Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 78 of 189
Found at i:21845937 original size:23 final size:23
Alignment explanation
Indices: 21845910--21845964 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
21845900 AAACTAATCC
21845910 TCTCTCAAATTTCCTCTC-AATT
1 TCTCTCAAATTTCCTCTCAAATT
*
21845932 TGCTCTCAAA-TTCCTTTCAAATT
1 T-CTCTCAAATTTCCTCTCAAATT
21845955 TCTCTCAAAT
1 TCTCTCAAAT
21845965 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (23 bp):
TCTCTCAAATTTCCTCTCAAATT
Found at i:21845963 original size:11 final size:11
Alignment explanation
Indices: 21845910--21845964 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
21845900 AAACTAATCC
21845910 TCTCTCAAATT
1 TCTCTCAAATT
21845921 TCCTCTC-AATT
1 T-CTCTCAAATT
21845932 TGCTCTCAAATT
1 T-CTCTCAAATT
* *
21845944 CCTTTCAAATT
1 TCTCTCAAATT
21845955 TCTCTCAAAT
1 TCTCTCAAAT
21845965 CCATATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:21846014 original size:11 final size:12
Alignment explanation
Indices: 21845979--21846015 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
21845969 ATTTAATCTC
21845979 AATTTACTCTT-
1 AATTTACTCTTA
*
21845990 AATTTCCTCTTA
1 AATTTACTCTTA
21846002 AATTT-CTCTTA
1 AATTTACTCTTA
21846013 AAT
1 AAT
21846016 CCCCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTTACTCTTA
Found at i:21847178 original size:7 final size:7
Alignment explanation
Indices: 21847166--21847197 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21847156 AGTCGATTGT
21847166 TATTTAG
1 TATTTAG
21847173 TATTTAG
1 TATTTAG
21847180 TATTTAG
1 TATTTAG
21847187 TATTTAG
1 TATTTAG
21847194 TATT
1 TATT
21847198 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:21847872 original size:18 final size:18
Alignment explanation
Indices: 21847849--21847888 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21847839 CAGGTGCGTT
*
21847849 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
21847867 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
21847885 TCCT
1 TCCT
21847889 TTTCCGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:21848445 original size:7 final size:7
Alignment explanation
Indices: 21848429--21848504 Score: 68
Period size: 7 Copynumber: 11.0 Consensus size: 7
21848419 TTTAATTGAC
21848429 AAACCCT
1 AAACCCT
*
21848436 AAACCTT
1 AAACCCT
21848443 AAACCCT
1 AAACCCT
21848450 AAACCCT
1 AAACCCT
*
21848457 -AACCGT
1 AAACCCT
*
21848463 AAACCGT
1 AAACCCT
21848470 AAACCCT
1 AAACCCT
21848477 -AACCCT
1 AAACCCT
* *
21848483 TAA-CTT
1 AAACCCT
21848489 AAAAACCCT
1 --AAACCCT
21848498 AAACCCT
1 AAACCCT
21848505 TAATTTAACT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 13 0.23
7 40 0.70
8 2 0.04
9 2 0.04
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:21848465 original size:20 final size:20
Alignment explanation
Indices: 21848429--21848480 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
21848419 TTTAATTGAC
*
21848429 AAACCCTAAACCTTAAACCCT
1 AAACCCT-AACCGTAAACCCT
*
21848450 AAACCCTAACCGTAAACCGT
1 AAACCCTAACCGTAAACCCT
21848470 AAACCCTAACC
1 AAACCCTAACC
21848481 CTTAACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.42, C:0.38, G:0.04, T:0.15
Consensus pattern (20 bp):
AAACCCTAACCGTAAACCCT
Found at i:21848486 original size:27 final size:27
Alignment explanation
Indices: 21848430--21848482 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
21848420 TTAATTGACA
*
21848430 AACCCTAAACCTTAAACCCTAAACCCT
1 AACCCTAAACCGTAAACCCTAAACCCT
*
21848457 AACCGTAAACCGTAAACCCT-AACCCT
1 AACCCTAAACCGTAAACCCTAAACCCT
21848483 TAACTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.17
Consensus pattern (27 bp):
AACCCTAAACCGTAAACCCTAAACCCT
Found at i:21848496 original size:21 final size:22
Alignment explanation
Indices: 21848470--21848512 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21848460 CGTAAACCGT
21848470 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
21848491 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAACTTAA
21848513 CTTAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:21848502 original size:35 final size:34
Alignment explanation
Indices: 21848457--21848561 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 34
21848447 CCTAAACCCT
*
21848457 AACCGTAAACCGTAAACCCTAACCCTTAACTTAAA
1 AACCCTAAACC-TAAACCCTAACCCTTAACTTAAA
* *
21848492 AACCCTAAA-C----CCTTAA--TTTAACTTAAA
1 AACCCTAAACCTAAACCCTAACCCTTAACTTAAA
*
21848519 AACCCCTTAACCCTAAACCCTAACCCTTAACTT-AA
1 AA-CCC-TAAACCTAAACCCTAACCCTTAACTTAAA
21848554 AACCCTAA
1 AACCCTAA
21848562 TCCTTAACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
27 12 0.22
28 3 0.05
29 8 0.15
30 1 0.02
33 3 0.05
34 9 0.16
35 12 0.22
36 7 0.13
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (34 bp):
AACCCTAAACCTAAACCCTAACCCTTAACTTAAA
Found at i:21848503 original size:28 final size:28
Alignment explanation
Indices: 21848463--21848539 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
21848453 CCCTAACCGT
*
21848463 AAACCGTAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTAACCCTTAACTTAA
*
21848491 AAACCCTAAACCCTTAA--TTTAACTTAA
1 AAACCCTAAACCC-TAACCCTTAACTTAA
*
21848518 AAACCCCTTAACCCTAAACCCT
1 AAA-CCCTAAACCCT-AACCCT
21848540 AACCCTTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 13 0.32
28 23 0.57
29 3 0.08
30 1 0.03
ACGTcount: A:0.42, C:0.34, G:0.01, T:0.23
Consensus pattern (28 bp):
AAACCCTAAACCCTAACCCTTAACTTAA
Found at i:21848547 original size:20 final size:21
Alignment explanation
Indices: 21848522--21848569 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
21848512 ACTTAAAAAC
21848522 CCCTTAACCCT-AAACCCTAA
1 CCCTTAACCCTAAAACCCTAA
*
21848542 CCCTTAA-CTTAAAACCCTAA
1 CCCTTAACCCTAAAACCCTAA
*
21848562 TCCTTAAC
1 CCCTTAAC
21848570 TTAAAAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTTAACCCTAAAACCCTAA
Found at i:21848570 original size:20 final size:20
Alignment explanation
Indices: 21848470--21848607 Score: 100
Period size: 21 Copynumber: 6.7 Consensus size: 20
21848460 CGTAAACCGT
21848470 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTT-A
*
21848491 AAACCCTAAACCCTTAATTTA
1 AAACCCT-AACCCTTAACTTA
****** *
21848512 ACTTAAAAACCCCTTAACCCT-
1 AAACCCTAA-CCCTTAA-CTTA
21848533 AAACCCTAACCCTTAACTTA
1 AAACCCTAACCCTTAACTTA
*
21848553 AAACCCTAATCCTTAACTTAA
1 AAACCCTAACCCTTAACTT-A
* *
21848574 AAATCGTAAACCCTT-ACTTAA
1 AAACCCT-AACCCTTAACTT-A
21848595 AAACCCTAACCCT
1 AAACCCTAACCCT
21848608 AACCCTTGAC
Statistics
Matches: 89, Mismatches: 22, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.02
20 33 0.37
21 36 0.40
22 18 0.20
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (20 bp):
AAACCCTAACCCTTAACTTA
Found at i:21848606 original size:83 final size:82
Alignment explanation
Indices: 21848420--21848613 Score: 194
Period size: 83 Copynumber: 2.3 Consensus size: 82
21848410 AATGCATAAT
* * *
21848420 TTAATTGACAAACCCTAAACCTTAAACCCTAAACCCTAACCGTAAACCGTAAACCCTAACCCTTA
1 TTAATT-AAAAACCCTAACCCTT-AACCCTAAACCCTAACCCTAAACCGTAAACCCTAACCCTTA
21848485 ACTTAAAAACCCTAAACCC
64 ACTTAAAAACCCTAAACCC
* ****** * * *
21848504 TTAATTTAACTTAAAAACCCCTTAACCCTAAACCCTAACCCTTAA-CTTAAAACCCTAATCCTTA
1 TTAATTAAAAACCCTAA-CCCTTAACCCTAAACCCTAACCCTAAACCGT-AAACCCTAACCCTTA
* *
21848568 ACTTAAAAATCGTAAACCC
64 ACTTAAAAACCCTAAACCC
*
21848587 TTACTTAAAAACCCTAACCC-TAACCCT
1 TTAATTAAAAACCCTAACCCTTAACCCT
21848614 TGACTGGTAC
Statistics
Matches: 85, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
81 7 0.08
82 5 0.06
83 63 0.74
84 10 0.12
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (82 bp):
TTAATTAAAAACCCTAACCCTTAACCCTAAACCCTAACCCTAAACCGTAAACCCTAACCCTTAAC
TTAAAAACCCTAAACCC
Found at i:21852113 original size:126 final size:126
Alignment explanation
Indices: 21851690--21852135 Score: 626
Period size: 126 Copynumber: 3.5 Consensus size: 126
21851680 CCCAAACATG
* * * ***
21851690 CTACTGTAGCAAAAGCATGTCCATGTGGGCGCGATTTCACAAATTCTTCTCAATGTCGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTC-ATAAAGCATCCTG
* * *
21851755 CTTGAAGCA-TTTTTATACTATTTGCTTAGAAACTTCAAGTCGAAATTAATTT-TTCTAGGAC
65 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATT-ATTTCTTCCAGGAC
* * *
21851816 CTATTGTAGCAAAAGCACGTCCATGAGGGCGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
21851881 TTGAAGCATTTTTTTAAACTATTTGCTCAGAAACATGAAGTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCA-TTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
* * * *
21851943 CTACTATAGCAACAGCACGTCCACGAGGACGCAATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
21852008 TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
* * * * * * *
21852069 CAACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
21852134 TT
66 TT
21852136 TGATTTTTAT
Statistics
Matches: 285, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
125 19 0.07
126 158 0.55
127 108 0.38
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACATCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:21852274 original size:17 final size:16
Alignment explanation
Indices: 21852252--21852285 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
21852242 TTTTTTCTTT
21852252 AAAACCCTAAAATCCTA
1 AAAACCCTAAAA-CCTA
21852269 AAAACCCTAAAACCTA
1 AAAACCCTAAAACCTA
21852285 A
1 A
21852286 CCCTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAACCCTAAAACCTA
Found at i:21852301 original size:21 final size:22
Alignment explanation
Indices: 21852265--21852306 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
21852255 ACCCTAAAAT
*
21852265 CCTAAAAACCCTAAAACCTAAC
1 CCTAAAAACCCAAAAACCTAAC
21852287 CCTAAAAA-CCAAAAACCTAA
1 CCTAAAAACCCAAAAACCTAA
21852307 TGGGGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCCAAAAACCTAAC
Found at i:21853364 original size:16 final size:16
Alignment explanation
