Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 152 of 226
Found at i:49673688 original size:4 final size:4
Alignment explanation
Indices: 49673679--49673826 Score: 96
Period size: 4 Copynumber: 37.0 Consensus size: 4
49673669 GAAGGAGAGG
* * * *
49673679 GAAA GAAA GAAA GAAA GAAA -AAA -AAG GAAG GAAG GAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA
* * *
49673726 G-AA -AAA GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA
*
49673774 G-AA G-AA GAAAA GGAAA GGAGAA GAAA -AAA GAAA GAAA GAAG GAAA
1 GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
49673819 GAAA GAAA
1 GAAA GAAA
49673827 AGGAAAGGAG
Statistics
Matches: 121, Mismatches: 10, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
3 20 0.17
4 73 0.60
5 24 0.20
6 4 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:49673741 original size:45 final size:42
Alignment explanation
Indices: 49673680--49673855 Score: 193
Period size: 41 Copynumber: 4.3 Consensus size: 42
49673670 AAGGAGAGGG
* *
49673680 AAAGAAAGAAAGAAAGAAAAAAAAGG-AAGGAAGGAGAGGAAA
1 AAAGAAAGAAGGAAAGAAAAAAAAGGAAAGG-AGAAGAGGAAA
* * *
49673722 GAAAGAAA-AA-GAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 -AAAGAAAGAAGGAAAGAAAAAAAAGGAAAGGAGAAGAGGAAA
* * **
49673763 AAAGAAAGAAAG-AAG-AAGAAAAGGAAAGGAGAAGAAAAAA
1 AAAGAAAGAAGGAAAGAAAAAAAAGGAAAGGAGAAGAGGAAA
*
49673803 GAAAGAAAGAAGGAAAGAAAGAAAAGGAAAGGAGAAGAGGAAA
1 -AAAGAAAGAAGGAAAGAAAAAAAAGGAAAGGAGAAGAGGAAA
49673846 AAA-AAAGAAG
1 AAAGAAAGAAG
49673856 AAGAAGAGGG
Statistics
Matches: 118, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
40 31 0.26
41 44 0.37
42 13 0.11
43 30 0.25
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (42 bp):
AAAGAAAGAAGGAAAGAAAAAAAAGGAAAGGAGAAGAGGAAA
Found at i:49673750 original size:5 final size:5
Alignment explanation
Indices: 49673701--49673835 Score: 58
Period size: 5 Copynumber: 28.2 Consensus size: 5
49673691 GAAAGAAAAA
* * * *
49673701 AAAGG -AAGG -AAGG AGAGG AAA-G AAAGA AAAAG -AAGG AAAGA AAAGG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG
* * *
49673747 AAAGG AGAAGAG AAA-- AAAAG AAA-G AAAGA AGAAGA AAAGG AAAGG
1 AAAGG A-AAG-G AAAGG AAAGG AAAGG AAAGG A-AAGG AAAGG AAAGG
* * *
49673792 AGAAGAA AAAAG AAA-G AAA-G -AAGG AAA-G AAAGA AAAGG AAAGG A
1 A-AAG-G AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG A
49673836 GAAGAGGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 28
0.70 0.10 0.19
Matches are distributed among these distances:
3 5 0.05
4 29 0.29
5 49 0.49
6 15 0.15
7 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:49673782 original size:40 final size:40
Alignment explanation
Indices: 49673670--49673885 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 40
49673660 TGGGGGGCAG
* *
49673670 AAGGAG-AGGGAAAGAAAGAAAGAAAGAA-AA-AAAAGG-
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
* *
49673706 AAGGAAGGAGAGGAAAGAAAG-AA-AAAGAAGGAAAGAAAAGGA
1 AAGG-AGAAGA-GAAAAAAAGAAAGAAAGAA-G-AAGAAAAGGA
49673748 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
* *
49673788 AAGGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAGAAAAGGA
1 AAGGAGAAGAGAAAA-AAAGAAAGAAAG-AAG-AAGAAAAGGA
* *
49673831 AAGGAGAAGAGGAAAAAA-AAAG-AAGAAGAAG---AGGG
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
49673866 AAGGA-AAGA-AAAAAAAGAAA
1 AAGGAGAAGAGAAAAAAAGAAA
49673886 AAAAAGTAAT
Statistics
Matches: 156, Mismatches: 10, Indels: 30
0.80 0.05 0.15
Matches are distributed among these distances:
33 6 0.04
34 7 0.04
35 8 0.05
36 4 0.03
37 8 0.05
38 7 0.04
39 12 0.08
40 36 0.23
41 29 0.19
42 16 0.10
43 23 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (40 bp):
AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
Found at i:49673846 original size:62 final size:60
Alignment explanation
Indices: 49673679--49673889 Score: 173
Period size: 62 Copynumber: 3.4 Consensus size: 60
49673669 GAAGGAGAGG
* * *
49673679 GAAAGAAAGAAAGAAAGAAAAAAAAGG-AAGGAAGGAGAGG-AAAGAAAGAAAAAGAAGGAAA
1 GAAAGAAAG-AAGAAAG-AAAAAAAGGAAAGG-AGAAGAGGAAAAGAAAGAAGAAGAAGAAAA
* * * *
49673740 GAAAAGGAAAGGAGAAGAGAAAAAAA-GAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAA-AAAA
1 G-AAA-GAAAGAAGAA-AGAAAAAAAGGAAAG-GAGAAGAGGAAAA-GAAAGAAGAAGAAGAAAA
*
49673803 GAAAGAAAGAAGGAAAGAAAGAAAAGGAAAGGAGAAGAGGAAAAAAAAAGAAGAAGAAGAGGGAA
1 GAAAGAAAGAA-GAAAGAAA-AAAAGGAAAGGAGAAGAGG-AAAAGAAAGAAGAAGAAGA---AA
*
49673868 G
60 A
49673869 GAAAGAAA-AA-AAAGAAAAAAA
1 GAAAGAAAGAAGAAAGAAAAAAA
49673890 AGTAATTTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
61 13 0.11
62 55 0.45
63 31 0.25
64 11 0.09
65 2 0.02
66 10 0.08
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (60 bp):
GAAAGAAAGAAGAAAGAAAAAAAGGAAAGGAGAAGAGGAAAAGAAAGAAGAAGAAGAAAA
Found at i:49673864 original size:22 final size:23
Alignment explanation
Indices: 49673680--49673781 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 23
49673670 AAGGAGAGGG
49673680 AAAGAAAGAAAGAA-A-GAAAAAA
1 AAAGAAAG-AAGAAGAGGAAAAAA
* * * *
49673702 AAGGAAGGAAGGAGAGG--AAAG
1 AAAGAAAGAAGAAGAGGAAAAAA
*
49673723 AAAGAAA-AAG-A-AGGAAAGAA
1 AAAGAAAGAAGAAGAGGAAAAAA
* * *
49673743 AAGGAAAGGAGAAGAGAAAAAAA
1 AAAGAAAGAAGAAGAGGAAAAAA
49673766 GAAAGAAAGAAGAAGA
1 -AAAGAAAGAAGAAGA
49673782 AAAGGAAAGG
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
18 3 0.05
19 1 0.02
20 11 0.19
21 14 0.24
22 8 0.14
23 8 0.14
24 13 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAGAAGAGGAAAAAA
Found at i:49673871 original size:83 final size:81
Alignment explanation
Indices: 49673670--49673891 Score: 254
Period size: 83 Copynumber: 2.9 Consensus size: 81
49673660 TGGGGGGCAG
* * * **
49673670 AAGGAG-AGGGAAAGAAAGAAAGAAAGAA-AA-AAAAGG-AAGGAAGGAGAGGAAAGAAAGAAAA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGG-AGAAGAAAAAAGAAAGAAAA
*
49673731 AGAAGGAAAGAAAAGGA
65 AGAAAGAAAGAAAAGGA
49673748 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAGA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAA-A
49673813 AGGAAAGAAAGAAAAGGA
65 A-GAAAGAAAGAAAAGGA
* *
49673831 AAGGAGAAGAGGAAAAAA-AAAG-AAGAAGAAG---AGGGAAGGA-AAG-AAAAA-AAAGAAAAA
1 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAA
49673888 -AAAG
66 GAAAG
49673892 TAATTTTTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
72 4 0.03
74 2 0.02
75 7 0.05
76 5 0.04
77 3 0.02
78 14 0.11
79 20 0.15
80 2 0.02
81 31 0.24
82 10 0.08
83 32 0.25
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (81 bp):
AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAA
GAAAGAAAGAAAAGGA
Found at i:49679499 original size:18 final size:18
Alignment explanation
Indices: 49679476--49679520 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
49679466 ATCCCAGTGA
49679476 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
49679494 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
49679512 TCACCACCA
1 TCGCCACCA
49679521 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:49680267 original size:63 final size:63
Alignment explanation
Indices: 49680200--49680319 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
49680190 AAAATTATTA
* *
49680200 ATTTTACTAAA-AATAATAACTAACTAACTATAACAATAATACTAGTTTTTTACTAACTAGTTT
1 ATTTTACTAAATAAAAATAA-TAACTAACCATAACAATAATACTAGTTTTTTACTAACTAGTTT
** *
49680263 ATTTTGGTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAAC
1 ATTTTACTAAATAAAAATAATAACTAACCATAACAATAATACTAGTTTTTTACTAAC
49680320 AATAATACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 44 0.86
64 7 0.14
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (63 bp):
ATTTTACTAAATAAAAATAATAACTAACCATAACAATAATACTAGTTTTTTACTAACTAGTTT
Found at i:49680377 original size:3 final size:3
Alignment explanation
Indices: 49680369--49680400 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49680359 TCTTAATACT
49680369 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
49680401 TAATACTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:49680776 original size:24 final size:24
Alignment explanation
Indices: 49680743--49680806 Score: 92
Period size: 24 Copynumber: 2.5 Consensus size: 24
49680733 TTGTTTTTTT
49680743 TATATATTTTGGTAAATAAAAAAA
1 TATATATTTTGGTAAATAAAAAAA
*
49680767 TATATTTTTTGGTAAATAAAAAAA
1 TATATATTTTGGTAAATAAAAAAA
49680791 GTTATAATATTTTGGT
1 --TAT-ATATTTTGGT
49680807 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 23 0.66
26 3 0.09
27 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (24 bp):
TATATATTTTGGTAAATAAAAAAA
Found at i:49681574 original size:3 final size:3
Alignment explanation
Indices: 49681547--49681601 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
49681537 TCAACTGCAC
* *
49681547 GAA GGA GAA GAAA GAA -AA GGA -AA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
49681591 G-A GAA GAA GAA
1 GAA GAA GAA GAA
49681602 TGAGGAGGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 5 0.11
3 36 0.82
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:49681578 original size:23 final size:23
Alignment explanation
Indices: 49681547--49681601 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
49681537 TCAACTGCAC
*
49681547 GAAGGAGAAGAAAGAA-AAGGAA-A
1 GAAGAAGAAG-AAGAAGAA-GAAGA
49681570 GAAGAAGAAGAAGAAGAAGAAGA
1 GAAGAAGAAGAAGAAGAAGAAGA
49681593 GAAGAAGAA
1 GAAGAAGAA
49681602 TGAGGAGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (23 bp):
GAAGAAGAAGAAGAAGAAGAAGA
Found at i:49681767 original size:24 final size:25
Alignment explanation
Indices: 49681736--49681793 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
49681726 GGATTATCTT
49681736 GTTATTATGTTTTT-TTGTATA-TTTA
1 GTTATTAT-TTTTTGTTGT-TAGTTTA
49681761 -TTATTATTTTTTGTTGTTAGTTTA
1 GTTATTATTTTTTGTTGTTAGTTTA
49681785 GTTATTATT
1 GTTATTATT
49681794 GTTAGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.23
24 15 0.50
25 8 0.27
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (25 bp):
GTTATTATTTTTTGTTGTTAGTTTA
Found at i:49681805 original size:25 final size:24
Alignment explanation
Indices: 49681757--49681805 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
49681747 TTTTTGTATA
* * *
49681757 TTTATTATTATTTTTTGTTGTTAG
1 TTTATTATTATTGTTAGTTATTAG
49681781 TTTAGTTATTATTGTTAGTTATTAG
1 TTTA-TTATTATTGTTAGTTATTAG
49681806 GATTAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.65
Consensus pattern (24 bp):
TTTATTATTATTGTTAGTTATTAG
Found at i:49683601 original size:26 final size:26
Alignment explanation
Indices: 49683541--49683602 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
49683531 TAATTAAATT
* **
49683541 TATACAAAAAAGTACAAACTTTGTAA
1 TATACAAAAAAATACAAACTGAGTAA
*
49683567 TATAAAAAAAAATACAAACTAGAGTAA
1 TATACAAAAAAATACAAACT-GAGTAA
49683594 TAT-CAAAAA
1 TATACAAAAA
49683603 TGCAAGAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.23
Consensus pattern (26 bp):
TATACAAAAAAATACAAACTGAGTAA
Found at i:49691433 original size:42 final size:42
Alignment explanation
