Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 166 of 213
Found at i:49764920 original size:16 final size:16
Alignment explanation
Indices: 49764899--49764936 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49764889 TTGAATTACT
*
49764899 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
49764915 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTCC
49764931 ATTACA
1 ATTACA
49764937 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:49768866 original size:25 final size:25
Alignment explanation
Indices: 49768829--49768896 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
49768819 TAAACCCATT
49768829 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
49768854 TTTACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
49768879 TTCACAACTTGTGTGAGC
1 TTCACAGCTCGTGTGAGC
49768897 TATCCCGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:49769511 original size:20 final size:19
Alignment explanation
Indices: 49769488--49769530 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
49769478 TAAAGAAAGT
49769488 AAATGC-AATAGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
49769508 AAATGCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
49769527 AAAT
1 AAAT
49769531 TTTGGAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.58, C:0.05, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:49770443 original size:29 final size:29
Alignment explanation
Indices: 49770401--49770457 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
49770391 TATGATGCTA
49770401 AATGTTAAATTGTAAATTAAGTACATATG
1 AATGTTAAATTGTAAATTAAGTACATATG
49770430 AATGTTAAATTGTAAATTAAGTACATAT
1 AATGTTAAATTGTAAATTAAGTACATAT
49770458 AAGTGTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (29 bp):
AATGTTAAATTGTAAATTAAGTACATATG
Found at i:49770848 original size:42 final size:42
Alignment explanation
Indices: 49770785--49770884 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
49770775 ACGGCCTAAC
*
49770785 ACACGGCCTGGCACACGGGCGTGTGACGCTATTTCGAAGGGT
1 ACACGGCCTGGCACACAGGCGTGTGACGCTATTTCGAAGGGT
*
49770827 ACACGGCCTGGCACACAGGCGTGTGAGGCTATTTCGAAGGGT
1 ACACGGCCTGGCACACAGGCGTGTGACGCTATTTCGAAGGGT
* *
49770869 ACACGACCTGGAACAC
1 ACACGGCCTGGCACAC
49770885 GGGTGTATGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (42 bp):
ACACGGCCTGGCACACAGGCGTGTGACGCTATTTCGAAGGGT
Found at i:49782680 original size:23 final size:23
Alignment explanation
Indices: 49782632--49782680 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
49782622 ATTTCATCAA
* *
49782632 TAAAATAAATATAATTATAAATT
1 TAAAATAAATATAATTAAAAAGT
* *
49782655 TAAAATTAATATATTTAAAAAGT
1 TAAAATAAATATAATTAAAAAGT
49782678 TAA
1 TAA
49782681 CCTAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAATAAATATAATTAAAAAGT
Found at i:49791892 original size:13 final size:13
Alignment explanation
Indices: 49791874--49791920 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
49791864 AACTTGCGAG
49791874 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
* * *
49791887 ATCGAAACAGAGAG
1 ATCGAAA-GGAAAA
49791901 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
49791914 ATCGAAA
1 ATCGAAA
49791921 CAGAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.09
Consensus pattern (13 bp):
ATCGAAAGGAAAA
Found at i:49791906 original size:14 final size:14
Alignment explanation
Indices: 49791885--49791926 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
49791875 TCGAAAGGAA
49791885 AAATCGAAACAGAG
1 AAATCGAAACAGAG
* * *
49791899 AGATCGAAA-GGAA
1 AAATCGAAACAGAG
49791912 AAATCGAAACAGAG
1 AAATCGAAACAGAG
49791926 A
1 A
49791927 TTAGAATGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.57, C:0.12, G:0.24, T:0.07
Consensus pattern (14 bp):
AAATCGAAACAGAG
Found at i:49791907 original size:27 final size:27
Alignment explanation
Indices: 49791871--49791926 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49791861 TACAACTTGC
49791871 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
49791898 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
49791925 GA
1 GA
49791927 TTAGAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.55, C:0.11, G:0.27, T:0.07
Consensus pattern (27 bp):
GAGATCGAAAGGAAAAATCGAAACAGA
Found at i:49795060 original size:50 final size:50
Alignment explanation
Indices: 49794965--49795094 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
49794955 CATCATCACA
* * *
49794965 ACATTCCCCTATTGAAGTCGTGACATCAAGCTATTGGCTCCATGGTTATG