Indices: 21853339--21853369 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21853329 GTCCAGTCCC
*
21853339 ATGTGTTGTCAATCCG
1 ATGTGCTGTCAATCCG
21853355 ATGTGCTGTCAATCC
1 ATGTGCTGTCAATCC
21853370 ATTCAATCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTGCTGTCAATCCG
Found at i:21854198 original size:21 final size:21
Alignment explanation
Indices: 21854157--21854200 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21854147 ATATGCTAAC
*
21854157 AAGGTAGCTCATGTACTTGCA
1 AAGGTAGCTCATGTACATGCA
*
21854178 AAGGTAGCCTTAT-TACATGCA
1 AAGGTAG-CTCATGTACATGCA
21854199 AA
1 AA
21854201 CCACACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGTAGCTCATGTACATGCA
Found at i:21855653 original size:9 final size:9
Alignment explanation
Indices: 21855641--21855667 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21855631 GTTAGTTAGG
21855641 TTAATTAAT
1 TTAATTAAT
21855650 TTAATTAAT
1 TTAATTAAT
21855659 TTAATTAAT
1 TTAATTAAT
21855668 ATTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:21859629 original size:17 final size:19
Alignment explanation
Indices: 21859607--21859649 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
21859597 ATGGAAACAT
21859607 AATCTT-CA-AGGATATGC
1 AATCTTACATAGGATATGC
*
21859624 AATCTTACATATGATATGC
1 AATCTTACATAGGATATGC
21859643 AATCTTA
1 AATCTTA
21859650 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 2 0.09
19 15 0.65
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
AATCTTACATAGGATATGC
Found at i:21859660 original size:22 final size:22
Alignment explanation
Indices: 21859617--21859682 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
21859607 AATCTTCAAG
*
21859617 GATATGCAATCTT---ACATAT
1 GATATGCAATCTTAGAAAATAT
*
21859636 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAAATAT
21859658 GATATGCAATCTTAGAAAATAT
1 GATATGCAATCTTAGAAAATAT
21859680 GAT
1 GAT
21859683 TTTGTAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
19 13 0.31
22 29 0.69
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (22 bp):
GATATGCAATCTTAGAAAATAT
Found at i:21859944 original size:23 final size:23
Alignment explanation
Indices: 21859900--21859944 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21859890 TCCTATTTTG
* *
21859900 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
21859923 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
21859945 CAAAATCTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:21862973 original size:19 final size:18
Alignment explanation
Indices: 21862934--21862978 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
21862924 TATCTCTTCT
*
21862934 TTTGCATTCATGGCATTC
1 TTTGTATTCATGGCATTC
21862952 TTTGTATTCAT-GCATTAGC
1 TTTGTATTCATGGCATT--C
21862971 TTTGTATT
1 TTTGTATT
21862979 TTATCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (18 bp):
TTTGTATTCATGGCATTC
Found at i:21865784 original size:45 final size:45
Alignment explanation
Indices: 21865728--21867464 Score: 1451
Period size: 45 Copynumber: 39.0 Consensus size: 45
21865718 CAGTTAAAAC
* * * *
21865728 AGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGAAGAT-AAAAACT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-T
* * *
21865773 AGTAGATCTTGTCTTCCTGTATTAGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
21865818 AGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
21865863 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
21865908 AACAGATCTTGTCTTCCTCTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
21865953 AGCAGATATTATCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21865998 AGCAAATCTTGTCTTTCTATATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866043 AGCAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATCAAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866088 AGCAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
21866133 AGAAGATCTTGTCTTCCTGTACTAGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *
21866178 AACAGATATTGTCTTCATGTATCGGCTA-CGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGC-AGCGAAGTAGATCGAAGAT
* *
21866223 AGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
21866268 AGCAGATCTTGTCTTCTTGTATTGGCAGCGAATTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866313 AACAGATCTTGTCTTCCTATATTGGCATCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
**
21866358 AGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866403 AGCAGATCTTGTCTACCTGTATTGGCAGAGAAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
21866448 AGCATATCTTGTCTTTCTGTATTGGCTA-CGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGC-AGCGAAGTAGATCGAAGAT
* *
21866493 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAATTAGATCGAATAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
*
21866538 AGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* *
21866583 AGCATATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866628 AGCAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *** * * * ** *
21866673 A-CA-AGCCTTGTCTCCCTG-AGCAGTAGTGGAGTAGATTAAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
*
21866716 AGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * *
21866761 A-CA-AGCCTTGTCTCCCTG-A---GCAGTAGTAGAGTAGGTTGAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAG-CG-A-AGTAGATCGAAGAT
* * *
21866804 AACAGATCTTGTCTTCCAGTATTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * * ** *
21866849 A-CA-AGCCTTGTC-T-CTCTA-AGCAGCAGTGGAGTAGGTTAAAAAT
1 AGCAGA-TCTTGTCTTCCTGTATTG--GCAGCGAAGTAGATCGAAGAT
* * * * *
21866892 AGCCGATCTTATCCTCCTGTATTGGCAGCGAAGTAGATCGGAGAC
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
** * *** * * * * *
21866937 CTCAG-CCTTGTC-TCCT-TGAGCAGCAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATCGAAGAT
* * *
21866980 AACAGATATTGTCTTTCTGTATTGG-AGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *** * * * * * *
21867024 ACCA-ACCTTATCTTCCTG-AGCAGTAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * *
21867067 AGCAGATCTTGTCTTCTTGTATGGGCAGCGAAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * *** * * * * *
21867112 ATCAG-CCTTATCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * *
21867155 AACATATCTTATCTTCCTATATTCGCAGCGAAATAGATCGAAG--
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* ** * * * * * * *
21867198 ACCCCATCCTTATC-TCC-CTA--GGCAGTAGTGGAGTAGGTTGAAAAT
1 AGCAGAT-CTTGTCTTCCTGTATTGGC---AGCGAAGTAGATCGAAGAT
* *
21867243 AACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * * * * * * * * *
21867288 AGCA-AGTCCTATCTCCCTG-AGTAGCAGTGGAGTAGGTTGAAAAG
1 AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
21867332 AGCAGATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
* * * *
21867377 AGCA-AGTCTTATCTCCCTG-AGTT-GCAGCGGAGCAGA-CTGAAGAT
1 AGCAGA-TCTTGTCTTCCTGTA-TTGGCAGCGAAGTAGATC-GAAGAT
* * * *
21867421 AGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGA
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
21867465 CACCAGCCTT
Statistics
Matches: 1337, Mismatches: 299, Indels: 112
0.76 0.17 0.06
Matches are distributed among these distances:
40 6 0.00
41 1 0.00
42 9 0.01
43 138 0.10
44 200 0.15
45 960 0.72
46 14 0.01
47 2 0.00
48 7 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAT
Found at i:21867071 original size:351 final size:352
Alignment explanation
Indices: 21866630--21867590 Score: 1108
Period size: 351 Copynumber: 2.7 Consensus size: 352
21866620 TCGAAGATAG
* * * *
21866630 CAGATCTTGTCTTCCTATATTGACAGCAAAGTAGATCGAAGATACAAGCCTTGTCTCCCTGAGCA
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATACAAGCCTTATCTCCCTGAGCA
* *
21866695 GTAGTGGAGTAGATTAAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGA
66 GTAGTGGAGTAGATTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
*
21866760 TACAAGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAACAGATCTTGTCTTCCAGTA
131 TAC-AGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAACAGATCTTATCTTCCAGTA
* * *
21866825 TTGGCAGTGAAGTAGATCGAAGATACAAGCCTTGTCTCTCTAAGCAGCAGTGGAGTAGGTTAAAA
195 TTGGCAGTGAAGTAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAA
* * * * ** * *
21866890 ATAGCCGATCTTATCCTCCTGTATTGGCAGCGAAGTAGATCGGAGACCTC-AG-CCTTGTCTCCT
260 ATAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCC-TATCTCCC
*
21866953 TGAGCAGCAGTGGAGTAGGTTGAAAATAA
324 TGAGCAGCAGTGGAGTAGGTTGAAAAGAA
* * *
21866982 CAGATATTGTCTTTCTGTATTG-GAGCGAAGTAGATCGAAGATACCAA-CCTTATCTTCCTGAGC
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATA-CAAGCCTTATCTCCCTGAGC
* * * *
21867045 AGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATGGGCAGCGAAGTAGATTGAAG
65 AGTAGTGGAGTAGATTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
21867110 ATATCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAACATATCTTATCTTCCTA-
130 ATA-CAGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAACAGATCTTATCTTCC-AG
* * * * * * * * *
21867174 TATTCGCAGCGAAATAGATCGAAGACCCCATCCTTATCTCCCTAGGCAGTAGTGGAGTAGGTTGA
193 TATTGGCAGTGAAGTAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAA
* * *
21867239 AAATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCCTATCTCC
258 AAATAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCCTATCTCC
* *
21867304 CTGAGTAGCAGTGGAGTAGGTTGAAAAGAG
323 CTGAGCAGCAGTGGAGTAGGTTGAAAAGAA
* * * *
21867334 CAGATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGT
1 CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATA-CAAGCCTTATCTCCCTGAGC
* * * * * * * * * *
21867399 TGCAGCGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAG
65 AGTAGTGGAGTAGATTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * ** * * ** * * * *
21867464 ACACCAGCCTTGCCTCCCTGAGTTTGTAGCAGAGCAGACTAAAAACATCAGATCTTATCTTCCTG
130 ATA-CAGCCTTGTCTCCCTGAG-CAGTAGTAGAGTAGGTTGAAAATAACAGATCTTATCTTCCAG
* * * * *