Indices: 49691386--49691471 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
49691376 CTAGCTGTCA
* **
49691386 TATTAAGGCTCGCAGGTGAAGAGCTATAGCCTTTAACACAGT
1 TATTAAGGCTCGCAGGTGAAGAGCCATAGCCTCCAACACAGT
*
49691428 TATTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACACAGT
1 TATTAAGGCTCGCAGGTGAAGAGCCATAGCCTCCAACACAGT
49691470 TA
1 TA
49691472 GCGAGAACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
TATTAAGGCTCGCAGGTGAAGAGCCATAGCCTCCAACACAGT
Found at i:49691535 original size:111 final size:111
Alignment explanation
Indices: 49691332--49691540 Score: 276
Period size: 111 Copynumber: 1.9 Consensus size: 111
49691322 AGGCTTGCAA
* * * * * *
49691332 GTGAAGAGCCGTAATCTCCAACACAGTTAGCGAGAGCAAAGTCCCTAGCTGTCATATTAAGGCTC
1 GTGAAGAGCCATAACCTCCAACACAGTTAGCGAGAACAAACTCCCTAACTATCATATTAAGGCTC
* * **
49691397 GCAGGTGAAGAGCTATAGCCTTTAACACAGTTATTAAGGCTCGTAG
66 GCAGGTGAAGAGCTACAACCTCCAACACAGTTATTAAGGCTCGTAG
*
49691443 GTGAAGAGCCATAGCCTCCAACACAGTTAGCGAGAACAAAACT-CCTAACTATCATATTAAGGCT
1 GTGAAGAGCCATAACCTCCAACACAGTTAGCGAGAAC-AAACTCCCTAACTATCATATTAAGGCT
* * *
49691507 TGCAGGTGATGAGCTGCAACCTCCAACACAGTTA
65 CGCAGGTGAAGAGCTACAACCTCCAACACAGTTA
49691541 GTGAGAGTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 79 0.95
112 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (111 bp):
GTGAAGAGCCATAACCTCCAACACAGTTAGCGAGAACAAACTCCCTAACTATCATATTAAGGCTC
GCAGGTGAAGAGCTACAACCTCCAACACAGTTATTAAGGCTCGTAG
Found at i:49691676 original size:138 final size:138
Alignment explanation
Indices: 49691428--49691748 Score: 360
Period size: 138 Copynumber: 2.3 Consensus size: 138
49691418 TTAACACAGT
* * * * *
49691428 TATTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACACAGTTAGCGAGAACAAAACTCCTAACT
1 TATTAAGACTCGCAAGTGAAGAGCCACAGCCTCCAACAAAGTTAGCGAGAACAAAACTCCTAACT
* * *
49691493 ATCATATTAAGGCTTGCAGGTGATGAGCTGCAACCTCCAACACAGTTAGTGAGAGTAAAGCTCCC
66 ATCATATTAAGGCTTGCAGGTGATGAGCCGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
49691558 AGCTGTCA
131 AGCTGTCA
* * * * * *
49691566 TATTAAGACTCGCAAGTGAAGAGCCGCAGCCTTCAACAAAGTTAGCGTGATC-AAAGTTCTCAAC
1 TATTAAGACTCGCAAGTGAAGAGCCACAGCCTCCAACAAAGTTAGCGAGAACAAAACTCCT-AAC
* *
49691630 TGTCATATTAAGGCTTGCAGGTGAAT-AGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
65 TATCATATTAAGGCTTGCAGGTG-ATGAGCCGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTC
** *
49691694 TTAGCAGTCA
129 CCAGCTGTCA
* * ** * * *
49691704 CATTAAGGCTCATAGGTGAAGAACCATAGCCTCCAA-AATAGTTAG
1 TATTAAGACTCGCAAGTGAAGAGCCACAGCCTCCAACAA-AGTTAG
49691749 TACGAGCTTA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
137 8 0.05
138 142 0.93
139 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (138 bp):
TATTAAGACTCGCAAGTGAAGAGCCACAGCCTCCAACAAAGTTAGCGAGAACAAAACTCCTAACT
ATCATATTAAGGCTTGCAGGTGATGAGCCGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
AGCTGTCA
Found at i:49691721 original size:69 final size:69
Alignment explanation
Indices: 49691428--49691748 Score: 302
Period size: 69 Copynumber: 4.7 Consensus size: 69
49691418 TTAACACAGT
* ** * * *
49691428 TATTAAGGCTCGTAGGTGAAGAGCCATAGCCTCCAACACAGTTAGCGAGAACAAAACTCCTAACT
1 TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAAC-
49691493 A-TCA
65 AGTCA
* * * * * * * *
49691497 TATTAAGGCTTGCAGGTGATGAGCTGCAACCTCCAACACAGTTAGTGAGAGTAAAGCTCCCAGCT
1 TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACA
49691562 GTCA
66 GTCA
* * * * * * * * *
49691566 TATTAAGACTCGCAAGTGAAGAGCCGCAGCCTTCAACAAAGTTAGCGTGATCAAAGTTCTCAACT
1 TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACA
49691631 GTCA
66 GTCA
* * ** *
49691635 TATTAAGGCTTGCAGGTGAATAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCTTAGCA
1 TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACA
49691700 GTCA
66 GTCA
* ** * ** * *
49691704 CATTAAGGCTCATAGGTGAAGAACCATAGCCTCCAAAATAGTTAG
1 TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAG
49691749 TACGAGCTTA
Statistics
Matches: 200, Mismatches: 51, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
69 200 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (69 bp):
TATTAAGGCTCGCAGGTGAAGAGCCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACA
GTCA
Found at i:49692307 original size:69 final size:68
Alignment explanation
Indices: 49692148--49692310 Score: 175
Period size: 68 Copynumber: 2.4 Consensus size: 68
49692138 CTGTAATCTT
* * * * * * *
49692148 AAGGCTTGCCGATTTAATATTGCAACCTCCAAAATAACTCGTGGACCTACTTTCCAGCTGATATT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACTTCCCAGCTCATATT
*
49692213 CTA
66 ATA
* * *
49692216 AAGGCTCGTCGGTTTAATATCGCAACATCCAAAACAGCTCGCGGACCTACATTCCCAGCTCATAT
1 AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTAC-TTCCCAGCTCATAT
49692281 TATA
65 TATA
* * *
49692285 GAGGTTAC-CCGATTTAAGATCGCAAC
1 AAGGCT-CGCCGATTTAATATCGCAAC
49692311 TTTCAATTAC
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
68 42 0.55
69 34 0.44
70 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (68 bp):
AAGGCTCGCCGATTTAATATCGCAACATCCAAAACAACTCGCGGACCTACTTCCCAGCTCATATT
ATA
Found at i:49694210 original size:25 final size:25
Alignment explanation
Indices: 49694155--49694203 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
49694145 TATTCGCCGT
* *
49694155 AAAGATAGTTCTCTGGGGACCCTGC
1 AAAGATAGTTCGCTGGGGACCCCGC
49694180 AAAGATAGTTCGCTGGGGACCCCG
1 AAAGATAGTTCGCTGGGGACCCCG
49694204 TTGAGATGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (25 bp):
AAAGATAGTTCGCTGGGGACCCCGC
Found at i:49696378 original size:21 final size:22
Alignment explanation
Indices: 49696338--49696378 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
49696328 AAAATTTGAT
49696338 AAATTTTTATTTATATATTTCA
1 AAATTTTTATTTATATATTTCA
49696360 AAATTTTTATTTATA-ATTT
1 AAATTTTTATTTATATATTT
49696379 TTCTTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AAATTTTTATTTATATATTTCA
Found at i:49699777 original size:21 final size:21
Alignment explanation
Indices: 49699717--49699777 Score: 52
Period size: 25 Copynumber: 2.7 Consensus size: 21
49699707 TAATATATCA
*
49699717 AAAATATTAAAAATATTAAAAT
1 AAAATTTTAAAAA-ATTAAAAT
*
49699739 AAATATTTCTGAACAAATTGAAAAT
1 AAA-ATTT-T-AAAAAATT-AAAAT
49699764 -AAATTTTAAAAAAT
1 AAAATTTTAAAAAAT
49699778 ATATATACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.19
22 4 0.12
23 7 0.22
24 6 0.19
25 9 0.28
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATTTTAAAAAATTAAAAT
Found at i:49700430 original size:19 final size:19
Alignment explanation
Indices: 49700408--49700453 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
49700398 GAAATTATAA
*
49700408 ATATACATAAATATTTAAAAT
1 ATATA-ATAAAT-TTAAAAAT
49700429 ATATAATAAATTTAAAAAT
1 ATATAATAAATTTAAAAAT
49700448 ATATAA
1 ATATAA
49700454 ATAATAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATAATAAATTTAAAAAT
Found at i:49704282 original size:25 final size:25
Alignment explanation
Indices: 49704265--49704364 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 25
49704255 TGAGCTTTGT
49704265 GATACCCAGCTCGCATGAGCTTCCC
1 GATACCCAGCTCGCATGAGCTTCCC
*
49704290 GATACCCAGCTCGCACGAGCTTCCC
1 GATACCCAGCTCGCATGAGCTTCCC
* ** * * *
49704315 GTTATTCAACTCCCATGAGCTTCCT
1 GATACCCAGCTCGCATGAGCTTCCC
* **
49704340 GTTATTCAGCTCAG-ATGAGCTTCCC
1 GATACCCAGCTC-GCATGAGCTTCCC
49704365 ATTTACTGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.26
Consensus pattern (25 bp):
GATACCCAGCTCGCATGAGCTTCCC
Found at i:49706354 original size:21 final size:21
Alignment explanation
Indices: 49706330--49706390 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
49706320 TTTGTATCTT
49706330 TTTTTATTTTTTATTTATATA
1 TTTTTATTTTTTATTTATATA
* ** *
49706351 TTTTTAGGTGGTTA-TTACATA
1 TTTTTA-TTTTTTATTTATATA
49706372 TTTTTATTTATTTATTTAT
1 TTTTTATTT-TTTATTTAT
49706391 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
20 1 0.03
21 21 0.72
22 7 0.24
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTTTATTTATATA
Found at i:49707774 original size:6 final size:6
Alignment explanation
Indices: 49707763--49707795 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
49707753 TAGCGTATGA
*
49707763 TGAAAG TGAAAG TGAAAG TGAAGG TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
49707796 GAAATTAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
TGAAAG
Found at i:49711896 original size:13 final size:14
Alignment explanation
Indices: 49711869--49711904 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
49711859 AAGATAACCG
49711869 AAAGAAAAGAGAAA
1 AAAGAAAAGAGAAA
49711883 AAAGAAAA-AGAAA
1 AAAGAAAAGAGAAA
49711896 AAA-AAAAGA
1 AAAGAAAAGA
49711905 AGTAAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 9 0.43
14 8 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAGAAA
Found at i:49713845 original size:20 final size:19
Alignment explanation
Indices: 49713820--49713907 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 19
49713810 TGTTGATGTA
*
49713820 TGATTGCACTCTAATGTCCC
1 TGATTGCACTCTAGTG-CCC
*
49713840 TGATTGCACTCTGGTGCCC
1 TGATTGCACTCTAGTGCCC
* * *
49713859 TTGATTGCATTTTCGTGCCCC
1 -TGATTGCACTCTAGTG-CCC
*
49713880 TGATTGCACTCTGGTGCCC
1 TGATTGCACTCTAGTGCCC
49713899 TTGATTGCA
1 -TGATTGCA
49713908 TTTTCATGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
19 6 0.11
20 48 0.84
21 3 0.05
ACGTcount: A:0.14, C:0.28, G:0.22, T:0.36
Consensus pattern (19 bp):
TGATTGCACTCTAGTGCCC
Found at i:49713881 original size:40 final size:40
Alignment explanation
Indices: 49713837--49713941 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
49713827 ACTCTAATGT
*
49713837 CCCTGATTGCACTCTGGTGCCCTTGATTGCATTTTCGTGC
1 CCCTGATTGCACTCTGGTGCCCTTGATTGCATTTTCATGC
49713877 CCCTGATTGCACTCTGGTGCCCTTGATTGCATTTTCATGC
1 CCCTGATTGCACTCTGGTGCCCTTGATTGCATTTTCATGC
* *
49713917 CTCT-ATATGCACTTTGGTGTCCCTT
1 CCCTGAT-TGCACTCTGGTG-CCCTT
49713942 TTTGTATTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 2 0.03
40 53 0.88
41 5 0.08
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39
Consensus pattern (40 bp):
CCCTGATTGCACTCTGGTGCCCTTGATTGCATTTTCATGC
Found at i:49713917 original size:20 final size:20
Alignment explanation
Indices: 49713853--49713917 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
49713843 TTGCACTCTG
49713853 GTGCCCTTGATTGCATTTTC
1 GTGCCCTTGATTGCATTTTC
* * * *
49713873 GTGCCCCTGATTGCACTCTG
1 GTGCCCTTGATTGCATTTTC
49713893 GTGCCCTTGATTGCATTTTC
1 GTGCCCTTGATTGCATTTTC
*
49713913 ATGCC
1 GTGCC
49713918 TCTATATGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.11, C:0.29, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGCCCTTGATTGCATTTTC
Found at i:49716675 original size:24 final size:24
Alignment explanation
Indices: 49716631--49716677 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49716621 CAATGCCAGC
* *
49716631 TGTCATTGTATTGAATGTGTGAAT
1 TGTCAATGTATTGAATATGTGAAT
49716655 TGTCAATGTATT-ACATATGTGAA
1 TGTCAATGTATTGA-ATATGTGAA
49716678 CTATCACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (24 bp):