1 ACATTCCCCTACTGAAGTCGTGACATCAAGCTACTGGCTCCATGGTTACG
* * * * *
49795015 GCATTCCTCTACTGAAGTTGTGACATCAAGTTACT-GCTTCTATGGTTACG
1 ACATTCCCCTACTGAAGTCGTGACATCAAGCTACTGGC-TCCATGGTTACG
* * * *
49795065 ACATTCCCTTAGTAAAGTCGTGACACCAAG
1 ACATTCCCCTACTGAAGTCGTGACATCAAG
49795095 ATTTGATTGT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
49 2 0.03
50 62 0.97
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (50 bp):
ACATTCCCCTACTGAAGTCGTGACATCAAGCTACTGGCTCCATGGTTACG
Found at i:49796091 original size:31 final size:31
Alignment explanation
Indices: 49796063--49796127 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
49796053 TTACATTTTG
49796063 GTCACTAAACTATTAAAAAATTTTCATTTAA
1 GTCACTAAACTATTAAAAAATTTTCATTTAA
* * * * *
49796094 GTCACTGAACTATTCAAAAGTTTTTACTTAA
1 GTCACTAAACTATTAAAAAATTTTCATTTAA
49796125 GTC
1 GTC
49796128 CTTGGGCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (31 bp):
GTCACTAAACTATTAAAAAATTTTCATTTAA
Found at i:49808265 original size:18 final size:18
Alignment explanation
Indices: 49808222--49808265 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
49808212 ACTCAATCCA
*
49808222 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
49808240 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
49808258 AACCCAAT
1 AACCCAAT
49808266 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:49808428 original size:9 final size:9
Alignment explanation
Indices: 49808411--49808486 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
49808401 GTAGTGATTC
49808411 AATTCGGTT
1 AATTCGGTT
*
49808420 AATTTGGTT
1 AATTCGGTT
49808429 AATTCAGG-T
1 AATTC-GGTT
49808438 AATTCGGTT
1 AATTCGGTT
* *
49808447 AATACAGTT
1 AATTCGGTT
49808456 AATTCGAG-T
1 AATTCG-GTT
*
49808465 AATTCAGTT
1 AATTCGGTT
49808474 AATTCGGTT
1 AATTCGGTT
49808483 AATT
1 AATT
49808487 TTTAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49808440 original size:18 final size:18
Alignment explanation
Indices: 49808411--49808486 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
49808401 GTAGTGATTC
* *
49808411 AATTCGGTTAATTTGGTT
1 AATTCAGTTAATTCGGTT
*
49808429 AATTCAGGTAATTCGGTT
1 AATTCAGTTAATTCGGTT
*
49808447 AATACAGTTAATTCGAG-T
1 AATTCAGTTAATTCG-GTT
49808465 AATTCAGTTAATTCGGTT
1 AATTCAGTTAATTCGGTT
49808483 AATT
1 AATT
49808487 TTTAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (18 bp):
AATTCAGTTAATTCGGTT
Found at i:49808443 original size:27 final size:27
Alignment explanation
Indices: 49808411--49808486 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
49808401 GTAGTGATTC
*
49808411 AATTCGGTTAATTTGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGTTAATTCGA-GT
* *
49808438 AATTCGGTTAATACAGTTAATTCGAGT
1 AATTCGGTTAATTCGGTTAATTCGAGT
*
49808465 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
49808487 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGAGT
Found at i:49808607 original size:27 final size:28
Alignment explanation
Indices: 49808549--49808607 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
49808539 GAATTAACCG
* *** *
49808549 AAAAAATTTTGGTTCGGTTAATTTTTTG
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
49808577 AAAAAATTTCGGTTCGGTTAA-CGGTTA
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
49808604 AAAA
1 AAAA
49808608 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGGTTA
Found at i:49816711 original size:5 final size:6
Alignment explanation
Indices: 49816695--49816721 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49816685 ATGGAAAGAA
49816695 AGGGGG AGGGGG AGGGGG AGGGGG AGG
1 AGGGGG AGGGGG AGGGGG AGGGGG AGG
49816722 AGAAGGAGGA
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:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (6 bp):
AGGGGG
Found at i:49819805 original size:16 final size:15
Alignment explanation
Indices: 49819780--49819822 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
49819770 TGTTTGATAA
49819780 ACTGAAAAATTAAGT
1 ACTGAAAAATTAAGT
** *
49819795 GTTGAAAAAATAAGT
1 ACTGAAAAATTAAGT
49819810 ACTGAAAAATTAA
1 ACTGAAAAATTAA
49819823 TTGTCGAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (15 bp):
ACTGAAAAATTAAGT
Found at i:49824621 original size:6 final size:6
Alignment explanation
Indices: 49824610--49824635 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49824600 AAGACGATCC
49824610 AACTGA AACTGA AACTGA AACTGA AA
1 AACTGA AACTGA AACTGA AACTGA AA
49824636 TTGGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AACTGA
