Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 103 of 127
Found at i:19235754 original size:85 final size:84
Alignment explanation
Indices: 19235562--19235754 Score: 199
Period size: 85 Copynumber: 2.3 Consensus size: 84
19235552 CAAGTTGGGT
* * *
19235562 CTTTATGAAGGCATTTGGTAGATCCAAGCTTTTTTGGCTAAGTTGAATCTAAGCTTTTTGATTGA
1 CTTTATGAAAGCATTT-GTAGATCCAAGCTTTTTTGGCTAAGCTGAATCTAAGCTTTTTGATCGA
* *
19235627 GCTGTTTGGTCAAATTGGGT
65 GCTGTTTGGTCAAATTAGGC
* * * * * *
19235647 ATTTAT-AAAGACATTTGATAGATCCAAGTTTTTTTGGCTGAGCTGAGTCTGAGTTTTTTGATCG
1 CTTTATGAAAG-CATTTG-TAGATCCAAGCTTTTTTGGCTAAGCTGAATCTAAGCTTTTTGATCG
* * * **
19235711 GGTTGTTTTGTTGAATTAGGC
64 AGCTGTTTGGTCAAATTAGGC
19235732 CTTTATGAAAGCATTTCGTAGAT
1 CTTTATGAAAGCATTT-GTAGAT
19235755 TCGAGCTATT
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
84 4 0.05
85 78 0.90
86 5 0.06
ACGTcount: A:0.23, C:0.11, G:0.24, T:0.42
Consensus pattern (84 bp):
CTTTATGAAAGCATTTGTAGATCCAAGCTTTTTTGGCTAAGCTGAATCTAAGCTTTTTGATCGAG
CTGTTTGGTCAAATTAGGC
Found at i:19235925 original size:85 final size:84
Alignment explanation
Indices: 19235831--19236087 Score: 205
Period size: 85 Copynumber: 3.0 Consensus size: 84
19235821 TATGGTGATA
* * *
19235831 TTTAAAAATCTAAGCTCTTTTGGCCGAACTGAGTTTGAGCTCTTTGACTTAGCTATTTTGTTAAA
1 TTTATAAATCTAA-CTCTTTTGGCCAAACTGAGTTTGAGCTCTTTGACTAAGCTATTTTGTTAAA
*
19235896 TTGAGCTC-TTATGAAGGTAT
65 TT-AGCTCTTTATGAAGGCAT
* ** * * * * * * * *
19235916 TTTATAAATCTTAACTTTTTTGGCTTAGCTAAGTTTGACCTCTTTG-GTCGAGTTGTTTTGTTGA
1 TTTATAAATC-TAACTCTTTTGGCCAAACTGAGTTTGAGCTCTTTGACT-AAGCTATTTTGTTAA
*
19235980 ATTAGGTCTTTATGAAGGCAT
64 ATTAGCTCTTTATGAAGGCAT
* * * * ** * **
19236001 TTGATAGATCCAAACTCTTTTGACCAAACTGAGTCCGAGCTCTTTGACTAAGCTATTTTATCGAA
1 TTTATAAAT-CTAACTCTTTTGGCCAAACTGAGTTTGAGCTCTTTGACTAAGCTATTTTGTTAAA
*
19236066 TTGGGC-CTTTATGAAGGCAT
65 TT-AGCTCTTTATGAAGGCAT
19236086 TT
1 TT
19236088 GGTAGATGCA
Statistics
Matches: 132, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
84 5 0.04
85 121 0.92
86 6 0.05
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (84 bp):
TTTATAAATCTAACTCTTTTGGCCAAACTGAGTTTGAGCTCTTTGACTAAGCTATTTTGTTAAAT
TAGCTCTTTATGAAGGCAT
Found at i:19242037 original size:16 final size:17
Alignment explanation
Indices: 19242018--19242052 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19242008 TTGCTTAGGG
*
19242018 TTTTTTTCT-TTTTTAT
1 TTTTTTTCTGTTTTCAT
19242034 TTTTTTTCTGTTTTCAT
1 TTTTTTTCTGTTTTCAT
19242051 TT
1 TT
19242053 CTCGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTTTCTGTTTTCAT
Found at i:19243083 original size:12 final size:12
Alignment explanation
Indices: 19243068--19243097 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19243058 TATTTTAATT
19243068 TTTTTAGTTTAA
1 TTTTTAGTTTAA
*
19243080 TTTTTGGTTTAA
1 TTTTTAGTTTAA
19243092 TTTTTA
1 TTTTTA
19243098 TTTTTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (12 bp):
TTTTTAGTTTAA
Found at i:19243721 original size:31 final size:31
Alignment explanation
Indices: 19243678--19243741 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19243668 ATTGCATATT
*
19243678 TTGCATGGTTTATATATTATTAGTTACATGA
1 TTGCATGATTTATATATTATTAGTTACATGA
* *
19243709 TTGCATGATTTATATATTATTATTTGCATGA
1 TTGCATGATTTATATATTATTAGTTACATGA
19243740 TT
1 TT
19243742 ATATATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTAGTTACATGA
Found at i:19243755 original size:20 final size:20
Alignment explanation
Indices: 19243708--19243926 Score: 128
Period size: 20 Copynumber: 10.4 Consensus size: 20
19243698 TAGTTACATG
19243708 ATTGCATGATTTATATATTATTA
1 ATTGCATGA-TTATATA-T-TTA
*
19243731 TTTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
19243751 ATTGCATGATGATTTATGTATTATTA
1 ATTGC---ATGA-TTATATA-T-TTA
19243777 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
19243797 ATTGCATGTTTAATATGTTTCTA
1 ATTGCATGATT-ATAT-ATT-TA
*
19243820 TTTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
19243840 ATTG--T-A-TATTTATTTA
1 ATTGCATGATTATATATTTA
**
19243856 CCTG-AT--TTATATATTTTTA
1 ATTGCATGATTATATA--TTTA
*
19243875 TTTGCATGATTATTAATATTATTA
1 ATTGCATGATTA-T-ATA-T-TTA
* *
19243899 TTTGCATGATTATATATTTG
1 ATTGCATGATTATATATTTA
19243919 ATTGCATG
1 ATTGCATG
19243927 TCTAATTGCA
Statistics
Matches: 159, Mismatches: 18, Indels: 41
0.73 0.08 0.19
Matches are distributed among these distances:
16 11 0.07
17 7 0.04
18 1 0.01
19 6 0.04
20 36 0.23
21 9 0.06
22 25 0.16
23 31 0.19
24 24 0.15
25 1 0.01
26 8 0.05
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:19243763 original size:46 final size:46
Alignment explanation
Indices: 19243713--19243843 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
19243703 ACATGATTGC
19243713 ATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATG
1 ATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATG
* *
19243759 ATGATTTATGTATTATTAATTGCATGATTATATATTTAATTGCATG
1 ATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATG
* *
19243805 -T--TTAATATGTT-TCTATTTGCATGATTATATATTTAATTG
1 ATGATTTATATATTAT-TATTTGCATGATTATATATTTAATTG
19243844 TATATTTATT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
42 1 0.01
43 32 0.41
45 1 0.01
46 44 0.56
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (46 bp):
ATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATG
Found at i:19243781 original size:26 final size:26
Alignment explanation
Indices: 19243713--19243786 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
19243703 ACATGATTGC
*
19243713 ATGATTTATATATTATTATTTGC---
1 ATGATTTATATATTATTAATTGCATG
19243736 ATGA-TTATATA-T-TTAATTGCATG
1 ATGATTTATATATTATTAATTGCATG
*
19243759 ATGATTTATGTATTATTAATTGCATG
1 ATGATTTATATATTATTAATTGCATG
19243785 AT
1 AT
19243787 TATATATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 7 0.16
21 1 0.02
22 7 0.16
23 8 0.19
24 6 0.14
25 1 0.02
26 13 0.30
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.51
Consensus pattern (26 bp):
ATGATTTATATATTATTAATTGCATG
Found at i:19243877 original size:23 final size:22
Alignment explanation
Indices: 19243848--19243917 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 22
19243838 TAATTGTATA
* *
19243848 TTTATTTACCTGATTTATATATT
1 TTTATTTGCATGA-TTATATATT
19243871 TTTATTTGCATGATTATTAATATT
1 TTTATTTGCATGATTA-T-ATATT
*
19243895 ATTATTTGCATGATTATATATT
1 TTTATTTGCATGATTATATATT
19243917 T
1 T
19243918 GATTGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 8 0.20
23 13 0.32
24 20 0.49
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTATTTGCATGATTATATATT
Found at i:19243967 original size:32 final size:32
Alignment explanation
Indices: 19243931--19244077 Score: 138
Period size: 32 Copynumber: 4.9 Consensus size: 32
19243921 TGCATGTCTA
19243931 ATTGCATGATTATTAATTTATTTATTTGTGTG
1 ATTGCATGATTATTAATTTATTTATTTGTGTG
*
19243963 ATTGCATGATTATTAA--TA--T-TTT-TAT-
1 ATTGCATGATTATTAATTTATTTATTTGTGTG
*
19243988 -TTGCATGATTA-TATATTTAATTGTA-TTGT-TA
1 ATTGCATGATTATTA-ATTT-ATT-TATTTGTGTG
*
19244019 ATTGCATGACTATTAATTTATTT-TTTGTGTG
1 ATTGCATGATTATTAATTTATTTATTTGTGTG
* *
19244050 ATTGTATGATTATTAATATATTTATTTG
1 ATTGCATGATTATTAATTTATTTATTTG
19244078 CATAGTTATT
Statistics
Matches: 94, Mismatches: 6, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
23 2 0.02
24 12 0.13
26 3 0.03
27 4 0.04
28 1 0.01
30 11 0.12
31 25 0.27
32 34 0.36
33 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (32 bp):
ATTGCATGATTATTAATTTATTTATTTGTGTG
Found at i:19243979 original size:88 final size:87
Alignment explanation
Indices: 19243876--19244093 Score: 325
Period size: 88 Copynumber: 2.5 Consensus size: 87
19243866 ATATTTTTAT
*
19243876 TTGCATGATTATTAATATTATTATTTGCATGATTATATATTTGATTGCA-TGTCTAATTGCATGA
1 TTGCATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGCATTGT-TAATTGCATGA
*
19243940 TTATTAATTTATTTATTTGTGTGA
65 CTATTAATTTATTT-TTTGTGTGA
* *
19243964 TTGCATGATTATTAATATTTTTATTTGCATGATTATATATTTAATTGTATTGTTAATTGCATGAC
1 TTGCATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGCATTGTTAATTGCATGAC
19244029 TATTAATTTATTTTTTGTGTGA
66 TATTAATTTATTTTTTGTGTGA
* *
19244051 TTGTATGATTATTAATA-TATTTATTTGCAT-AGTTATTTATTTA
1 TTGCATGATTATTAATATTA-TTATTTGCATGA-TTATATATTTA
19244094 TTTATTTATT
Statistics
Matches: 120, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
86 2 0.02
87 45 0.38
88 70 0.58
89 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (87 bp):
TTGCATGATTATTAATATTATTATTTGCATGATTATATATTTAATTGCATTGTTAATTGCATGAC
TATTAATTTATTTTTTGTGTGA
Found at i:19243992 original size:56 final size:55
Alignment explanation
Indices: 19243866--19244035 Score: 143
Period size: 56 Copynumber: 3.0 Consensus size: 55
19243856 CCTGATTTAT
* **
19243866 ATATTTTTATTTGCATGATTATTAATATTA-TTATTTGCATGATTATAT-ATTTGATT-
1 ATATTTTTATTTGCATGATTATTAAT-TTATTTATTTG-TTGATTGCATGA-TT-ATTA
** * * *
19243922 GCATGTCTAATTGCATGATTATTAATTTATTTATTTGTGTGATTGCATGATTATTA
1 ATATTTTTATTTGCATGATTATTAATTTATTTATTTGT-TGATTGCATGATTATTA
* *
19243978 ATATTTTTATTTGCATGATTA-TATATTTAATTGTA-TTGTTAATTGCATGACTATTA
1 ATATTTTTATTTGCATGATTATTA-ATTT-ATT-TATTTGTTGATTGCATGATTATTA
19244034 AT
1 AT
19244036 TTATTTTTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
55 8 0.09
56 74 0.80
57 8 0.09
58 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (55 bp):
ATATTTTTATTTGCATGATTATTAATTTATTTATTTGTTGATTGCATGATTATTA
Found at i:19244139 original size:19 final size:19
Alignment explanation
Indices: 19244102--19244140 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19244092 TATTTATTTA
* *
19244102 TTATTACATGATTTTATAT
1 TTATTACATGATATGATAT
*
19244121 TTATTTCATGATATGATAT
1 TTATTACATGATATGATAT
19244140 T
1 T
19244141 ATATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (19 bp):
TTATTACATGATATGATAT
Found at i:19244163 original size:24 final size:24
Alignment explanation
Indices: 19244115--19244169 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
19244105 TTACATGATT
* *
19244115 TTATATTTATTTCATGATATGATA
1 TTATATTTATTGCATGATATAATA
19244139 TTATATGTTATTGCATGAT-TAATA
1 TTATAT-TTATTGCATGATATAATA
19244163 TTATATT
1 TTATATT
19244170 AGAATGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (24 bp):
TTATATTTATTGCATGATATAATA
Found at i:19244347 original size:20 final size:20
Alignment explanation
Indices: 19244293--19244404 Score: 94
Period size: 19 Copynumber: 5.9 Consensus size: 20
19244283 TTGAATCGCT
*
19244293 ATTAATATATTTGCATGGT-
1 ATTAATATATTTGCATGATA
*
19244312 ATTTATAT-TATTGCATGATA
1 ATTAATATAT-TTGCATGATA
*
19244332 ATTAATGTATTTGCATGAT-
1 ATTAATATATTTGCATGATA
* *
19244351 ATT-ATATATTTACATGATT
1 ATTAATATATTTGCATGATA
* * *
19244370 GTT--TTTA-TTGCATAATA
1 ATTAATATATTTGCATGATA
19244387 ATTAATATATTTGCATGA
1 ATTAATATATTTGCATGA
19244405 CATTCTTGCA
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
17 9 0.12
18 17 0.24
19 23 0.32
20 22 0.31
21 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (20 bp):