TGTCAATGTATTGAATATGTGAAT
Found at i:49716875 original size:17 final size:16
Alignment explanation
Indices: 49716833--49716885 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
49716823 TTTTGTTTAT
*
49716833 ATGCGAACTGAGTTAT
1 ATGCGAACTGAGTTAA
* *
49716849 ATGTGAACTGTGTGTAA
1 ATGCGAACTGAGT-TAA
*
49716866 ATGCGAACTGAGTTAT
1 ATGCGAACTGAGTTAA
49716882 ATGC
1 ATGC
49716886 AAATTGTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCGAACTGAGTTAA
Found at i:49716899 original size:50 final size:50
Alignment explanation
Indices: 49716827--49717062 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 50
49716817 TGTGAGTTTT
* * * *
49716827 GTTTATATGCGAACTGAG-TTATATGTGAACTGTGTGTAAATGCGAACTGA
1 GTTTATATGCAAATTGTGTTTATATGTGAACTGTGT-TATATGCGAACTGA
* *
49716877 G-TTATATGCAAATTGTGTTTATATGTGAATTGTGTTTATATGCAAACT-A
1 GTTTATATGCAAATTGTGTTTATATGTGAACTGTG-TTATATGCGAACTGA
* * * ** *
49716926 TGTTTATATGTAAGTTGTGTTTATATGAGAACTAAGTTATATGCGAACTGT
1 -GTTTATATGCAAATTGTGTTTATATGTGAACTGTGTTATATGCGAACTGA
** * * * *
49716977 GTTTATATGTGAGTTGTGTTTATATGTGAACTGAGTTATATGC-AAATAGT
1 GTTTATATGCAAATTGTGTTTATATGTGAACTGTGTTATATGCGAACT-GA
*
49717027 GTTTATATGCAAATTGTGTTTATATGTGATCTGTGT
1 GTTTATATGCAAATTGTGTTTATATGTGAACTGTGT
49717063 CAATGTGTGG
Statistics
Matches: 157, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
49 17 0.11
50 112 0.71
51 28 0.18
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.43
Consensus pattern (50 bp):
GTTTATATGCAAATTGTGTTTATATGTGAACTGTGTTATATGCGAACTGA
Found at i:49716900 original size:17 final size:17
Alignment explanation
Indices: 49716878--49717052 Score: 149
Period size: 17 Copynumber: 10.4 Consensus size: 17
49716868 GCGAACTGAG
49716878 TTATATGCAAATTGTGT
1 TTATATGCAAATTGTGT
**
49716895 TTATATGTGAATTGTGT
1 TTATATGCAAATTGTGT
* *
49716912 TTATATGCAAACTATGT
1 TTATATGCAAATTGTGT
* *
49716929 TTATATGTAAGTTGTGT
1 TTATATGCAAATTGTGT
* **
49716946 TTATATG-AGAACTAAG-
1 TTATATGCA-AATTGTGT
* *
49716962 TTATATGCGAACTGTGT
1 TTATATGCAAATTGTGT
** *
49716979 TTATATGTGAGTTGTGT
1 TTATATGCAAATTGTGT
** * *
49716996 TTATATGTGAACTGAG-
1 TTATATGCAAATTGTGT
*
49717012 TTATATGCAAATAGTGT
1 TTATATGCAAATTGTGT
49717029 TTATATGCAAATTGTGT
1 TTATATGCAAATTGTGT
49717046 TTATATG
1 TTATATG
49717053 TGATCTGTGT
Statistics
Matches: 125, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
16 24 0.19
17 101 0.81
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (17 bp):
TTATATGCAAATTGTGT
Found at i:49716917 original size:34 final size:34
Alignment explanation
Indices: 49716878--49717052 Score: 169
Period size: 34 Copynumber: 5.2 Consensus size: 34
49716868 GCGAACTGAG
49716878 TTATATGCAAATTGTGTTTATATGTGAATTGTGT
1 TTATATGCAAATTGTGTTTATATGTGAATTGTGT
* *
49716912 TTATATGCAAACTATGTTTATATGT-AAGTTGTGT
1 TTATATGCAAATTGTGTTTATATGTGAA-TTGTGT
* ** * *
49716946 TTATATG-AGAACTAAG-TTATATGCGAACTGTGT
1 TTATATGCA-AATTGTGTTTATATGTGAATTGTGT
** * * *
49716979 TTATATGTGAGTTGTGTTTATATGTGAACTGAG-
1 TTATATGCAAATTGTGTTTATATGTGAATTGTGT
* **
49717012 TTATATGCAAATAGTGTTTATATGCAAATTGTGT
1 TTATATGCAAATTGTGTTTATATGTGAATTGTGT
49717046 TTATATG
1 TTATATG
49717053 TGATCTGTGT
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
33 50 0.43
34 65 0.57
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (34 bp):
TTATATGCAAATTGTGTTTATATGTGAATTGTGT
Found at i:49716978 original size:33 final size:34
Alignment explanation
Indices: 49716826--49717052 Score: 171
Period size: 33 Copynumber: 6.8 Consensus size: 34
49716816 GTGTGAGTTT
* ** *
49716826 TGTTTATATGCGAACTGAG-TTATATGTGAACTG
1 TGTTTATATGCGAACTGTGTTTATATGCAAACTA
* * * * *
49716859 TGTGTAAATGCGAACTGAG-TTATATGCAAATTG
1 TGTTTATATGCGAACTGTGTTTATATGCAAACTA
* *
49716892 TGTTTATATGTGAATTGTGTTTATATGCAAACTA
1 TGTTTATATGCGAACTGTGTTTATATGCAAACTA
* *
49716926 TGTTTATATG-TAAGTTGTGTTTATATG-AGAACTA
1 TGTTTATATGCGAA-CTGTGTTTATATGCA-AACTA
* ** ** *
49716960 AG-TTATATGCGAACTGTGTTTATATGTGAGTTG
1 TGTTTATATGCGAACTGTGTTTATATGCAAACTA
* *
49716993 TGTTTATATGTGAACTGAG-TTATATGCAAA-TA
1 TGTTTATATGCGAACTGTGTTTATATGCAAACTA
* *
49717025 GTGTTTATATGCAAATTGTGTTTATATG
1 -TGTTTATATGCGAACTGTGTTTATATG
49717053 TGATCTGTGT
Statistics
Matches: 155, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
32 1 0.01
33 90 0.58
34 64 0.41
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (34 bp):
TGTTTATATGCGAACTGTGTTTATATGCAAACTA
Found at i:49717062 original size:117 final size:117
Alignment explanation
Indices: 49716821--49717053 Score: 279
Period size: 117 Copynumber: 2.0 Consensus size: 117
49716811 ACAATGTGTG
* * * *
49716821 AGTTTTGTTTATATGCGAACTGAGTTATATGTGAACTGTGTGTAAATGCGAACTGAGTTATATGC
1 AGTTGTGTTTATATGAGAACTAAGTTATATGCGAACTGTGTGTAAATGCGAACTGAGTTATATGC
* * ** *
49716886 AAATTGTGTTTATATGTGAATTGTGTTTATATGCAAACTATGTTTATATGTA
66 AAACTGAGTTTATATGCAAATAGTGTTTATATGCAAACTATGTTTATATGTA
* * * ** *
49716938 AGTTGTGTTTATATGAGAACTAAGTTATATGCGAACTGTGTTTATATGTGAGTTGTGTTTATATG
1 AGTTGTGTTTATATGAGAACTAAGTTATATGCGAACTGTGTGTAAATGCGAACTGAG-TTATATG
** * *
49717003 TGAACTGAG-TTATATGCAAATAGTGTTTATATGCAAATTGTGTTTATATGT
65 CAAACTGAGTTTATATGCAAATAGTGTTTATATGCAAACTATGTTTATATGT
49717054 GATCTGTGTC
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
117 84 0.88
118 12 0.12
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (117 bp):
AGTTGTGTTTATATGAGAACTAAGTTATATGCGAACTGTGTGTAAATGCGAACTGAGTTATATGC
AAACTGAGTTTATATGCAAATAGTGTTTATATGCAAACTATGTTTATATGTA
Found at i:49717197 original size:26 final size:26
Alignment explanation
Indices: 49717168--49717222 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
49717158 GTATGTACAT
* *
49717168 GCTCTTTGTAAAGTAATTACGTGCGA
1 GCTCTTTGTAAAGTAACTAAGTGCGA
*
49717194 GCTCTTTGTAAAGTGACTAAGTGCGA
1 GCTCTTTGTAAAGTAACTAAGTGCGA
49717220 GCT
1 GCT
49717223 AGTCTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (26 bp):
GCTCTTTGTAAAGTAACTAAGTGCGA
Found at i:49717354 original size:36 final size:36
Alignment explanation
Indices: 49717303--49717375 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
49717293 ATGAGCTGCG
49717303 TCAACTTGTGAGCCGTAGCAAAAGTACAAGCTATAC
1 TCAACTTGTGAGCCGTAGCAAAAGTACAAGCTATAC
*
49717339 TCAACTTGTGTGCCGTAGCAAAAGTACAAGCTATAC
1 TCAACTTGTGAGCCGTAGCAAAAGTACAAGCTATAC
49717375 T
1 T
49717376 GTGGTAGTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (36 bp):
TCAACTTGTGAGCCGTAGCAAAAGTACAAGCTATAC
Found at i:49728988 original size:3 final size:3
Alignment explanation
Indices: 49728982--49729009 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49728972 ATTGTTATTA
49728982 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
49729010 CGTCGTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:49743529 original size:22 final size:21
Alignment explanation
Indices: 49743504--49743545 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
49743494 GAAAAAACAT
*
49743504 TTTAATTTTCCTAATTTTATTG
1 TTTAATTTTACT-ATTTTATTG
*
49743526 TTTATTTTTACTATTTTATT
1 TTTAATTTTACTATTTTATT
49743546 TTATTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTAATTTTACTATTTTATTG
Found at i:49743532 original size:21 final size:18
Alignment explanation
Indices: 49743502--49743553 Score: 50
Period size: 22 Copynumber: 2.6 Consensus size: 18
49743492 AAGAAAAAAC
49743502 ATTTTAATTTTCCTAATTTT
1 ATTTT-ATTTTCCT-ATTTT
*
49743522 ATTGTTTATTTTTACTATTTT
1 A-T-TTTA-TTTTCCTATTTT
49743543 ATTTTATTTTC
1 ATTTTATTTTC
49743554 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 2 0.07
21 8 0.30
22 9 0.33
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTTTATTTTCCTATTTT
Found at i:49743560 original size:26 final size:27
Alignment explanation
Indices: 49743517--49743569 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
49743507 AATTTTCCTA
*
49743517 ATTTTATTGTTTA-TTTTTACTATTTT
1 ATTTTATTGTTCATTTTTTACTATTTT
*
49743543 ATTTTATT-TTCATTTTTTTATTATTTT
1 ATTTTATTGTTCA-TTTTTTACTATTTT
49743570 TGCAGGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.13
26 8 0.35
27 12 0.52
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTTATTGTTCATTTTTTACTATTTT
Found at i:49744006 original size:7 final size:7
Alignment explanation
Indices: 49743994--49744039 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
49743984 TTTCAACAAA
*
49743994 AAAAAAC
1 AAAAAAT
49744001 AAAAAAT
1 AAAAAAT
49744008 AATAAAAT
1 AA-AAAAT
49744016 AATAAAAT
1 AA-AAAAT
49744024 AAAAAAT
1 AAAAAAT
49744031 -AAAAAT
1 AAAAAAT
49744037 AAA
1 AAA
49744040 GATACTCCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.17
7 15 0.42
8 15 0.42
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:49744014 original size:8 final size:8
Alignment explanation
Indices: 49744003--49744032 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
49743993 AAAAAAACAA
49744003 AAAATAAT
1 AAAATAAT
49744011 AAAATAAT
1 AAAATAAT
49744019 AAAATAA-
1 AAAATAAT
49744026 AAAATAA
1 AAAATAA
49744033 AAATAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:49750884 original size:126 final size:126
Alignment explanation
Indices: 49750659--49750911 Score: 506
Period size: 126 Copynumber: 2.0 Consensus size: 126
49750649 ACATAGAAGT
49750659 GTTTTTACTAATAAAATCGAAATATAAAAGTATACATTTCGATAACACAAACACTTGCATACTTA
1 GTTTTTACTAATAAAATCGAAATATAAAAGTATACATTTCGATAACACAAACACTTGCATACTTA
49750724 ACCCTATTTTCATAAAACATGGACAAAAGTCATATACCCATAAATAATTTAAAGCATTCAA
66 ACCCTATTTTCATAAAACATGGACAAAAGTCATATACCCATAAATAATTTAAAGCATTCAA
49750785 GTTTTTACTAATAAAATCGAAATATAAAAGTATACATTTCGATAACACAAACACTTGCATACTTA
1 GTTTTTACTAATAAAATCGAAATATAAAAGTATACATTTCGATAACACAAACACTTGCATACTTA
49750850 ACCCTATTTTCATAAAACATGGACAAAAGTCATATACCCATAAATAATTTAAAGCATTCAA
66 ACCCTATTTTCATAAAACATGGACAAAAGTCATATACCCATAAATAATTTAAAGCATTCAA
49750911 G
1 G
49750912 GTTGATCTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (126 bp):
GTTTTTACTAATAAAATCGAAATATAAAAGTATACATTTCGATAACACAAACACTTGCATACTTA
ACCCTATTTTCATAAAACATGGACAAAAGTCATATACCCATAAATAATTTAAAGCATTCAA
Found at i:49751087 original size:22 final size:21
Alignment explanation
Indices: 49751056--49751103 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
49751046 TATTTTTGAA
* *
49751056 AATTTGAAAATTTTTATTTAT
1 AATTTCAAAATTTTTATATAT
49751077 ATATTTCAAAATTTTTATATAT
1 A-ATTTCAAAATTTTTATATAT
49751099 AATTT
1 AATTT
49751104 TTCTTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTCAAAATTTTTATATAT
Found at i:49767520 original size:22 final size:21
Alignment explanation
Indices: 49767475--49767529 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
49767465 AATAAAATAA
*
49767475 TACAAATATGTTAATATTTAAT
1 TACAAATAT-TTAATAGTTAAT
*
49767497 TACAAATATTTAATGGTTATAT
1 TACAAATATTTAATAGTTA-AT
49767519 T--AAATATTTAA
1 TACAAATATTTAA
49767530 AATATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.33
21 8 0.27
22 12 0.40
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (21 bp):
TACAAATATTTAATAGTTAAT
Found at i:49782180 original size:23 final size:23