Found at i:49826805 original size:28 final size:28
Alignment explanation
Indices: 49826774--49826827 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
49826764 ATTTTGGACT
*
49826774 AAATTGAGAA-AAATGATAAATCGTGGTA
1 AAATTGAGAATAAATGAAAAAT-GTGGTA
*
49826802 AAATTGTGAATAAATGAAAAATGTGG
1 AAATTGAGAATAAATGAAAAATGTGG
49826828 GCTGTTATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.22, T:0.26
Consensus pattern (28 bp):
AAATTGAGAATAAATGAAAAATGTGGTA
Found at i:49827974 original size:40 final size:40
Alignment explanation
Indices: 49827928--49828191 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
49827918 GCTCCTCGTT
* *
49827928 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
49827968 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
**
49828008 CAAATGCCTTCGGGACTTAATCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
49828048 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
49828088 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
49828127 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
49828168 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49828192 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 144 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49829928 original size:43 final size:43
Alignment explanation
Indices: 49829831--49829992 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
49829821 GGGTTACCGA
* * *
49829831 GATTACGTGTAAGACCATATCTGGGATA-TGGCATCAATATGA
1 GATTACGTGTAAGACCATATCTGGGACATTGGCATCGATATGT
* *
49829873 GACTT-CGTGTAAGACCATGTCTGGGACATTGGTATCGATATGT
1 GA-TTACGTGTAAGACCATATCTGGGACATTGGCATCGATATGT
* ** * *
49829916 GATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATTGATACGAT
1 GATTACGTGTAAGACCATATCTGGGAC-ATTGGCATCGATATG-T
* *
49829960 -ATTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATATCTGGGACATTGGCAT
49829993 TGTTACGGTA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 32 0.32
43 67 0.67
44 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATATCTGGGACATTGGCATCGATATGT
Found at i:49836907 original size:43 final size:42
Alignment explanation
Indices: 49836757--49836923 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
49836747 TTAGGGTTAC
49836757 CGAGATTACGTGTAAGACCATATCTGGGATATGGC--T-AT-
1 CGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
* * * *
49836795 -GAGACTT-CGTGTAAGACCATGTCTGGGACATTGGTATCGATA
1 CGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATA
* * * ** *
49836837 TGTGATTTCGTGTAAGACCATGGCTGGGCTATTGGCATTGATA
1 CGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATTGATA
* *
49836880 CGAGATTACATGTAAGACCATATCTGGGATATGGCATTGTTA
1 CGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
49836922 CG
1 CG
49836924 GTACTATGTG
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
37 25 0.24
38 5 0.05
41 2 0.02
42 14 0.14
43 57 0.55
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (42 bp):
CGAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATA
Found at i:49837775 original size:25 final size:21
Alignment explanation
Indices: 49837728--49837768 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49837718 TAATGTGATC
*
49837728 ATTTTCAATAGAAACAAACAT
1 ATTTTCAAGAGAAACAAACAT
49837749 ATTTTCAAGAGAAACAAACA
1 ATTTTCAAGAGAAACAAACA
49837769 AGAATATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (21 bp):
ATTTTCAAGAGAAACAAACAT
Found at i:49842358 original size:13 final size:13
Alignment explanation
Indices: 49842340--49842364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49842330 TATTTTAATA
49842340 TTATTTTGTGTGT
1 TTATTTTGTGTGT
49842353 TTATTTTGTGTG
1 TTATTTTGTGTG
49842365 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:49843521 original size:41 final size:41
Alignment explanation
Indices: 49843476--49843577 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
49843466 GCTTAGCGCT
*
49843476 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
49843517 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
49843558 TAGCAGG-TTAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
49843578 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 4 0.07
41 52 0.93
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:49860555 original size:41 final size:41
Alignment explanation
Indices: 49860510--49860611 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
49860500 GGCTAGCGCT
*
49860510 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