21867529 TACTGGCAGTGAAGCAGATCG-AGAACACTAGTCC-TATCTCCCTGAGCAGTAGTGGAGTAGGT
193 TATTGGCAGTGAAGTAGATCGAAG-ACACAAG-CCTTATCTCCCTAAGCAGCAGTGGAGTAGGT
21867591 CGAAAATTGT
Statistics
Matches: 505, Mismatches: 93, Indels: 19
0.82 0.15 0.03
Matches are distributed among these distances:
351 243 0.48
352 78 0.15
353 24 0.05
354 84 0.17
355 74 0.15
356 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (352 bp):
CAGATCTTGTCTTTCTGTATTGACAGCGAAGTAGATCGAAGATACAAGCCTTATCTCCCTGAGCA
GTAGTGGAGTAGATTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
TACAGCCTTGTCTCCCTGAGCAGTAGTAGAGTAGGTTGAAAATAACAGATCTTATCTTCCAGTAT
TGGCAGTGAAGTAGATCGAAGACACAAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAA
TAACAGATCTTATCCTCCTATATTGGCAGCGAAGTAGATCGAAGACAGCAAGTCCTATCTCCCTG
AGCAGCAGTGGAGTAGGTTGAAAAGAA
Found at i:21867151 original size:43 final size:43
Alignment explanation
Indices: 21867018--21867151 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 43
21867008 GAAGTAGATC
* *
21867018 GAAGATACCAACCTTATCTTCCTGAGCAGTAGTGGAGTAGGTT
1 GAAGATACCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTT
* * * * * * * * *
21867061 GAAAATAGCAGATCTTGTCTTCTTGTATG-GGCAGCGAAGTAGATT
1 GAAGATACCAG-CCTTATCTTCCTG-A-GCAGCAGTGGAGTAGGTT
* *
21867106 GAAGATATCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTT
1 GAAGATACCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTT
21867149 GAA
1 GAA
21867152 AATAACATAT
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
42 1 0.02
43 24 0.36
44 19 0.29
45 21 0.32
46 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
GAAGATACCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTT
Found at i:21867411 original size:44 final size:44
Alignment explanation
Indices: 21867267--21867422 Score: 120
Period size: 44 Copynumber: 3.5 Consensus size: 44
21867257 TCCTATATTG
* * *
21867267 GCAGCGAAGTAGATCGAAGATAGCAAGTCCTATCTCCCTGAGTA
1 GCAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
* * * * * * * * ** *
21867311 GCAGTGGAGTAGGTTGAAAAGAGC-AGATCTTGTCTTTCTGTA-CT
1 GCAGCGAAGCAGATCGAAGATAGCAAG-TCTTATCTCCCTG-AGTT
21867355 GACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
1 G-CAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
*
21867400 GCAGCGGAGCAGA-CTGAAGATAG
1 GCAGCGAAGCAGATC-GAAGATAG
21867423 TAGATCTTGT
Statistics
Matches: 82, Mismatches: 24, Indels: 12
0.69 0.20 0.10
Matches are distributed among these distances:
43 3 0.04
44 48 0.59
45 29 0.35
46 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (44 bp):
GCAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGTT
Found at i:21867499 original size:89 final size:89
Alignment explanation
Indices: 21867245--21867550 Score: 285
Period size: 89 Copynumber: 3.4 Consensus size: 89
21867235 TTGAAAATAA
* * * * * *
21867245 CAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCC-TATCTCCCTGAG
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAG-CCTTACCTCCCTGAG
* ** * ** * * *
21867309 TAGCAGTGGAGTAGGTTGAAAAGAG
65 TTGCAGCAGAGCAGACTAAAAACAT
* * * * * *
21867334 CAGATCTTGTCTTTCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTACCTCCCTGAGT
* * * *
21867399 TGCAGCGGAGCAGACTGAAGATAGT
66 TGCAGCAGAGCAGACTAAAAACA-T
* * * *
21867424 -AGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGACA-CCAGCCTTGCCTCCCTGAGT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTACCTCCCTGAG-
*
21867487 TTGTAGCAGAGCAGACTAAAAACAT
65 TTGCAGCAGAGCAGACTAAAAACAT
*
21867512 CAGATCTTATCTTCCTGTACTGGCAGTGAAGCAGATCGA
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGA
21867551 GAACACTAGT
Statistics
Matches: 181, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
88 17 0.09
89 164 0.91
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACAGCAAGCCTTACCTCCCTGAGT
TGCAGCAGAGCAGACTAAAAACAT
Found at i:21867708 original size:131 final size:132
Alignment explanation
Indices: 21867554--21867836 Score: 383
Period size: 131 Copynumber: 2.2 Consensus size: 132
21867544 AGATCGAGAA
* *
21867554 CACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAAATTGTAGATCCTGTCTCCCTAAG
1 CACTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCATGTCTCCCTAAG
* * *
21867619 CAGTAGTGGAATAGATCGAAGACGACGAATCTTATCTTCCCG-AGATAGTA-GGAAGAAGATTTA
66 CAGTAGTGGAACAGATCAAAGACGACGAATCTTATCTTCCCGAAG-GAGTAGGGAAGAAGATTTA
*
21867682 AGC
130 AAC
* * * *
21867685 CACTAGTCCTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCTCTAAG
1 CACTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCATGTCTCCCTAAG
* * * * *
21867750 CAGTAGTGGAGCAGATCAAAGACGGCGAGTCTTATCTTCCTGAAGGAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAACAGATCAAAGACGACGAATCTTATCTTCCCGAAGGAGTAGGGAAGAAGATTTAA
21867815 AC
131 AC
*
21867817 CACTAG-CCTTATTTCCCTGA
1 CACTAGTCC-TATCTCCCTGA
21867837 AGTTGCAGTG
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
131 101 0.77
132 31 0.23
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
CACTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAAATTGTAGATCATGTCTCCCTAAG
CAGTAGTGGAACAGATCAAAGACGACGAATCTTATCTTCCCGAAGGAGTAGGGAAGAAGATTTAA
AC
Found at i:21868326 original size:22 final size:22
Alignment explanation
Indices: 21868285--21868350 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
21868275 AATCTTCAAG
21868285 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
21868304 GTTATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
*
21868326 GATATGCAATCTTAGAAAATAT
1 GATATGCAATCTTAGAAGATAT
21868348 GAT
1 GAT
21868351 TTTGTAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 12 0.29
22 29 0.71
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:21868612 original size:23 final size:23
Alignment explanation
Indices: 21868568--21868612 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21868558 TCTTATTTTG
* *
21868568 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
21868591 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
21868613 CAAATCTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:21871141 original size:28 final size:29
Alignment explanation
Indices: 21871109--21871163 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
21871099 TTAAAATTTT
* *
21871109 ATTAAAATTTTAAAAAAATTTA-AAAACC
1 ATTAAAATTGTAAAAAAAATTATAAAACC
21871137 ATTAAAATTGTAAAAAAAATTATAAAA
1 ATTAAAATTGTAAAAAAAATTATAAAA
21871164 TATATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTAAAATTGTAAAAAAAATTATAAAACC
Found at i:21871457 original size:10 final size:10
Alignment explanation
Indices: 21871444--21871516 Score: 69
Period size: 10 Copynumber: 7.5 Consensus size: 10
21871434 TTTTTATGTA
21871444 TTTTATAATT
1 TTTTATAATT
*
21871454 TTTTATGA-T
1 TTTTATAATT
**
21871463 TTTTATAAAA
1 TTTTATAATT
*
21871473 TTTTACAATT
1 TTTTATAATT
*
21871483 TTTTCTAATT
1 TTTTATAATT
* *
21871493 TTTAATAAAT
1 TTTTATAATT
21871503 TTTT-TAATT
1 TTTTATAATT
21871512 TTTTA
1 TTTTA
21871517 ATTAAAATTT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
9 16 0.33
10 32 0.67
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:21871457 original size:19 final size:19
Alignment explanation
Indices: 21871433--21871516 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
21871423 TTAAATGGTC
21871433 TTTTTTATG-TATTTTATAA
1 TTTTTTATGAT-TTTTATAA
21871452 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
** ** *
21871471 AATTTTACAATTTTTTCTAA
1 TTTTTTATGA-TTTTTATAA
* *
21871491 TTTTTAATAAATTTTT-TAA
1 TTTTTTAT-GATTTTTATAA
21871510 TTTTTTA
1 TTTTTTA
21871517 ATTAAAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 32 0.62
20 18 0.35
21 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:21871475 original size:29 final size:29
Alignment explanation
Indices: 21871443--21871516 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
21871433 TTTTTTATGT
*
21871443 ATTTTATAATTTTTTATGATTTTT-ATAAA
1 ATTTTATAATTTTTTATAATTTTTAAT-AA
* *
21871472 ATTTTACAATTTTTTCTAATTTTTAATAA
1 ATTTTATAATTTTTTATAATTTTTAATAA
*
21871501 ATTTTTTAATTTTTTA
1 ATTTTATAATTTTTTA
21871517 ATTAAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTTTATAATTTTTTATAATTTTTAATAA
Found at i:21871815 original size:89 final size:87
Alignment explanation
Indices: 21871677--21871914 Score: 300
Period size: 89 Copynumber: 2.7 Consensus size: 87
21871667 TCAAGAACTC
* *
21871677 AATTGAGTG-AAAAAAAATAGGGGCTTAATAGCTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGAT
1 AATTGAGTGCAAAAAAAAGAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG-CTTTTTGAT
* *
21871741 GCATTTTGAAAATTTAAGTACCCA
65 ACATTTTGAAAATTCAAGTA-CCA
* * *
21871765 AATTGAGTGCAAAAAAAAGGGGGGCTTAATTGCTTTTTCTGAAAAAGTTTGAGAGCCTTTTTGAT
1 AATTGAGTGCAAAAAAAAGAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAG-GGCTTTTTGAT
* ***
21871830 ACATTTTGAAAGTTCAAGTATGT
65 ACATTTTGAAAATTCAAGTACCA
* *
21871853 AATTGAGTGCATAAAAAGAGCAGGGGCTTAATT-TTTTTTTTGAAAAAGTTTGAGGGCTTTTT
1 AATTGAGTGCA-AAAAAAAG-AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTT
21871915 ACACCCTTAA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
88 27 0.21
89 91 0.70
90 12 0.09
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (87 bp):
AATTGAGTGCAAAAAAAAGAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTTGATA
CATTTTGAAAATTCAAGTACCA
Found at i:21884204 original size:137 final size:135
Alignment explanation
Indices: 21883846--21884154 Score: 501
Period size: 140 Copynumber: 2.2 Consensus size: 135
21883836 TGAAAGATAT
21883846 CTTCAAGGTATTTGGCCTTAATTTATATTATAAACTAAATAAAATATACTTATAATTGAATTAGT
1 CTTCAAGGTATTTGGCCTTAATTTATATTAT-AACT-AATAAAATATACTTATAATTGAATTAGT
** *
21883911 GGAAGAAAAAGATGAAAGATATCTTCTTCTTCTTCTTCCAAACAACGAAACAAGAGAAGGAAAAC
64 AAAACAAAAAGATGAAAGATA---TCTTCTTCTTCTTCCAAACAACGAAACAAGAGAAGGAAAAC
21883976 CTAAAGAAAA
126 CTAAAGAAAA