Alignment explanation
Indices: 49782145--49782189 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49782135 TTTTAAATAA
49782145 TTTTGATAATTTTGTAATTTTTC
1 TTTTGATAATTTTGTAATTTTTC
*
49782168 TTTT-ATAATTTTTGTCATTTTT
1 TTTTGATAA-TTTTGTAATTTTT
49782190 GAAGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTGATAATTTTGTAATTTTTC
Found at i:49782452 original size:19 final size:19
Alignment explanation
Indices: 49782428--49782468 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
49782418 AGTGTTTTTG
49782428 TTTTTTAAGTGAATATAAT
1 TTTTTTAAGTGAATATAAT
* *
49782447 TTTTTTGAGTGAATATAGT
1 TTTTTTAAGTGAATATAAT
49782466 TTT
1 TTT
49782469 GTGAGGGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (19 bp):
TTTTTTAAGTGAATATAAT
Found at i:49782473 original size:18 final size:19
Alignment explanation
Indices: 49782435--49782473 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49782425 TTGTTTTTTA
* *
49782435 AGTGAATATAATTTTTTTG
1 AGTGAATATAAGTTTTGTG
49782454 AGTGAATAT-AGTTTTGTG
1 AGTGAATATAAGTTTTGTG
49782472 AG
1 AG
49782474 GGAGTAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (19 bp):
AGTGAATATAAGTTTTGTG
Found at i:49787060 original size:15 final size:13
Alignment explanation
Indices: 49787025--49787051 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49787015 TGGGGAAAAG
49787025 CAACAAAAAAATC
1 CAACAAAAAAATC
49787038 CAACAAAAAAATC
1 CAACAAAAAAATC
49787051 C
1 C
49787052 TTAGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (13 bp):
CAACAAAAAAATC
Found at i:49796012 original size:10 final size:9
Alignment explanation
Indices: 49795983--49796008 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49795973 ATTTTATATT
49795983 AATATTTTA
1 AATATTTTA
49795992 AATATTTTA
1 AATATTTTA
49796001 AATATTTT
1 AATATTTT
49796009 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:49797948 original size:18 final size:16
Alignment explanation
Indices: 49797916--49797951 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
49797906 ATAGAATGAG
49797916 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
49797932 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
49797950 AA
1 AA
49797952 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:49803813 original size:62 final size:62
Alignment explanation
Indices: 49803716--49803843 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
49803706 AGTGAAACTC
49803716 TCATTCTTTCTTCTTATTGATACATATTGAACTTGTGATATGAAATTATTTGTTTATTCAAA
1 TCATTCTTTCTTCTTATTGATACATATTGAACTTGTGATATGAAATTATTTGTTTATTCAAA
49803778 TCATTCTTTCTTCTTATTGATACATATTGAACTTGTGATATGAAATTATTTGTTTATTCAAA
1 TCATTCTTTCTTCTTATTGATACATATTGAACTTGTGATATGAAATTATTTGTTTATTCAAA
49803840 TCAT
1 TCAT
49803844 AATATTAGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (62 bp):
TCATTCTTTCTTCTTATTGATACATATTGAACTTGTGATATGAAATTATTTGTTTATTCAAA
Found at i:49805249 original size:22 final size:21
Alignment explanation
Indices: 49805223--49805272 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
49805213 CATACGACCA
49805223 TGTGCCTCT-TTTCACAAAGGTG
1 TGTGCCT-TGTTT-ACAAAGGTG
*
49805245 TGTG-CTTGTTTACACAGGTG
1 TGTGCCTTGTTTACAAAGGTG
49805265 TGTGCCTT
1 TGTGCCTT
49805273 CTTCTCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 13 0.52
21 8 0.32
22 4 0.16
ACGTcount: A:0.14, C:0.20, G:0.26, T:0.40
Consensus pattern (21 bp):
TGTGCCTTGTTTACAAAGGTG
Found at i:49810918 original size:44 final size:43
Alignment explanation
Indices: 49810861--49810949 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 43
49810851 ATAGAGATGA
* *
49810861 GATCTATGATTTTAATCC-GCTCCACTGCAACTTCAGGGAGATAG
1 GATCTATGATTTTAA-CCTACTCCACTGCAAC-CCAGGGAGATAG
* * **
49810905 GATCTGTGGTTTTAACCTACTCCACTGCTGCCCAGGGAGATAG
1 GATCTATGATTTTAACCTACTCCACTGCAACCCAGGGAGATAG
49810948 GA
1 GA
49810950 CTGGCGGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 15 0.39
44 23 0.61
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (43 bp):
GATCTATGATTTTAACCTACTCCACTGCAACCCAGGGAGATAG
Found at i:49811061 original size:44 final size:44
Alignment explanation
Indices: 49811040--49811200 Score: 252
Period size: 44 Copynumber: 3.7 Consensus size: 44
49811030 AGACAGGATC
* * *
49811040 TACAATTTTCAACCTATTCCACTGTTGCCTAGGGAGATAGGACT
1 TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACT
*
49811084 TACAATCTTCAACCTATTCCACTGCTGTGC-AGGGAGATAAGACT
1 TACAATCTTCAACCTATTCCACTGCTGT-CTAGGGAGATAGGACT
* *
49811128 TACAATCTTCAACCCATTCCACTGCTGTCTAGGGAGATATGACT
1 TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACT
49811172 TACAATCTTCAACCTATTCCACTGCTGTC
1 TACAATCTTCAACCTATTCCACTGCTGTC
49811201 CACTGCTGTC
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
43 1 0.01
44 106 0.98
45 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACT
Found at i:49811204 original size:10 final size:10
Alignment explanation
Indices: 49811189--49811222 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
49811179 TTCAACCTAT
49811189 TCCACTGCTG
1 TCCACTGCTG
49811199 TCCACTGCTG
1 TCCACTGCTG
49811209 TCCACTGCTG
1 TCCACTGCTG
49811219 TCCA
1 TCCA
49811223 GGTCTCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.12, C:0.41, G:0.18, T:0.29
Consensus pattern (10 bp):
TCCACTGCTG
Found at i:49816573 original size:20 final size:20
Alignment explanation
Indices: 49816548--49816586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49816538 TCTAAAATTA
* *
49816548 TAAAAATTAAAAGAATATAC
1 TAAAAAATAAAAAAATATAC
49816568 TAAAAAATAAAAAAATATA
1 TAAAAAATAAAAAAATATA
49816587 TTAGATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
TAAAAAATAAAAAAATATAC
Found at i:49822217 original size:22 final size:22
Alignment explanation
Indices: 49822157--49822214 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
49822147 AATCTTCAAG
49822157 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
49822176 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
49822198 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
49822215 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:49822331 original size:15 final size:15
Alignment explanation
Indices: 49822311--49822343 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
49822301 AGGCCTCTCC
49822311 CTTCATTGTAAAACA
1 CTTCATTGTAAAACA
49822326 CTTCATTGTAAAACA
1 CTTCATTGTAAAACA
49822341 CTT
1 CTT
49822344 GAGTTTGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (15 bp):
CTTCATTGTAAAACA
Found at i:49823338 original size:59 final size:57
Alignment explanation
Indices: 49823267--49823425 Score: 162
Period size: 59 Copynumber: 2.7 Consensus size: 57
49823257 CAAAAAATAA
* * *
49823267 AAAATTACATTTTGACCCCTAAACTTTTTGAAATTGCATTTTGGTCCC-T-AAATTTTCCT
1 AAAATTACATTTTGACCCCTAAA-TTTTTAAAATTACATTTT-GACCCATCAAATTTT--T
* * * *
49823326 AAAATTATATTTTGACCTCTAATTTTTTTTAAAATTACATTTTGACCCATCAACTTTTT
1 AAAATTACATTTTGACCCCTAA--ATTTTTAAAATTACATTTTGACCCATCAAATTTTT
*
49823385 -AAATTACATTTTGACCCCTAAATTTTCTCAAATTACATTTT
1 AAAATTACATTTTGACCCCTAAATTTT-TAAAATTACATTTT
49823426 AGCCCCAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
56 4 0.05
57 13 0.15
58 19 0.23
59 25 0.30
60 17 0.20
61 6 0.07
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (57 bp):
AAAATTACATTTTGACCCCTAAATTTTTAAAATTACATTTTGACCCATCAAATTTTT
Found at i:49823384 original size:30 final size:28
Alignment explanation
Indices: 49823267--49823457 Score: 150
Period size: 29 Copynumber: 6.5 Consensus size: 28
49823257 CAAAAAATAA
*
49823267 AAAATTACATTTTGACCCCTAAACTTTTT
1 AAAATTACATTTTGA-CCCTAAATTTTTT
* * * *
49823296 GAAATTGCATTTTGGTCCCTAAATTTTCCT
1 AAAATTACATTTT-GACCCTAAATTTT-TT
* *
49823326 AAAATTATATTTTGACCTCTAATTTTTTTT
1 AAAATTACATTTTGACC-CTAA-ATTTTTT
* *
49823356 AAAATTACATTTTGACCCATCAACTTTTT
1 AAAATTACATTTTGACCC-TAAATTTTTT
*
49823385 -AAATTACATTTTGACCCCTAAATTTTCT
1 AAAATTACATTTTGA-CCCTAAATTTTTT
* * *
49823413 CAAATTACATTTTAGCCCCAAAAGTTTTGTT
1 AAAATTACATTTT-GACCCTAAA-TTTT-TT
* *
49823444 ACAATTGCATTTTG
1 AAAATTACATTTTG
49823458 GTCCTTCTGG
Statistics
Matches: 128, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
28 21 0.16
29 51 0.40
30 41 0.32
31 15 0.12
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTAAATTTTTT
Found at i:49823431 original size:29 final size:28
Alignment explanation
Indices: 49823267--49823425 Score: 158
Period size: 29 Copynumber: 5.5 Consensus size: 28
49823257 CAAAAAATAA
49823267 AAAATTACATTTTGACCCCTAAACTTTTT
1 AAAATTACATTTTGACCCCTAAA-TTTTT
* * **
49823296 GAAATTGCATTTTGGTCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAATTTT--T
* * *
49823326 AAAATTATATTTTGACCTCTAATTTTTTTT
1 AAAATTACATTTTGACCCCTAA--ATTTTT
* *
49823356 AAAATTACATTTTGACCCATCAACTTTTT
1 AAAATTACATTTTGACCCCT-AAATTTTT
49823385 -AAATTACATTTTGACCCCTAAATTTTCT
1 AAAATTACATTTTGACCCCTAAATTTT-T
*
49823413 CAAATTACATTTT
1 AAAATTACATTTT
49823426 AGCCCCAAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
27 6 0.06
28 23 0.22
29 36 0.34
30 35 0.33
31 2 0.02
32 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (28 bp):
AAAATTACATTTTGACCCCTAAATTTTT
Found at i:49823455 original size:88 final size:89
Alignment explanation
Indices: 49823267--49823457 Score: 226
Period size: 88 Copynumber: 2.2 Consensus size: 89
49823257 CAAAAAATAA
* * **
49823267 AAAATTACATTTTGACCCCTAAACTTTTTGAAATTGCATTTTGGTCCCTAAATTTTCCTAAAATT
1 AAAATTACATTTTGACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAATTTTCCTAAAATT
* * * * *
49823332 ATATTTTGACCTCTAATTTTTTTT
66 ACATTTTGACCCCAAAGTTTTGTT
* *
49823356 AAAATTACATTTTGACCCATCAACTTTTT-AAATTACATTTTGACCCCTAAATTTT-CTCAAATT
1 AAAATTACATTTTGACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAATTTTCCTAAAATT
49823419 ACATTTT-AGCCCCAAAAGTTTTGTT
66 ACATTTTGA-CCCC-AAAGTTTTGTT
* *
49823444 ACAATTGCATTTTG
1 AAAATTACATTTTG
49823458 GTCCTTCTGG
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 16 0.18
88 43 0.49
89 27 0.31
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (89 bp):
AAAATTACATTTTGACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAATTTTCCTAAAATT
ACATTTTGACCCCAAAGTTTTGTT
Found at i:49823758 original size:3 final size:3
Alignment explanation
Indices: 49823750--49823797 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
49823740 GCTAGATTAT
* *
49823750 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA AAA AAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
49823795 GAA
1 GAA
49823798 AAATAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:49824019 original size:17 final size:17
Alignment explanation
Indices: 49823991--49824101 Score: 61
Period size: 17 Copynumber: 6.4 Consensus size: 17
49823981 CCAGCCCAAC
* *
49823991 AGAAAGAAAAAAAGGGGA
1 AGAAA-AAAAAAAGAGAA
49824009 AGAAAAAAAAAAGAGAA
1 AGAAAAAAAAAAGAGAA
49824026 AGAAAAAAGAGAAA-A-AA
1 AGAAAAAA-A-AAAGAGAA
* *
49824043 AG-GAAAAAAAAGGGAA
1 AGAAAAAAAAAAGAGAA
*
49824059 A-AAAGGAAAAAAGA-AA
1 AGAAA-AAAAAAAGAGAA
*
49824075 ACAAAGCAAAAAAAGAAGAA