ATTAATATATTTGCATGATA
Found at i:19254004 original size:123 final size:123
Alignment explanation
Indices: 19253740--19254009 Score: 310
Period size: 123 Copynumber: 2.2 Consensus size: 123
19253730 GGACTTAGTG
* * * *
19253740 AATGCAATAAAAGAAAGATCTTTAGGGAACACGTTTTCCAAATCTATGCCTAAGTCAGTGACAAT
1 AATGCAATAAAAGAAAGATCTTCAGGAAACACGTTTTCCAAATCTATGCCTAAGCCAATGACAAT
** ** * * *
19253805 TGTTTGTAATGAAAAACCAAGTGTGGCAAGAGAGCAGCCTATTTCTTTTCCTATGATA
66 TGTTTACAATGAAAAACCAAGTGTGAAAAAAAAGCAGCCTATTTCTTTTCCCATGATA
* * * * * * *
19253863 AATGCAATTGAATG-AAGATCTTCAGGAAACATGTTTTCCAAGTTTGTGCCTAAGCCAATGATAA
1 AATGCAA-TAAAAGAAAGATCTTCAGGAAACACGTTTTCCAAATCTATGCCTAAGCCAATGACAA
*
19253927 TT-TTCTACAATGAAAAACCAAGTGTGAAAAAAAAGCAGCCTATTTCTTTTCCCATGATG
65 TTGTT-TACAATGAAAAACCAAGTGTGAAAAAAAAGCAGCCTATTTCTTTTCCCATGATA
* * *
19253986 TATGCAACAAAAGAAAGATTTTCA
1 AATGCAATAAAAGAAAGATCTTCA
19254010 AGGGACATAT
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
122 5 0.04
123 111 0.93
124 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (123 bp):
AATGCAATAAAAGAAAGATCTTCAGGAAACACGTTTTCCAAATCTATGCCTAAGCCAATGACAAT
TGTTTACAATGAAAAACCAAGTGTGAAAAAAAAGCAGCCTATTTCTTTTCCCATGATA
Found at i:19258568 original size:8 final size:8
Alignment explanation
Indices: 19258555--19258651 Score: 61
Period size: 8 Copynumber: 11.4 Consensus size: 8
19258545 AAAGAAAAAT
19258555 AAAAACAA
1 AAAAACAA
19258563 AAAAACAA
1 AAAAACAA
*
19258571 AAAAAAAA
1 AAAAACAA
*
19258579 CATAAAAGCAT
1 -A-AAAA-CAA
19258590 AAAAACAA
1 AAAAACAA
*
19258598 AAAAGGCATA
1 AAAA-ACA-A
*
19258608 AAAAAGAA
1 AAAAACAA
*
19258616 AAAAAGAA
1 AAAAACAA
19258624 AAAAA-AGA
1 AAAAACA-A
*
19258632 AAAGAAAAA
1 AAA-AACAA
*
19258641 AAAAAGAA
1 AAAAACAA
19258649 AAA
1 AAA
19258652 TCAAGAAGGA
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
7 1 0.01
8 46 0.63
9 14 0.19
10 11 0.15
11 1 0.01
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.03
Consensus pattern (8 bp):
AAAAACAA
Found at i:19258583 original size:27 final size:26
Alignment explanation
Indices: 19258549--19258601 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
19258539 AAGGAGAAAG
19258549 AAAAATAAAAACAAAAAAACAAAAAA
1 AAAAATAAAAACAAAAAAACAAAAAA
* *
19258575 AAAACATAAAAGCATAAAAACAAAAAA
1 AAAA-ATAAAAACAAAAAAACAAAAAA
19258602 GGCATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (26 bp):
AAAAATAAAAACAAAAAAACAAAAAA
Found at i:19258627 original size:17 final size:17
Alignment explanation
Indices: 19258555--19258651 Score: 81
Period size: 17 Copynumber: 5.6 Consensus size: 17
19258545 AAAGAAAAAT
* *
19258555 AAAAACAAAAAAACAAA
1 AAAAAGAAAAAAAGAAA
* *
19258572 AAAAA-AACATAAAAGCAT
1 AAAAAGAA-A-AAAAGAAA
* * *
19258590 AAAAACAAAAAAGGCATA
1 AAAAAGAAAAAAAG-AAA
19258608 AAAAAGAAAAAAAGAAA
1 AAAAAGAAAAAAAGAAA
*
19258625 AAAAAGAAAAGAA-AAA
1 AAAAAGAAAAAAAGAAA
19258641 AAAAAGAAAAA
1 AAAAAGAAAAA
19258652 TCAAGAAGGA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
16 15 0.23
17 24 0.38
18 23 0.36
19 2 0.03
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAAGAAA
Found at i:19258634 original size:14 final size:14
Alignment explanation
Indices: 19258607--19258645 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
19258597 AAAAAGGCAT
19258607 AAAAAAGAAAAAAAG
1 AAAAAA-AAAAAAAG
*
19258622 AAAAAAAAGAAAAG
1 AAAAAAAAAAAAAG
19258636 AAAAAAAAAA
1 AAAAAAAAAA
19258646 GAAAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:19259751 original size:48 final size:48
Alignment explanation
Indices: 19259606--19259778 Score: 188
Period size: 49 Copynumber: 3.6 Consensus size: 48
19259596 ATCATGGATA
* * * * *
19259606 ATTTCAAATAAGATTTTTCAAGTTTTAAAATCTCTATTTAT-GTGGAGCT
1 ATTTCAAACAAGA-TTTTAAAGTTTCAAAATCTCTGTTTATAG-GGAGCC
* * * *
19259655 ATTTCAAACAAGATTTTCAAAATTTCAAAGTCTTTGTTTATAGAGAGCC
1 ATTTCAAACAAGATTTT-AAAGTTTCAAAATCTCTGTTTATAGGGAGCC
*
19259704 ATTTCAAACAAGATTTTAAAGTTTCAAAACCTCTGTTTATAGGGAGCC
1 ATTTCAAACAAGATTTTAAAGTTTCAAAATCTCTGTTTATAGGGAGCC
** *
19259752 ATTTCAATTAAGATTTTAGA-TTTCAAA
1 ATTTCAAACAAGATTTTAAAGTTTCAAA
19259779 GAGCCATTTC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
47 7 0.07
48 47 0.45
49 50 0.48
50 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (48 bp):
ATTTCAAACAAGATTTTAAAGTTTCAAAATCTCTGTTTATAGGGAGCC
Found at i:19259784 original size:32 final size:33
Alignment explanation
Indices: 19259747--19259812 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
19259737 TGTTTATAGG
* * *
19259747 GAGCCATTTCAATTAAGAT-TTTAGATTTCAAA
1 GAGCCATTTCAAGTAAGATCTTAAAATTTCAAA
19259779 GAGCCATTTCAAGTAAGATCTTAAAATTTCAAA
1 GAGCCATTTCAAGTAAGATCTTAAAATTTCAAA
19259812 G
1 G
19259813 CCTCTGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (33 bp):
GAGCCATTTCAAGTAAGATCTTAAAATTTCAAA
Found at i:19259835 original size:80 final size:81
Alignment explanation
Indices: 19259698--19259859 Score: 236
Period size: 80 Copynumber: 2.0 Consensus size: 81
19259688 TTGTTTATAG
* * *
19259698 AGAGCCATTTCAAACAAGATTTTAAAGTTTCAAAACCTCTGTTTATAGGGAGCCATTTCAATTAA
1 AGAGCCATTTCAAACAAGATCTTAAAATTTCAAAACCTCTGTTTATAGGGAGCCATTTCAAGTAA
*
19259763 GATTTTAGA-TTTCAA
66 GATTTTAAAGTTTCAA
** * * *
19259778 AGAGCCATTTCAAGTAAGATCTTAAAATTTCAAAGCCTCTGTTTATGGGGAGTCATTTCAAGTAA
1 AGAGCCATTTCAAACAAGATCTTAAAATTTCAAAACCTCTGTTTATAGGGAGCCATTTCAAGTAA
19259843 GATTTTAAAGTTTCAA
66 GATTTTAAAGTTTCAA
19259859 A
1 A
19259860 ACCTTTGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 65 0.90
81 7 0.10
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (81 bp):
AGAGCCATTTCAAACAAGATCTTAAAATTTCAAAACCTCTGTTTATAGGGAGCCATTTCAAGTAA
GATTTTAAAGTTTCAA
Found at i:19259883 original size:48 final size:48
Alignment explanation
Indices: 19259779--19259920 Score: 158
Period size: 48 Copynumber: 2.9 Consensus size: 48
19259769 AGATTTCAAA
* * *
19259779 GAGCCATTTCAAGTAAGATCTTAAAATTTCAAAGCCTCTGTTTATGGG
1 GAGCCATTTCAAGTAAGATTTTAAAATTTCAAAACCTCTGTTTATGAG
* * * *
19259827 GAGTCATTTCAAGTAAGATTTTAAAGTTTCAAAACCTTTGTTTATGAT
1 GAGCCATTTCAAGTAAGATTTTAAAATTTCAAAACCTCTGTTTATGAG
** * * *
19259875 GAGCCATTTTTAGATGAGATTTTTAAATTTTCAAAACCTCTATTTA
1 GAGCCATTTCAAG-TAAGA-TTTTAAAATTTCAAAACCTCTGTTTA
19259921 CAAGGAATTT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 51 0.65
49 4 0.05
50 23 0.29
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (48 bp):
GAGCCATTTCAAGTAAGATTTTAAAATTTCAAAACCTCTGTTTATGAG
Found at i:19260215 original size:11 final size:12
Alignment explanation
Indices: 19260198--19260242 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
19260188 ATAAAAAATA
19260198 AACAAAACAAAC
1 AACAAAACAAAC
*
19260210 AA-AAAATAAAC
1 AACAAAACAAAC
* *
19260221 AACAAAAAAAAT
1 AACAAAACAAAC
19260233 AACAAAACAA
1 AACAAAACAA
19260243 TAAAAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.80, C:0.16, G:0.00, T:0.04
Consensus pattern (12 bp):
AACAAAACAAAC
Found at i:19260215 original size:20 final size:19
Alignment explanation
Indices: 19260190--19260249 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
19260180 ATAAAAAAAT
19260190 AAAAAATAAACAAAACAAA
1 AAAAAATAAACAAAACAAA
19260209 CAAAAAATAAAC--AAC-AA
1 -AAAAAATAAACAAAACAAA
19260226 AAAAAAT-AACAAAACAATA
1 AAAAAATAAACAAAACAA-A
19260245 AAAAA
1 AAAAA
19260250 CCAAAAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.08
16 7 0.19
17 5 0.14
18 4 0.11
19 6 0.17
20 11 0.31
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAAAATAAACAAAACAAA
Found at i:19260222 original size:15 final size:14
Alignment explanation
Indices: 19260183--19260257 Score: 66
Period size: 13 Copynumber: 5.5 Consensus size: 14
19260173 TACATTCATA
*
19260183 AAAAAATAAAAAAT
1 AAAAAATAAAAAAC
* *
19260197 AAACAA-AACAAAC
1 AAAAAATAAAAAAC
*
19260210 AAAAAATAAACAAC
1 AAAAAATAAAAAAC
*
19260224 -AAAAA-AAATAAC
1 AAAAAATAAAAAAC
19260236 AAAACAATAAAAAAC
1 AAAA-AATAAAAAAC
*
19260251 CAAAAAT
1 AAAAAAT
19260258 GAAAGAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
12 6 0.12
13 18 0.38
14 15 0.31
15 9 0.19
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (14 bp):
AAAAAATAAAAAAC
Found at i:19260231 original size:27 final size:26
Alignment explanation
Indices: 19260183--19260256 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
19260173 TACATTCATA
* *
19260183 AAAAAATAAAAAATAAACAAAACAAAC
1 AAAAAATAAAAAACAAA-AAAAAAAAC
* *
19260210 AAAAAATAAACAACAAAAAAAATAAC
1 AAAAAATAAAAAACAAAAAAAAAAAC
*
19260236 AAAACAATAAAAAACCAAAAA
1 AAAA-AATAAAAAACAAAAAA
19260257 TGAAAGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 11 0.28
27 29 0.73
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.07
Consensus pattern (26 bp):
AAAAAATAAAAAACAAAAAAAAAAAC
Found at i:19263567 original size:21 final size:23
Alignment explanation
Indices: 19263528--19263571 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
19263518 AAAAATATGT
19263528 TTTTTTACAATAAAGAAAATTAA
1 TTTTTTACAATAAAGAAAATTAA
*
19263551 TTTTTTA-AATATA-AAAATTAA
1 TTTTTTACAATAAAGAAAATTAA
19263572 AACCTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTTTTACAATAAAGAAAATTAA
Found at i:19265568 original size:13 final size:13
Alignment explanation
Indices: 19265550--19265575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19265540 AACAATGAGA
19265550 GGCTTGGCTTGGG
1 GGCTTGGCTTGGG
19265563 GGCTTGGCTTGGG
1 GGCTTGGCTTGGG
19265576 ATATGAAGCA
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:0.00, C:0.15, G:0.54, T:0.31
Consensus pattern (13 bp):
GGCTTGGCTTGGG
Found at i:19268496 original size:401 final size:401
Alignment explanation
Indices: 19267753--19268557 Score: 1332
Period size: 401 Copynumber: 2.0 Consensus size: 401
19267743 CTATCTCACT
* * * *
19267753 TGAGAAAGAGAAGCATGATGAGAAGTCTTAGAGAATGTACTTCGATGGAGATGTTAATGCCTTAA
1 TGAGAAAAAGAAGCATGATGAGAAGTCTTAAAGAATGTACTTCGATAGAGATGCTAATGCCTTAA
*
19267818 GACATAGAATTGGAGTAATTATGATATCTTTTAAAAAACATTATTATCCCATTATGGCAAGGTTG
66 GACATAGAATTGGAGTAATTATGATATCTTTTAAAAAACATTATTATCCCATTATGGCAAGGTTA
* *
19267883 AACTTCAATTACACTAATAGTGGGGCTGAATATGAGGCCTGTGTCATGAGTTTACAAGCCACTAT
131 AACTTCAATTACACTAACAATGGGGCTGAATATGAGGCCTGTGTCATGAGTTTACAAGCCACTAT
19267948 AGATAAACAAATTAAAGTATTGAAGGTGTTTGGGCACTTAACTTTAGTCATCTATCTATTGAAGG
196 AGATAAACAAATTAAAGTATTGAAGGTGTTTGGGCACTTAACTTTAGTCATCTATCTATTGAAGG
* * ** *
19268013 GAGAATGGAAAATAAGAGATTTAAAGCTTATCTTATATCATAAATATATCTCATAGTTGATCAAA
261 GAGAATAGAAAACAAGAGATTTAAAGCTTATCCCATATCATAAATATATCTCATAATTGATCAAA
*
19268078 CAATTTGAAGCAATCCAATTTGAGCATTTACCCT-GTGAACAA-AATCAAATTATTGATACTTTA
326 CAATTTGAAGCAATCCAATTTGAGCATTGA-CCTAGTGAA-AAGAATCAAATTATTGATACTTTA
19268141 ACTACTTTGGTCA
389 ACTACTTTGGTCA
*
19268154 TGAGAAAAAGAAGCATGATGAGAAGTCTTAAAGAATGTACTTCGATAGAGATGCTAATGCCTTGA
1 TGAGAAAAAGAAGCATGATGAGAAGTCTTAAAGAATGTACTTCGATAGAGATGCTAATGCCTTAA
*
19268219 GACAT-GAAATTGGAGTAATTATGATAT-TCTTTAAAGAACATTATTATCCCATTATGGCAAGGT
66 GACATAG-AATTGGAGTAATTATGATATCT-TTTAAAAAACATTATTATCCCATTATGGCAAGGT
