matches: 218, Mismatches: 22, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
123 4 0.02
124 29 0.13
125 1 0.00
126 183 0.84
127 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:48900826 original size:21 final size:21
Alignment explanation
Indices: 48900800--48900855 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
48900790 AACAGCGGTG
*
48900800 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
48900821 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
48900842 ACGGTGAGATTAGA
1 GCGGTGAGATTAGA
48900856 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:48903169 original size:7 final size:7
Alignment explanation
Indices: 48903157--48903194 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
48903147 TTTTCTGATC
48903157 AGTGACA
1 AGTGACA
48903164 AGTGACA
1 AGTGACA
*
48903171 AGTGATA
1 AGTGACA
48903178 AGTGACA
1 AGTGACA
*
48903185 AGTGATA
1 AGTGACA
48903192 AGT
1 AGT
48903195 AGTAGCTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (7 bp):
AGTGACA
Found at i:48903176 original size:21 final size:21
Alignment explanation
Indices: 48903152--48903194 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48903142 TACAATTTTC
*
48903152 TGATCAGTGACAAGTGACAAG
1 TGATAAGTGACAAGTGACAAG
*
48903173 TGATAAGTGACAAGTGATAAG
1 TGATAAGTGACAAGTGACAAG
48903194 T
1 T
48903195 AGTAGCTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (21 bp):
TGATAAGTGACAAGTGACAAG
Found at i:48903180 original size:14 final size:14
Alignment explanation
Indices: 48903157--48903194 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
48903147 TTTTCTGATC
*
48903157 AGTGACAAGTGACA
1 AGTGATAAGTGACA
48903171 AGTGATAAGTGACA
1 AGTGATAAGTGACA
48903185 AGTGATAAGT
1 AGTGATAAGT
48903195 AGTAGCTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (14 bp):
AGTGATAAGTGACA
Found at i:48903227 original size:65 final size:65
Alignment explanation
Indices: 48903120--48903245 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
48903110 ACTTCTGATT
*
48903120 AGTGATAAGTAGTAGCTCCAACTACAATTTTCTGATCAGTGACAAGTGACAAGTGATAAGTGACA
1 AGTGATAAGTAGTAGCTCCAACTACAATTATCTGATCAGTGACAAGTGACAAGTGATAAGTGACA
* * * **
48903185 AGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATTGGTGACAAGTGACAAGTGATAAGT
1 AGTGATAAGTAGTAGCTCCAACTACAATTATCTGATCAGTGACAAGTGACAAGTGATAAGT
48903246 AGTAGCTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (65 bp):
AGTGATAAGTAGTAGCTCCAACTACAATTATCTGATCAGTGACAAGTGACAAGTGATAAGTGACA
Found at i:48903253 original size:51 final size:51
Alignment explanation
Indices: 48903171--48903393 Score: 313
Period size: 51 Copynumber: 4.4 Consensus size: 51
48903161 ACAAGTGACA
* *
48903171 AGTGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATT
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
*
48903222 GGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
* * * * *
48903273 AATGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTATACTTATCTCATT
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
* * * *
48903324 AGTGACAAGTGGCAAGTGATAAGTGGTAACTT-AGCTACACTTATCTAATC
1 AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
* *
48903374 AATGACAAGTGATAAGTGAT
1 AGTGACAAGTGACAAGTGAT
48903394 CATACGTAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 32 0.21
51 120 0.79
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATC
Found at i:48903291 original size:102 final size:101
Alignment explanation
Indices: 48903173--48903393 Score: 352
Period size: 102 Copynumber: 2.2 Consensus size: 101
48903163 AAGTGACAAG
* *
48903173 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATTGGTGACAAGTGACAAG
1 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTCATTAGTGACAAGTGACAAG
* *
48903238 TGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAA
66 TGATAAGTAGTAACTT-AGCTACACTTATCTAATCAA
* *
48903275 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTATACTTATCTCATTAGTGACAAGTGGCAAG
1 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTCATTAGTGACAAGTGACAAG
*
48903340 TGATAAGTGGTAACTTAGCTACACTTATCTAATCAA
66 TGATAAGTAGTAACTTAGCTACACTTATCTAATCAA
* *
48903376 TGACAAGTGATAAGTGAT
1 TGATAAGTGACAAGTGAT
48903394 CATACGTAAG
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
101 35 0.32
102 75 0.68
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (101 bp):
TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTCATTAGTGACAAGTGACAAG
TGATAAGTAGTAACTTAGCTACACTTATCTAATCAA
Found at i:48909845 original size:14 final size:14
Alignment explanation
Indices: 48909822--48909860 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
48909812 TTATCTGATC
*
48909822 AGTGACAAGTAACA
1 AGTGATAAGTAACA
*