49860551 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
49860592 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
49860612 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:49861807 original size:28 final size:28
Alignment explanation
Indices: 49861776--49861922 Score: 165
Period size: 28 Copynumber: 5.2 Consensus size: 28
49861766 GAATATTTTC
*
49861776 GTGGCAATATATAAAAAGAAATGCCTTT
1 GTGGCAATATATAAAATGAAATGCCTTT
*
49861804 GTGGCAAAATATTAAAATG-AATGCCTTT
1 GTGGCAATATA-TAAAATGAAATGCCTTT
* * *
49861832 GTGGAAAAATATGAAAATG-AATGCCTTC
1 GTGGCAATATAT-AAAATGAAATGCCTTT
* *
49861860 ATGGCAATATATAAAA-AAGAATGCCTTT
1 GTGGCAATATATAAAATGA-AATGCCTTT
* *
49861888 GTGGCAATATATGAATTGAAATGCCTTT
1 GTGGCAATATATAAAATGAAATGCCTTT
49861916 GTGGCAA
1 GTGGCAA
49861923 ACTCTGAAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
27 5 0.05
28 89 0.88
29 7 0.07
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (28 bp):
GTGGCAATATATAAAATGAAATGCCTTT
Found at i:49861911 original size:56 final size:56
Alignment explanation
Indices: 49861776--49862002 Score: 178
Period size: 56 Copynumber: 4.1 Consensus size: 56
49861766 GAATATTTTC
* * ** * *
49861776 GTGGCAATATATAAAAAGAAATGCCTTTGTGGCAAAATATTAAAATGAATGCCTTT
1 GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* * *
49861832 GTGGAAAAATATGAAAATG-AATGCCTTCATGGCAATATATAAAAAAGAATGCCTTT
1 GTGGCAATATATG-AAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* ** * * * * *
49861888 GTGGCAATATATGAATTGAAATGCCTTTGTGGCAAACTCT-GAAAGGAATGTCTTT
1 GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
* * * * * *
49861943 GTGGCAGACT-T-TGAAA-GAAATGCCTTTATGGCGAACTCT-GAAAGGAATGCCTTT
1 GTGGCA-A-TATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
49861997 GTGGCA
1 GTGGCA
49862003 GACTTTAAAG
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
54 41 0.29
55 26 0.18
56 71 0.50
57 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (56 bp):
GTGGCAATATATGAAATGAAATGCCTTCATGGCAAAATATAAAAAAGAATGCCTTT
Found at i:49861930 original size:28 final size:27
Alignment explanation
Indices: 49861790--49862061 Score: 153
Period size: 27 Copynumber: 10.0 Consensus size: 27
49861780 CAATATATAA
* * *
49861790 AAAGAAATGCCTTTGTGGCAAAATATT
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * *
49861817 AAA-ATGAATGCCTTTGTGGAAAAATATG
1 AAAGA--AATGCCTTTGTGGCAAACTCTG
** * *
49861845 AAA-ATGAATGCCTTCATGGCAATA-TATA
1 AAAGA--AATGCCTTTGTGGCAA-ACTCTG
* *
49861873 AAAAAGAATGCCTTTGTGGCAATA-TATG
1 AAAGA-AATGCCTTTGTGGCAA-ACTCTG
*
49861901 AATTGAAATGCCTTTGTGGCAAACTCTG
1 AA-AGAAATGCCTTTGTGGCAAACTCTG
* * * *
49861929 AAAGGAATGTCTTTGTGGCAGACTTTG
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* *
49861956 AAAGAAATGCCTTTATGGCGAACTCTG
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * *
49861983 AAAGGAATGCCTTTGTGGCAGACT-TT
1 AAAGAAATGCCTTTGTGGCAAACTCTG
* * * *
49862009 AAAGGGAATGCCTTCGTGGCAGACT-TT
1 AAA-GAAATGCCTTTGTGGCAAACTCTG
* *
49862036 AAAGGAATGCC-TTGATGGCATACTCT
1 AAAGAAATGCCTTTG-TGGCAAACTCT
49862062 ATCTAATAGC
Statistics
Matches: 205, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.01
26 21 0.10
27 91 0.44
28 88 0.43
29 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAGAAATGCCTTTGTGGCAAACTCTG
Found at i:49861945 original size:27 final size:27
Alignment explanation
Indices: 49861907--49862061 Score: 174
Period size: 27 Copynumber: 5.8 Consensus size: 27
49861897 TATGAATTGA
*
49861907 AATGCCTTTGTGGCAAACTCTGAAAGG
1 AATGCCTTTGTGGCAGACTCTGAAAGG
* * *
49861934 AATGTCTTTGTGGCAGACTTTGAAAGA
1 AATGCCTTTGTGGCAGACTCTGAAAGG
*
49861961 AATGCCTTTATGGC-GAACTCTGAAAGG
1 AATGCCTTTGTGGCAG-ACTCTGAAAGG
*
49861988 AATGCCTTTGTGGCAGACT-TTAAAGGG
1 AATGCCTTTGTGGCAGACTCTGAAA-GG
* *
49862015 AATGCCTTCGTGGCAGACT-TTAAAGG
1 AATGCCTTTGTGGCAGACTCTGAAAGG
*
49862041 AATGCC-TTGATGGCATACTCT
1 AATGCCTTTG-TGGCAGACTCT
49862062 ATCTAATAGC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.02
26 21 0.19
27 86 0.78
28 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (27 bp):
AATGCCTTTGTGGCAGACTCTGAAAGG
Found at i:49861980 original size:54 final size:54
Alignment explanation
Indices: 49861905--49862048 Score: 193
Period size: 54 Copynumber: 2.7 Consensus size: 54
49861895 TATATGAATT
* *
49861905 GAAATGCCTTTGTGGCAAACTCTGAAAGGAATGTCTTTGTGGCAGACTTTGAAA-
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTT-AAAG
*
49861959 GAAATGCCTTTATGGCGAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
* ** * *
49862013 GGAATGCCTTCGTGGCAGACT-TTAAAGGAATGCCTT