*
19268282 TAAACTTCAATTACACTAACAATGGGGCTGAATATGAGGCCTGTTTCATGAGTTTACAAGCCACT
129 TAAACTTCAATTACACTAACAATGGGGCTGAATATGAGGCCTGTGTCATGAGTTTACAAGCCACT
* * *
19268347 ATAGATAAACAAATTAAAGTATTGAAGGTGTTTGGGGACTTAACTTTGGTCATCTATCTGTTGAA
194 ATAGATAAACAAATTAAAGTATTGAAGGTGTTTGGGCACTTAACTTTAGTCATCTATCTATTGAA
19268412 GGGAGAATA-AGAAACAAGAGATTTAAAGCTTATCCCATATCATAAATATATCTCATAATTGATC
259 GGGAGAATAGA-AAACAAGAGATTTAAAGCTTATCCCATATCATAAATATATCTCATAATTGATC
** *
19268476 AAGTAATTTGAAGTAATCCAATTTGAGCATTGACCTAGTGAAAAGAATCAAATTATTGATACTTT
323 AAACAATTTGAAGCAATCCAATTTGAGCATTGACCTAGTGAAAAGAATCAAATTATTGATACTTT
19268541 AACTACTTTGGTCA
388 AACTACTTTGGTCA
19268555 TGA
1 TGA
19268558 TGATCTGGAT
Statistics
Matches: 377, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
400 8 0.02
401 369 0.98
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (401 bp):
TGAGAAAAAGAAGCATGATGAGAAGTCTTAAAGAATGTACTTCGATAGAGATGCTAATGCCTTAA
GACATAGAATTGGAGTAATTATGATATCTTTTAAAAAACATTATTATCCCATTATGGCAAGGTTA
AACTTCAATTACACTAACAATGGGGCTGAATATGAGGCCTGTGTCATGAGTTTACAAGCCACTAT
AGATAAACAAATTAAAGTATTGAAGGTGTTTGGGCACTTAACTTTAGTCATCTATCTATTGAAGG
GAGAATAGAAAACAAGAGATTTAAAGCTTATCCCATATCATAAATATATCTCATAATTGATCAAA
CAATTTGAAGCAATCCAATTTGAGCATTGACCTAGTGAAAAGAATCAAATTATTGATACTTTAAC
TACTTTGGTCA
Found at i:19269914 original size:9 final size:9
Alignment explanation
Indices: 19269896--19269928 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
19269886 ACTTCACTTG
19269896 AAAA-AAAT
1 AAAATAAAT
19269904 AAAATAAAT
1 AAAATAAAT
19269913 AAAATAAAT
1 AAAATAAAT
19269922 -AAATAAA
1 AAAATAAA
19269929 AAAGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 11 0.46
9 13 0.54
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:19270720 original size:20 final size:20
Alignment explanation
Indices: 19270691--19270728 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19270681 CATAACACAT
19270691 AGCAAACACAACAATTAGAG
1 AGCAAACACAACAATTAGAG
*
19270711 AGCAATCACAACAATTAG
1 AGCAAACACAACAATTAG
19270729 GAAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (20 bp):
AGCAAACACAACAATTAGAG
Found at i:19271305 original size:4 final size:4
Alignment explanation
Indices: 19271275--19271332 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
19271265 TAGAGGTATT
* *
19271275 TTTA TTTC TTTCA TTT- TTT- TTTCA TTTA TTTG TTTA TTTA TTTA TTTA
1 TTTA TTTA TTT-A TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA
*
19271323 TGTA -TTA TTT
1 TTTA TTTA TTT
19271333 CTATTTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
3 8 0.18
4 30 0.68
5 6 0.14
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19271322 original size:12 final size:13
Alignment explanation
Indices: 19271275--19271338 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 13
19271265 TAGAGGTATT
*
19271275 TTTATTTCTTTCA
1 TTTATTTATTTCA
19271288 TTT-TTT-TTTCA
1 TTTATTTATTTCA
*
19271299 TTTATTTGTTT-A
1 TTTATTTATTTCA
19271311 TTTATTTATTT-A
1 TTTATTTATTTCA
*
19271323 TGTA-TTATTTCTA
1 TTTATTTATTTC-A
19271336 TTT
1 TTT
19271339 TATAAATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
11 14 0.32
12 21 0.48
13 9 0.20
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTATTTCA
Found at i:19273045 original size:63 final size:64
Alignment explanation
Indices: 19272964--19273134 Score: 195
Period size: 64 Copynumber: 2.7 Consensus size: 64
19272954 GTACTATTAC
* *
19272964 ATTATTTAAGGTATTTTTTAATCAGAAATGCCTTAAATAATCCCTATTCAAAAAATAAAACCA-A
1 ATTATTTAAGGTATTTTTTAATCAAAAATGCCTTAAATAATCCCTATTAAAAAAATAAAA-CAGA
** * * * *
19273028 ATTATTTAAGGCCT-TTTTTTGTTGAAAAAAGCCTTAAATAAT-CCTCTTAAAAAAATATAACAG
1 ATTATTTAAGG--TATTTTTTAATCAAAAATGCCTTAAATAATCCCTATTAAAAAAATAAAACAG
*
19273091 G
64 A
* *
19273092 ATTATTTAAGGTATTTTTTAACCAAAAATACCTTAAATAATCC
1 ATTATTTAAGGTATTTTTTAATCAAAAATGCCTTAAATAATCC
19273135 TATATTATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 24 0.28
64 38 0.44
65 23 0.26
66 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (64 bp):
ATTATTTAAGGTATTTTTTAATCAAAAATGCCTTAAATAATCCCTATTAAAAAAATAAAACAGA
Found at i:19277011 original size:62 final size:62
Alignment explanation
Indices: 19276914--19277036 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
19276904 AAAAATATAT
* * *
19276914 GTAATCCCTTAAAGTAAACACTAAAATGAAGGGTTGAACCTATGACTTTTATGGTTAATAGA
1 GTAATCCCTTAAAATAAACACTAAAAGGAAGGGTTGAACCTACGACTTTTATGGTTAATAGA
*
19276976 GTAATCCCTTAAAATAAACACTAAAAGGAATGGTTGAACCTACGACTTTTATGGTTAATAG
1 GTAATCCCTTAAAATAAACACTAAAAGGAAGGGTTGAACCTACGACTTTTATGGTTAATAG
19277037 TCATATGCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (62 bp):
GTAATCCCTTAAAATAAACACTAAAAGGAAGGGTTGAACCTACGACTTTTATGGTTAATAGA
Found at i:19278364 original size:38 final size:36
Alignment explanation
Indices: 19278316--19278395 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 36
19278306 AACTCTTTCA
* * *
19278316 TTATTTATTTTTTGATATA-AAAATAATTTTTTAATTTT
1 TTATTAATTTTAT-ATATACAAAATAA--TTTAAATTTT
*
19278354 TTATTAATTTTATATATACTAAATAATTTAAATTTT
1 TTATTAATTTTATATATACAAAATAATTTAAATTTT
19278390 TTATTA
1 TTATTA
19278396 TATATAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 15 0.41
37 5 0.14
38 17 0.46
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (36 bp):
TTATTAATTTTATATATACAAAATAATTTAAATTTT
Found at i:19280148 original size:30 final size:30
Alignment explanation
Indices: 19280080--19280177 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
19280070 TTTATTACAA
* *
19280080 TTAATTAAAT-TTTATATA-TTTTATTTCAAA
1 TTAATTAAATATTTATATACTTAT-TTTC-AC
* * * *
19280110 TGAGTTAAATATTTGA-ATATTTCTTTTCAC
1 TTAATTAAATATTT-ATATACTTATTTTCAC
*
19280140 TTAATTAAATCTTTATATACTTATTTTCAC
1 TTAATTAAATATTTATATACTTATTTTCAC
*
19280170 TTGATTAA
1 TTAATTAA
19280178 TTTCTCGATT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.02
30 39 0.72
31 10 0.19
32 4 0.07
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (30 bp):
TTAATTAAATATTTATATACTTATTTTCAC
Found at i:19282435 original size:12 final size:12
Alignment explanation
Indices: 19282418--19282442 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19282408 CATTAATATC
19282418 TCGTTTACGTCT
1 TCGTTTACGTCT
19282430 TCGTTTACGTCT
1 TCGTTTACGTCT
19282442 T
1 T
19282443 TAGTAGGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (12 bp):
TCGTTTACGTCT
Found at i:19294595 original size:43 final size:43
Alignment explanation
Indices: 19294548--19294669 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
19294538 GAAGCTTCAT
* * * *
19294548 AACTTTTGAAAATCTAAAAGACTTTTTTAAGCAGAGGCTTGAC
1 AACTTTTGAAAATTTAAAAGACTTATCTAAGCAGAGGCTCGAC
* * * * *
19294591 AACTTTTGAAAATTTAAAAGGCTTCTCCAAACAAAGGCTCGAC
1 AACTTTTGAAAATTTAAAAGACTTATCTAAGCAGAGGCTCGAC
* *
19294634 AATTTTTAAAAATTTAAAAGACTTATCTAAGCAGAG
1 AACTTTTGAAAATTTAAAAGACTTATCTAAGCAGAG
19294670 TTTATGACAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (43 bp):
AACTTTTGAAAATTTAAAAGACTTATCTAAGCAGAGGCTCGAC
Found at i:19294763 original size:36 final size:34
Alignment explanation
Indices: 19294723--19294798 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 34
19294713 GCTCAACAAA
* *
19294723 TTTAAAGAAAACTCCTTTGACTAGAGACAATGACAC
1 TTTAAAGAAAACTCATTTGACTAG-G-CAATGAAAC
*
19294759 TTTAAAGAAAGCTCATTTGACTAGGCAATGAAAC
1 TTTAAAGAAAACTCATTTGACTAGGCAATGAAAC
19294793 TTTAAA
1 TTTAAA
19294799 TAGCTCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 14 0.38
35 1 0.03
36 22 0.59
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (34 bp):
TTTAAAGAAAACTCATTTGACTAGGCAATGAAAC
Found at i:19294795 original size:34 final size:34
Alignment explanation
Indices: 19294723--19294828 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
19294713 GCTCAACAAA
* * *
19294723 TTTAAAGAAAACTCCTTTGACTAGAGACAATGACAC
1 TTTAAAGAAAGCTCATTTGACTAG-G-CAATGAAAC
19294759 TTTAAAGAAAGCTCATTTGACTAGGCAATGAAAC
1 TTTAAAGAAAGCTCATTTGACTAGGCAATGAAAC
* * *
19294793 TTT-AA-ATAGCTCATTTAACTAAAGGCTATGAAAC
1 TTTAAAGAAAGCTCATTTGACT--AGGCAATGAAAC
19294827 TT
1 TT
19294829 GAAATTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 13 0.21
33 2 0.03
34 24 0.39
35 1 0.02
36 22 0.35
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (34 bp):
TTTAAAGAAAGCTCATTTGACTAGGCAATGAAAC
Found at i:19295082 original size:34 final size:34
Alignment explanation
Indices: 19294995--19295092 Score: 81
Period size: 34 Copynumber: 2.8 Consensus size: 34
19294985 AAAAGTGTCC
* * *
19294995 TCTAACCAGAGGCTATGACACTTTAAAGAAAACTCA
1 TCTAACCAGAAGCTATGAAACTTT-AA-ATAACTCA
* * * *
19295031 TCGAACTA-AAGGTTATGAAACTTTAAATAGCTCA
1 TCTAACCAGAA-GCTATGAAACTTTAAATAACTCA
* *
19295065 TCTAACCAGAAGCTATGAGACTTGAAAT
1 TCTAACCAGAAGCTATGAAACTTTAAAT
19295093 TTAAAATTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
34 26 0.54
35 5 0.10
36 17 0.35
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (34 bp):
TCTAACCAGAAGCTATGAAACTTTAAATAACTCA
Found at i:19295254 original size:36 final size:37
Alignment explanation
Indices: 19295189--19295398 Score: 104
Period size: 36 Copynumber: 5.9 Consensus size: 37
19295179 TAAAATTAAA
* * *
19295189 AGCTCATCTAACTAGTGGCAATGAAACTTTGAA-AAG
1 AGCTCTTCTAACTAGAGGCAATGAAACTTTAAATAAG
* * *
19295225 AGCTCTTCTAACTGGAGGCTATGAGACTTTAAATAAG
1 AGCTCTTCTAACTAGAGGCAATGAAACTTTAAATAAG
* * ** * *
19295262 -GCTCTTTTAA-TCA-AAGTTATGACACTTTAAAGAA-
1 AGCTCTTCTAACT-AGAGGCAATGAAACTTTAAATAAG
* * * *
19295296 AACTCTTAC-AACTAGATGCTATGACACTTTAAAT---
1 AGCTCTT-CTAACTAGAGGCAATGAAACTTTAAATAAG
* * *
19295330 AGCTCCTCTAACGAGAGGCTATGAAACTTTAAAT---
1 AGCTCTTCTAACTAGAGGCAATGAAACTTTAAATAAG
* * *
19295364 AGCATATT-TGATTAGAGGCAATGAAACTTTAAATA
1 AGC-TCTTCTAACTAGAGGCAATGAAACTTTAAATA
19295399 GCTTCTCTAA
Statistics
Matches: 137, Mismatches: 28, Indels: 19
0.74 0.15 0.10
Matches are distributed among these distances:
33 1 0.01
34 52 0.38
35 28 0.20
36 53 0.39
37 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (37 bp):
AGCTCTTCTAACTAGAGGCAATGAAACTTTAAATAAG
Found at i:19295359 original size:34 final size:32
Alignment explanation
Indices: 19295316--19295431 Score: 106
Period size: 34 Copynumber: 3.4 Consensus size: 32
19295306 ACTAGATGCT
* *
19295316 ATGACACTTTAAATAGCTCCTCTAACGAGAGGCT
1 ATGAAACTTTAAATAGCT-CTCTAA-GAGAGGCA
* * **
19295350 ATGAAACTTTAAATAGCATATTTGATTAGAGGCA
1 ATGAAACTTTAAATAGC-TCTCT-AAGAGAGGCA
*
19295384 ATGAAACTTTAAATAGCTTCTCTAAGCAAAGGCA
1 ATGAAACTTTAAATAGC-TCTCTAAG-AGAGGCA
*
19295418 ATGAAATTTTAAAT
1 ATGAAACTTTAAAT
19295432 TAAAAATCTA
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 1 0.02
34 63 0.95
35 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGAAACTTTAAATAGCTCTCTAAGAGAGGCA
Found at i:19302748 original size:178 final size:177
Alignment explanation
Indices: 19302401--19302759 Score: 423
Period size: 178 Copynumber: 2.0 Consensus size: 177
19302391 TTCAACCAAA
* * * *
19302401 ATTTTTATTTGGAAA-AGAATATAATTACTTTTATTGAAATTTCATATAAATTATTTCACCATTT