48909836 AGTGATAAGTGACA
1 AGTGATAAGTAACA
48909850 AGTGATAAGTA
1 AGTGATAAGTA
48909861 GTAGCTTCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (14 bp):
AGTGATAAGTAACA
Found at i:48909882 original size:65 final size:65
Alignment explanation
Indices: 48909773--48909896 Score: 221
Period size: 65 Copynumber: 1.9 Consensus size: 65
48909763 TGAGTACTTC
*
48909773 TGATCAGTGACAAGTGATAAGTAGTAGATTCAGCTACACTTATCTGATCAGTGACAAGTAACAAG
1 TGATAAGTGACAAGTGATAAGTAGTAGATTCAGCTACACTTATCTGATCAGTGACAAGTAACAAG
* *
48909838 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATGAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTAGTAGATTCAGCTACACTTATCTGATCAGTGACAAGT
48909897 GATAAGTAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (65 bp):
TGATAAGTGACAAGTGATAAGTAGTAGATTCAGCTACACTTATCTGATCAGTGACAAGTAACAAG
Found at i:48909906 original size:44 final size:43
Alignment explanation
Indices: 48909838--48909997 Score: 194
Period size: 44 Copynumber: 3.5 Consensus size: 43
48909828 AAGTAACAAG
*
48909838 TGATAAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTAGTAGCTT-AGCTACACTTATC
*
48909882 TGATGAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGATAAGTAGTAGC-TTAGCTACACTTATC
*
48909926 TGATCAGTGACAAGTGGCAAGTAATAAGTGGTAGCTTAGCTACACTTATC
1 TGATCAGTGACAAGT-----G--ATAAGTAGTAGCTTAGCTACACTTATC
* *
48909976 TGATCAGGGACAAGGGATAAGT
1 TGATCAGTGACAAGTGATAAGT
48909998 GATCATACGT
Statistics
Matches: 103, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
43 6 0.06
44 54 0.52
45 3 0.03
49 1 0.01
50 28 0.27
51 11 0.11
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (43 bp):
TGATCAGTGACAAGTGATAAGTAGTAGCTTAGCTACACTTATC
Found at i:48909978 original size:50 final size:51
Alignment explanation
Indices: 48909887--48909989 Score: 163
Period size: 50 Copynumber: 2.0 Consensus size: 51
48909877 TTATCTGATG
* *
48909887 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTAATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGGGACA
* *
48909938 AGTGGCAAGTAATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTAATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGGGACA
48909988 AG
1 AG
48909990 GGATAAGTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 28 0.58
51 20 0.42
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTAATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGGGACA
Found at i:48912431 original size:46 final size:45
Alignment explanation
Indices: 48912359--48912730 Score: 451
Period size: 46 Copynumber: 8.6 Consensus size: 45
48912349 TTTGAGTACT
*
48912359 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
48912405 TCTGGTCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
48912451 TCTGATCAAGTGAAAAAGTGATAA---GT-G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
48912487 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
48912533 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
48912569 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
48912615 TCTAATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
48912661 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
48912706 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
48912731 ATCATATGTA
Statistics
Matches: 287, Mismatches: 19, Indels: 43
0.82 0.05 0.12
Matches are distributed among these distances:
36 58 0.20
38 1 0.00
39 4 0.01
40 4 0.01
41 1 0.00
42 5 0.02
43 17 0.06
44 6 0.02
45 19 0.07
46 172 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:48912484 original size:36 final size:36
Alignment explanation
Indices: 48912443--48912598 Score: 177
Period size: 36 Copynumber: 4.1 Consensus size: 36
48912433 TAGCATTAGC
48912443 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
48912479 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T
*
48912522 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
48912561 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
48912597 TA
1 TA
48912599 GCCTTAGCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
36 65 0.64
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 30 0.29
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:48912534 original size:82 final size:81
Alignment explanation
Indices: 48912397--48912730 Score: 438
Period size: 82 Copynumber: 4.0 Consensus size: 81
48912387 TAGCATTAGC
* *
48912397 TACACTTATCTGGTCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
48912462 GAAAAAGTGATAAGTGT
65 GAAAAAGTGATAAGTGT
*
48912479 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
*
48912544 GAAAAAGTGATAAGTGC
65 GAAAAAGTGATAAGTGT
* * *
48912561 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTAATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGT
*
48912626 GAGAAAGTGATAAGTGGTAGCCT
65 GAAAAAGTGATAA---GT-G--T
*
48912649 TAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-
1 TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
* *
48912713 AG-GGACAAGTGATAAGTG
62 AGTGAAAAAGTGATAAGTG
48912731 ATCATATGTA
Statistics
Matches: 223, Mismatches: 18, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
82 148 0.66
83 1 0.00
85 3 0.01
86 3 0.01
88 2 0.01
89 10 0.04
90 3 0.01
91 19 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTG
AAAAAGTGATAAGTGT
Found at i:48912723 original size:128 final size:126
Alignment explanation
Indices: 48912363--48912730 Score: 414
Period size: 128 Copynumber: 2.9 Consensus size: 126
48912353 AGTACTTCTG
* * *
48912363 ATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGGTCAAGTGAGAAAGTGATA
1 ATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
* * *
48912428 AGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTATCTG
66 AGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTATCTA
* *
48912491 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
1 ATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
*
48912556 A---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACAC
66 AGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCTACAC
48912612 TTATCTA
120 TTATCTA
* * * *
48912619 ATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATA
1 ATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
* *
48912684 AGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 AGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
48912731 ATCATATGTA
Statistics
Matches: 204, Mismatches: 16, Indels: 43
0.78 0.06 0.16
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 134 0.66
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
ATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
AGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTATCTA
Found at i:48921295 original size:114 final size:114
Alignment explanation
Indices: 48921166--48921956 Score: 1411
Period size: 114 Copynumber: 6.9 Consensus size: 114
48921156 ATAGTGGCAG
*
48921166 TAGCGGCGTTTGTTTGTAAGCGCCGCAAACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
48921231 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
48921280 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
48921345 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATAAA
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
48921394 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* *
48921459 ATAGTAGAATTGGTGGCATTTCTGTAAAAACGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* *
48921508 TAGCGGCATTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAGGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
*
48921573 ATAGTAGAATTGGTGGCGTTTCTGTCAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
* *
48921622 TAGCAGCGTTTGCTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
48921687 ATAGTAGAATTAGTGGCGTTTTTGTAAAAACGCCGCTGAAGTGTATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
*
48921736 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAATGCAGCGTACAAGATTGAGGT
1 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
* * *
48921801 ATAGTTGAATTTGTGGTGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
66 ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
48921850 TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGG
1 TAGCGGCGTTTGTTTGTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGG
*
48921915 TATAGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAG
65 TATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAG
48921957 CACATTATTA
Statistics
Matches: 643, Mismatches: 33, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 568 0.88
115 75 0.12
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (114 bp):
TAGCGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGT
ATAGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCAT
Found at i:48923791 original size:17 final size:19
Alignment explanation
Indices: 48923771--48923811 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
48923761 CTGTCATCTC
48923771 CCCCAAATCCCTAA-A-TT
1 CCCCAAATCCCTAACAGTT
*
48923788 CCCCTAATCCCTAACAGTT
1 CCCCAAATCCCTAACAGTT
48923807 CCCCA
1 CCCCA
48923812 TACCCGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 13 0.65
18 1 0.05
19 6 0.30
ACGTcount: A:0.29, C:0.46, G:0.02, T:0.22
Consensus pattern (19 bp):
CCCCAAATCCCTAACAGTT
Found at i:48925665 original size:9 final size:9
Alignment explanation
Indices: 48925624--48925857 Score: 204
Period size: 9 Copynumber: 25.8 Consensus size: 9
48925614 TACAAGCTTA
*