1 GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTT
49862049 GATGGCATAC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 17 0.21
54 63 0.79
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (54 bp):
GAAATGCCTTTATGGCAAACTCTGAAAGGAATGCCTTTGTGGCAGACTTTAAAG
Found at i:49864203 original size:31 final size:31
Alignment explanation
Indices: 49864165--49864576 Score: 452
Period size: 31 Copynumber: 13.3 Consensus size: 31
49864155 ACTGAATTCT
* * *
49864165 TGAAAAGGTTATATCCGAAATGTATATAAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49864196 TGAAAAGGTTATATCCGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49864227 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * *
49864258 AGAAAATGTTATATCCGAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* **
49864289 TGAAAAGGTTATATCTGAAAC-AGATACCAAA
1 TGAAAAGGTTATATCCGAAACGA-ATATTAAA
* * *
49864320 TGAAAATGTTATATTCGAAATGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * *
49864351 TGAAAAGGTTATATCTGAAACAAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* *
49864382 TGAAAAGATTATATCCGAAACGAATATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * *
49864413 AGAAAAGGTTATATCCGAAATGAATATTAAT
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* **
49864444 TGAAAAGGTTATATCTGAAAC-AGATACCAAA
1 TGAAAAGGTTATATCCGAAACGA-ATATTAAA
*
49864475 TGAAAATGTTATATCCGAAACGAATATTAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* ** *
49864506 TGAAAAGGTTATATCCGAAATGGGTATCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
* * * *
49864537 TGAAAA-GTTATATCTGAAACGGATGTCAAA
1 TGAAAAGGTTATATCCGAAACGAATATTAAA
49864567 TGAAAAGGTT
1 TGAAAAGGTT
49864577 CAAAAGGTTG
Statistics
Matches: 313, Mismatches: 63, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
30 28 0.09
31 283 0.90
32 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (31 bp):
TGAAAAGGTTATATCCGAAACGAATATTAAA
Found at i:49866150 original size:27 final size:26
Alignment explanation
Indices: 49866110--49866198 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
49866100 TGGCTATCGC
* * *
49866110 AACATAGGGAGTCCATCGAGATAGTA
1 AACATGGGGAGTCCATCGAGACAATA
* *
49866136 AACATGGGGTAGTCCATTGGGACAATA
1 AACATGGGG-AGTCCATCGAGACAATA
** * *
49866163 AACATGGGAGAGTCCGCCAAGACATTA
1 AACATGGG-GAGTCCATCGAGACAATA
49866190 AACATGGGG
1 AACATGGGG
49866199 TTACATGTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.18
27 40 0.80
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (26 bp):
AACATGGGGAGTCCATCGAGACAATA
Found at i:49866311 original size:121 final size:120
Alignment explanation
Indices: 49866084--49866338 Score: 332
Period size: 121 Copynumber: 2.1 Consensus size: 120
49866074 GAGGTTTAAG
* * * *
49866084 GTGTAAGACCATAGCTTGGCTATCGCAACATAGGGAGTCCATCGAGATAGTAAACATGGGGTAGT
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGAGACAGTAAACACGGGGTAGT
* *
49866149 CCATTGGGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
66 CCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACAT-GGGTTACAT
* * *
49866205 GTGTAAGACCATAGCTTGACTGTGGCAACATAGAGAG-CCTATCGGGACAGTAAACACGGGGTAG
1 GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCC-ATCGAGACAGTAAACACGGGGTAG
** * * * * * *
49866269 TCTGCTGAGATAATAAACATTGGAGAGTTCGCTAGGATATTAAACATGGGTTACAT
65 TCCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGTTACAT
49866325 GTGTAAGACCATAG
1 GTGTAAGACCATAG
49866339 TTATGCTATG
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
120 25 0.22
121 91 0.78
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (120 bp):
GTGTAAGACCATAGCTTGACTATCGCAACATAGAGAGTCCATCGAGACAGTAAACACGGGGTAGT
CCACTGAGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGTTACAT
Found at i:49866381 original size:120 final size:121
Alignment explanation
Indices: 49866084--49866387 Score: 319
Period size: 121 Copynumber: 2.5 Consensus size: 121
49866074 GAGGTTTAAG
* * * * * * *
49866084 GTGTAAGACCATAGCTTGGCTATCGCAACATAGGGAGTCC-ATCGAGATAGTAAACATGGGGTAG
1 GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAG-CCTATCGGGACAATAAACACGGGGTAG
*** * *
49866148 TCCATTGGGACAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
65 TCTGCTGAGATAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
* *
49866205 GTGTAAGACCATAGCTTGACTGTGGCAACATAGAGAGCCTATCGGGACAGTAAACACGGGGTAGT
1 GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGCCTATCGGGACAATAAACACGGGGTAGT
* * * * *
49866270 CTGCTGAGATAATAAACATTGGAGAGTTCGCTAGGATATTAAACAT-GGGTTACAT