1 ATTTTTGTTTGAAAATAAAATATAATTACTTTTATTGAAATTTCATATAAATTATTCCACCATTT
* *
19302465 GAAACAAATTTAGATAAAATTTTTCACCTAGAGATTTCTTAAAAATTTACCATTTGAAATTTTTA
66 GAAACAAATTTAGACAAAATTTCTCACCTAGAGATTTCTTAAAAATTTACCATTTGAAATTTTTA
* *
19302530 AGAATCTTATCCTTAGGTAATTTGCATTTAATTCCAAAATTTTTTAT
131 AGAATCTAATCATTAGGTAATTTGCATTTAATTCCAAAATTTTTTAT
* *
19302577 TTTTTTGTTTGAAAATAAAATATTAATTA-TTGTTATTGAAACTTT-ATCTAAATTATTCCACCA
1 ATTTTTGTTTGAAAATAAAATA-TAATTACTT-TTATTGAAA-TTTCATATAAATTATTCCACCA
** * * *
19302640 TTTGGGACAAATTTAGACAACATTTCTCACTTA-AGAATTT-TATAGAAATTTACCATTTGAAAT
63 TTTGAAACAAATTTAGACAAAATTTCTCACCTAGAG-ATTTCT-TAAAAATTTACCATTTGAAAT
19302703 TTTTATA-AAT-TCAATCATT-GGATAA-TTGACATTT-ATTCTCAAAATTTTTTAT
126 TTTTA-AGAATCT-AATCATTAGG-TAATTTG-CATTTAATTC-CAAAATTTTTTAT
19302755 ATTTT
1 ATTTT
19302760 ATATTTTTAT
Statistics
Matches: 156, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
176 12 0.08
177 20 0.13
178 120 0.77
179 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (177 bp):
ATTTTTGTTTGAAAATAAAATATAATTACTTTTATTGAAATTTCATATAAATTATTCCACCATTT
GAAACAAATTTAGACAAAATTTCTCACCTAGAGATTTCTTAAAAATTTACCATTTGAAATTTTTA
AGAATCTAATCATTAGGTAATTTGCATTTAATTCCAAAATTTTTTAT
Found at i:19306331 original size:193 final size:193
Alignment explanation
Indices: 19305990--19306344 Score: 438
Period size: 193 Copynumber: 1.8 Consensus size: 193
19305980 GAAAGAATAC
* * * *
19305990 AATTACTTTTATTAAAATTTTATCTAAATTATTCTACTATTTAGGATAAATTTAGATAAAATTTC
1 AATTACTTTTATTAAAACTTTATCTAAATTATTCCACAATTTAGGACAAATTTAGATAAAATTTC
* * * *
19306055 TCACGTAGAGATTTCTTAGAAATTTACCATTTGAAATTTTTAAGAATCTCATCCTTGGGTAATTT
66 TCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTTTAAGAATCTCATCATTGGATAATTA
**
19306120 GTATTTAATTGCAAAA-TTTTTATTATTTTATTATATTTATTTTTTTGTTTGAAAATAAAATATT
131 ACATTT-ATTGCAAAATTTTTTATT-TTTTATTATATTTATTTTTTTGTTTGAAAATAAAATATT
* *
19306184 AATTA-TTGTTATTAAAACTTTATCTAAATTATTCCACAATTTGGGACAAATTTAGA-CAAATTT
1 AATTACTT-TTATTAAAACTTTATCTAAATTATTCCACAATTTAGGACAAATTTAGATAAAATTT
* *
19306247 CTCACCTA-AGAATTT-TATAGAAATTTATCATTTGAAATTTCTATA-AAT-TCCATCATTGGAT
65 CTCACCTAGAG-ATTTCT-TAGAAATTTACCATTTGAAATTTTTA-AGAATCT-CATCATTGGAT
*
19306308 AATTAACATTT-TTTCTTAAAATTTTTTATTTTTTATT
126 AATTAACATTTATTGC--AAAATTTTTTATTTTTTATT
19306345 TTTATTAAAT
Statistics
Matches: 138, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
191 3 0.02
192 4 0.03
193 74 0.54
194 57 0.41
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (193 bp):
AATTACTTTTATTAAAACTTTATCTAAATTATTCCACAATTTAGGACAAATTTAGATAAAATTTC
TCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATTTTTAAGAATCTCATCATTGGATAATTA
ACATTTATTGCAAAATTTTTTATTTTTTATTATATTTATTTTTTTGTTTGAAAATAAAATATT
Found at i:19306794 original size:19 final size:20
Alignment explanation
Indices: 19306758--19306795 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19306748 TTGAATGCTT
19306758 CATCAAAAATTGGGAAAATC
1 CATCAAAAATTGGGAAAATC
*
19306778 CATCGAAAATT-GGAAAAT
1 CATCAAAAATTGGGAAAAT
19306796 GTTGTCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (20 bp):
CATCAAAAATTGGGAAAATC
Found at i:19306884 original size:26 final size:27
Alignment explanation
Indices: 19306844--19306897 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19306834 GGAATTTTTC
*
19306844 CAAAAATTTTCCAAA-AAGAAAATCTT
1 CAAAAATTTTCCAAACAAAAAAATCTT
* *
19306870 CAAAACTTTTTCAAACAAAAAAATCTT
1 CAAAAATTTTCCAAACAAAAAAATCTT
19306897 C
1 C
19306898 TATTCTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.28
Consensus pattern (27 bp):
CAAAAATTTTCCAAACAAAAAAATCTT
Found at i:19307192 original size:15 final size:13
Alignment explanation
Indices: 19307154--19307196 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
19307144 AAAACTAATG
*
19307154 ATAAATATAATAAA
1 ATAAAAATAA-AAA
19307168 ATAAAAATAAAAA
1 ATAAAAATAAAAA
19307181 ATAGATAAATAAAAA
1 ATA-A-AAATAAAAA
19307196 A
1 A
19307197 AAATCAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 10 0.38
15 10 0.38
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:19307213 original size:25 final size:25
Alignment explanation
Indices: 19307157--19307260 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 25
19307147 ACTAATGATA
19307157 AATATAATAAAATAAAAATAAAAAAT
1 AATA-AATAAAATAAAAATAAAAAAT
* *
19307183 AGATAAATAAAA-AAAAATCAAAGAT
1 A-ATAAATAAAATAAAAATAAAAAAT
* ***
19307208 GAATAATTAGCCTAAAAATAAAATAA-
1 -AATAAATAAAATAAAAATAAAA-AAT
19307234 AATAAAATAAAATAAAAATAATAAAAT
1 AAT-AAATAAAATAAAAATAA-AAAAT
19307261 CTAATTTGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
25 20 0.34
26 33 0.56
27 6 0.10
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAAATAAAATAAAAATAAAAAAT
Found at i:19307232 original size:5 final size:5
Alignment explanation
Indices: 19307222--19307260 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
19307212 AATTAGCCTA
*
19307222 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- ATAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
19307261 CTAATTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:19311458 original size:42 final size:41
Alignment explanation
Indices: 19311407--19311519 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 41
19311397 AACAGAAGCT
* *
19311407 CAACGACTTTTGAAAAATAAAAGGCGTCTTTAAACAAAGGCA
1 CAACAACTTTTGGAAAATAAAAGGC-TCTTTAAACAAAGGCA
* * *
19311449 CAACAACTTTTGGGAAATAAAAAGGCTCCTCTAAACAGAGGCA
1 CAACAACTTTTGGAAAAT-AAAAGGCT-CTTTAAACAAAGGCA
19311492 CAACAAC-TTTGGAAAATAAAAGGCTCTT
1 CAACAACTTTTGGAAAATAAAAGGCTCTT
19311520 CGACAATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.03
41 8 0.13
42 25 0.40
43 27 0.44
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (41 bp):
CAACAACTTTTGGAAAATAAAAGGCTCTTTAAACAAAGGCA
Found at i:19311491 original size:43 final size:42
Alignment explanation
Indices: 19311381--19311517 Score: 165
Period size: 42 Copynumber: 3.3 Consensus size: 42
19311371 TTGAAAAAGT
* * * *
19311381 AAAT-AAA-GCTCCTCTAAACAGAAGCTCAACGACTTTTGAA
1 AAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTTTTGGA
* * *
19311421 AAATAAAAGGCGT-CTTTAAACAAAGGCACAACAACTTTTGGG
1 AAATAAAAGGC-TCCTCTAAACAGAGGCACAACAACTTTTGGA
19311463 AAATAAAAAGGCTCCTCTAAACAGAGGCACAACAAC-TTTGGA
1 AAAT-AAAAGGCTCCTCTAAACAGAGGCACAACAACTTTTGGA
19311505 AAATAAAAGGCTC
1 AAATAAAAGGCTC
19311518 TTCGACAATC
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 4 0.05
41 12 0.15
42 38 0.46
43 28 0.34
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (42 bp):
AAATAAAAGGCTCCTCTAAACAGAGGCACAACAACTTTTGGA
Found at i:19312066 original size:78 final size:78
Alignment explanation
Indices: 19311968--19312111 Score: 189
Period size: 78 Copynumber: 1.8 Consensus size: 78
19311958 CAATTAATCC
* ** * * *
19311968 ACATTATGATCATCAATTGATCATCACTCATAGGTTTTTCAGCACTAACCATTCCAGAATGAATT
1 ACATTATGATCATCAATTGATCACCACTCATAGGCATCTCAACACTAACCATTCCAAAATGAATT
19312033 TTTCTTCTGATCT
66 TTTCTTCTGATCT
* * * * *
19312046 ACATTATGTTCATCATTTGATCACCATTGATAGGCATCTCAACACTAGCCATTCCAAAATGAATT
1 ACATTATGATCATCAATTGATCACCACTCATAGGCATCTCAACACTAACCATTCCAAAATGAATT
19312111 T
66 T
19312112 CATTCATTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (78 bp):
ACATTATGATCATCAATTGATCACCACTCATAGGCATCTCAACACTAACCATTCCAAAATGAATT
TTTCTTCTGATCT
Found at i:19312755 original size:8 final size:8
Alignment explanation
Indices: 19312742--19312836 Score: 65
Period size: 8 Copynumber: 11.6 Consensus size: 8
19312732 TTTCATATAT
19312742 TTTTTCTC
1 TTTTTCTC
*
19312750 TTTTTCTTT
1 TTTTTC-TC
19312759 TTCATTTCTC
1 TT--TTTCTC
19312769 TTTTTCTC
1 TTTTTCTC
*
19312777 TTTTTTCCAC
1 -TTTTT-CTC
19312787 TTTTTCT-
1 TTTTTCTC
19312794 TTTTT-T-
1 TTTTTCTC
19312800 TTTCTT-T-
1 TTT-TTCTC
*
19312807 TTTTCTCTT
1 TTTT-TCTC
19312816 TTTTTCTC
1 TTTTTCTC
19312824 TTTTTCTC
1 TTTTTCTC
19312832 TTTTT
1 TTTTT
19312837 TTCATCCATT
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
6 5 0.07
7 12 0.16
8 30 0.41
9 17 0.23
10 5 0.07
11 4 0.05
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTC
Found at i:19312789 original size:18 final size:18
Alignment explanation
Indices: 19312741--19312839 Score: 128
Period size: 18 Copynumber: 5.4 Consensus size: 18
19312731 TTTTCATATA
19312741 TTTTTTCTCTTTTTCT-T
1 TTTTTTCTCTTTTTCTCT
19312758 TTTCATTTCTCTTTTTCTCT
1 TTT--TTTCTCTTTTTCTCT
* * *
19312778 TTTTTCCACTTTTTCTTTT
1 TTTTTTCTCTTTTTC-TCT
*
19312797 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTCTTTTTCTCT
19312815 TTTTTTCTCTTTTTCTCT
1 TTTTTTCTCTTTTTCTCT
19312833 TTTTTTC
1 TTTTTTC
19312840 ATCCATTAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
17 3 0.04
18 36 0.51
19 27 0.39
20 4 0.06
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTCTTTTTCTCT
Found at i:19312801 original size:11 final size:11
Alignment explanation
Indices: 19312787--19312820 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
19312777 TTTTTTCCAC
19312787 TTTTTCTTTTT
1 TTTTTCTTTTT
19312798 TTTTTC-TTTT
1 TTTTTCTTTTT
*
19312808 TTTCTCTTTTT
1 TTTTTCTTTTT
19312819 TT
1 TT
19312821 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:19312836 original size:37 final size:36
Alignment explanation
Indices: 19312741--19312839 Score: 135
Period size: 37 Copynumber: 2.7 Consensus size: 36
19312731 TTTTCATATA
*
19312741 TTTTTTCTCTTTTTCTTTTTCATTTCTCTTTTTCTCT
1 TTTTTTCTCTTTTTCTTTTT-TTTTCTCTTTTTCTCT
* * *
19312778 TTTTTCCACTTTTTCTTTTTTTTTTCTTTTTTTCTCT
1 TTTTTTCTCTTTTTC-TTTTTTTTTCTCTTTTTCTCT
*
19312815 TTTTTTCTCTTTTTCTCTTTTTTTC
1 TTTTTTCTCTTTTTCTTTTTTTTTC
19312840 ATCCATTAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
36 9 0.17
37 40 0.74
38 5 0.09
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTTCTCTTTTTCTTTTTTTTTCTCTTTTTCTCT
Found at i:19313229 original size:17 final size:16
Alignment explanation
Indices: 19313192--19313229 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
19313182 CATGTATGGC
19313192 TTTTTTTTTCTTTTCT
1 TTTTTTTTTCTTTTCT
19313208 CTTTTTTTTT-TTTTACT
1 -TTTTTTTTTCTTTT-CT
19313225 TTTTT
1 TTTTT
19313230 CATTATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTCTTTTCT
Found at i:19313238 original size:22 final size:21
Alignment explanation
Indices: 19313192--19313238 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
19313182 CATGTATGGC
* *
19313192 TTTTTTTTTCTTTTCTCTTTT
1 TTTTTTTTTCTTTTCTCATTA
*
19313213 TTTTTTTTTACTTTTTTCATTA
1 TTTTTTTTT-CTTTTCTCATTA
19313235 TTTT
1 TTTT
19313239 CTATCTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTCTTTTCTCATTA
Found at i:19317418 original size:186 final size:186
Alignment explanation
Indices: 19317071--19317421 Score: 491
Period size: 186 Copynumber: 1.9 Consensus size: 186
19317061 AAAATAATAC
*
19317071 AATTACTTTTATTGAAATTTTATCTAAATTATTCTACCATTTGGGACAAATTTAGACAAAATTTC
1 AATTACTTTTATTGAAACTTTATCTAAATTATTCTACCATTTGGGACAAATTTAGACAAAATTTC
* * * * * *
19317136 TCACCTAGAGATTTTTTAAAAATTTACCATTTAAAATTTTTAAGAATATCATCTTTGGGTAATTT