21883986 CTTCAAGGTATTTGGCCTTAATTTATATTATAAACTAAATAAAATATACTTATAATTGAATTAGT
1 CTTCAAGGTATTTGGCCTTAATTTATATTAT-AACT-AATAAAATATACTTATAATTGAATTAGT
** *
21884051 GGAAGAAAAAGATGAAAGATATCTTCTTCTTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTA
64 AAAACAAAAAGATGAAAGATATCTTCTTCTTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTA
21884116 AAGAAAA
129 AAGAAAA
21884123 CTTCAAGGTATTTGGCCTTAATTTATATTATA
1 CTTCAAGGTATTTGGCCTTAATTTATATTATA
21884155 CTATTACTGA
Statistics
Matches: 169, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
136 1 0.01
137 82 0.49
140 86 0.51
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (135 bp):
CTTCAAGGTATTTGGCCTTAATTTATATTATAACTAATAAAATATACTTATAATTGAATTAGTAA
AACAAAAAGATGAAAGATATCTTCTTCTTCTTCCAAACAACGAAACAAGAGAAGGAAAACCTAAA
GAAAA
Found at i:21891757 original size:15 final size:15
Alignment explanation
Indices: 21891737--21891771 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
21891727 TCTCTAGAAA
21891737 TCTTCTAAAATAATT
1 TCTTCTAAAATAATT
*
21891752 TCTTCTGAAATAATT
1 TCTTCTAAAATAATT
21891767 TCTTC
1 TCTTC
21891772 AGAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.49
Consensus pattern (15 bp):
TCTTCTAAAATAATT
Found at i:21891776 original size:15 final size:15
Alignment explanation
Indices: 21891744--21891776 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21891734 AAATCTTCTA
*
21891744 AAATAATTTCTTCTG
1 AAATAATTTCTTCAG
21891759 AAATAATTTCTTCAG
1 AAATAATTTCTTCAG
21891774 AAA
1 AAA
21891777 ATTTTCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATAATTTCTTCAG
Found at i:21891948 original size:58 final size:60
Alignment explanation
Indices: 21891886--21891999 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 60
21891876 ATTACTTTAA
* * *
21891886 TATTAAATTAATACAATACTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAAGTAATACAATACTTACTACAAGATAAATATTAAATTAAACTTAATATTAAATC
21891944 TATTAAAGTAATACAATACTTATCTACAAGATAAATATTAAATTAAACTTAATATT
1 TATTAAAGTAATACAATACTTA-CTACAAGATAAATATTAAATTAAACTTAATATT
21892000 GAGATAATCA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 21 0.42
60 1 0.02
61 28 0.56
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.39
Consensus pattern (60 bp):
TATTAAAGTAATACAATACTTACTACAAGATAAATATTAAATTAAACTTAATATTAAATC
Found at i:21892027 original size:20 final size:18
Alignment explanation
Indices: 21891977--21892028 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
21891967 CTACAAGATA
21891977 AATATTAAATTAA-ACTT
1 AATATTAAATTAATACTT
*
21891994 AATATTGAGA-TAATCACTTT
1 AATATT-AAATTAAT-AC-TT
21892014 AATATTAAATTAATA
1 AATATTAAATTAATA
21892029 AAATATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 5 0.18
20 12 0.43
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATACTT
Found at i:21896860 original size:15 final size:16
Alignment explanation
Indices: 21896828--21896862 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
21896818 TAAATAATTT
21896828 TTATAAAGATTATATA
1 TTATAAAGATTATATA
*
21896844 TTATAAAG-TTTTATA
1 TTATAAAGATTATATA
21896859 TTAT
1 TTAT
21896863 TTCTTTACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TTATAAAGATTATATA
Found at i:21897590 original size:19 final size:19
Alignment explanation
Indices: 21897566--21897609 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21897556 TTAGAAATTA
21897566 TTTTTATCA-TACTAATAAT
1 TTTTTAT-AGTACTAATAAT
* *
21897585 TTTTTATAGTATTAATATT
1 TTTTTATAGTACTAATAAT
21897604 TTTTTA
1 TTTTTA
21897610 AAATATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATAGTACTAATAAT
Found at i:21917420 original size:23 final size:23
Alignment explanation
Indices: 21917376--21917420 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
21917366 TTATATTAAT
* * **
21917376 ATAATTTAATTAGATATTTATTA
1 ATAATTTAATTAAAAAAATATTA
21917399 ATAATTTAATTAAAAAAATATT
1 ATAATTTAATTAAAAAAATATT
21917421 GATATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAATTTAATTAAAAAAATATTA
Found at i:21920000 original size:16 final size:16
Alignment explanation
Indices: 21919981--21920011 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21919971 TCTAGATATT
21919981 AAAAAGAGAGTTCTGA
1 AAAAAGAGAGTTCTGA
21919997 AAAAAGAGAGTTCTG
1 AAAAAGAGAGTTCTG
21920012 GAACCTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (16 bp):
AAAAAGAGAGTTCTGA
Found at i:21926444 original size:24 final size:24
Alignment explanation
Indices: 21926417--21926462 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
21926407 TGCTAAAGAA
21926417 GGAAAGGGTTTCAATTAAAAATGG
1 GGAAAGGGTTTCAATTAAAAATGG
* *
21926441 GGAAAGGGTTTTAGTTAAAAAT
1 GGAAAGGGTTTCAATTAAAAAT
21926463 AAAGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.28
Consensus pattern (24 bp):
GGAAAGGGTTTCAATTAAAAATGG
Found at i:21926469 original size:24 final size:24
Alignment explanation
Indices: 21926418--21926469 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
21926408 GCTAAAGAAG
***
21926418 GAAAGGGTTTCAATTAAAAATGGG
1 GAAAGGGTTTCAATTAAAAATAAA
* *
21926442 GAAAGGGTTTTAGTTAAAAATAAA
1 GAAAGGGTTTCAATTAAAAATAAA
21926466 GAAA
1 GAAA
21926470 AAAGTAATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.25, T:0.25
Consensus pattern (24 bp):
GAAAGGGTTTCAATTAAAAATAAA
Found at i:21926815 original size:11 final size:11
Alignment explanation
Indices: 21926795--21926929 Score: 51
Period size: 11 Copynumber: 12.3 Consensus size: 11
21926785 TTTCTATTTA
21926795 TTATTATTATT
1 TTATTATTATT
*
21926806 TTATTGTTATT
1 TTATTATTATT
*
21926817 TTCTT-TT-TGT
1 TTATTATTAT-T
21926827 TTATTATTATT
1 TTATTATTATT
* ***
21926838 TTGTTGCCATT
1 TTATTATTATT
* * *
21926849 TCATAATTATA
1 TTATTATTATT
*
21926860 TTGTTATT-TT
1 TTATTATTATT
21926870 ATTATTATTATT
1 -TTATTATTATT
* * *
21926882 TGAATATTATA
1 TTATTATTATT
* * * *
21926893 TAACTCTTGTT
1 TTATTATTATT
*
21926904 TTATTGTTAATT
1 TTATTATT-ATT
*
21926916 TTGTTATTATT
1 TTATTATTATT
21926927 TTA
1 TTA
21926930 GAGATATTTG
Statistics
Matches: 84, Mismatches: 34, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
9 1 0.01
10 8 0.10
11 64 0.76
12 11 0.13
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (11 bp):
TTATTATTATT
Found at i:21927429 original size:17 final size:17
Alignment explanation
Indices: 21927391--21927439 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
21927381 GGGTGAGAAG
21927391 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
21927409 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
21927426 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
21927440 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:21942093 original size:43 final size:43
Alignment explanation
Indices: 21941843--21942080 Score: 316
Period size: 43 Copynumber: 5.5 Consensus size: 43
21941833 CCATTAAAGG
* *
21941843 TCATGACTTTTAGTGGCGCTGTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
21941886 TCATGACTTTTAGCGGCGCTTTTCCCACAAATC-CCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAA-CGCCGCTATAGA
* * * *
21941929 TCATAACTTTTAGCGGTGCTGTTCCCACAAACGCCGCTACAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* **
21941972 TCATGACTTTTAGCGGCGCTTCTCCCATTAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * * * *
21942015 TCATGACTTTTAGCGGCACTTCTCCTACAACCGCCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
21942058 TCATGAATTTTAGCGGCGCTTTT
1 TCATGACTTTTAGCGGCGCTTTT
21942081 TTTTATAACG
Statistics
Matches: 169, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 167 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
Found at i:21942448 original size:21 final size:21
Alignment explanation
Indices: 21942424--21942494 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
21942414 TTCTGCTCTG
*
21942424 CTCTACTTCCCTCGCTGC-AGC
1 CTCTGCTTCCCTCGCTGCTA-C
* * *
21942445 CTCTGCTTCTCTCACTGCTAT
1 CTCTGCTTCCCTCGCTGCTAC
*
21942466 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
*
21942487 ATCTGCTT
1 CTCTGCTT
21942495 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.07, C:0.42, G:0.14, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:21942647 original size:87 final size:87
Alignment explanation
Indices: 21942444--21942634 Score: 321
Period size: 87 Copynumber: 2.2 Consensus size: 87
21942434 CTCGCTGCAG
* *
21942444 CCTCTGCTTCTCTC-ACTGCTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTG
1 CCTCAGCTTCTCTCGA-TACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTG
21942508 GAGTTCTTCATATTTTCTTTGAA
65 GAGTTCTTCATATTTTCTTTGAA
* *
21942531 CCTCAGCTTCTCTCGATACTACCTCTGCTTCCCTCGCTGTTGCATCTGCTTTAAGTTGTAGCTGG
1 CCTCAGCTTCTCTCGATACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGG
21942596 AGTTCTTCATATTTTCTTTGAA
66 AGTTCTTCATATTTTCTTTGAA
*
21942618 CCTCGGCTTCTCTCGAT
1 CCTCAGCTTCTCTCGAT
21942635 GTTGTCTCTG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 97 0.99
88 1 0.01
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.41
Consensus pattern (87 bp):
CCTCAGCTTCTCTCGATACTATCTCTGCTTCCCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGG
AGTTCTTCATATTTTCTTTGAA
Found at i:21943336 original size:31 final size:31
Alignment explanation
Indices: 21943293--21943372 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
21943283 CATGGTTGAT
*
21943293 TTAGCAGCAAAAAACAATAGAAGGTGCCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* * *
21943324 TTAGCAGTAAAAACCAATAGAATGTACCATC
1 TTAGCAGCAAAAAACAATAGAAGGTACCATC
* * *
21943355 GTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAAACAAT
21943373 TAAAAACCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (31 bp):
TTAGCAGCAAAAAACAATAGAAGGTACCATC
Found at i:21944580 original size:45 final size:46
Alignment explanation
Indices: 21944531--21944648 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 46
21944521 ATTTGATTTA
* *