66 CTGCTGAGATAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
* * * * * * *
49866325 GTGTAAGACCATAGTTATG-CTATGGCAGCATGGGGAGTCT-GCTGGGACAATAAACACTGGGTA
1 GTGTAAGACCATAGCT-TGACTATGGCAACATAGAGAGCCTATC-GGGACAATAAACACGGGGTA
49866388 ATCCACCAAG
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
119 1 0.01
120 60 0.39
121 93 0.60
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (121 bp):
GTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGCCTATCGGGACAATAAACACGGGGTAGT
CTGCTGAGATAATAAACATGGGAGAGTCCGCCAAGACATTAAACATGGGGTTACAT
Found at i:49892138 original size:37 final size:37
Alignment explanation
Indices: 49892088--49892166 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49892078 TTATTACGAA
* * *
49892088 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49892125 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49892162 GTCTT
1 GTCTT
49892167 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49892363 original size:47 final size:47
Alignment explanation
Indices: 49892285--49892840 Score: 916
Period size: 47 Copynumber: 11.7 Consensus size: 47
49892275 CCCTTCGGGA
* * * * * *
49892285 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49892332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49892379 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49892426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49892473 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49892520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49892567 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49892616 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49892665 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49892712 CTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49892759 CTTATCACATATATACACTTTCACATTCATCACAACGGCCAATAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49892806 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
49892841 AGAATCCTAA
Statistics
Matches: 484, Mismatches: 22, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 388 0.80
49 95 0.20
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49892700 original size:239 final size:237
Alignment explanation
Indices: 49892285--49892819 Score: 912
Period size: 239 Copynumber: 2.3 Consensus size: 237
49892275 CCCTTCGGGA
* * * * * * * *
49892285 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCAATAGGCCTTATCACATATATATAC
*
49892348 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49892413 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
49892478 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
*
49892520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCAATAGGCCTTATCACATATATATAC
49892585 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
49892650 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
49892715 ATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
194 ATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49892759 CTTATCACATATATACACTTTCACATTCATCACAACGGCCAATAGGCCTTATCTCATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCAATAGGCCTTATCACATATAT
49892820 GCATGTTCAC
Statistics
Matches: 282, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
235 47 0.17
237 47 0.17
239 188 0.67
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCAATAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATAAACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49892880 original size:286 final size:284
Alignment explanation
Indices: 49892296--49892840 Score: 880
Period size: 286 Copynumber: 1.9 Consensus size: 284
49892286 TTATCACATT
* * * * * * *
49892296 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
49892359 CATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
*
49892424 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
131 GCCTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
49892489 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
196 ACTTTCACATTCATCACAACGGCCAATAGGCCTTATCACATATATACACTTTCACATCCATCACA
* * *
49892554 TCGGCCATTAGGCCTTATCACATATA
261 TCAG-CA-TAGGCCTAATCAAATATA
49892580 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
*
49892645 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
66 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
49892710 GCCTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
131 GCCTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