66 TCAACTAGAGATTTTATAAAAATTTACCATTTAAAATTTCTAAGAATATCATCATTGGATAATTA
**
19317201 TTATTTAATTCTAAAACTTTTATTATTTTATTATTTTTGTTTGAAAATAAGATATT
131 ACATTTAATTCTAAAACTTTTATTATTTTATTATTTTTGTTTGAAAATAAGATATT
19317257 AATTA-TTGTTATTGAAACTTTATCTAAATTATT-TCACCATTTGGGACAAATTTAGACAAAATT
1 AATTACTT-TTATTGAAACTTTATCTAAATTATTCT-ACCATTTGGGACAAATTTAGACAAAATT
* * *
19317320 TCTCAACTA-AGAATTTTATAGAAATTTACCATTTGAAATTTCTATA-AATTTCATCATTGGATA
64 TCTCAACTAGAG-ATTTTATAAAAATTTACCATTTAAAATTTCTA-AGAATATCATCATTGGATA
* *
19317383 ATTAACATTT-ATTCTCAAA-TTTTTTTATTTT-TTATTTTT
127 ATTAACATTTAATTCTAAAACTTTTATTATTTTATTATTTTT
19317422 ATTAAATTAA
Statistics
Matches: 147, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
183 8 0.05
184 11 0.07
185 13 0.09
186 114 0.78
187 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (186 bp):
AATTACTTTTATTGAAACTTTATCTAAATTATTCTACCATTTGGGACAAATTTAGACAAAATTTC
TCAACTAGAGATTTTATAAAAATTTACCATTTAAAATTTCTAAGAATATCATCATTGGATAATTA
ACATTTAATTCTAAAACTTTTATTATTTTATTATTTTTGTTTGAAAATAAGATATT
Found at i:19317491 original size:17 final size:16
Alignment explanation
Indices: 19317465--19317496 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
19317455 ATTAACGAAC
19317465 AAATAAATAAAACATT
1 AAATAAATAAAACATT
19317481 AAATAAAATAAAACAT
1 AAAT-AAATAAAACAT
19317497 ACCAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATAAAACATT
Found at i:19322138 original size:3 final size:3
Alignment explanation
Indices: 19322130--19322174 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
19322120 GTCTTGTGAA
19322130 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19322175 GCATTCTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19322770 original size:15 final size:16
Alignment explanation
Indices: 19322739--19322773 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19322729 TTCAATGCCT
*
19322739 TTTTTATTGAAACAAA
1 TTTTTATTCAAACAAA
19322755 TTTTTATTCAAA-AAA
1 TTTTTATTCAAACAAA
19322770 TTTT
1 TTTT
19322774 AAATTATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTTATTCAAACAAA
Found at i:19324142 original size:3 final size:3
Alignment explanation
Indices: 19324134--19324176 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19324124 GAGAAGGCAA
19324134 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19324177 GTAAAATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19324657 original size:38 final size:38
Alignment explanation
Indices: 19324604--19324689 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 38
19324594 TGGCATTTTG
* * ** *
19324604 TAATTACATTCATAATGCTTTGTATTGTATGTATATTA
1 TAATTACATTAATAATGCTTTGAATTGTATCAACATTA
*
19324642 TAATTACATTAATAATGCTTTGAATTGTTTCAACATTA
1 TAATTACATTAATAATGCTTTGAATTGTATCAACATTA
19324680 TAATTACATT
1 TAATTACATT
19324690 GGCATTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (38 bp):
TAATTACATTAATAATGCTTTGAATTGTATCAACATTA
Found at i:19324788 original size:24 final size:24
Alignment explanation
Indices: 19324739--19324805 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
19324729 ATTTGTTGAT
*
19324739 TTGTATAAATAGA-ACAAATTTGGAC
1 TTGTATAAAT-GATAC-AATTTAGAC
*
19324764 TTGTGTAAATGATACAATTTAGAC
1 TTGTATAAATGATACAATTTAGAC
*
19324788 TTGTATATATGATACAAT
1 TTGTATAAATGATACAAT
19324806 GCGCCACTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 26 0.70
25 11 0.30
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.37
Consensus pattern (24 bp):
TTGTATAAATGATACAATTTAGAC
Found at i:19327968 original size:43 final size:43
Alignment explanation
Indices: 19327901--19327998 Score: 160
Period size: 43 Copynumber: 2.3 Consensus size: 43
19327891 GCATAAAAAA
19327901 TCACAAAGGCATTGTCAGACATTGTTCACAAGAGCAATATGAAT
1 TCAC-AAGGCATTGTCAGACATTGTTCACAAGAGCAATATGAAT
* * *
19327945 TCGCAAGGCATTGTTAGATATTGTTCACAAGAGCAATATGAAT
1 TCACAAGGCATTGTCAGACATTGTTCACAAGAGCAATATGAAT
19327988 TCACAAGGCAT
1 TCACAAGGCAT
19327999 AAAAAATCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 47 0.94
44 3 0.06
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (43 bp):
TCACAAGGCATTGTCAGACATTGTTCACAAGAGCAATATGAAT
Found at i:19328020 original size:18 final size:18
Alignment explanation
Indices: 19327969--19328044 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 18
19327959 TAGATATTGT
** *
19327969 TCACAAGAGCAATATGAAT
1 TCACAAGA-CAATAAAAAA
*
19327988 TCACAAGGC-ATAAAAAA
1 TCACAAGACAATAAAAAA
* *
19328005 TCACAAGATAATAAAAAT
1 TCACAAGACAATAAAAAA
* *
19328023 TCACTAGACAA-ATAAAA
1 TCACAAGACAATAAAAAA
19328040 TCACA
1 TCACA
19328045 TCAGCCTAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 20 0.45
18 17 0.39
19 7 0.16
ACGTcount: A:0.55, C:0.17, G:0.09, T:0.18
Consensus pattern (18 bp):
TCACAAGACAATAAAAAA
Found at i:19328298 original size:111 final size:111
Alignment explanation
Indices: 19328161--19328366 Score: 331
Period size: 111 Copynumber: 1.9 Consensus size: 111
19328151 AAATCACAAA
* * *
19328161 GGCATTGTTCACAAAAGCATAAAAATTCACAAGGCATAAATAATCATAAGAGAATACAAACTCAC
1 GGCATTGTTCACAAAAGCATAAAAATTCACAAGGCATAAAAAATCACAAGAGAATAAAAACTCAC
* *
19328226 AAGGAAAAAAAATCACATTAGCATAAAAAATCAATAGGCATTATTC
66 AAGGAAAAAAAATCACATTAACACAAAAAATCAATAGGCATTATTC
* * *
19328272 GGCATTGTTCACAAGAGCATAAAAATTCACAAGGTATAAAAAATCACAAGAGAATAAAAATTCAC
1 GGCATTGTTCACAAAAGCATAAAAATTCACAAGGCATAAAAAATCACAAGAGAATAAAAACTCAC
*
19328337 AAGGCAAAAAAATCACATTAACACAAAAAA
66 AAGGAAAAAAAATCACATTAACACAAAAAA
19328367 AAAGATCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 86 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (111 bp):
GGCATTGTTCACAAAAGCATAAAAATTCACAAGGCATAAAAAATCACAAGAGAATAAAAACTCAC
AAGGAAAAAAAATCACATTAACACAAAAAATCAATAGGCATTATTC
Found at i:19328312 original size:17 final size:18
Alignment explanation
Indices: 19328279--19328353 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
19328269 TTCGGCATTG
19328279 TTCACAAGAGCATAAAAA
1 TTCACAAGAGCATAAAAA
*
19328297 TTCACAAG-GTATAAAAA
1 TTCACAAGAGCATAAAAA
* *
19328314 ATCACAAGAGAATAAAAA
1 TTCACAAGAGCATAAAAA
19328332 TTCACAAG-GCA-AAAAA
1 TTCACAAGAGCATAAAAA
*
19328348 ATCACA
1 TTCACA
19328354 TTAACACAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.20
17 17 0.34
18 23 0.46
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (18 bp):
TTCACAAGAGCATAAAAA
Found at i:19328329 original size:35 final size:34
Alignment explanation
Indices: 19328280--19328353 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 34
19328270 TCGGCATTGT
* *
19328280 TCACAAGAGCATAAAAATTCACAAGGTATAAAAAA
1 TCACAAGAGAATAAAAATTCACAAGGCA-AAAAAA
19328315 TCACAAGAGAATAAAAATTCACAAGGCAAAAAAA
1 TCACAAGAGAATAAAAATTCACAAGGCAAAAAAA
19328349 TCACA
1 TCACA
19328354 TTAACACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
34 11 0.30
35 26 0.70
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.15
Consensus pattern (34 bp):
TCACAAGAGAATAAAAATTCACAAGGCAAAAAAA
Found at i:19330652 original size:85 final size:86
Alignment explanation
Indices: 19330462--19330653 Score: 223
Period size: 86 Copynumber: 2.2 Consensus size: 86
19330452 TATTTTTATA
* * * * *
19330462 AACAAAACATCATCATTTTTAGGATTTGAAATGCAATATTTGTGAATTATTGTTTTGTGGAATTT
1 AACAAAACATCATCATTTCTAGAATTTCAAATGCAATATTTATGAATTATTGTTTTGTGGAAATT
**
19330527 TTTTATATAACATTTTTCATG
66 TTTTATATAACACGTTTCATG
* * *
19330548 AACAAAACGT--TGCAGTTTCTAGAATTTCAAATGCAATATTTATGGATTATT-TTTTGTGATAA
1 AACAAAACATCAT-CA-TTTCTAGAATTTCAAATGCAATATTTATGAATTATTGTTTTGTG-GAA
19330610 ATTTTTTA-AT-ACAACGTTTCATG
63 ATTTTTTATATAAC-ACGTTTCATG
19330633 AACAAAACATCATCATTTCTA
1 AACAAAACATCATCATTTCTA
19330654 CGATTTGTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
84 3 0.03
85 34 0.38
86 51 0.57
87 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (86 bp):
AACAAAACATCATCATTTCTAGAATTTCAAATGCAATATTTATGAATTATTGTTTTGTGGAAATT
TTTTATATAACACGTTTCATG
Found at i:19330809 original size:90 final size:91
Alignment explanation
Indices: 19330632--19330868 Score: 259
Period size: 90 Copynumber: 2.6 Consensus size: 91
19330622 AACGTTTCAT
* * * * * **
19330632 GAACAAAACATCATCATTTCTACGATTTGTAACACAGTATTTGTGAGTTATTTTTTTGTGATA-T
1 GAACAAAACATCATCATTTCTAGGATTTGAAACGCAATATTTGTGAATTATTTTCATG-G-TAGT
* * ** *
19330696 TTTTTTATACAATAATAATGTTTTTCAT
64 TTTTTTATACAACAACAATGTTTTAAAC
* *
19330724 GAATAAAATATCAT-AGCTTT-TAGGATTTGAAACGCAATA-TTGTGAATT-TTTTCATGGTAGT
1 GAACAAAACATCATCA--TTTCTAGGATTTGAAACGCAATATTTGTGAATTATTTTCATGGTAGT
19330785 TTTTTTAATACAACAACAATGTTTTAAAC
64 TTTTTT-ATACAACAACAATGTTTTAAAC
*
19330814 GAACAAAACATCATCATTTCTAGGATTTGAAACGTAATATTTGTGAATTATTTTC
1 GAACAAAACATCATCATTTCTAGGATTTGAAACGCAATATTTGTGAATTATTTTC
19330869 TTATGAAATT
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
88 2 0.02
89 11 0.09
90 53 0.44
91 19 0.16
92 32 0.27
93 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (91 bp):
GAACAAAACATCATCATTTCTAGGATTTGAAACGCAATATTTGTGAATTATTTTCATGGTAGTTT
TTTTATACAACAACAATGTTTTAAAC
Found at i:19337560 original size:14 final size:13
Alignment explanation
Indices: 19337522--19337564 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
19337512 CATGAAGAAA
*
19337522 AAAGAAAAAAA-A
1 AAAGAAAAAAATG
19337534 AAGAGAAAAAAATG
1 AA-AGAAAAAAATG
19337548 AAAGAAAACAAATG
1 AAAGAAAA-AAATG
19337562 AAA
1 AAA
19337565 ATGCATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 15 0.56
14 10 0.37
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (13 bp):
AAAGAAAAAAATG
Found at i:19339171 original size:22 final size:22
Alignment explanation
Indices: 19339146--19339211 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
19339136 TAAAAAAAAC
19339146 CTTTGAAACTTTGAAAGTGAAT
1 CTTTGAAACTTTGAAAGTGAAT
* * *
19339168 CTTT-AAATTTTCAAATGTTAAT
1 CTTTGAAACTTTGAAA-GTGAAT
*
19339190 CTTTGAAACTTTGAATGTGAAT
1 CTTTGAAACTTTGAAAGTGAAT
19339212 TTCTAATTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 9 0.26
22 18 0.51
23 8 0.23
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (22 bp):
CTTTGAAACTTTGAAAGTGAAT
Found at i:19339199 original size:44 final size:45
Alignment explanation
Indices: 19339146--19339262 Score: 150
Period size: 44 Copynumber: 2.6 Consensus size: 45
19339136 TAAAAAAAAC
* *
19339146 CTTTGAAACTTTGAAAGTGAATCTTTAAATT-TTCAAATGTTAAT
1 CTTTGAAACTTTGAATGTGAATCTTTAAATTATTCAAATGTGAAT
*
19339190 CTTTGAAACTTTGAATGTGAAT-TTCT-AATTATTCAAATGTGAGT
1 CTTTGAAACTTTGAATGTGAATCTT-TAAATTATTCAAATGTGAAT
* * *
19339234 TTTTAAAACTTTGAATGTGAATCTCTAAA
1 CTTTGAAACTTTGAATGTGAATCTTTAAA
19339263 AATTTTTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
43 6 0.10
44 54 0.86
45 3 0.05
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (45 bp):
CTTTGAAACTTTGAATGTGAATCTTTAAATTATTCAAATGTGAAT
Found at i:19339262 original size:22 final size:22
Alignment explanation
Indices: 19339151--19339263 Score: 68
Period size: 22 Copynumber: 5.1 Consensus size: 22
19339141 AAAACCTTTG
* *
19339151 AAACTTTGAAAGTGAATCT-TT