21944531 TAGTGCTTGTATTTTTCAAAAATTTTATAGTAGGAATTTAA-TCTG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
* * * *
21944576 TAGTGTTTGTATTTTTCTAAAACTTCAAATTAGGAATTTAACTCTG
1 TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
*
21944622 TGAAGTCAGGTTGTATTTTTCAAAAAT
1 T--AGT--GCTTGTATTTTTCAAAAAT
21944649 ACTAATTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
45 35 0.59
46 5 0.08
48 3 0.05
50 16 0.27
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (46 bp):
TAGTGCTTGTATTTTTCAAAAATTTCAAAGTAGGAATTTAACTCTG
Found at i:21944804 original size:21 final size:21
Alignment explanation
Indices: 21944780--21944943 Score: 59
Period size: 21 Copynumber: 7.6 Consensus size: 21
21944770 TAATAACCCA
21944780 TAAACCCTAAACCTTAAACCT
1 TAAACCCTAAACCTTAAACCT
* **
21944801 TAAACTCC-AAGCCCTTTTATCCCT
1 TAAAC-CCTAA-ACC--TTAAACCT
*
21944825 TTAACCCTAAATCC-TAAACCT
1 TAAACCCTAAA-CCTTAAACCT
* * * *
21944846 ATAAATCATAAACCCCTAACCCT
1 -TAAACCCTAAA-CCTTAAACCT
* *
21944869 TAACCCCT-AACACTTAAACCC
1 TAAACCCTAAAC-CTTAAACCT
* * *
21944890 TAAGCCC-CAACCTTAAACCA
1 TAAACCCTAAACCTTAAACCT
* * *
21944910 TAAACCAC-AAACCATAATCCA
1 TAAACC-CTAAACCTTAAACCT
*
21944931 TAAACCCTTAACC
1 TAAACCCTAAACC
21944944 CATATCCTTT
Statistics
Matches: 106, Mismatches: 25, Indels: 24
0.68 0.16 0.15
Matches are distributed among these distances:
20 15 0.14
21 50 0.47
22 19 0.18
23 8 0.08
24 14 0.13
ACGTcount: A:0.40, C:0.37, G:0.01, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACCTTAAACCT
Found at i:21944875 original size:14 final size:14
Alignment explanation
Indices: 21944856--21944892 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21944846 ATAAATCATA
*
21944856 AACCCCTAACCCTT
1 AACCCCTAACACTT
21944870 AACCCCTAACACTT
1 AACCCCTAACACTT
*
21944884 AAACCCTAA
1 AACCCCTAA
21944893 GCCCCAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:21944913 original size:7 final size:7
Alignment explanation
Indices: 21944898--21944936 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
21944888 CCTAAGCCCC
*
21944898 AACCTTA
1 AACCATA
21944905 AACCATA
1 AACCATA
*
21944912 AACCACA
1 AACCATA
21944919 AACCATA
1 AACCATA
*
21944926 ATCCATA
1 AACCATA
21944933 AACC
1 AACC
21944937 CTTAACCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCATA
Found at i:21945000 original size:14 final size:14
Alignment explanation
Indices: 21944983--21945019 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21944973 ATTAACTATA
21944983 AACCCTAAACCCCT
1 AACCCTAAACCCCT
*
21944997 AACCCTTAACCCCT
1 AACCCTAAACCCCT
21945011 AACACCTAA
1 AAC-CCTAA
21945020 GCCTTAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCCCT
Found at i:21945007 original size:21 final size:22
Alignment explanation
Indices: 21944985--21945065 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 22
21944975 TAACTATAAA
21944985 CCCTAAACCCCTAACCCTTAAC
1 CCCTAAACCCCTAACCCTTAAC
* *
21945007 CCCT-AACACCTAAGCCTTAAAC
1 CCCTAAACCCCTAACCCTT-AAC
* * * *
21945029 CCC--AACCCTTAAACCATAAT
1 CCCTAAACCCCTAACCCTTAAC
*
21945049 CCCTAAACCCTTAACCC
1 CCCTAAACCCCTAACCC
21945066 ATATTCTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.10
21 22 0.46
22 21 0.44
ACGTcount: A:0.35, C:0.46, G:0.01, T:0.19
Consensus pattern (22 bp):
CCCTAAACCCCTAACCCTTAAC
Found at i:21945084 original size:7 final size:7
Alignment explanation
Indices: 21944981--21945065 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
21944971 ACATTAACTA
21944981 TAAACCC
1 TAAACCC
21944988 TAAACCCC
1 TAAA-CCC
21944996 T-AACCC
1 TAAACCC
*
21945002 TTAACCCC
1 -TAAACCC
21945010 T-AACACC
1 TAAAC-CC
* *
21945017 TAAGCCT
1 TAAACCC
21945024 TAAACCC
1 TAAACCC
*
21945031 -CAACCC
1 TAAACCC
*
21945037 TTAAACCA
1 -TAAACCC
*
21945045 TAATCCC
1 TAAACCC
21945052 TAAACCC
1 TAAACCC
*
21945059 TTAACCC
1 TAAACCC
21945066 ATATTCTTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 14
0.68 0.15 0.16
Matches are distributed among these distances:
6 10 0.17
7 34 0.59
8 14 0.24
ACGTcount: A:0.36, C:0.44, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:21945127 original size:39 final size:39
Alignment explanation
Indices: 21945073--21945157 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
21945063 CCCATATTCT
*
21945073 TTAAACCCTAAATCATAGAATATATATAAACCT-TAAACC
1 TTAAACCCTAAATCATAGAACATATATAAA-CTATAAACC
*
21945112 TTAAACCCTAAATCATAGAACATATATAAATTATAAACC
1 TTAAACCCTAAATCATAGAACATATATAAACTATAAACC
21945151 TTAAACC
1 TTAAACC
21945158 TCAACCCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 1 0.02
39 42 0.98
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.28
Consensus pattern (39 bp):
TTAAACCCTAAATCATAGAACATATATAAACTATAAACC
Found at i:21945220 original size:15 final size:14
Alignment explanation
Indices: 21945180--21945220 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
21945170 CAATAAACAA
*
21945180 TAAACCATAACCCC
1 TAAACCATAATCCC
21945194 TAAATCCATAATCCC
1 TAAA-CCATAATCCC
21945209 TAAACCACTAAT
1 TAAACCA-TAAT
21945221 GCGTCTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:21945459 original size:102 final size:101
Alignment explanation
Indices: 21945293--21945490 Score: 276
Period size: 102 Copynumber: 2.0 Consensus size: 101
21945283 AAAACTGTCG
* * *
21945293 CTAATGCTTGACTTTTGCGGCGTTTTTTGTAAAGCACCACTAATGTCTCTAAAGCTCAACAAAAA
1 CTAATGCTTGAATTTTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
*
21945358 AACGAAT-CCGTTTGCTTAAAATTTTTTGCGGCGCTTC
66 AACG-ATGCCGTTTGCTTAAAA-ATTTTGCGGCGCTTC
*
21945395 CTAATGCTTGAATTTTGCGGCGTTTTTAT-AAAAG-AGCCACTAATGTGTCTAAAACTCAACAAA
1 CTAATGCTTGAATTTTGCGGCGTTTTT-TGAAAAGCA-CCACTAATGTCTCTAAAACTCAACAAA
* *
21945458 AAAACGTTGTCGTTTGCTTAAAAATTTTGCGGC
64 AAAACGATGCCGTTTGCTTAAAAATTTTGCGGC
21945491 TCTATTGTGA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
101 11 0.13
102 74 0.86
103 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (101 bp):
CTAATGCTTGAATTTTGCGGCGTTTTTTGAAAAGCACCACTAATGTCTCTAAAACTCAACAAAAA
AACGATGCCGTTTGCTTAAAAATTTTGCGGCGCTTC
Found at i:21945632 original size:111 final size:110
Alignment explanation
Indices: 21945395--21945712 Score: 363
Period size: 111 Copynumber: 2.8 Consensus size: 110
21945385 GCGGCGCTTC
* * * * *
21945395 CTAATGCTTGAATTTTGCGGCGTTTTT-ATAAAAGAGCCACTAATGTGTCTAAAACTCAACAA-A
1 CTAATGCTTGACTTTTGCGGCGTTTTTCA-GAAAGCGCCACTAATGTCTCTAAAGCT-AA-AAGA
* * * * *
21945458 AAAACGTTGTCGTTTGCTTAAAAATTTTGCGGCTCTATTGTGAAAGCACTG
63 ACAAC---GTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
* *
21945509 CTAATTCTTGACTTTTGCAGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCTGAAAAGAAC
1 CTAATGCTTGACTTTTGCGGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCT-AAAAGAAC
* *
21945574 AACGTCGTTTGCTTAAAACTTTTGTGGCACTTTTGAGAAAGCACCG
65 AACGTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
* * *
21945620 CTAATGCTTGACTTTTGCGGCG-TTTCCTGATAAGCGCCACTAATTTCTCTAAAGCTAAAAGAAA
1 CTAATGCTTGACTTTTGCGGCGTTTTTCAGA-AAGCGCCACTAATGTCTCTAAAGCTAAAAG--A
*
21945684 ACAACGTCGTTTGCTTAAGACTTTTGCGG
63 ACAACGTCGTTTGCTTAAAACTTTTGCGG
21945713 TGCTCTTGAC
Statistics
Matches: 177, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
110 11 0.06
111 81 0.46
112 28 0.16
113 2 0.01
114 54 0.31
115 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (110 bp):
CTAATGCTTGACTTTTGCGGCGTTTTTCAGAAAGCGCCACTAATGTCTCTAAAGCTAAAAGAACA
ACGTCGTTTGCTTAAAACTTTTGCGGCACTATTGAGAAAGCACCG
Found at i:21954268 original size:30 final size:30
Alignment explanation
Indices: 21954234--21954292 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
21954224 AACAACCAAG
21954234 TCAGTTTGAAAACATTACGTGTATGTATAC
1 TCAGTTTGAAAACATTACGTGTATGTATAC
21954264 TCAGTTTGAAAACATTACGTGTATGTATA
1 TCAGTTTGAAAACATTACGTGTATGTATA
21954293 GTGGAGATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (30 bp):
TCAGTTTGAAAACATTACGTGTATGTATAC
Found at i:21956388 original size:33 final size:31
Alignment explanation
Indices: 21956351--21956426 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 31
21956341 ATATTTAAAA
21956351 ATTTTAAAAATA-AAAAAT-TCAAACAAATATAT
1 ATTTTAAAAATATAAAAATGTC--A-AAATATAT
* *
21956383 CATTTT-CAAATATTAAAATGTCAAAATATAT
1 -ATTTTAAAAATATAAAAATGTCAAAATATAT
21956414 ATTTTAAAAATAT
1 ATTTTAAAAATAT
21956427 TTAAAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 5 0.14
31 14 0.38
32 6 0.16
33 10 0.27
34 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (31 bp):
ATTTTAAAAATATAAAAATGTCAAAATATAT
Found at i:21957076 original size:67 final size:67
Alignment explanation
Indices: 21956998--21957138 Score: 230
Period size: 67 Copynumber: 2.1 Consensus size: 67
21956988 GGAGCAAAAG
* *
21956998 ATTTTTTCAATTTTTTGTCTTTCAGAGTTTAAAAA-ATTTAATTTTAATATTTTCAAAAACTAAA
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATA-TTAATTTTAACATTTTCAAAAACTAAA
21957062 ATT
65 ATT
* *
21957065 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAATTAAAT
1 ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
21957130 TT
66 TT
21957132 ATTTTTT
1 ATTTTTT
21957139 AAAATCTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 68 0.99
68 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (67 bp):
ATTTTTTCAATTTTTTATCTTTCAGAGTTTAAAAATATTAATTTTAACATTTTCAAAAACTAAAA
TT
Found at i:21960299 original size:184 final size:185
Alignment explanation
Indices: 21959987--21960361 Score: 716
Period size: 184 Copynumber: 2.0 Consensus size: 185
21959977 CAGTAGCAAT
21959987 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
*
21960052 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACT
65 AATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACC
21960117 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
130 GTATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
21960173 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTT-AAA