49892775 ACTTTCACATTCATCACAACGGCCAATAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
196 ACTTTCACATTCATCACAACGGCCAATAGGCCTTATCACATATATACACT-TTCACATCCATCAC
49892839 AT
260 AT
49892841 AGAATCCTAA
Statistics
Matches: 243, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
284 37 0.15
285 1 0.00
286 205 0.84
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (284 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACAACGGCCAATAGGCCTTATCACATATATACACTTTCACATCCATCACA
TCAGCATAGGCCTAATCAAATATA
Found at i:49903049 original size:16 final size:16
Alignment explanation
Indices: 49903028--49903082 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
49903018 GTTTGGTTCA
49903028 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
*
49903044 CTGTAATTAAATAGAG
1 CTGTAATTGAATAGAG
* *
49903060 TTGTAA-TGAAATAAAG
1 CTGTAATTG-AATAGAG
49903076 CTGTAAT
1 CTGTAAT
49903083 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:49903741 original size:62 final size:62
Alignment explanation
Indices: 49903644--49903771 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
49903634 GATAGGAGAA
*
49903644 AATTTTATTTTTTCTATTTTTTTAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
*
49903706 AATTTTCTTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
1 AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
49903768 AATT
1 AATT
49903772 GAAAATTGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (62 bp):
AATTTTATTTTTTCTATTTTTTCAGTGCGGATTTTACACAACATGGGGAAATCACTATTTCT
Found at i:49909289 original size:23 final size:22
Alignment explanation
Indices: 49909237--49909289 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
49909227 TCCACGTCTT
*
49909237 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
49909259 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
49909282 TTTCTTTT
1 TTTCTTTT
49909290 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:49914635 original size:21 final size:21
Alignment explanation
Indices: 49914611--49914678 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
49914601 ATAATGCTAA
49914611 TAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
* *
49914632 TAAAACATTTGTAAAATC-TAT-A
1 TAAAAAATTTG--AAATCGT-TGT
*
49914654 AAAAAAATTTGAAATCGTTGT
1 TAAAAAATTTGAAATCGTTGT
49914675 TAAA
1 TAAA
49914679 GCATTTGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 6 0.17
21 14 0.39
22 10 0.28
23 6 0.17
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
TAAAAAATTTGAAATCGTTGT
Found at i:49914669 original size:43 final size:44
Alignment explanation
Indices: 49914612--49914709 Score: 180
Period size: 43 Copynumber: 2.2 Consensus size: 44
49914602 TAATGCTAAT
49914612 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTAT-AA
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
*
49914655 AAAAAATTTGAAATCGTTGTTAAAGCATTTGTAAAATCTATAAA
1 AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
49914699 AAAAAATTTGA
1 AAAAAATTTGA
49914710 TATAAATTAG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 40 0.75
44 13 0.25
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (44 bp):
AAAAAATTTGAAATCGTTGTTAAAACATTTGTAAAATCTATAAA
Found at i:49914806 original size:10 final size:11
Alignment explanation
Indices: 49914783--49914811 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
49914773 AATTTGTAGA
49914783 TAATATATAAT
1 TAATATATAAT
49914794 TAATATA-AAT
1 TAATATATAAT
49914804 TAATATAT
1 TAATATAT
49914812 TGAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATATATAAT
Found at i:49923907 original size:53 final size:53
Alignment explanation
Indices: 49923822--49923922 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
49923812 TCCTGTTTTA
** * *
49923822 AAGAAACTGAATTTTGATTTAATTTTATTGTTTCAGACAATTTCAAAAAATTC
1 AAGAAACCAAATTTTGATTCAATTTTACTGTTTCAGACAATTTCAAAAAATTC
*
49923875 AAGAAACCAAATTTTGATTCAATTTTACTGTTTCGGACAATTTCAAAA
1 AAGAAACCAAATTTTGATTCAATTTTACTGTTTCAGACAATTTCAAAA
49923923 TGAAGAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (53 bp):
AAGAAACCAAATTTTGATTCAATTTTACTGTTTCAGACAATTTCAAAAAATTC
Found at i:49925285 original size:17 final size:17
Alignment explanation
Indices: 49925265--49925324 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
49925255 CTCAAGTTTA
49925265 GTGAGCTCGTAGTCTTG
1 GTGAGCTCGTAGTCTTG
* *
49925282 GTGAGCTCATA-TATTTG
1 GTGAGCTCGTAGT-CTTG
* * *
49925299 GTGAGCTTGCAGTCTGG
1 GTGAGCTCGTAGTCTTG
49925316 GTGAGCTCG
1 GTGAGCTCG
49925325 CACTTTTTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.35, T:0.33