1 AAACTTTGAATGTGAATCTCTA
* * * * *
19339172 AAATTTTCAAATGTTAATCTTTG
1 AAACTTT-GAATGTGAATCTCTA
*
19339195 AAACTTTGAATGTGAATTTCTA
1 AAACTTTGAATGTGAATCTCTA
* ** * * *
19339217 ATTA-TTCAAATGTGAGTTTTTA
1 A-AACTTTGAATGTGAATCTCTA
19339239 AAACTTTGAATGTGAATCTCTA
1 AAACTTTGAATGTGAATCTCTA
19339261 AAA
1 AAA
19339264 ATTTTTTAAG
Statistics
Matches: 66, Mismatches: 22, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
21 7 0.11
22 51 0.77
23 8 0.12
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (22 bp):
AAACTTTGAATGTGAATCTCTA
Found at i:19339326 original size:46 final size:45
Alignment explanation
Indices: 19339274--19339429 Score: 131
Period size: 46 Copynumber: 3.4 Consensus size: 45
19339264 ATTTTTTAAG
19339274 GTGAATCTTTGAAATTTTGGATGAAAACTGCTAAAAGTTTTCGAAT
1 GTGAATCTTTGAAATTTTGGATGAAAACTGCTAAAAGTTTTC-AAT
* * *
19339320 GTGAATCTTTGAAATTTTAGAT-ATGAAAC-ACTAAAATTTTTCAGAT
1 GTGAATCTTTGAAATTTTGGATGA--AAACTGCTAAAAGTTTTCA-AT
* * * * * *
19339366 GAGAATCTTTGACATTTTGGTTGTGAAA-TG-TTAAAGTATTTTTAAT
1 GTGAATCTTTGAAATTTTGGATG-AAAACTGCTAAAAG--TTTTCAAT
*
19339412 GTGAATTTTTGAAATTTT
1 GTGAATCTTTGAAATTTT
19339430 TTATGTGAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
45 6 0.07
46 72 0.83
47 9 0.10
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.42
Consensus pattern (45 bp):
GTGAATCTTTGAAATTTTGGATGAAAACTGCTAAAAGTTTTCAAT
Found at i:19339450 original size:22 final size:22
Alignment explanation
Indices: 19339403--19339452 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
19339393 ATGTTAAAGT
* *
19339403 ATTTTTAATGTGAATTTTTGAA
1 ATTTTTAATGTGAATCTCTGAA
*
19339425 ATTTTTTATGTGAATCTCT-AA
1 ATTTTTAATGTGAATCTCTGAA
19339446 GATTTTT
1 -ATTTTT
19339453 GAATTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (22 bp):
ATTTTTAATGTGAATCTCTGAA
Found at i:19339451 original size:92 final size:91
Alignment explanation
Indices: 19339225--19339452 Score: 217
Period size: 92 Copynumber: 2.5 Consensus size: 91
19339215 TAATTATTCA
* * * * * *
19339225 AATGTGAGTTTTTAAAACTTTGAATGTGAATCTCTAAAAATTTTTTAAGGTGAATCTTTGAAATT
1 AATGTGAATTTTTGAAATTTTAAATGTGAATCTCT-AAAATTTTTCAAGGAGAATCTTTGAAATT
19339290 TTGGATGAAAACTGCTAAAAGTTTTCG
65 TTGGATGAAAACTGCTAAAAGTTTTCG
* * * * * * *
19339317 AATGTGAATCTTTGAAATTTTAGATATGAAACACTAAAATTTTTCAGATGAGAATCTTTGACATT
1 AATGTGAATTTTTGAAATTTTAAATGTGAATCTCTAAAATTTTTCA-AGGAGAATCTTTGAAATT
* * * **
19339382 TTGGTTGTGAAA-TG-TTAAAGTATTTTT
65 TTGGATG-AAAACTGCTAAAAGT-TTTCG
** *
19339409 AATGTGAATTTTTGAAATTTTTTATGTGAATCTCTAAGATTTTT
1 AATGTGAATTTTTGAAATTTTAAATGTGAATCTCTAAAATTTTT
19339453 GAATTTTTGA
Statistics
Matches: 108, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
91 16 0.15
92 89 0.82
93 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (91 bp):
AATGTGAATTTTTGAAATTTTAAATGTGAATCTCTAAAATTTTTCAAGGAGAATCTTTGAAATTT
TGGATGAAAACTGCTAAAAGTTTTCG
Found at i:19339490 original size:21 final size:21
Alignment explanation
Indices: 19339466--19339539 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
19339456 TTTTTGAATA
19339466 TAAATTTTGGATGTGAATCCT
1 TAAATTTTGGATGTGAATCCT
* ** *
19339487 TAAATTTTTTGAATGAAAATCTT
1 TAAA--TTTTGGATGTGAATCCT
* *
19339510 TAACTTTTGGATGTGAAACCT
1 TAAATTTTGGATGTGAATCCT
19339531 TAAAATTTT
1 T-AAATTTT
19339540 TCGAATAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
21 17 0.44
22 6 0.15
23 16 0.41
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (21 bp):
TAAATTTTGGATGTGAATCCT
Found at i:19339518 original size:44 final size:45
Alignment explanation
Indices: 19339468--19339573 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
19339458 TTTGAATATA
* * *
19339468 AATTTTGGATGTGAATCCTT-AAATTTTTTGAATGAAAATCTTT-
1 AATTTTGGATGTGAAACCTTAAAATTTTTCGAATAAAAATCTTTC
*
19339511 AACTTTTGGATGTGAAACCTTAAAATTTTTCGAATAAAAATTTTTC
1 AA-TTTTGGATGTGAAACCTTAAAATTTTTCGAATAAAAATCTTTC
*
19339557 AATTTTGGTTGT-AAACC
1 AATTTTGGATGTGAAACC
19339574 ATGAGATCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
43 2 0.04
44 22 0.40
45 29 0.53
46 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (45 bp):
AATTTTGGATGTGAAACCTTAAAATTTTTCGAATAAAAATCTTTC
Found at i:19339540 original size:23 final size:23
Alignment explanation
Indices: 19339470--19339540 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
19339460 TGAATATAAA
* *
19339470 TTTTGGATGTGAATCCTTAAATT
1 TTTTGGATGTGAAACCTTAAAAT
* * * * *
19339493 TTTTGAATG-AAAATCTT-TAAC
1 TTTTGGATGTGAAACCTTAAAAT
19339514 TTTTGGATGTGAAACCTTAAAAT
1 TTTTGGATGTGAAACCTTAAAAT
19339537 TTTT
1 TTTT
19339541 CGAATAAAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
21 9 0.26
22 11 0.32
23 14 0.41
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTTGGATGTGAAACCTTAAAAT
Found at i:19340411 original size:43 final size:43
Alignment explanation
Indices: 19340325--19340414 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
19340315 GTCCCAATCA
** *
19340325 CTTATTTTAAAGTTGTTTAACCTCTAAATAAATGAGCCTATTT
1 CTTATTTTAAAGTTGTTTAACCTCTAAATAAAAAAGCCCATTT
* ***
19340368 CTTATTTTAAAGTTGTTTAGCCTCTGTTTAAAAAAGCCCATTT
1 CTTATTTTAAAGTTGTTTAACCTCTAAATAAAAAAGCCCATTT
19340411 CTTA
1 CTTA
19340415 ATTCATTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (43 bp):
CTTATTTTAAAGTTGTTTAACCTCTAAATAAAAAAGCCCATTT
Found at i:19341118 original size:10 final size:10
Alignment explanation
Indices: 19341103--19341146 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
19341093 CTGACCTTAG
*
19341103 TTTATTTTAT
1 TTTATTTTAA
19341113 TTTATTTTAA
1 TTTATTTTAA
19341123 TTTA-TTTAA
1 TTTATTTTAA
19341132 -TTA-TTTAA
1 TTTATTTTAA
19341140 TTTATTT
1 TTTATTT
19341147 ATTTGATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.26
9 8 0.26
10 15 0.48
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:19341146 original size:4 final size:4
Alignment explanation
Indices: 19341103--19341169 Score: 50
Period size: 4 Copynumber: 16.0 Consensus size: 4
19341093 CTGACCTTAG
*
19341103 TTTA TTTTA TTTTA TTTTAA TTTA TTTA ATTA TTTAA TTTA TTTA TTTGA
1 TTTA -TTTA -TTTA -TTT-A TTTA TTTA TTTA TTT-A TTTA TTTA TTT-A
19341153 -TTA TTTA -TTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA
19341170 ATATATTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
3 7 0.13
4 25 0.46
5 21 0.39
6 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:19345547 original size:10 final size:10
Alignment explanation
Indices: 19345532--19345569 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
19345522 TTTTCTAAAG
*
19345532 TCATGAGATA
1 TCATGATATA
*
19345542 TCATGATATC
1 TCATGATATA
19345552 TCATGATATA
1 TCATGATATA
19345562 TCATGATA
1 TCATGATA
19345570 AATTATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (10 bp):
TCATGATATA
Found at i:19345557 original size:20 final size:20
Alignment explanation
Indices: 19345532--19345569 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19345522 TTTTCTAAAG
19345532 TCATGAGATATCATGATATC
1 TCATGAGATATCATGATATC
*
19345552 TCATGATATATCATGATA
1 TCATGAGATATCATGATA
19345570 AATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
TCATGAGATATCATGATATC
Found at i:19346638 original size:21 final size:20
Alignment explanation
Indices: 19346605--19346669 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
19346595 GTTTAGAATG
19346605 ATTTTTTATTTATAATAATA
1 ATTTTTTATTTATAATAATA
*
19346625 ATTTTTTATATTATCAAT-TTA
1 ATTTTTTAT-TTAT-AATAATA
*
19346646 ATTATTTATGTTATAATAA-A
1 ATTTTTTAT-TTATAATAATA
19346666 ATTT
1 ATTT
19346670 GTTACGCTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 16 0.43
21 18 0.49
22 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTTATTTATAATAATA
Found at i:19347525 original size:17 final size:18
Alignment explanation
Indices: 19347503--19347547 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
19347493 TTAACATGTA
* *
19347503 ATTTTTTGTTTAGAAT-T
1 ATTTTTTATTTACAATAT
19347520 ATTTTTTATTTACAATAAT
1 ATTTTTTATTTACAAT-AT
19347539 ATTTTTTAT
1 ATTTTTTAT
19347548 ATTGTCAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTTTTTATTTACAATAT
Found at i:19348313 original size:12 final size:12
Alignment explanation
Indices: 19348286--19348317 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
19348276 TTAAGAAGTT
19348286 TATTT-TTTTAA
1 TATTTATTTTAA
19348297 T-TTTATTTTAA
1 TATTTATTTTAA
19348308 TATTTATTTT
1 TATTTATTTT
19348318 TATAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 8 0.42
12 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTATTTTAA
Found at i:19348782 original size:21 final size:21
Alignment explanation
Indices: 19348758--19348805 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
19348748 TAAAATATTG
*
19348758 CATGCTTTGCTTCCATTCTAA
1 CATGCTTTGCTTCAATTCTAA
* * * *
19348779 CATGTTTTTCTTCAATTTTAG
1 CATGCTTTGCTTCAATTCTAA
19348800 CATGCT
1 CATGCT
19348806 GATGTTCTCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (21 bp):
CATGCTTTGCTTCAATTCTAA
Found at i:19349955 original size:161 final size:161
Alignment explanation
Indices: 19349310--19350307 Score: 819
Period size: 160 Copynumber: 6.2 Consensus size: 161
19349300 AAACACATAT
* * * * * * * * * *
19349310 TATTGAAGCTATCGAAACTATTAAAACAAAATAATAACAATAAATTTGTATGTTTGCCTTATAAT
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTATATTTTTGCCTTTTAAC
** * ** *
19349375 GGCACAAAAAGTC-CTAAATAGACCCTAAACGATAACTTTTTCACACATATCAACTGTAAAAACT
66 AACACAAAAAGTCACTAAATAGA-CTTAAA-GATAACTTTTTCACACATATCAACTGTGGAAACC
* * *
19349439 AAATTCAATCATTTGGATAAGTTTAGTATGATG
129 AAGTTCAATCATTCGGATAAGTTTAGTATCATG
* * ** * * *
19349472 TATTTAAGCTATTAGAACTATTAAAATAGAACAATAACAGTAAATTTGCT-TTTTTTCCATTTAA
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTT-ATATTTTTGCCTTTTAA
** * * * * * * *
19349536 CGGCA-TAAAAG-CCCTAAATA-AATGTAAACAGTAAGTTTTTCATACATATCAACTGTAGAAAC
65 CAACACAAAAAGTCACTAAATAGACT-TAAAGA-TAACTTTTTCACACATATCAACTGTGGAAAC
* * * * * *
19349598 TAAGGTCATTCATTCAGATAAATTTAATATCATG
128 CAAGTTCAATCATTCGGATAAGTTTAGTATCATG
* * * * * * * **
19349632 TATTGAAACTATCTAAATTGTTAAAATAGAACAATAACAGCCAATTTGCA-TTTTGACCTTTTAA
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTATATTTTTG-CCTTTTAA
* * * * * * *
19349696 CAACA-TAAAAGTCA-TAAACA-AATGCTAATGGTAACTTTTTCACACATATCTATTGT-GAAAC
65 CAACACAAAAAGTCACTAAATAGACT--TAAAGATAACTTTTTCACACATATCAACTGTGGAAAC
* * *
19349757 TCAAGTTCAAACATTTGGATAAGTTTAATATCATG
128 -CAAGTTCAATCATTCGGATAAGTTTAGTATCATG
*
19349792 TATTTAAGCTATCAAAACTATTAAAATAGAATAATAACAACAAATTTATATTTTTGCCTTTTAAC
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTATATTTTTGCCTTTTAAC
* * * *
19349857 AACACAAAAAG-CACTAAATAGACTTAAATGACAACTTTTTCACACA-AGTAAATTGTGGAAATC
66 AACACAAAAAGTCACTAAATAGACTTAAA-GATAACTTTTTCACACATA-TCAACTGTGGAAACC
19349920 AAGTTCAATCATTCGGATAAGTTTAGTATCATG
129 AAGTTCAATCATTCGGATAAGTTTAGTATCATG
* * * * *
19349953 TATTTAAGCTAT-GAAATTGTTAAAATATAACAATAACAAGAAATTTACT-TTTTT-CTCTTTTA
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTA-TATTTTTGC-CTTTTA