1 ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
*
21960237 ATCTCAGTTCATCTCCTTCAATTAAGGAGCTAACAATCTTTTCTAACATCAACCAGATTGAACCG
66 ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACCG
21960302 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
131 TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
21960357 ATTCC
1 ATTCC
21960362 TTTTTTTCCC
Statistics
Matches: 187, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 126 0.67
186 61 0.33
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (185 bp):
ATTCCACAGAATGGTTTTGGAGATAGTTTTGAAAATCTACAAAAGAAAGGTTGCCAAAGTTAAAA
ATCTCAGTTCATCTCCTTCAATTAAGGAACTAACAATCTTTTCTAACATCAACCAGATTGAACCG
TATCTCCTACTTATTTGCTACAAATTTCTTACCCTAACTACTCCAAGATTTCAAG
Found at i:21961460 original size:13 final size:14
Alignment explanation
Indices: 21961442--21961475 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21961432 TAATAAATAA
21961442 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
21961455 TATTTTTTAATTTT
1 TATTTTTTAATTTT
*
21961469 TAATTTT
1 TATTTTT
21961476 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:21961467 original size:14 final size:13
Alignment explanation
Indices: 21961442--21961475 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
21961432 TAATAAATAA
21961442 TATTTTTTATTTT
1 TATTTTTTATTTT
21961455 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
21961469 TAATTTT
1 T-ATTTT
21961476 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:21968618 original size:14 final size:13
Alignment explanation
Indices: 21968599--21968660 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
21968589 AGCTCGTTTG
21968599 TTTATTTCTCGTTA
1 TTTATTTCTC-TTA
* *
21968613 TTTATTTCTTTTT
1 TTTATTTCTCTTA
*
21968626 TTTATTTGCT-TATT
1 TTTATTT-CTCT-TA
21968640 TTTATTTCTCTTAA
1 TTTATTTCTCTT-A
21968654 TTTATTT
1 TTTATTT
21968661 TATGGTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 13 0.32
14 28 0.68
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTCTCTTA
Found at i:21970127 original size:23 final size:23
Alignment explanation
Indices: 21970101--21970147 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21970091 ACATACTTAG
21970101 TTACCTTTGAATATTAACCATTC
1 TTACCTTTGAATATTAACCATTC
21970124 TTACCTTTGAATATTAACCATTC
1 TTACCTTTGAATATTAACCATTC
21970147 T
1 T
21970148 ATAATGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (23 bp):
TTACCTTTGAATATTAACCATTC
Found at i:21972521 original size:12 final size:11
Alignment explanation
Indices: 21972493--21972519 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21972483 AGAAAAATTT
21972493 AAAAATTTTAA
1 AAAAATTTTAA
21972504 AAAAATTTTAA
1 AAAAATTTTAA
21972515 AAAAA
1 AAAAA
21972520 ATCCAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:21972769 original size:19 final size:19
Alignment explanation
Indices: 21972720--21972769 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
21972710 TTTCTAATAT
21972720 TTTTTAATTATTTTAGTAAA
1 TTTTTAATT-TTTTAGTAAA
* *
21972740 TTTTTATTTTTTTTGT-AA
1 TTTTTAATTTTTTAGTAAA
21972758 TTTTGTAATTTT
1 TTTT-TAATTTT
21972770 ATACTCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 12 0.46
20 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (19 bp):
TTTTTAATTTTTTAGTAAA
Found at i:21972861 original size:24 final size:26
Alignment explanation
Indices: 21972819--21972868 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21972809 TTTAAATAAC
*
21972819 TTTTTTGTAATTATATTTATTGTAAA
1 TTTTGTGTAATTATATTTATTGTAAA
*
21972845 TTTTGTGTAATT-T-TTTATTTTAAA
1 TTTTGTGTAATTATATTTATTGTAAA
21972869 AGATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (26 bp):
TTTTGTGTAATTATATTTATTGTAAA
Found at i:21984103 original size:45 final size:45
Alignment explanation
Indices: 21984038--21984125 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
21984028 TTCACTAACG
*
21984038 GTACTCATTTATTTCTGAGTTCTTTAATTTCCCGAACTAGAATCT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
21984083 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
1 GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAAT
21984126 ATTTCTTACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (45 bp):
GTACTCATTTATTTCCGAGTTCTTTAATTTCCCGAACTAGAATCT
Found at i:21984492 original size:17 final size:17
Alignment explanation
Indices: 21984452--21984494 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
21984442 AAGTTCTAAT
**
21984452 GAAAAAAAAGATTAAAA
1 GAAAAAAAAGAAGAAAA
* *
21984469 TATAAAAAAGAAGAAAA
1 GAAAAAAAAGAAGAAAA
21984486 GAAAAAAAA
1 GAAAAAAAA
21984495 TCATCAAAGT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAA
Found at i:21984581 original size:20 final size:19
Alignment explanation
Indices: 21984558--21984599 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
21984548 GAAAAATAAT
*
21984558 AAAATAGAAGACAAAAAGTA
1 AAAAGAGAAGACAAAAA-TA
*
21984578 AAAAGAGAAGAGAAAAATA
1 AAAAGAGAAGACAAAAATA
21984597 AAA
1 AAA
21984600 TGTAATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAGAGAAGACAAAAATA
Found at i:21990502 original size:25 final size:25
Alignment explanation
Indices: 21990474--21990534 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
21990464 TAAAATATGT
* *
21990474 TATGTTATGATTCGATATAACATGA
1 TATGTTAAGATTCAATATAACATGA
* * *
21990499 TATGCTAAGATTCAATATGATATGA
1 TATGTTAAGATTCAATATAACATGA
*
21990524 TACGTTAAGAT
1 TATGTTAAGAT
21990535 ATGATTTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (25 bp):
TATGTTAAGATTCAATATAACATGA
Found at i:21993266 original size:26 final size:26
Alignment explanation
Indices: 21993232--21993295 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
21993222 TGTTAATTTC
*
21993232 AAGACTTATTTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
21993258 AAGACTTATGTAATGTTAGTGATTCA
1 AAGACTTATGTAATGTTAGTGATTCA
21993284 AAGACTTA-GTAA
1 AAGACTTATGTAA
21993296 AACCATAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (26 bp):
AAGACTTATGTAATGTTAGTGATTCA
Found at i:21999275 original size:73 final size:73
Alignment explanation
Indices: 21999196--21999350 Score: 179
Period size: 73 Copynumber: 2.1 Consensus size: 73
21999186 AGCTGTATAA
* * * * * *
21999196 CAGGAAGCTCATAAGAGCCATAT-TTAGGAAGCTCATGTGAGCCAATAAT-GGGTAGCTCTGAAG
1 CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCC-AT-ATCGGGAAGCTCCGAAG
21999259 AGCCATTAAT
64 AGCCATTAAT
* * * * *
21999269 CAGGAAGCTCCGGATAGCCATATATCAGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAG
1 CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCCATATCGGGAAGCTCCGAAGAG
21999334 CCATTAAT
66 CCATTAAT
21999342 CAGGAAGCT
1 CAGGAAGCT
21999351 TACAAAGAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
72 2 0.03
73 51 0.74
74 16 0.23
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (73 bp):
CAGGAAGCTCAGAAGAGCCATATATCAGGAAGCTCAAGCGAGCCATATCGGGAAGCTCCGAAGAG
CCATTAAT
Found at i:21999287 original size:25 final size:24
Alignment explanation
Indices: 21999257--21999350 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
21999247 GTAGCTCTGA
21999257 AGAGCCATTAATCAGGAAGCTCCGG
1 AGAGCCA-TAATCAGGAAGCTCCGG
* * **
21999282 ATAGCCATATATCAGGAAGTTCAAG
1 AGAGCCATA-ATCAGGAAGCTCCGG
* *
21999307 CGAGCCAT-ATCGGGAAGCTCCGG
1 AGAGCCATAATCAGGAAGCTCCGG
21999330 AGAGCCATTAATCAGGAAGCT
1 AGAGCCA-TAATCAGGAAGCT
21999351 TACAAAGAGC
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
23 17 0.31
24 3 0.06
25 34 0.63
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (24 bp):
AGAGCCATAATCAGGAAGCTCCGG
Found at i:21999327 original size:48 final size:51
Alignment explanation
Indices: 21999256--21999402 Score: 146
Period size: 48 Copynumber: 2.9 Consensus size: 51
21999246 GGTAGCTCTG
*
21999256 AAGAGCC-ATTAATCAGGAAGCTCCGGATAGCCATATATCAGGAAG-TT-CA
1 AAGAGCCTA-TAATCGGGAAGCTCCGGATAGCCATATATCAGGAAGCTTACA
* *
21999305 AGCGAGCC-AT-ATCGGGAAGCTCCGGAGAGCCAT-TAATCAGGAAGCTTACA
1 A-AGAGCCTATAATCGGGAAGCTCCGGATAGCCATAT-ATCAGGAAGCTTACA
* * **
21999355 AAGAGCCTTTAATCGGGAAGCTTACAAATAGCCATATATCAGG-AGCTT
1 AAGAGCCTATAATCGGGAAGC-TCCGGATAGCCATATATCAGGAAGCTT
21999403 CCTGATATAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
47 1 0.01
48 30 0.37
49 9 0.11
50 10 0.12
51 15 0.19
52 15 0.19
53 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (51 bp):
AAGAGCCTATAATCGGGAAGCTCCGGATAGCCATATATCAGGAAGCTTACA
Found at i:21999366 original size:26 final size:26
Alignment explanation
Indices: 21999256--21999402 Score: 96
Period size: 25 Copynumber: 5.9 Consensus size: 26
21999246 GGTAGCTCTG
* *
21999256 AAGAGCCATTAATCAGGAAGC-TCCG
1 AAGAGCCATTAATCAGGAAGCTTACA
* *
21999281 GATAGCCA-TATATCAGGAAG-TT-CA
1 AAGAGCCATTA-ATCAGGAAGCTTACA
* * * *
21999305 AGCGAGCCA-T-ATCGGGAAGC-TCCG
1 A-AGAGCCATTAATCAGGAAGCTTACA
*
21999329 GAGAGCCATTAATCAGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTTACA
* *
21999355 AAGAGCCTTTAATCGGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTTACA
*
21999381 AATAGCCA-TATATCAGG-AGCTT
1 AAGAGCCATTA-ATCAGGAAGCTT
21999403 CCTGATATAT
Statistics
Matches: 94, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
23 15 0.16
24 5 0.05
25 38 0.40
26 36 0.38
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTTACA
Found at i:22001296 original size:28 final size:29
Alignment explanation
Indices: 22001264--22001335 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
22001254 AATACATTTT
*
22001264 TAAAATTTTTAAAATTCA-AAAAATATTA
1 TAAAATTTTTAAAAATCATAAAAATATTA
** *
22001292 TAAAAAATTTAAAAATCATTAAAATTATTA
1 TAAAATTTTTAAAAATCA-TAAAAATATTA
*
22001322 -AAAATTTATAAAAA
1 TAAAATTTTTAAAAA
22001336 ATTATTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 15 0.43
29 11 0.31
30 9 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
TAAAATTTTTAAAAATCATAAAAATATTA
Found at i:22001327 original size:10 final size:10