1 AGAAA--AAAAAAAG-AGAA
*
49824095 GGAAAAA
1 AGAAAAA
49824102 GCCCAAGTCG
Statistics
Matches: 72, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
14 3 0.04
15 1 0.01
16 11 0.15
17 32 0.44
18 16 0.22
19 4 0.06
20 5 0.07
ACGTcount: A:0.76, C:0.02, G:0.23, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAGAGAA
Found at i:49824040 original size:9 final size:9
Alignment explanation
Indices: 49824026--49824090 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
49824016 AAAAAGAGAA
49824026 AGAAAAAAG
1 AGAAAAAAG
49824035 AGAAAAAAAGG
1 AG-AAAAAA-G
*
49824046 AAAAAAAAG
1 AGAAAAAAG
*
49824055 GGAAAAAAG
1 AGAAAAAAG
49824064 -GAAAAAAG
1 AGAAAAAAG
49824072 A-AAACAAAG
1 AGAAA-AAAG
49824081 CA-AAAAAAG
1 -AGAAAAAAG
49824090 A
1 A
49824091 AGAAGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
8 12 0.25
9 18 0.38
10 16 0.33
11 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (9 bp):
AGAAAAAAG
Found at i:49824048 original size:18 final size:18
Alignment explanation
Indices: 49824027--49824091 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 18
49824017 AAAAGAGAAA
49824027 GAAAAAAGAGAAAAAAAG
1 GAAAAAAGAGAAAAAAAG
* *
49824045 GAAAAAAAAGGGAAAAAAG
1 GAAAAAAGA-GAAAAAAAG
*
49824064 GAAAAAAGA-AAACAAAG
1 GAAAAAAGAGAAAAAAAG
*
49824081 CAAAAAA-AGAA
1 GAAAAAAGAGAA
49824092 GAAGGAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 8 0.21
19 16 0.41
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
GAAAAAAGAGAAAAAAAG
Found at i:49824049 original size:35 final size:35
Alignment explanation
Indices: 49824010--49824094 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 35
49824000 AAAAGGGGAA
*
49824010 GAAAAAAAAAAGAGAAA-GAAAAAAGAGAAAAAAAG
1 GAAAAAAAAAAGAAAAAGGAAAAAAGA-AAAAAAAG
** *
49824045 GAAAAAAAAGGGAAAAAAGGAAAAAAGAAAACAAAG
1 GAAAAAAAAAAG-AAAAAGGAAAAAAGAAAAAAAAG
* *
49824081 CAAAAAAAGAAGAA
1 GAAAAAAAAAAGAA
49824095 GGAAAAAGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 12 0.30
36 19 0.47
37 9 0.22
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (35 bp):
GAAAAAAAAAAGAAAAAGGAAAAAAGAAAAAAAAG
Found at i:49824062 original size:13 final size:13
Alignment explanation
Indices: 49824009--49824043 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
49823999 AAAAAGGGGA
49824009 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
*
49824022 AGAAAGAAAAAAG
1 AGAAAAAAAAAAG
49824035 AGAAAAAAA
1 AGAAAAAAA
49824044 GGAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:49824099 original size:25 final size:26
Alignment explanation
Indices: 49824039--49824101 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
49824029 AAAAAGAGAA
* *
49824039 AAAAAGGAAAAAAAAGGGAAAAAAGG
1 AAAAAGGAAAAAAAAGGCAAAAAAAG
* *
49824065 AAAAAAGAAAACAAA-GCAAAAAAAG
1 AAAAAGGAAAAAAAAGGCAAAAAAAG
*
49824090 AAGAAGGAAAAA
1 AAAAAGGAAAAA
49824102 GCCCAAGTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (26 bp):
AAAAAGGAAAAAAAAGGCAAAAAAAG
Found at i:49824273 original size:33 final size:34
Alignment explanation
Indices: 49824222--49824286 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
49824212 TAATACTCTT
49824222 GTTTTTTTAAGCATTTTTTTATATTTCGTATTAG
1 GTTTTTTTAAGCATTTTTTTATATTTCGTATTAG
49824256 GTTTTTTTAAGCA-TTTTTTATATTTCGTATT
1 GTTTTTTTAAGCATTTTTTTATATTTCGTATT
49824287 TAATTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.20, C:0.06, G:0.11, T:0.63
Consensus pattern (34 bp):
GTTTTTTTAAGCATTTTTTTATATTTCGTATTAG
Found at i:49824622 original size:36 final size:36
Alignment explanation
Indices: 49824572--49824651 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
49824562 CGTGTTTTCA
49824572 TATTTTCAAAAAATT-TTCGTGTTTCAAAAATTTTTG
1 TATTTTCAAAAAATTCTT-GTGTTTCAAAAATTTTTG
* * * *
49824608 TATTTTTAATAAATTCTTGTGTTTTAAAACTTTTTCG
1 TATTTTCAAAAAATTCTTGTGTTTCAAAAATTTTT-G
*
49824645 TGTTTTC
1 TATTTTC
49824652 TTATTTTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 28 0.78
37 8 0.22
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (36 bp):
TATTTTCAAAAAATTCTTGTGTTTCAAAAATTTTTG
Found at i:49824650 original size:18 final size:17
Alignment explanation
Indices: 49824580--49824650 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
49824570 CATATTTTCA
* *
49824580 AAAAATTTTCGTGTTTC
1 AAAAATTTTTGTGTTTT
*
49824597 AAAAATTTTTGTATTTTT
1 AAAAATTTTTGT-GTTTT
*
49824615 AATAAATTCTTGTGTTTT
1 AA-AAATTTTTGTGTTTT
*
49824633 AAAACTTTTTCGTGTTTT
1 AAAAATTTTT-GTGTTTT
49824651 CTTATTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
17 17 0.39
18 18 0.41
19 9 0.20
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (17 bp):
AAAAATTTTTGTGTTTT
Found at i:49824660 original size:63 final size:63
Alignment explanation
Indices: 49824593--49824734 Score: 205
Period size: 63 Copynumber: 2.3 Consensus size: 63
49824583 AATTTTCGTG
* * * * * *
49824593 TTTCAAAAATTTTTGTATTTTTAATAAATTCTTGTGTTTTAAA-ACTTTTTCGTGTTTTCTTAT
1 TTTCAAAAATTTTCGTATTTTCAACAAATTCTCGTGTTTTAAACA-ATTTTCGTGTTATCTTAT
*
49824656 TTTCAAAAATGTTCGTATTTTCAACAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCTTAT
1 TTTCAAAAATTTTCGTATTTTCAACAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCTTAT
49824719 TTTCAAAAATTTTCGT
1 TTTCAAAAATTTTCGT
49824735 GTTTCAAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
63 69 0.99
64 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (63 bp):
TTTCAAAAATTTTCGTATTTTCAACAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCTTAT
Found at i:49824695 original size:19 final size:18
Alignment explanation
Indices: 49824655--49824711 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
49824645 TGTTTTCTTA
*
49824655 TTTTCAA-AAATGTTCGTA
1 TTTTCAACAAAT-TTCGTG
49824673 TTTTCAACAAATTCTCGTG
1 TTTTCAACAAATT-TCGTG
* *
49824692 TTTTAAACAATTTTCGTG
1 TTTTCAACAAATTTCGTG
49824710 TT
1 TT
49824712 ATCTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (18 bp):
TTTTCAACAAATTTCGTG
Found at i:49824711 original size:81 final size:82
Alignment explanation
Indices: 49824536--49824711 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 82
49824526 TAATTTATCA
* ** *
49824536 AAATTTTCATGTTTTAAATTTTTTTTCGTGTTTTCATATTTTCAAAAAATTTTCGTGTTTCAAAA
1 AAATTTTCGTGTTTTAAATACTTTTTCGTGTTTTCATATTTTCAAAAAATGTTCGTGTTTCAAAA
* * *
49824601 ATTTTTGTATTTTTAAT
66 ATTCTCGTAGTTTTAAT
* *
49824618 AAATTCTT-GTGTTTTAAA-ACTTTTTCGTGTTTTCTTATTTTC-AAAAATGTTCGTATTTTCAA
1 AAATT-TTCGTGTTTTAAATACTTTTTCGTGTTTTCATATTTTCAAAAAATGTTCGT-GTTTCAA
49824680 CAAATTCTCGT-GTTTTAA-
64 -AAATTCTCGTAGTTTTAAT
49824698 ACAATTTTCGTGTT
1 A-AATTTTCGTGTT
49824712 ATCTTATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
80 14 0.17
81 42 0.52
82 22 0.28
83 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (82 bp):
AAATTTTCGTGTTTTAAATACTTTTTCGTGTTTTCATATTTTCAAAAAATGTTCGTGTTTCAAAA
ATTCTCGTAGTTTTAAT
Found at i:49824737 original size:107 final size:108
Alignment explanation
Indices: 49824608--49824818 Score: 277
Period size: 107 Copynumber: 2.0 Consensus size: 108
49824598 AAAATTTTTG
* * * *
49824608 TATTTTTAATAAATTCTTGTGTTTTAAAACTTTTTCGTGTTTTCTTATTTTCAA-AAATGT-TCG
1 TATTTTCAATAAATTCTTGTGTTTCAAAA-TTTTTCATGTTTTCGTATTTTCAACAAAT-TCTCG
* *
49824671 TATTTTCAACAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCT
64 TATTTTAAAAAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCT
*
49824716 TATTTTCAA-AAATT-TTCGTGTTTCAAAATTTTTCATGTTTTCGTATTTTCAACAAATTCTCTT
1 TATTTTCAATAAATTCTT-GTGTTTCAAAATTTTTCATGTTTTCGTATTTTCAACAAATTCTCGT
* * *
49824779 GTTTTAAAAAAATTTTCGTGTTTTCAACAATTTTCGTGTT
65 ATTTTAAAAAAATTCTCGTGTTTTAAACAATTTTCGTGTT
49824819 TCAAAAATTT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
106 25 0.28
107 57 0.63
108 8 0.09
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (108 bp):
TATTTTCAATAAATTCTTGTGTTTCAAAATTTTTCATGTTTTCGTATTTTCAACAAATTCTCGTA
TTTTAAAAAAATTCTCGTGTTTTAAACAATTTTCGTGTTATCT
Found at i:49824741 original size:17 final size:17
Alignment explanation
Indices: 49824719--49824755 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49824709 GTTATCTTAT
*
49824719 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCATG
*
49824736 TTTCAAAATTTTTCATG
1 TTTCAAAAATTTTCATG
49824753 TTT
1 TTT
49824756 TCGTATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (17 bp):
TTTCAAAAATTTTCATG
Found at i:49824746 original size:26 final size:26
Alignment explanation
Indices: 49824692--49824747 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
49824682 AATTCTCGTG
**
49824692 TTTTAAACAATTTTCGTGTTATCTTA
1 TTTTAAACAATTTTCGTGTTATCAAA
49824718 TTTTCAAA-AATTTTCGTGTT-TCAAAA
1 TTTT-AAACAATTTTCGTGTTATC-AAA
49824744 TTTT
1 TTTT
49824748 TCATGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 2 0.08
26 21 0.81
27 3 0.12
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (26 bp):
TTTTAAACAATTTTCGTGTTATCAAA
Found at i:49824812 original size:18 final size:18
Alignment explanation
Indices: 49824753--49824898 Score: 129
Period size: 17 Copynumber: 8.0 Consensus size: 18
49824743 ATTTTTCATG
*
49824753 TTTTCGTATTTTCAACAAA
1 TTTTCGTGTTTTCAA-AAA
* * *
49824772 TTCTCTTGTTTTAAAAAAA
1 TTTTCGTGTTTT-CAAAAA
*
49824791 TTTTCGTGTTTTCAACAA
1 TTTTCGTGTTTTCAAAAA
49824809 TTTTCGTG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* *
49824826 TTTTCATGTTTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
* *
49824844 TTATCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
49824861 TTCTT-GTG-TTTCAAAAAAAA
1 TT-TTCGTGTTTTC---AAAAA
49824881 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
49824899 AATATTATTG
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
17 33 0.32
18 32 0.31
19 24 0.23
20 11 0.11
21 4 0.04
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:49824871 original size:35 final size:35
Alignment explanation
Indices: 49824753--49824871 Score: 116
Period size: 35 Copynumber: 3.3 Consensus size: 35
49824743 ATTTTTCATG
* * * *
49824753 TTTTCGTATTTTCAACAAATTCTCTTGTTTTAAAAAAA
1 TTTTCGTGTTTTCAAC-AATTATCGTG-TTT-CAAAAA
*
49824791 TTTTCGTGTTTTCAACAATTTTCGTGTTTCAAAAA
1 TTTTCGTGTTTTCAACAATTATCGTGTTTCAAAAA
* *
49824826 TTTTCATGTTTTCTAA-AATTATCGTGTTTCTAAAA
1 TTTTCGTGTTTTC-AACAATTATCGTGTTTCAAAAA
49824861 TTCTT-GTGTTT
1 TT-TTCGTGTTT
49824872 CAAAAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
35 41 0.58
36 7 0.10
37 8 0.11
38 15 0.21
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (35 bp):
TTTTCGTGTTTTCAACAATTATCGTGTTTCAAAAA
Found at i:49824911 original size:22 final size:19
Alignment explanation
Indices: 49824857--49824918 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 19
49824847 TCGTGTTTCT
49824857 AAAATTCTTGTGTTTCAAAA
1 AAAATT-TTGTGTTTCAAAA
49824877 AAAATTTTCGTGTTTTCAAAA
1 AAAATTTT-GTG-TTTCAAAA
49824898 AAATATTATTGTGTTTCAAAA
1 AAA-ATT-TTGTGTTTCAAAA
49824919 TTCTCACGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.05
20 9 0.24
21 19 0.50
22 6 0.16
23 2 0.05
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (19 bp):