48925624 TACATAAAT
1 TACATAACT
* *
48925633 TAAATTACT
1 TACATAACT
48925642 TACATAACT
1 TACATAACT
*
48925651 TGA-ATAAAT
1 T-ACATAACT
* *
48925660 TAAATAAGT
1 TACATAACT
48925669 TACATAACT
1 TACATAACT
*
48925678 TACATAACC
1 TACATAACT
*
48925687 TACATAAAT
1 TACATAACT
*
48925696 TAAATAACT
1 TACATAACT
48925705 TACATAACT
1 TACATAACT
* *
48925714 TACGTAAAT
1 TACATAACT
*
48925723 TA-AGTAACC
1 TACA-TAACT
*
48925732 TACATAACA
1 TACATAACT
48925741 TACATAAACT
1 TACAT-AACT
* *
48925751 TGCATAAAT
1 TACATAACT
*
48925760 TAAATAACT
1 TACATAACT
*
48925769 TACATAACC
1 TACATAACT
*
48925778 TACATAAAT
1 TACATAACT
*
48925787 TAAATAACT
1 TACATAACT
*
48925796 TCCATAACT
1 TACATAACT
*
48925805 TACATAAAT
1 TACATAACT
48925814 TA-AGTAACT
1 TACA-TAACT
48925823 TACATAACT
1 TACATAACT
48925832 TACATAAACT
1 TACAT-AACT
*
48925842 TGCATAACT
1 TACATAACT
48925851 TACATAA
1 TACATAA
48925858 AAATATATCA
Statistics
Matches: 177, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
8 2 0.01
9 157 0.89
10 18 0.10
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:48925783 original size:91 final size:91
Alignment explanation
Indices: 48925624--48925857 Score: 328
Period size: 91 Copynumber: 2.6 Consensus size: 91
48925614 TACAAGCTTA
* * * * ** *
48925624 TACATAAATTAAATTACTTACATAACTTGA-ATAAA-TTAAATAAGTTACATAACTTACATAACC
1 TACATAAATTAAGTAACCTACATAACAT-ACATAAACTTGCATAAATTACATAACTTACATAACC
48925687 TACATAAATTAAATAACTTACATAACT
65 TACATAAATTAAATAACTTACATAACT
* *
48925714 TACGTAAATTAAGTAACCTACATAACATACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACATACATAAACTTGCATAAATTACATAACTTACATAACCT
*
48925779 ACATAAATTAAATAACTTCCATAACT
66 ACATAAATTAAATAACTTACATAACT
* * *
48925805 TACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAACTTACATAA
1 TACATAAATTAAGTAACCTACATAACATACATAAACTTGCATAAATTACATAA
48925858 AAATATATCA
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
89 1 0.01
90 28 0.22
91 98 0.77
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.32
Consensus pattern (91 bp):
TACATAAATTAAGTAACCTACATAACATACATAAACTTGCATAAATTACATAACTTACATAACCT
ACATAAATTAAATAACTTACATAACT
Found at i:48925878 original size:91 final size:91
Alignment explanation
Indices: 48925679--48925878 Score: 258
Period size: 91 Copynumber: 2.2 Consensus size: 91
48925669 TACATAACTT
* * *
48925679 ACATAACCTACATAAATTAAATAACTTACATAACTTACGTAAATTAAGTAACCTACATAACATAC
1 ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
**
48925744 ATAAACTTGCATAAATTAAATAACTT
66 ATAAACTTGCATAAATTAAATAACAA
* * * * *
48925770 ACATAACCTACATAAATTAAATAACTTCCATAACTTACATAAATTAAGTAACTTACATAACTTAC
1 ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
* *
48925835 ATAAACTTGCATAACTTACATAA-AA
66 ATAAACTTGCATAAATTAAATAACAA
* *
48925860 ATATATCATATCACAAATT
1 ACATAACATA-CACAAATT
48925879 TCCGTAATTC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 7 0.07
91 89 0.93
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (91 bp):
ACATAACATACACAAATTAAATAACTTACATAACTTACATAAATTAAGTAACCTACATAACATAC
ATAAACTTGCATAAATTAAATAACAA
Found at i:48931825 original size:43 final size:43
Alignment explanation
Indices: 48931734--48931941 Score: 339
Period size: 43 Copynumber: 4.9 Consensus size: 43
48931724 TGTATAAAAA
* * * *
48931734 CGCCGCTAAAAAACATGATCTTTAGCAGC-ATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
*
48931776 CGCCGCTAAAGAATATGGTCTTTAGCGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
48931819 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
* *
48931862 CGCCGCTAAAGAACATGGTCTTTAGAGGC-CTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
48931904 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTT
48931942 GTAAACGCTG
Statistics
Matches: 154, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
42 65 0.42
43 89 0.58
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAG
Found at i:48931896 original size:85 final size:86
Alignment explanation
Indices: 48931734--48931941 Score: 339
Period size: 85 Copynumber: 2.4 Consensus size: 86
48931724 TGTATAAAAA
* * * * *
48931734 CGCCGCTAAAAAACATGATCTTTAGCAGC-ATTTTTTTCTAAGCGCCGCTAAAGAATATGGTCTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTT
* *
48931798 TAGCGGCGTTTTTTTTCTAAG
66 TAGAGGCGCTTTTTTTCTAAG
48931819 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTT
48931884 TAGAGGC-CTTTTTTTCTAAG
66 TAGAGGCGCTTTTTTTCTAAG
48931904 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTT
48931942 GTAAACGCTG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
85 76 0.66
86 39 0.34
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (86 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTT
TAGAGGCGCTTTTTTTCTAAG
Done.