Alignment explanation
Indices: 22001283--22001341 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
22001273 TAAAATTCAA
22001283 AAAATATTA-T
1 AAAA-ATTATT
*
22001293 AAAAAAT-TT
1 AAAAATTATT
*
22001302 AAAAATCATT
1 AAAAATTATT
22001312 -AAAATTATT
1 AAAAATTATT
*
22001321 AAAAATTTATA
1 AAAAA-TTATT
22001332 AAAAATTATT
1 AAAAATTATT
22001342 TTTAATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 16 0.41
10 14 0.36
11 9 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:22001339 original size:27 final size:27
Alignment explanation
Indices: 22001288--22001339 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
22001278 TTCAAAAAAT
*
22001288 ATTATAAAAAATTTAAAAATCATTAAA
1 ATTATAAAAAATTTAAAAATAATTAAA
*
22001315 ATTATTAAAAATTTATAAAA-AATTA
1 ATTATAAAAAATTTA-AAAATAATTA
22001340 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTATAAAAAATTTAAAAATAATTAAA
Found at i:22002722 original size:43 final size:43
Alignment explanation
Indices: 22002658--22002906 Score: 372
Period size: 43 Copynumber: 5.8 Consensus size: 43
22002648 GCGTCGCTAA
* *
22002658 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
* *
22002701 CTTTAGCGGCGCTTTTACCACAAACACCGCTAAAGACCAGAAC
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
* * * *
22002744 CTTTAGCGACGCTTTTCCCACAAATACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
*
22002787 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
*
22002830 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
* * **
22002873 CTTTAGCGGTGCTTTTACCACAAATGCCGCTAAA
1 CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAA
22002907 AACATGACTT
Statistics
Matches: 186, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 186 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCAGGAC
Found at i:22002806 original size:129 final size:129
Alignment explanation
Indices: 22002658--22002906 Score: 428
Period size: 129 Copynumber: 1.9 Consensus size: 129
22002648 GCGTCGCTAA
22002658 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTACCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTACCACA
*
22002723 AACACCGCTAAAGACC-AGAACCTTTAGCGACGCTTTTCCCACAAATACCGCTAAAGACCAAGAC
66 AACACCGCTAAAGACCAAG-ACCTTTAGCGACGCTTTTACCACAAATACCGCTAAAGACCAAGAC
* *
22002787 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTACCACA
** *
22002852 AACACCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTACCACAAATGCCGCTAAA
66 AACACCGCTAAAGACCAAGACCTTTAGCGACGCTTTTACCACAAATACCGCTAAA
22002907 AACATGACTT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
129 111 0.98
130 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTACCACA
AACACCGCTAAAGACCAAGACCTTTAGCGACGCTTTTACCACAAATACCGCTAAAGACCAAGAC
Found at i:22003130 original size:18 final size:18
Alignment explanation
Indices: 22003107--22003165 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
22003097 TTAAAACAAG
22003107 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
22003125 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
22003142 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
22003160 TTACAT
1 TTACAT
22003166 AAGTTCTGTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:22009085 original size:7 final size:7
Alignment explanation
Indices: 22009075--22009119 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
22009065 TACTAACTCT
*
22009075 TAACCAC
1 TAACCCC
*
22009082 TAACCTC
1 TAACCCC
22009089 TAACCCC
1 TAACCCC
22009096 TAACCCC
1 TAACCCC
**
22009103 TAACTAC
1 TAACCCC
22009110 TAACCCC
1 TAACCCC
22009117 TAA
1 TAA
22009120 ATCTTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:22009091 original size:21 final size:21
Alignment explanation
Indices: 22009075--22009119 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
22009065 TACTAACTCT
22009075 TAACCACTAACCTCTAACCCC
1 TAACCACTAACCTCTAACCCC
*
22009096 TAACCCCTAA-CTACTAACCCC
1 TAACCACTAACCT-CTAACCCC
22009117 TAA
1 TAA
22009120 ATCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (21 bp):
TAACCACTAACCTCTAACCCC
Found at i:22009115 original size:14 final size:14
Alignment explanation
Indices: 22009075--22009119 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
22009065 TACTAACTCT
*
22009075 TAACCACTAACCTC
1 TAACCACTAACCCC
*
22009089 TAACCCCTAACCCC
1 TAACCACTAACCCC
*
22009103 TAACTACTAACCCC
1 TAACCACTAACCCC
22009117 TAA
1 TAA
22009120 ATCTTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCACTAACCCC
Found at i:22009194 original size:20 final size:20
Alignment explanation
Indices: 22009162--22009205 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22009152 ATTAATCTAG
22009162 ACCCTAAATCCTAAACCCTA
1 ACCCTAAATCCTAAACCCTA
*
22009182 ACCC-AAATCCCTAACCCCTA
1 ACCCTAAAT-CCTAAACCCTA
22009202 ACCC
1 ACCC
22009206 CTACACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (20 bp):
ACCCTAAATCCTAAACCCTA
Found at i:22009448 original size:14 final size:14
Alignment explanation
Indices: 22009426--22009462 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22009416 ATCTTAAATT
22009426 AACCATATACCCTA
1 AACCATATACCCTA
*
22009440 AATCATATACCCTA
1 AACCATATACCCTA
22009454 AACCATATA
1 AACCATATA
22009463 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:22009908 original size:41 final size:41
Alignment explanation
Indices: 22009833--22009993 Score: 270
Period size: 41 Copynumber: 4.0 Consensus size: 41
22009823 TAAAAAACGG
* * *
22009833 GCATTAGCGGCGCTT-TTTAAAAATGCCACTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* *
22009873 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
22009914 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
22009955 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
22009994 CCAAAACTCA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 15 0.13
41 98 0.87
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:22010153 original size:40 final size:39
Alignment explanation
Indices: 22010034--22010163 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
22010024 TAGGCTTGTT
* *
22010034 GCGGCGCTTTTCAAAAAACGCCGCTAATGCTT-ATTTTTA
1 GCGGCG-TTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
* * **
22010073 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGACCTTTA
1 GCGGCGTTTT-TAAAAAGCGCCGCTAATGCTTGATTTTTA
*
22010113 GCGACGTTTTTAGAAAAGCGCC-CTTAATGCTTGATTTTTA
1 GCGGCGTTTTTA-AAAAGCGCCGC-TAATGCTTGATTTTTA
*
22010153 GTGGCGTTTTT
1 GCGGCGTTTTT
22010164 TGTCCAAACG
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.05
39 27 0.36
40 45 0.59
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAGCGCCGCTAATGCTTGATTTTTA
Found at i:22014069 original size:43 final size:43
Alignment explanation
Indices: 22013994--22014102 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
22013984 AATGTCATAT
* * * * *
22013994 CCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAACAA
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAACAA
* ***
22014037 CCCAGCCATGGTCTTACACGAAATCACATATCGATGCCAATGT
1 CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAACAA
*
22014080 CCTAGACATGGTCTTACAC-AAAT
1 CCCAGACATGGTCTTACACGAAAT
22014103 TCTTATATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 4 0.07
43 51 0.93
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACGAAATCACATATCGATGCCAACAA
Found at i:22021524 original size:19 final size:19
Alignment explanation
Indices: 22021491--22021538 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22021481 TAAACAATTC
22021491 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
22021508 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
22021527 AATAATATAAAT
1 AATAATATAAAT
22021539 AGAAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:22027363 original size:12 final size:12
Alignment explanation
Indices: 22027336--22027376 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
22027326 CAAATGAAAT
*
22027336 ATTTCTCATTTTC
1 ATTTCT-ATTTCC
22027349 ATTTCTATTTCC
1 ATTTCTATTTCC
*
22027361 ATTTCCATTTCC
1 ATTTCTATTTCC
22027373 ATTT
1 ATTT
22027377 TTTTGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTATTTCC
Found at i:22027369 original size:18 final size:19
Alignment explanation
Indices: 22027335--22027376 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
22027325 GCAAATGAAA
*
22027335 TATTTCTCATTTTCATTTC
1 TATTTCTCATTTCCATTTC
22027354 TATTTC-CATTTCCATTTC
1 TATTTCTCATTTCCATTTC
*
22027372 CATTT
1 TATTT
22027377 TTTTGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTCTCATTTCCATTTC
Found at i:22028935 original size:28 final size:28
Alignment explanation
Indices: 22028903--22028967 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
22028893 GTCTGTCACG
**
22028903 GGCTATCTTAGGTGGAATGTCCGCCAAA
1 GGCTATCTTAGGTCAAATGTCCGCCAAA
* * *
22028931 GGCTATTTTAGGTCAAATGTCTGCCAAT
1 GGCTATCTTAGGTCAAATGTCCGCCAAA
*
22028959 GACTATCTT
1 GGCTATCTT
22028968 GAAGATGAGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (28 bp):
GGCTATCTTAGGTCAAATGTCCGCCAAA
Found at i:22032221 original size:42 final size:42
Alignment explanation
Indices: 22032074--22032291 Score: 274
Period size: 42 Copynumber: 5.1 Consensus size: 42
22032064 GCTTACAGAA
* * *
22032074 AAAAAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
** *
22032116 AAAAAAACATCGCTAATGATCATGTTCTTTAGCAGCGCTTAGG
1 -AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
22032159 AAAAAAATGCCGTTATTGATCATGTTCTTTAGCAGCGCTTAGG
1 -AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* *
22032202 AAAAAACGCCCCTAATGATCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
22032244 AAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGG
1 AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
22032286 AAAAAA
1 AAAAAA
22032292 ACACCGTTAA
Statistics
Matches: 152, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 78 0.51