AAAATTTTGTGTTTCAAAA
Found at i:49826013 original size:16 final size:16
Alignment explanation
Indices: 49825992--49826040 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
49825982 TTGTGTTTTG
*
49825992 TTTTGATTGCATGACA
1 TTTTGACTGCATGACA
**
49826008 TTTTGACTGCACAACA
1 TTTTGACTGCATGACA
49826024 TTTTGACTGCATGACA
1 TTTTGACTGCATGACA
49826040 T
1 T
49826041 GCTCATCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:49831375 original size:132 final size:132
Alignment explanation
Indices: 49831203--49831724 Score: 679
Period size: 132 Copynumber: 4.0 Consensus size: 132
49831193 CTGAGGTTAC
* *
49831203 AGTGGAGTAGGTTAAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGG
1 AGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * **
49831268 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCATATTTAAGCCATCAGTCCTATCTCTGTGAGTA
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGTA
49831333 GT
131 GT
* * * * * * * * *
49831335 AGTGTAATAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAATAGTAGAGCAGATAAAAAATGG
1 AGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * * *
49831400 AGAATCTTATTTTCCCAATGTAGTAGGGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTGAGTA
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGTA
*
49831465 GC
131 GT
* * * ** *
49831467 AGTGGGGTAGGTTAAAAATTATAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGG
1 AGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * * * * **
49831532 CGAATCTTATCTTCTCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAACA
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGTA
49831596 GT
131 GT
* *
49831598 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* * *
49831663 CGAGTCTTATCTTTCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTTATCTCCCTGA
66 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCTGA
49831725 AGTTGCAGCA
Statistics
Matches: 330, Mismatches: 58, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 114 0.35
132 216 0.65
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAGTA
GT
Found at i:49831688 original size:263 final size:264
Alignment explanation
Indices: 49831202--49831724 Score: 719
Period size: 263 Copynumber: 2.0 Consensus size: 264
49831192 TCTGAGGTTA
* *
49831202 CAGTGGAGTAGGTTAAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACG
1 CAGTGGAGTAGGTTAAAAATTATAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACG
* * * ** * **
49831267 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCATATTTAAGCCATCAGTCCTATCTCTGTGAGT
66 GCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAAC
*
49831332 AGTAGTGTAATAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAATAGTAGAGCAGATAAAAAA
131 AGTAGTGGAATAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAATAGTAGAGCAGATAAAAAA
* * *
49831397 TGGAGAATCTTATTTTCCCAATGTAGTAGGGAAGTAGATTTAAGCCACCAGTCC-TATCTCCCTG
196 CGGAGAATCTTATTTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTTATCTCCCTG
49831461 AGTAG
260 AGTAG
* * * ** *
49831466 CAGTGGGGTAGGTTAAAAATTATAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATG
1 CAGTGGAGTAGGTTAAAAATTATAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACG
* * *
49831531 GCGAATCTTATCTTCTCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAAC
66 GCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAAC
* * * * * *
49831595 AGTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
131 AGTAGTGGAATAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAATAGTAGAGCAGATAAAAAA
* * *
49831660 CGGCGAGTCTTATCTTT-CCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTG
196 CGGAGAATCTTAT-TTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTG
49831724 A
260 A
49831725 AGTTGCAGCA
Statistics
Matches: 225, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
262 2 0.01
263 140 0.62
264 83 0.37
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (264 bp):
CAGTGGAGTAGGTTAAAAATTATAGATCATGTCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACG
GCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAAC
AGTAGTGGAATAGGTTGAAGATTGTAAATCCTGTCTCCCTAAGCAATAGTAGAGCAGATAAAAAA
CGGAGAATCTTATTTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCCTGA
GTAG
Found at i:49831983 original size:44 final size:44
Alignment explanation
Indices: 49831889--49831988 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
49831879 TAAAGCCAAT
* * *
49831889 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAACCACA
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAAACACA
* * *
49831933 AATCTTATCTCCCTAAAGTTATAGTGGAGTGGATT-AAAGACACC
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAA-ACACA
*
49831977 AGTCTTATCTCC
1 AATCTTATCTCC
49831989 TTTGCATTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.06
44 45 0.94
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAGCGGATTGAAAACACA
Found at i:49832594 original size:44 final size:44
Alignment explanation
Indices: 49832368--49832791 Score: 237
Period size: 44 Copynumber: 9.7 Consensus size: 44
49832358 TTAAAGTTGT
* * *
49832368 AGAAAGCAAGTCTTATC-CCACTGAAGTTGCAGTGGGGCAGACTGA
1 AGAAATCAA-TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGA
*** * *
49832413 AGATGGCAAATCTTATC-CCTCTGAATTTGCAGTGGAGCAGATTAA
1 AGAAATC-AATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGA
* * **
49832458 AGCCAAT-AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT--
1 AG-AAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * * * ** * * *
49832500 A-AAATTAGGTATTATCTCCCTAAAGGTGCAACGAAGCAAACTGA
1 AGAAATCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* *
49832544 ATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
1 AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * * **
49832588 AGAAACCAAT-TCTATCTCCCTAAAGTTACAGTGGAGTGGATT-A
1 AGAAATCAATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
** * *
49832631 A-AATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCT--
1 AGAA--ATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TGA
* * * * *
49832675 ---CATCAGGTCTTATCTCCTTGAAGTTGCAGTGGAGCATACTGA
1 AGAAATCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
* * *
49832717 ATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA
1 AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
** * * *
49832761 AGTTATAAATCCTGTCTCCCTGAAGTTGCAG
1 AGAAATCAATCTTATCTCCCTGAAGTTGCAG
49832792 CAGAGCGGAT
Statistics
Matches: 284, Mismatches: 76, Indels: 39
0.71 0.19 0.10
Matches are distributed among these distances:
40 6 0.02
41 28 0.10
42 25 0.09
43 3 0.01
44 172 0.61
45 48 0.17
46 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AGAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
Found at i:49832732 original size:173 final size:173
Alignment explanation
Indices: 49832534--49832853 Score: 469
Period size: 173 Copynumber: 1.8 Consensus size: 173
49832524 GGTGCAACGA
* * *
49832534 AGCAAACTGAATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATT
1 AGCAAACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATC
** * * *
49832599 CTATCTCCCTAAAGTTACAGTGGAGTGGATTAAAATGATGGATCTTATCTCTCTGAAGTTGCAGT
66 CTATCTCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGT
*
49832664 AGAGCAGATCTCATCAGGTCTTATCTCCTTGAAGTTGCAGTGG
131 AGAGCAGATCGCATCAGGTCTTATCTCCTTGAAGTTGCAGTGG
* * ** *
49832707 AGCATACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTATAAATC
1 AGCAAACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATC
* * * *
49832772 CTGTCTCCCTGAAGTTGCAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCGGT
66 CTATCTCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGT
*
49832837 AGAGTAGATCGCATCAG
131 AGAGCAGATCGCATCAG
49832854 ACCTTATTTC
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
173 128 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (173 bp):
AGCAAACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATC
CTATCTCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGT
AGAGCAGATCGCATCAGGTCTTATCTCCTTGAAGTTGCAGTGG
Found at i:49832784 original size:129 final size:129
Alignment explanation
Indices: 49832553--49832797 Score: 321
Period size: 129 Copynumber: 1.9 Consensus size: 129
49832543 AATAAACCAA
* *
49832553 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATTCTATCTCCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAATTCTATCTCCCTAAAGTTACA
* ** * * *
49832618 GTGGAGTGGATTAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCTCATCAGG
66 GTGGAGTAGATTAAAATGATAAATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATCTCATCAGG
* * * * *
49832682 TCTTATCTCCTTGAAGTTGCAGTGGAGCATACTGAATAAAACAA-TCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAATTC-TATCTCCCTAAAGTTAC
* * * *
49832746 AGTGGAGTAGATTGAAGTTATAAATCCTGTCTCCCTGAAGTTGCAGCAGAGC
65 AGTGGAGTAGATTAAAATGATAAATCCTATCTCCCTGAAGTTGCAGCAGAGC
49832798 GGATTAAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
128 2 0.02
129 96 0.98
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAACAATTCTATCTCCCTAAAGTTACA
GTGGAGTAGATTAAAATGATAAATCCTATCTCCCTGAAGTTGCAGCAGAGCAGATCTCATCAGG
Found at i:49832907 original size:173 final size:173
Alignment explanation
Indices: 49832539--49832944 Score: 456
Period size: 173 Copynumber: 2.3 Consensus size: 173
49832529 AACGAAGCAA
* * *
49832539 ACTGAATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATTCTATC
1 ACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATCCTATC
** * * *
49832604 TCCCTAAAGTTACAGTGGAGTGGATTAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGC
66 TCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGTAGAGC
* ** * * * * * *
49832669 AGATCTCATCAGGTCTTATCTCCTTGAAGTTGCAGTGGAGCAT
131 AGATCGCATCAGACCTTATCTCCTAGAAATTACAATGAAACAT
* ** * *
49832712 ACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTATAAATCCTGTC
1 ACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATCCTATC
* * * *
49832777 TCCCTGAAGTTGCAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCGGTAGAGT
66 TCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGTAGAGC
*
49832842 AGATCGCATCAGACCTTATTTCCTAGAAATTACAATGAAACA-
131 AGATCGCATCAGACCTTATCTCCTAGAAATTACAATGAAACAT
* *** * * * *
49832884 AGTTGAA-GCTACAAGTTTTATCTCCTTGAAGTTACAGTGGAGCAGACTGAAGATAACAAAT
1 A-CTGAATAAAACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-AACAAAT
49832945 GTTCCCTCGA
Statistics
Matches: 191, Mismatches: 39, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
172 5 0.03
173 181 0.95
174 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (173 bp):
ACTGAATAAAACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAATCCTATC
TCCCTAAAGTTACAGCAGAGCGGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGTAGAGC
AGATCGCATCAGACCTTATCTCCTAGAAATTACAATGAAACAT
Found at i:49833374 original size:22 final size:23
Alignment explanation
Indices: 49833346--49833390 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49833336 ATGTAATCTT