* * * * * *
19350015 ACAGCACAAAAAG-CACTAAATAGACATGAACGATAACTTTTTCACATATATGAACCGTGGAAAC
64 ACAACACAAAAAGTCACTAAATAGAC-TTAAAGATAACTTTTTCACACATATCAACTGTGGAAAC
** *
19350079 CAAGTTCAATCATTCAAACAAGTTTAGTATCATG
128 CAAGTTCAATCATTCGGATAAGTTTAGTATCATG
* * * * *
19350113 TATATAAGCTATCAAAGCTATTAAAAGAGAACAATAACATCAAATTT-TCATTTTTACCTTTTAA
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTAT-ATTTTTGCCTTTTAA
** * * * * * * *
19350177 TGACTCAAAAAGTC-TTAAACAAACATAAACAGTAACTTTTTCACACATATCAA-TCGTGAAAAC
65 CAACACAAAAAGTCACTAAATAGACTTAAAGA-TAACTTTTTCACACATATCAACT-GTGGAAAC
* * *
19350240 CAAGTTCAATTATTTGGATAAGTTTAGTATTATG
128 CAAGTTCAATCATTCGGATAAGTTTAGTATCATG
* * *
19350274 TATTTAAGCTATCGAAATTGTTAAAATAGAACAA
1 TATTTAAGCTATCAAAACTATTAAAATAGAACAA
19350308 AATGATTTCC
Statistics
Matches: 672, Mismatches: 137, Indels: 55
0.78 0.16 0.06
Matches are distributed among these distances:
159 12 0.02
160 363 0.54
161 235 0.35
162 61 0.09
163 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAACAAATTTATATTTTTGCCTTTTAAC
AACACAAAAAGTCACTAAATAGACTTAAAGATAACTTTTTCACACATATCAACTGTGGAAACCAA
GTTCAATCATTCGGATAAGTTTAGTATCATG
Found at i:19350123 original size:321 final size:318
Alignment explanation
Indices: 19349376--19350307 Score: 956
Period size: 321 Copynumber: 2.9 Consensus size: 318
19349366 CCTTATAATG
* * * *
19349376 GCACAAAAAGTC-CTAAATAGACCCTAAACGATAACTTTTTCACACATATCAACTGTAAAAACTA
1 GCACAAAAAGTCACTAAATAGA-CATGAACGATAACTTTTTCACACATATCAACTGT-GAAACCA
* * * *
19349440 AATTCAATCATTTGGATAAGTTTAGTATGATGTATTTAAGCTATTAGAACTATTAAAATAGAACA
64 AGTTCAATCATTTGGATAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAAATAGAACA
** * * * * *
19349505 ATAACAGTAAATTTGCT-TTTTTTCCATTTAACGGCA-TAAAAGCCCTAAATAAATGTAAACAGT
129 ATAACAACAAATTT--TATTTTTACCTTTTAACGACACAAAAAG-CCTAAATAACT-TAAACAGT
* * * * * * * * *
19349568 AAGTTTTTCATACATATCAACTGTAGAAACTAAGGTCATTCATTCAGATAAATTTAATATCATGT
190 AACTTTTTCACACATATCAATTGTGGAAAC-AAGTTCAATCATTCGGATAAGTTTAGTATCATGT
* * * * *
19349633 ATTGAAACTATCTAAATTGTTAAAATAGAACAATAACAGCCAATTTGCATTTTGACCTTTTAACA
254 ATTTAAGCTATCGAAATTGTTAAAATAGAACAATAACAGCAAATTTACATTTTGACCTTTTAACA
* * * * *
19349698 --ACATAAAAGTCA-TAAACA-A-ATGCTAATGGTAACTTTTTCACACATATCTATTGTGAAACT
1 GCACA-AAAAGTCACTAAATAGACATG--AACGATAACTTTTTCACACATATCAACTGTGAAAC-
* *
19349758 CAAGTTCAAACATTTGGATAAGTTTAATATCATGTATTTAAGCTATCAAAACTATTAAAATAGAA
62 CAAGTTCAATCATTTGGATAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAAATAGAA
* * * *
19349823 TAATAACAACAAATTTATATTTTTGCCTTTTAACAACACAAAAAGCACTAAATAGACTTAAA-TG
127 CAATAACAACAAATTT-TATTTTTACCTTTTAACGACACAAAAAGC-CTAAATA-ACTTAAACAG
* *
19349887 ACAACTTTTTCACACA-AGTAAATTGTGGAAATCAAGTTCAATCATTCGGATAAGTTTAGTATCA
189 -TAACTTTTTCACACATA-TCAATTGTGGAAA-CAAGTTCAATCATTCGGATAAGTTTAGTATCA
* **
19349951 TGTATTTAAGCTAT-GAAATTGTTAAAATATAACAATAACAAG-AAATTTAC-TTTTTTCTCTTT
251 TGTATTTAAGCTATCGAAATTGTTAAAATAGAACAATAAC-AGCAAATTTACATTTTGAC-CTTT
19350013 TAACA
314 TAACA
* * *
19350018 GCACAAAAAG-CACTAAATAGACATGAACGATAACTTTTTCACATATATGAACCGTGGAAACCAA
1 GCACAAAAAGTCACTAAATAGACATGAACGATAACTTTTTCACACATATCAACTGT-GAAACCAA
*** * * * *
19350082 GTTCAATCATTCAAACAAGTTTAGTATCATGTATATAAGCTATCAAAGCTATTAAAAGAGAACAA
65 GTTCAATCATTTGGATAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAAATAGAACAA
* * * * * *
19350147 TAACATCAAATTTTCATTTTTACCTTTTAATGACTCAAAAAGTCTTAAACAAACATAAACAGTAA
130 TAACAACAAATTTT-ATTTTTACCTTTTAACGACACAAAAAG-CCTAAA-TAACTTAAACAGTAA
* * * * *
19350212 CTTTTTCACACATATCAATCGTGAAAACCAAGTTCAATTATTTGGATAAGTTTAGTATTATGTAT
192 CTTTTTCACACATATCAATTGTGGAAA-CAAGTTCAATCATTCGGATAAGTTTAGTATCATGTAT
19350277 TTAAGCTATCGAAATTGTTAAAATAGAACAA
256 TTAAGCTATCGAAATTGTTAAAATAGAACAA
19350308 AATGATTTCC
Statistics
Matches: 503, Mismatches: 81, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
318 1 0.00
319 10 0.02
320 160 0.32
321 293 0.58
322 36 0.07
323 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (318 bp):
GCACAAAAAGTCACTAAATAGACATGAACGATAACTTTTTCACACATATCAACTGTGAAACCAAG
TTCAATCATTTGGATAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAAATAGAACAAT
AACAACAAATTTTATTTTTACCTTTTAACGACACAAAAAGCCTAAATAACTTAAACAGTAACTTT
TTCACACATATCAATTGTGGAAACAAGTTCAATCATTCGGATAAGTTTAGTATCATGTATTTAAG
CTATCGAAATTGTTAAAATAGAACAATAACAGCAAATTTACATTTTGACCTTTTAACA
Found at i:19353252 original size:22 final size:22
Alignment explanation
Indices: 19353227--19353282 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19353217 GTCCGGGGTC
*
19353227 AATCAAACTATGATCTAAAGTT
1 AATCAGACTATGATCTAAAGTT
* **
19353249 AATCGGACTATGATCTGGAGTT
1 AATCAGACTATGATCTAAAGTT
*
19353271 AATTAGACTATG
1 AATCAGACTATG
19353283 TTGGGGGTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (22 bp):
AATCAGACTATGATCTAAAGTT
Found at i:19353355 original size:8 final size:8
Alignment explanation
Indices: 19353321--19353394 Score: 58
Period size: 8 Copynumber: 8.4 Consensus size: 8
19353311 TACTATACTA
19353321 TATTATAT
1 TATTATAT
19353329 TATGGTATTAT
1 TAT--TA-TAT
* *
19353340 CATCATAT
1 TATTATAT
19353348 TATTATAT
1 TATTATAT
19353356 TATATAGTACT
1 TAT-TA-TA-T
*
19353367 ATATCATAT
1 -TATTATAT
19353376 TATTATAT
1 TATTATAT
19353384 TATTATAT
1 TATTATAT
19353392 TAT
1 TAT
19353395 ATCATTACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
8 33 0.62
9 4 0.08
10 6 0.11
11 7 0.13
12 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.54
Consensus pattern (8 bp):
TATTATAT
Found at i:19353910 original size:20 final size:20
Alignment explanation
Indices: 19353885--19353922 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19353875 ATTTGAGTTT
*
19353885 TTTTTTTAGGGTTTTTTCAG
1 TTTTTTCAGGGTTTTTTCAG
19353905 TTTTTTCAGGGTTTTTTC
1 TTTTTTCAGGGTTTTTTC
19353923 TAGGTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.66
Consensus pattern (20 bp):
TTTTTTCAGGGTTTTTTCAG
Found at i:19353929 original size:11 final size:11
Alignment explanation
Indices: 19353885--19353922 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19353875 ATTTGAGTTT
*
19353885 TTTTTTTAGGG
1 TTTTTTCAGGG
19353896 TTTTTTCA--G
1 TTTTTTCAGGG
19353905 TTTTTTCAGGG
1 TTTTTTCAGGG
19353916 TTTTTTC
1 TTTTTTC
19353923 TAGGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.66
Consensus pattern (11 bp):
TTTTTTCAGGG
Found at i:19356914 original size:8 final size:8
Alignment explanation
Indices: 19356891--19356931 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
19356881 CTTTGACAAT
*
19356891 TAAAAAAT
1 TAAAAAAA
19356899 TAAAAAAA
1 TAAAAAAA
19356907 TAAAAAAAA
1 T-AAAAAAA
19356916 TAAAAAAA
1 TAAAAAAA
*
19356924 CAAAAAAA
1 TAAAAAAA
19356932 GGTGTTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:19356914 original size:17 final size:17
Alignment explanation
Indices: 19356892--19356931 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
19356882 TTTGACAATT
* *
19356892 AAAAAATTAAAAAAATA
1 AAAAAAATAAAAAAACA
19356909 AAAAAAATAAAAAAACA
1 AAAAAAATAAAAAAACA
19356926 AAAAAA
1 AAAAAA
19356932 GGTGTTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAATAAAAAAACA
Found at i:19364207 original size:25 final size:24
Alignment explanation
Indices: 19364179--19364225 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
19364169 GTGAAAGGTG
*
19364179 AAAGGTGAAAAAAAAAAGAAAAAAA
1 AAAGGGGAAAAAAAAAA-AAAAAAA
*
19364204 AAAGGGGAAAAATAAAAAAAAA
1 AAAGGGGAAAAAAAAAAAAAAA
19364226 GAGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAGGGGAAAAAAAAAAAAAAAAA
Found at i:19364233 original size:19 final size:19
Alignment explanation
Indices: 19364198--19364234 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19364188 AAAAAAAAGA
* *
19364198 AAAAAAAAAGGGGAAAAAT
1 AAAAAAAAAGAGAAAAAAT
19364217 AAAAAAAAAGAGAAAAAA
1 AAAAAAAAAGAGAAAAAA
19364235 AGATGAAAGA
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:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAAAAT
Found at i:19364251 original size:30 final size:29
Alignment explanation
Indices: 19364187--19364258 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
19364177 TGAAAGGTGA
* *
19364187 AAAAAAAAAGAAAAAAAAAAGGGGAAAAAT
1 AAAAAAAAAG-AAAAAAAAAGAGGAAAAAG
* *
19364217 AAAAAAAAAGAGAAAAAAAGATGAAAGAAG
1 AAAAAAAAAGAAAAAAAAAGAGGAAA-AAG
19364247 AAAAAAGAAAGA
1 AAAAAA-AAAGA
19364259 CTCAAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 13 0.36
30 18 0.50
31 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAGAAAAAAAAAGAGGAAAAAG
Found at i:19366061 original size:41 final size:41
Alignment explanation
Indices: 19365999--19366293 Score: 274
Period size: 42 Copynumber: 7.1 Consensus size: 41
19365989 ATGATTGTTA
* *
19365999 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
* *
19366040 AGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTATTTAA
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
**
19366081 AGGAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCC-AAAGTTGTGGTGCCTCTGTTTAG
* * * *
19366123 ATGAGTAATTTACTTTCAAAAGTTGTGGTGCCTCTGTTTGG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
* * *
19366164 AAGAGCAATTTACTTT-TAAAATTGTGGTGCCAT-TGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTTGTGGTGCC-TCTGTTTAG
** * * * * *
19366204 AGGAGCTTTGTTTA-TTTTCAAAGTTTTTGAGCCTCTGTTTAA
1 AGGAGC--AATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
* * * * * *
19366246 AGGAGCTTTATTTA-TTTTCAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGC--AATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
19366288 AGGAGC
1 AGGAGC
19366294 TTTGTTTATT
Statistics
Matches: 215, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
40 24 0.11
41 94 0.44
42 97 0.45
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.40
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
Found at i:19366133 original size:42 final size:42
Alignment explanation
Indices: 19365999--19366209 Score: 272
Period size: 41 Copynumber: 5.1 Consensus size: 42
19365989 ATGATTGTTA
* *
19365999 AGGAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAG
* *
19366040 AGGAGCAATTTACTTTCC-AAAGTTGTGGTGCCTCTATTTAA
1 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAG
**
19366081 AGGAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAG
* * *
19366123 ATGAGTAATTTACTTT-CAAAAGTTGTGGTGCCTCTGTTTGG
1 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAG
* *
19366164 AAGAGCAATTTACTTT-TAAAA-TTGTGGTGCCAT-TGTTTAG
1 AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCC-TCTGTTTAG
19366204 AGGAGC
1 AGGAGC
19366210 TTTGTTTATT
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 21 0.14
41 96 0.64
42 33 0.22
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAG
Found at i:19366223 original size:83 final size:83
Alignment explanation
Indices: 19365998--19366312 Score: 302
Period size: 83 Copynumber: 3.8 Consensus size: 83
19365988 CATGATTGTT
* * *
19365998 AAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGC-AATTTACTTTCCAAAG
1 AAGGAGCAATTTACTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGCTAATTTACTTTCAAAAG
*
19366062 TTGTGGTGCCTCTATTTA
66 TTGTGGTGCCTCTGTTTA
* ** *
19366080 AAGGAGCAATTTACTTTCCAAAAGTTACGGTGCCTCTGTTTAGATGAG-TAATTTACTTTCAAAA
1 AAGGAGCAATTTACTTTTCAAAA-TTGTGGTGCCTCTGTTTAGAGGAGCTAATTTACTTTCAAAA
*
19366144 GTTGTGGTGCCTCTGTTTGG
65 GTTGTGGTGCCTCTGTTT-A
** *
19366164 AA-GAGCAATTTACTTTT-AAAATTGTGGTGCCAT-TGTTTAGAGGAGCTTTGTTTATTTTC-AA
1 AAGGAGCAATTTACTTTTCAAAATTGTGGTGCC-TCTGTTTAGAGGAGC-TAATTTACTTTCAAA
* * *
19366225 AGTTTTTGAGCCTCTGTTTA
64 AGTTGTGGTGCCTCTGTTTA
* * * * * * ** *
19366245 AAGGAGCTTTATTTA-TTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTGTTTATTTTCAA
1 AAGGAGC--AATTTACTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGC-TAATTTACTTTCAA
19366309 AAGT
63 AAGT
19366313 CATTGAGCCT
Statistics
Matches: 195, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
81 21 0.11
82 47 0.24
83 80 0.41
84 42 0.22
85 5 0.03
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (83 bp):
AAGGAGCAATTTACTTTTCAAAATTGTGGTGCCTCTGTTTAGAGGAGCTAATTTACTTTCAAAAG
TTGTGGTGCCTCTGTTTA
Found at i:19366326 original size:43 final size:42
Alignment explanation
Indices: 19366199--19366347 Score: 219
Period size: 42 Copynumber: 3.5 Consensus size: 42
19366189 GGTGCCATTG
** *
19366199 TTTAGAGGAGCTTTGTTTATTTTCAAAGTTTTTGAGCCTCTG
1 TTTAGAGGAGCTTTGTTTATTTTCAAAGTCATTGAGCCTCTA
* * *
19366241 TTTAAAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTTCAAAGTCATTGAGCCTCTA
19366283 TTTAGAGGAGCTTTGTTTATTTTCAAAAGTCATTGAGCCTCTA
1 TTTAGAGGAGCTTTGTTTATTTTC-AAAGTCATTGAGCCTCTA
*
19366326 TTTAGAGAAGCTTTG-TTATTTT
1 TTTAGAGGAGCTTTGTTTATTTT
19366348 TTCTTTTAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 66 0.68
43 31 0.32
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (42 bp):
TTTAGAGGAGCTTTGTTTATTTTCAAAGTCATTGAGCCTCTA
Found at i:19376337 original size:60 final size:61
Alignment explanation
Indices: 19376211--19376343 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 61
19376201 TGCTTGACCA
* ***
19376211 AAAAAAAAAAAGAAAGAAAAGGAAAAGTTCAAGGTGAAAACTCAAAAAGAGTGGCTTGAAC
1 AAAAAAAAAAAGAAAGAAAAAGAAAAGTTCAAGGTGAAAACTCAAAAAGAGCAACTTGAAC
* ** *
19376272 AAAAAAAAAAAGAAA-AAAAAGAAAAGTTCAAGTTGAAAAC-CCGAAAGGGCAACTTGAACC
1 AAAAAAAAAAAGAAAGAAAAAGAAAAGTTCAAGGTGAAAACTCAAAAAGAGCAACTTGAA-C
*
19376332 TAAAAAAAAAAG
1 AAAAAAAAAAAG
19376344 TTTAAGTTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 12 0.19
60 35 0.56
61 15 0.24
ACGTcount: A:0.62, C:0.10, G:0.18, T:0.11
Consensus pattern (61 bp):
AAAAAAAAAAAGAAAGAAAAAGAAAAGTTCAAGGTGAAAACTCAAAAAGAGCAACTTGAAC
Found at i:19377281 original size:119 final size:119
Alignment explanation
Indices: 19377149--19377494 Score: 484
Period size: 119 Copynumber: 2.9 Consensus size: 119
19377139 ATCTTGATCG
*
19377149 CTTCATTTTTTGACTTGTGGTTTCATCCTGGTCATCCGATCTTGGCTTAGTCTAGATCATTTCCT
1 CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCATCCGATCTTGGCTTAGTCTAGATCATTTCCT
19377214 GACTCATGGTTTCTCCTCGATCATTTATTTTTTACCTTAACTCAATCCT-GATTA
66 GACTCATGGTTTCTCCTCGATCATTTATTTTTTACCTTAACTCAATCCTAG-TTA
* * * * *
19377268 CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCATCTGATTTTGGCTTAATCTATATCATTTTCT
1 CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCATCCGATCTTGGCTTAGTCTAGATCATTTCCT
* * * * * *
19377333 AACTCATGATTTCGCCTCGATCATTTATTTTTGACCTTGACTCAGTCCTAGTTA
66 GACTCATGGTTTCTCCTCGATCATTTATTTTTTACCTTAACTCAATCCTAGTTA
*
19377387 CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCA-CCTGATCTT-GATTCAGTCTAGATCATTTC
1 CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCATCC-GATCTTGGCTT-AGTCTAGATCATTTC
* * *
19377450 TTGACTCATGGTTTCATTC-CGATCATTTATTTTTTACCTCAACTC
64 CTGACTCATGGTTTC-TCCTCGATCATTTATTTTTTACCTTAACTC
19377495 GATCTTGGTC
Statistics
Matches: 197, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
118 4 0.02
119 191 0.97
120 2 0.01
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (119 bp):
CTTCATTTCTTGACTTGTGGTTTCATCCTGGTCATCCGATCTTGGCTTAGTCTAGATCATTTCCT
GACTCATGGTTTCTCCTCGATCATTTATTTTTTACCTTAACTCAATCCTAGTTA
Found at i:19377511 original size:119 final size:119
Alignment explanation
Indices: 19377061--19377512 Score: 470
Period size: 119 Copynumber: 3.8 Consensus size: 119
19377051 TGTGTATCAT
* * * * ** * * *
19377061 TCACCTAATCTTGGATTAGTCTGGATCATTTCTTGACTCGTTATTT-TGTCTCAATTATTTATTT
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTGACTCATGGTTTCT-CCTCGATCATTTATTT
** * * * *
19377125 TCGA-CTTCGACTCGATCTTGATCGCTTCATTTTTTGACTTGTGGTTTCATCCTGG
65 TTTACCTT-AACTCGATCCTGATCACTTCATTTCTTGACTTGTGGTTTCATCCTGG
*
19377180 TCATCC-GATCTTGGCTTAGTCTAGATCATTTCCTGACTCATGGTTTCTCCTCGATCATTTATTT
1 TCA-CCTGATCTTGGCTTAGTCTAGATCATTTCTTGACTCATGGTTTCTCCTCGATCATTTATTT
* *
19377244 TTTACCTTAACTCAATCCTGATTACTTCATTTCTTGACTTGTGGTTTCATCCTGG
65 TTTACCTTAACTCGATCCTGATCACTTCATTTCTTGACTTGTGGTTTCATCCTGG
* * * * * * *
19377299 TCATCTGATTTTGGCTTAATCTATATCATTT-TCTAACTCATGATTTCGCCTCGATCATTTATTT
1 TCACCTGATCTTGGCTTAGTCTAGATCATTTCT-TGACTCATGGTTTCTCCTCGATCATTTATTT
* * *
19377363 TTGACCTTGACTC-AGTCCT-AGTTACTTCATTTCTTGACTTGTGGTTTCATCCTGG
65 TTTACCTTAACTCGA-TCCTGA-TCACTTCATTTCTTGACTTGTGGTTTCATCCTGG
* *
19377418 TCACCTGATCTT-GATTCAGTCTAGATCATTTCTTGACTCATGGTTTCATTC-CGATCATTTATT
1 TCACCTGATCTTGGCTT-AGTCTAGATCATTTCTTGACTCATGGTTTC-TCCTCGATCATTTATT
* * * *
19377481 TTTTACCTCAACTCGATCTTGGTCATTTCATT
64 TTTTACCTTAACTCGATCCTGATCACTTCATT
19377513 CCTGACTCAT
Statistics
Matches: 277, Mismatches: 44, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
118 6 0.02
119 262 0.95
120 9 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (119 bp):
TCACCTGATCTTGGCTTAGTCTAGATCATTTCTTGACTCATGGTTTCTCCTCGATCATTTATTTT
TTACCTTAACTCGATCCTGATCACTTCATTTCTTGACTTGTGGTTTCATCCTGG
Found at i:19377592 original size:64 final size:64
Alignment explanation
Indices: 19377453--19377597 Score: 150
Period size: 64 Copynumber: 2.3 Consensus size: 64
19377443 TCATTTCTTG
* * * *
19377453 ACTCATGGTTTCATTCC-GATCATTTATTTTTTACCTCAACTCGATCTTGGTCATTTCATTCCTG
1 ACTCATAGTTTCA-TCCTTATCATTTATTTTTTACCTCAACTCGATCCTGGTCATTTCATTCCTA
* * * * **
19377517 ACTCATGGTTTCGTCCTTATCATTTATTTTTTATCTCGACTCGATCCTGGTCACTTT-ATTTTTA
1 ACTCATAGTTTCATCCTTATCATTTATTTTTTACCTCAACTCGATCCTGGTCA-TTTCATTCCTA
**
19377581 ACTTGTAGTTTCATCCT
1 ACTCATAGTTTCATCCT
19377598 GCTTACTTGA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 3 0.04
64 61 0.91
65 3 0.04
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (64 bp):
ACTCATAGTTTCATCCTTATCATTTATTTTTTACCTCAACTCGATCCTGGTCATTTCATTCCTA
Found at i:19378014 original size:28 final size:26
Alignment explanation
Indices: 19377975--19378048 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 26
19377965 CGGTATTACC
*
19377975 ATCATATGATTATATTATATAATACTAT
1 ATCATATTATTATATTAT-T-ATACTAT
*
19378003 ATCATATTATTATATTATTATATTAT
1 ATCATATTATTATATTATTATACTAT
*
19378029 ATCATTACTATTATCATTAT
1 ATCA-TATTATTAT-ATTAT
19378049 CATTATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 10 0.24
27 9 0.22
28 22 0.54
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (26 bp):
ATCATATTATTATATTATTATACTAT
Found at i:19378015 original size:3 final size:3
Alignment explanation
Indices: 19378007--19378070 Score: 71
Period size: 3 Copynumber: 22.3 Consensus size: 3
19377997 TACTATATCA
* * * *
19378007 TAT TAT TA- TAT TAT TA- TAT TA- TAT CAT TAC TAT TAT CAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19378052 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
19378071 CATTTTTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:19380613 original size:13 final size:13
Alignment explanation
Indices: 19380595--19380619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19380585 GCCTGATTAT
19380595 TTTTTTCATTCTA
1 TTTTTTCATTCTA
19380608 TTTTTTCATTCT
1 TTTTTTCATTCT
19380620 CACATCAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTCATTCTA
Found at i:19380863 original size:16 final size:16
Alignment explanation
Indices: 19380837--19380873 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19380827 AACACTTCTG
*
19380837 AAAATGAAAAAAAAAA
1 AAAACGAAAAAAAAAA
*
19380853 TAAACGAAAAAAAAAA
1 AAAACGAAAAAAAAAA
19380869 AAAAC
1 AAAAC
19380874 AATGAGTAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.84, C:0.05, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAACGAAAAAAAAAA
Found at i:19381766 original size:21 final size:20
Alignment explanation
Indices: 19381741--19381798 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
19381731 TTTATTTATA
19381741 ATAATAAATTTTTTTATGTT
1 ATAATAAATTTTTTTATGTT
* * *
19381761 GTTAATTTAA-TTATTTATGTT
1 -ATAA-TAAATTTTTTTATGTT
19381782 ATAATAATATTTTTTTA
1 ATAATAA-ATTTTTTTA
19381799 CGCTTGTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 19 0.68
22 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
ATAATAAATTTTTTTATGTT
Found at i:19382385 original size:221 final size:217
Alignment explanation
Indices: 19381951--19382465 Score: 500
Period size: 221 Copynumber: 2.3 Consensus size: 217
19381941 TTTATGTAGG
* * **
19381951 ATTATTTTTATTTATAATACTAATTTTTTTACATTACCAATTTAATTATTTACATTTTAATAATA
1 ATTATTTTTATTTATAATAATAATTTTTTTACATTACCAACTTAATTATTTACATTACAATAATA
* * * * * *
19382016 TTTTTTATACTTATTGTTCCTTTTCATTACATTTAGAATTATCTTAATATTTTATTAATGTGTAA
66 TTTTTTATACATATTGTTACTTTTCATTACATTTAGAACTATCTCAATATTTTATTAAGGTATAA
* *
19382081 CAATACTTATAACTATTTTACATCAAAAAATATTAATTTTACGATTATTCTCACTTTTTTACATT
131 CAATACTTATAACTATTTTACATCAAAAAATATCAATTTTACGATTATTATCACTTTTTTACATT
* *
19382146 AACTTTTATTTTTTGGTTTAAA
196 AACTCTTATTTATTGGTTTAAA
* * * * **
19382168 ATTATTTTTTATTTGTAATAATATTTTTTTTTACATTTCTAACTTAATTATTTTTATTACAATAA
1 ATTA-TTTTTATTTATAATAATA-ATTTTTTTACATTACCAACTTAATTATTTACATTACAATAA
* * * *
19382233 TATCTTTTTATACATGTTGTTACTTTTCATTACGTTTATAACTAT-TACAAT-TCTTTATTAGGG
64 TAT-TTTTTATACATATTGTTACTTTTCATTACATTTAGAACTATCT-CAATAT-TTTATTAAGG
* * * * * ** *
19382296 TATTACGATATTTTTAACTCATTTTACATTAAATGATATCAATTTTATGATTATTATCA-TATTT
126 TATAACAATACTTATAACT-ATTTTACATCAAAAAATATCAATTTTACGATTATTATCACT-TTT
* *
19382360 TTATATTAA-TACTTATTTATTGGTTTAGA
189 TTACATTAACT-CTTATTTATTGGTTTAAA
* * ** * * *
19382389 GTTATTCTTTGAGTTTA-AGGTAATAATTCTTTTTATGTTATCAACTTAATTATTTACGTTATAA
1 ATTATT-TTT-A-TTTATA-ATAATAATT-TTTTTACATTACCAACTTAATTATTTACATTACAA
19382453 TAATAGTTTTTTA
61 TAATA-TTTTTTA
19382466 CGTTTTTTCT
Statistics
Matches: 237, Mismatches: 47, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
217 4 0.02
218 16 0.07
219 38 0.16
220 64 0.27
221 65 0.27
222 4 0.02
223 45 0.19
224 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (217 bp):
ATTATTTTTATTTATAATAATAATTTTTTTACATTACCAACTTAATTATTTACATTACAATAATA
TTTTTTATACATATTGTTACTTTTCATTACATTTAGAACTATCTCAATATTTTATTAAGGTATAA
CAATACTTATAACTATTTTACATCAAAAAATATCAATTTTACGATTATTATCACTTTTTTACATT
AACTCTTATTTATTGGTTTAAA
Done.