43 74 0.49
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAAACGCCGCTAATGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:22032317 original size:43 final size:43
Alignment explanation
Indices: 22032054--22032293 Score: 286
Period size: 43 Copynumber: 5.6 Consensus size: 43
22032044 ACGTCGCTAA
* * * * *
22032054 CTTTTGCGGCGCTTACAGAAAAAAAACGCCTCTAAAGGTCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAAACGCCGCTAATGATCATGTT
**
22032099 CTTTAGCGGCGCTTAGGAAAAAAACATCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* * * *
22032142 CTTTAGCAGCGCTTAGGAAAAAAATGCCGTTATTGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* *
22032185 CTTTAGCAGCGCTTAGG-AAAAAACGCCCCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
* * * *
22032227 CTTTAGCGGCGCTTTGG-AAAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
*
22032269 CTTTAGCGGCGTTTAGGAAAAAAAC
1 CTTTAGCGGCGCTTAGGAAAAAAAC
22032294 ACCGTTAAAA
Statistics
Matches: 169, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 72 0.43
43 84 0.50
45 13 0.08
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
Found at i:22032317 original size:85 final size:86
Alignment explanation
Indices: 22032073--22032297 Score: 301
Period size: 85 Copynumber: 2.6 Consensus size: 86
22032063 CGCTTACAGA
* * *
22032073 AAAAAAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACATCGCTAATGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
22032138 TGTTCTTTAGCAGCGCTTAGG
66 TGTTCTTTAGCAGCGCTTAGG
* * ** * * *
22032159 AAAAAAATGCCGTTATTGATCATGTTCTTTAGCAGCGCTTAGG-AAAAAACGCCCCTAATGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
* *
22032223 TGTTCTTTAGCGGCGCTTTGG
66 TGTTCTTTAGCAGCGCTTAGG
* * *
22032244 -AAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACACCG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCG
22032298 TTAAAAGTAA
Statistics
Matches: 116, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
84 34 0.29
85 46 0.40
86 36 0.31
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (86 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
TGTTCTTTAGCAGCGCTTAGG
Found at i:22032325 original size:85 final size:85
Alignment explanation
Indices: 22032073--22032325 Score: 278
Period size: 85 Copynumber: 3.0 Consensus size: 85
22032063 CGCTTACAGA
* * *
22032073 AAAAAAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACATCGCTAATGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
*
22032138 TGTTCTTTAGCAGCGCTTAGG
66 TGTTCTTTAGGA-CGCTTAGG
* * ** * * *
22032159 AAAAAAATGCCGTTATTGATCATGTTCTTTAGCAGCGCTTAGG-AAAAAACGCCCCTAATGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
* *
22032223 TGTTCTTTAGCGGCGCTTTGG
66 TGTTCTTTAG-GACGCTTAGG
* * * * * *
22032244 -AAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTAGGAAAAAAACACCGTTAA-AAGTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGA-TC
22032307 ATGTTCTTTAGTGACGCTT
65 ATGTTCTTTAG-GACGCTT
22032326 CATCTACAAA
Statistics
Matches: 136, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
84 35 0.26
85 65 0.48
86 36 0.26
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (85 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACACCGCTAATGATCA
TGTTCTTTAGGACGCTTAGG
Found at i:22032784 original size:21 final size:21
Alignment explanation
Indices: 22032757--22032825 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
22032747 TTCTTTTGAA
*
22032757 CCTCTGCTTCTCTCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCAG
* *
22032778 TCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
22032799 CCTTTGCTTCCCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCAG
22032820 CCTCTG
1 CCTCTG
22032826 TTTTAAATTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.01, C:0.41, G:0.20, T:0.38
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:22036128 original size:10 final size:10
Alignment explanation
Indices: 22036113--22036141 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22036103 ATTAATAACT
22036113 ATATATATCC
1 ATATATATCC
22036123 ATATATATCC
1 ATATATATCC
22036133 ATATATATC
1 ATATATATC
22036142 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATCC
Found at i:22038237 original size:14 final size:14
Alignment explanation
Indices: 22038218--22038285 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
22038208 ATGACCGTTG
22038218 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
22038232 AAACCCTTAAACCTC
1 AAACCC-TAAATCTC
*
22038247 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
22038260 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
22038273 AAACCTTAAATCT
1 AAACCCTAAATCT
22038286 ATATCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 18 0.43
15 11 0.26
16 5 0.12
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:22038831 original size:41 final size:40
Alignment explanation
Indices: 22038786--22038926 Score: 165
Period size: 41 Copynumber: 3.5 Consensus size: 40
22038776 GCGCTTCGGC
* * *
22038786 AAAAACACCGCTAAAGGTAAATGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGTAGA-GAATTAGCGGCGCTTAGAT
* *
22038827 AAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTGAGAT
1 AAAAACGCCGCTAAAGG-TAGAGAATTAGCGGCGCTTAGAT
** * *
22038868 AAAAACGCCGCTAAATATCCGAGTATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGT-AGAGAATTAGCGGCGCTTAGAT
*
22038909 AAAAACGCTGCTAAAGGT
1 AAAAACGCCGCTAAAGGT
22038927 TTAAAAAATC
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 82 0.98
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGTAGAGAATTAGCGGCGCTTAGAT
Found at i:22043722 original size:16 final size:16
Alignment explanation
Indices: 22043703--22043735 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22043693 AAGGCCTACT
22043703 TATATATATTTTTAAA
1 TATATATATTTTTAAA
*
22043719 TATATGTATTTTTAAA
1 TATATATATTTTTAAA
22043735 T
1 T
22043736 GATTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATATATATTTTTAAA
Found at i:22044187 original size:19 final size:19
Alignment explanation
Indices: 22044162--22044223 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
22044152 AATGGAAGAT
*
22044162 TTATAAATAAATAATAATC
1 TTATAAATAAATAATAATA
* *
22044181 TTTTAAATATAATTA-AATA
1 TTATAAATA-AATAATAATA
*
22044200 TTATAAATAAATATTAATAA
1 TTATAAATAAATAATAAT-A
22044220 TTAT
1 TTAT
22044224 TGAGGTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.09
19 22 0.65
20 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATAAATAAATAATAATA
Found at i:22045184 original size:4 final size:4
Alignment explanation
Indices: 22045175--22045199 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22045165 CCAAAATATA
22045175 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
22045200 GTACTTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:22053249 original size:11 final size:11
Alignment explanation
Indices: 22053233--22053261 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22053223 ACAAATGTAA
22053233 GGCCATGGCAG
1 GGCCATGGCAG
22053244 GGCCATGGCAG
1 GGCCATGGCAG
22053255 GGCCATG
1 GGCCATG
22053262 TAAGACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.45, T:0.10
Consensus pattern (11 bp):
GGCCATGGCAG
Found at i:22059198 original size:19 final size:19
Alignment explanation
Indices: 22059150--22059263 Score: 120
Period size: 19 Copynumber: 6.0 Consensus size: 19
22059140 AGCACACGAA
* *
22059150 CCTGGCACACAAAGTGCAT
1 CCTGGCACACGAAGCGCAT
* * * *
22059169 ACTAGCGCACGAAGAGCAT
1 CCTGGCACACGAAGCGCAT
22059188 CCTGGCACACGAAGCGCAT
1 CCTGGCACACGAAGCGCAT
*
22059207 CCTGGCACATGAAGCGCAT
1 CCTGGCACACGAAGCGCAT
* *
22059226 CCTGGCACATGAAGTGCAT
1 CCTGGCACACGAAGCGCAT
* * *
22059245 CATGGCACATGAACCGCAT
1 CCTGGCACACGAAGCGCAT
22059264 AAACCCATAC
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.15
Consensus pattern (19 bp):
CCTGGCACACGAAGCGCAT
Found at i:22059226 original size:38 final size:38
Alignment explanation
Indices: 22059150--22059263 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 38
22059140 AGCACACGAA
* * * * * *
22059150 CCTGGCACACAAAGTGCATACTAGCGCACGAAGAGCAT
1 CCTGGCACACGAAGTGCATCCTGGCACATGAAGCGCAT
*
22059188 CCTGGCACACGAAGCGCATCCTGGCACATGAAGCGCAT
1 CCTGGCACACGAAGTGCATCCTGGCACATGAAGCGCAT
* * *
22059226 CCTGGCACATGAAGTGCATCATGGCACATGAACCGCAT
1 CCTGGCACACGAAGTGCATCCTGGCACATGAAGCGCAT
22059264 AAACCCATAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.15
Consensus pattern (38 bp):
CCTGGCACACGAAGTGCATCCTGGCACATGAAGCGCAT
Found at i:22063090 original size:13 final size:13
Alignment explanation
Indices: 22063072--22063124 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
22063062 AGTTTAGCAA
22063072 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
22063085 TGCTTTTGAAAGG
1 TGCTTTTGAAAAG
*
22063098 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
*
22063111 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
22063124 T
1 T
22063125 TTGGTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 29 0.88
14 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22063643 original size:13 final size:14
Alignment explanation
Indices: 22063627--22063655 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22063617 CTCCTTTTAG
22063627 AAGTGCTTTT-AAA
1 AAGTGCTTTTGAAA
22063640 AAGTGCTTTTGAAA
1 AAGTGCTTTTGAAA
22063654 AA
1 AA
22063656 TCAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (14 bp):
AAGTGCTTTTGAAA
Found at i:22063983 original size:19 final size:19
Alignment explanation
Indices: 22063944--22063983 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22063934 CACCAATGAA
*
22063944 TTAAAAAATATTAATTTTT
1 TTAAAAAATATTAATTATT
22063963 TTAATAAAATATT-ATTATT
1 TTAA-AAAATATTAATTATT
22063982 TT
1 TT
22063984 TAAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAAAAAATATTAATTATT
Done.