49833346 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
49833368 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
49833391 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:49833393 original size:22 final size:21
Alignment explanation
Indices: 49833333--49833393 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
49833323 AATCTTCAAG
49833333 GATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
49833352 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
49833374 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
49833394 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:49834566 original size:16 final size:15
Alignment explanation
Indices: 49834515--49834575 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 15
49834505 TGAATCCTTA
*
49834515 ATTATATATATATAT
1 ATTATATATAAATAT
* *
49834530 ATTATA-ATAATTTT
1 ATTATATATAAATAT
*
49834544 ATAATATTATAAATAT
1 ATTATA-TATAAATAT
49834560 ATTATATCATAAATAT
1 ATTATAT-ATAAATAT
49834576 TCTTTCAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 10 0.28
15 7 0.19
16 19 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATATATAAATAT
Found at i:49836659 original size:12 final size:12
Alignment explanation
Indices: 49836642--49836666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49836632 TAATTTCATA
49836642 ATTGAATTGATG
1 ATTGAATTGATG
49836654 ATTGAATTGATG
1 ATTGAATTGATG
49836666 A
1 A
49836667 CGTAGTTGAA
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTGAATTGATG
Found at i:49837832 original size:17 final size:19
Alignment explanation
Indices: 49837812--49837853 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
49837802 GATCTTTTAC
*
49837812 ATATTTTTT-TTAT-AAAT
1 ATATTTTTTAATATAAAAT
49837829 ATATTTTTTAATATAAAAT
1 ATATTTTTTAATATAAAAT
49837848 ATATTT
1 ATATTT
49837854 GTTCACCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTTTTTAATATAAAAT
Found at i:49838368 original size:68 final size:68
Alignment explanation
Indices: 49838274--49838409 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
49838264 TTTCAATCAC
*
49838274 AATCTATTGCATTCAAGAGCATCACATCTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAA
49838339 CGG
66 CGG
* *
49838342 AATCTATTGCATTCAGGAGCACCACATCTTTTTGGATGAAACAAAGCTCTCAATTTTAAGATAAA
1 AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAA
49838407 CGG
66 CGG
49838410 GTCTTTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (68 bp):
AATCTATTGCATTCAAGAGCACCACATCTTTTTGGATGAAACAAACCTCTCAATTTTAAGATAAA
CGG
Found at i:49840297 original size:44 final size:44
Alignment explanation
Indices: 49840232--49840820 Score: 484
Period size: 44 Copynumber: 13.2 Consensus size: 44
49840222 GTTATCGTGG
* * *
49840232 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
** * * **
49840276 CAAATCTTATCTCCCTGAAGTTATAGTGGAGCAAATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49840320 GCAAATCTTATCTCTCTAAAATTGCAGTAGAGAAGATTAAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
49840365 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGATAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-A
* * *
49840410 CAAATCTTATTTCCCTTAAGTTGCAGTGGAGCAGATTAAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * ** * *
49840454 CAAATCCTATAC-CTCTGAAGTTATAGTAGG-TCAGATTAAATCAGGTTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATT-AA--A-GCTA
* * * * *
49840502 CAATTCTTATCTCCCTGAAGTTGCAGTGGACCAAATTGAAGATAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-A
* * * *
49840547 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * ** * *
49840591 TAAATCTTATCTCCCTGAAGTTACAGAAGAGCAGATTAAAACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49840635 CAAATCTTATCTCCCCGAAATTGCAGTGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * ** * *
49840679 CAAATCTCATCTCCCTGAAGTTGCAATGGAGTTGATTGAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * **
49840723 CAAGT-TTCATCGCCCTAAAGTTATAGTGGAGCAGATTAAAGCTA
1 CAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49840767 CAAGTCTAATCT-CCTCGAAGTTGCAGTGGAGTAGATTGAAGCAA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGCTA
49840811 CAAATCTTAT
1 CAAATCTTAT
49840821 ACCTTTGAAG
Statistics
Matches: 429, Mismatches: 102, Indels: 28
0.77 0.18 0.05
Matches are distributed among these distances:
43 4 0.01
44 281 0.66
45 112 0.26
47 5 0.01
48 27 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:49840832 original size:88 final size:88
Alignment explanation
Indices: 49840232--49840839 Score: 483
Period size: 89 Copynumber: 6.8 Consensus size: 88
49840222 GTTATCGTGG
* * *
49840232 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTATCTCCCTGAAGT
* * * *
49840297 TATAGTGGAGCAAATTGAATATA
66 TGTAGTGGAGCAGATTAAAGATA
* * * * * * * *
49840320 GCAAATCTTATCTCTCTAAAATTGCAGTAGAGAAGATTAAAGCTACAAACCTTATCTCCCTAAAG
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTATCTCCCTGAAG
* *
49840385 TTGCAGTGGAGCAGGTTAAAGATAA
65 TTGTAGTGGAGCAGATTAAAGAT-A
* * * * *
49840410 CAAATCTTATTTCCCTTAAGTTGCAGTGGAGCAGATTAAAGCGACAAATCCTATAC-CTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTAT-CTCCCTGAAG
* * *
49840474 TTATAGTAGG-TCAGATTAAATCAGGTTA
65 TTGTAGT-GGAGCAGATT-AA--A-GATA
* * * * * *
49840502 CAATTCTTATCTCCCTGAAGTTGCAGTGGACCAAATTGAAGATAACAAATCTTATCTCTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACAAATCTTATCTCCCTGAAG
* * *
49840567 TTGCAGTAGAGCAGATTAAA-ACCA
65 TTGTAGTGGAGCAGATTAAAGA-TA
* * ** * * * *
49840591 TAAATCTTATCTCCCTGAAGTTACAGAAGAGCAGATTAAAACCACAAATCTTATCTCCCCGAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTATCTCCCTGAAGT
* * * *
49840656 TGCAGTGGAGTAGATTGAAGTTA
66 TGTAGTGGAGCAGATTAAAGATA
* * ** * * * *
49840679 CAAATCTCATCTCCCTGAAGTTGCAATGGAGTTGATTGAAG-ATACAAGT-TTCATCGCCCTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-ACAAATCTT-ATCTCCCTGAA
* *
49840742 GTTATAGTGGAGCAGATTAAAGCTA
64 GTTGTAGTGGAGCAGATTAAAGATA
* * * * **
49840767 CAAGTCTAATCT-CCTCGAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTATAC-CTTTGAA
1 CAAATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTAT-CTCCCTGAA
49840830 GTTGTAGTGG
64 GTTGTAGTGG
49840840 GTTAGAATGA
Statistics
Matches: 408, Mismatches: 93, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
87 5 0.01
88 152 0.37
89 172 0.42
90 7 0.02
92 41 0.10
93 31 0.08
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (88 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACAAATCTTATCTCCCTGAAGT
TGTAGTGGAGCAGATTAAAGATA
Found at i:49842510 original size:18 final size:18
Alignment explanation
Indices: 49842469--49842513 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
49842459 ATTTTTTTAT
49842469 TTATTA-TTTATTATTTC
1 TTATTATTTTATTATTTC
**
49842486 TCGTTATTTTATTATTTC
1 TTATTATTTTATTATTTC
49842504 TTATTATTTT
1 TTATTATTTT
49842514 GGATATCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTATTTTATTATTTC
Found at i:49842628 original size:6 final size:6
Alignment explanation
Indices: 49842617--49842643 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49842607 GATATGATTG
49842617 TTAATA TTAATA TTAATA TTAATA TTA
1 TTAATA TTAATA TTAATA TTAATA TTA
49842644 TTATAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:49843725 original size:3 final size:3
Alignment explanation
Indices: 49843719--49843756 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
49843709 TTGTTTGTTG
* *
49843719 TTA TTA TTA TTA TGA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49843757 TCTATGATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:49843766 original size:15 final size:15
Alignment explanation
Indices: 49843719--49843767 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
49843709 TTGTTTGTTG
49843719 TTATTATTATTATGA
1 TTATTATTATTATGA
* *
49843734 CTATTATTATTATTA
1 TTATTATTATTATGA
49843749 TTATTATT-TCTATGA
1 TTATTATTAT-TATGA
49843764 TTAT
1 TTAT
49843768 AATATTATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 1 0.03
15 28 0.97
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATGA
Found at i:49844057 original size:2 final size:2
Alignment explanation
Indices: 49844050--49844085 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49844040 TAGACTATTT
49844050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49844086 CACTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49847264 original size:8 final size:8
Alignment explanation
Indices: 49847251--49847295 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
49847241 TTTGGGAAGT
49847251 TTTTTTTA
1 TTTTTTTA
49847259 TTTTTTTA
1 TTTTTTTA
49847267 TTTTTTTA
1 TTTTTTTA
*
49847275 TTTTATTA
1 TTTTTTTA
49847283 TTTTTTTA
1 TTTTTTTA
49847291 TTTTT
1 TTTTT
49847296 AAATACGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:49847685 original size:3 final size:3
Alignment explanation
Indices: 49847677--49847701 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
49847667 AGCAAATTAG
49847677 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
49847702 GTTGCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:49847798 original size:2 final size:2
Alignment explanation
Indices: 49847791--49847820 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49847781 ATAGCTTATC
*
49847791 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49847821 CATACATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49851693 original size:107 final size:107
Alignment explanation
Indices: 49851438--49851895 Score: 724
Period size: 107 Copynumber: 4.3 Consensus size: 107
49851428 AAGATATTAG
* * * *
49851438 GCTATTTGGTTC-AACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTTGAATTTTCAAA
1 GCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAA
* * *
49851502 TGCAAAATATCGCTTTATTTTGAAA-TTTAAAAGAATATTTTA
65 TGCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
* *
49851544 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCAAATTTTCTCAAATTTCCAAAT
1 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAAT
49851609 GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
66 GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
* * * *
49851651 GCTATTTGGTCGAATGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCTAAAC
1 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAAT
* *
49851716 GCAAAATATTGCCTTACTTTGAATTTTTAAAAGGATATTTTA
66 GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
49851758 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAAT
1 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAAT
*
49851823 GTAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
66 GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
*
49851865 GCTATTTGGTCAAAC-AAGAAATCGAAACCCA
1 GCTATTTGGTCGAACGAA-AAATCGAAACCCA
49851896 ATAAGTTAGG
Statistics
Matches: 324, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.01
106 80 0.25
107 242 0.75
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (107 bp):
GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACATTTTCTCGAATTTCCAAAT
GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTA
Found at i:49852239 original size:18 final size:19
Alignment explanation
Indices: 49852211--49852258 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
49852201 TATGTATATG
* * *
49852211 TATATATGTATATTAAAAT
1 TATATAAGTATATAAAAAA
49852230 TATA-AAGTATATAAAAAA
1 TATATAAGTATATAAAAAA
49852248 TATATAAGTAT
1 TATATAAGTAT
49852259 GTCTATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAGTATATAAAAAA
Found at i:49852492 original size:3 final size:3
Alignment explanation
Indices: 49852484--49852516 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49852474 AAAAACAGTT
49852484 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49852517 CAGACCCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49854377 original size:44 final size:44
Alignment explanation
Indices: 49854054--49854644 Score: 325
Period size: 44 Copynumber: 13.8 Consensus size: 44
49854044 TGATTCATCA
* * * * *
49854054 TTTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGAT-TAGTAG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGG
* * * * *
49854098 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-CTCGCT-A
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGG
* *
49854142 TCTTCAGTCTGC-CCAACTGCAACTTCA-GGAGGATAAGA-C--TGG
1 T-TTTAATCTGCTCC-ACTGCAACTTCAGGGA-GATAAGATCTGTGG
* * * * * *
49854184 ATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTGG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * * *
49854228 TTTTAAT-TCGCTCCACTACAACTTTAGGGAGATAGGAT-TCGT-T
1 TTTTAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGG
*** *
49854271 TCTTTTGCCTGCTCCGCTGCAACTTCAGGGAGATAAGA-C--TGG
1 T-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
*** * * *
49854313 TTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * * *
49854357 TTTTAATCTACTCCATTGCAACTTCAGGGAGATAGGAT-TAGT-T
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTGG
** ** * **
49854400 TCTTTTGTCAACTCCACTACTGCTT-AGGGAGATAAGA--T-TGG
1 T-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * * * * * *
49854441 ATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTGG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * *
49854485 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GC
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* *
49854527 TTCT-GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * * * * *
49854567 ATGTGATCTGCACTACTGCAACTTCAGAGAGATAAGATCTGTGG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * *
49854611 TTTTAATCCGCTCCACTACAACTTTAGGGAGATA
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
49854645 GGATTCACCG
Statistics
Matches: 409, Mismatches: 105, Indels: 66
0.71 0.18 0.11
Matches are distributed among these distances:
40 18 0.04
41 121 0.30
42 12 0.03
43 18 0.04
44 209 0.51
45 31 0.08
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
Found at i:49854642 original size:254 final size:256
Alignment explanation
Indices: 49854173--49854649 Score: 742
Period size: 254 Copynumber: 1.9 Consensus size: 256
49854163 ACTTCAGGAG
*
49854173 GATAAGACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTGGTTTTAATTCG
1 GATAAGACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTGGTTTTAATCCG
* * * *
49854238 CTCCACTACAACTTTAGGGAGATAGGATTCGTTTCTTTTGCCTGCTCCGCTGCAACTTCAGGGAG
66 CTCCACTACAACTTCAGGGAGATAGGATTCG-TGCTTCTGCCTGCTCCACTGCAACTTCAGGGAG
* * *
49854303 ATAAGACTGGTTGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTAC
130 ATAAGACTGGATGCGATCTACACTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCAC
* *
49854368 TCCATTGCAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCAACTCCACTACTGCTTAGGGA
195 TCCACTACAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCAACTCCACTACTGCTTAGGGA
* * * **
49854430 GATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTGGTTTTAATCCG
1 GATAAGACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTGGTTTTAATCCG
* *
49854495 CTCCACTGCAACTTCAGGGAGATAGGATT-G-GCTTCTGTCTGCTCCACTGCAACTTCAGGGAGA
66 CTCCACTACAACTTCAGGGAGATAGGATTCGTGCTTCTGCCTGCTCCACTGCAACTTCAGGGAGA
* * *
49854558 TAAGACTGGATGTGATCTGCACTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCT
131 TAAGACTGGATGCGATCTACACTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACT
*
49854623 CCACTACAACTTTAGGGAGATAGGATT
196 CCACTACAACTTCAGGGAGATAGGATT
49854650 CACCGTCTTT
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
254 112 0.56
256 1 0.01
257 86 0.43
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (256 bp):
GATAAGACTGGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCGGTGGTTTTAATCCG
CTCCACTACAACTTCAGGGAGATAGGATTCGTGCTTCTGCCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTGGATGCGATCTACACTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACT
CCACTACAACTTCAGGGAGATAGGATTAGTTTCTTTTGTCAACTCCACTACTGCTTAGGGA
Found at i:49854743 original size:50 final size:50
Alignment explanation
Indices: 49854667--49855262 Score: 385
Period size: 50 Copynumber: 11.9 Consensus size: 50
49854657 TTTAGTTTAA
* * * * * * *
49854667 TTAACTGCAATGTTGGGGAAGTAAGATTCACCGTCGTGGCTTTAATCTTT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* ** *
49854717 TTAATTGTAATTTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* * * *
49854767 TTAATTGCAACGTCGGGGAAACAAGATTCGCCATTGTAGCTTCAATCTGT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
** * ** * * *
49854817 TCCACTGCAACACCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* * * *
49854867 TTAATTGCAACGTCGGGGAAACAAGATTCGCCATTGTAGCTTCAATCTGT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
** * ** * * * **
49854917 TCCACTGCAACACCAGGGAAGTAAGATTCTCCGTTGCGGCTTCAATCTTT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* * * * *
49854967 TTTATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTTAATCTGT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
** * * * * * ** *
49855017 TCCACTGCACCG-CTTGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTAT
1 TTAATTGCAACGTC-GGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
** ** * * * * * * *
49855067 TCCACCG-TACCTCTAGGAAAGTAAGATTCGCCGTTGCAGCTTCAATCTTT
1 TTAATTGCAACGTC-GGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* * * ** * * * *
49855117 TAAATTGCAATG-CTGGGGAATCAAGATTCGTCATCGTAGCTTTAATCTACT
1 TTAATTGCAACGTC-GGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT-TT
* * * *
49855168 CT-ATTGCACCAC-T-AGGGAAGTAAGATTCACCGTTGTAGCTTTAATCTTT
1 TTAATTGCA--ACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
* * *
49855217 TTAATTACAATGTCGGGGAAACAAGATTCACCGTTGTAGCTTCAAT
1 TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAAT
49855263 TTGTTCCACT
Statistics
Matches: 414, Mismatches: 122, Indels: 20
0.74 0.22 0.04
Matches are distributed among these distances:
48 1 0.00
49 5 0.01
50 405 0.98
51 2 0.00
52 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
TTAATTGCAACGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTT
Found at i:49855114 original size:100 final size:100
Alignment explanation
Indices: 49854732--49855064 Score: 522
Period size: 100 Copynumber: 3.3 Consensus size: 100
49854722 TGTAATTTCG
* * **
49854732 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
49854797 CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
66 CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
*
49854832 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
49854897 CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
66 CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
* * * *
49854932 GGGAAGTAAGATTCTCCGTTGCGGCTTCAATCTTTTTTATTGCAATGTCGGGGAAACAAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
* * * * **
49854997 CCGTTGTAGCTTTAATCTGTTCCACTGCACCGCTT
66 CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
*
49855032 GGAAAGTAAGATTCACCGTTGCGGCTTCAATCT
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCT
49855065 ATTCCACCGT
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 217 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (100 bp):
GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAACGTCGGGGAAACAAGATTCG
CCATTGTAGCTTCAATCTGTTCCACTGCAACACCA
Found at i:49855309 original size:100 final size:99
Alignment explanation
Indices: 49854682--49855366 Score: 337
Period size: 100 Copynumber: 6.9 Consensus size: 99
49854672 TGCAATGTTG
* * * * * * *
49854682 GGGAAGTAAGATTCACCGTCGTGGCTTTAATCTTTTTAATTGTAATTTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
* ** * *
49854747 CCGTTGTAGCTTCAATCTTTTTAATTGCAACGTC-G
66 CCGTTGTAGCTTCAATCTATTCCACTGC-AC-TCTA
** * * * ** * *** * **
49854782 GGGAAACAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
* * ** * *
49854847 CCGTTGTGGCTTCAATCTTTTTAATTGCAACGTC-G
66 CCGTTGTAGCTTCAATCTATTCCACTGC-AC-TCTA
** * * * ** * *** * ** *
49854882 GGGAAACAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
** * ** * * * *
49854947 CCGTTGCGGCTTCAATCTTTTTTATTGCAATGTCG
66 CCGTTGTAGCTTCAATCTATTCCACTGCACTCT-A
** * * ** * ** ** *
49854982 GGGAAACAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGCACCG-CTTGGAAAGTAAGATTC
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAA-CAAGATTC
** * *
49855046 ACCGTTGCGGCTTCAATCTATTCCACCGTACCTCTA
65 ACCGTTGTAGCTTCAATCTATTCCACTGCA-CTCTA
* * * * *
49855082 GGAAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTAAATTGCAATG-CTGGGGAATCAAGATTC
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTC-GGGGAAACAAGATTC
** * * * * * * *
49855146 GTCATCGTAGCTTTAATCTACTCTATTGCACCACTA
65 ACCGTTGTAGCTTCAATCTATTCCACTGCA-CTCTA
* *
49855182 GGGAAGTAAGATTCACCGTTGTAGCTTTAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
* *
49855247 CCGTTGTAGCTTCAATTTGTTCCACTGCACTGCTA
66 CCGTTGTAGCTTCAATCTATTCCACTGCACT-CTA
* * * * *
49855282 GGGAAGTAAGATTCGCCGTTATGGCTTTAA------TATTTGCAATGTCGAGGAAACAAGATTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
* *
49855341 TCGTTGTAGCTTCAATCTGTTCCACT
66 CCGTTGTAGCTTCAATCTATTCCACT
49855367 ACAATGCCAA
Statistics
Matches: 480, Mismatches: 98, Indels: 20
0.80 0.16 0.03
Matches are distributed among these distances:
94 49 0.10
98 1 0.00
99 7 0.01
100 416 0.87
101 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCA
CCGTTGTAGCTTCAATCTATTCCACTGCACTCTA
Found at i:49856068 original size:46 final size:45
Alignment explanation
Indices: 49855967--49856068 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
49855957 GCAAAGCTTG
* *
49855967 AAATGAATGAATCAATCAAGATAACAAATTTTGCTAGAATACAAA
1 AAATGAATAAATCAATCAAGATAACAAATTTTGCTAAAATACAAA
* * * ** *
49856012 ATGA-GAATAAATTAATCAAGATAGCGTATTTTGTTAAAAATACAAA
1 A-AATGAATAAATCAATCAAGATAACAAATTTTGCT-AAAATACAAA
49856058 AAATGAATAAA
1 AAATGAATAAA
49856069 ATGGAAATAG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
45 27 0.60
46 18 0.40
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (45 bp):
AAATGAATAAATCAATCAAGATAACAAATTTTGCTAAAATACAAA
Done.