Consensus pattern (17 bp):
GTGAGCTCGTAGTCTTG
Found at i:49926641 original size:2 final size:2
Alignment explanation
Indices: 49926634--49926694 Score: 63
Period size: 2 Copynumber: 31.0 Consensus size: 2
49926624 AATAAGCATG
* * * *
49926634 TA TA TA TA TA TG TA TA TA TA TA -A AA CTA GA -A TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
49926675 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
49926695 AAAGTTATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.94
3 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
TA
Found at i:49926648 original size:12 final size:12
Alignment explanation
Indices: 49926631--49926655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49926621 TCGAATAAGC
49926631 ATGTATATATAT
1 ATGTATATATAT
49926643 ATGTATATATAT
1 ATGTATATATAT
49926655 A
1 A
49926656 AAACTAGAAT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:49927414 original size:41 final size:41
Alignment explanation
Indices: 49927360--49927468 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 41
49927350 AACTTTAAGT
*
49927360 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* **
49927401 CTAGTAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
49927442 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTACGTGCCGGTG-ATCTG
49927469 TTTAATTAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
41 55 0.92
42 5 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:49928752 original size:17 final size:18
Alignment explanation
Indices: 49928730--49928773 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
49928720 TGTTCTTGGA
*
49928730 TTTTCTTTTCTTT-GTTC
1 TTTTCTTTTCTTTCATTC
*
49928747 TTTTCTGTTCTTTCATTC
1 TTTTCTTTTCTTTCATTC
49928765 -TTTCTTTTC
1 TTTTCTTTTC
49928774 ACAACATCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTCTTTCATTC
Found at i:49932225 original size:47 final size:47
Alignment explanation
Indices: 49932171--49932666 Score: 804
Period size: 47 Copynumber: 10.6 Consensus size: 47
49932161 TATTTGAATA
*
49932171 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49932218 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49932265 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-----GATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49932307 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49932354 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49932401 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
49932450 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
49932499 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
49932546 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
49932593 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
49932640 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
49932667 TCCCGAAGGG
Statistics
Matches: 425, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
42 42 0.10
47 289 0.68
49 94 0.22
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:49932841 original size:37 final size:37
Alignment explanation
Indices: 49932785--49932863 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
49932775 CCGAGCTCTA
* *
49932785 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
49932822 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49932859 AAGAC
1 AAGAC
49932864 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49936830 original size:26 final size:25
Alignment explanation
Indices: 49936801--49936928 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 25
49936791 GCTCTCTCTC
**
49936801 GAGCCATATAACGGGAAGCATCATGT
1 GAGCCATATAACGGGAAGC-TCATAA
* * *
49936827 GAGCTATGTAACAGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* * *
49936852 GAGCCATAT-TCGGGAAGTTCA-AGC
1 GAGCCATATAACGGGAAGCTCATA-A
* ***
49936876 GAGCCAGTAT--CAGGAAGCTCCGGA
1 GAGCCA-TATAACGGGAAGCTCATAA
* * *
49936900 GAGCCCTATATCGGGATGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
49936925 GAGC
1 GAGC
49936929 TAAGGTGTGT
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
23 4 0.05
24 28 0.37
25 27 0.36
26 16 0.21
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:49939604 original size:45 final size:44
Alignment explanation
Indices: 49939542--49939691 Score: 142
Period size: 45 Copynumber: 3.4 Consensus size: 44
49939532 GTGGATCAGC
* * *
49939542 ACATAGC-ACC-CCCTTATAGTCAATAGTACTCGGTGAAATCAAT
1 ACATAGCAACCACCTTTATAATCAATGGTA-TCGGTGAAATCAAT
* * * *
49939585 ACATAACAACCACCTTTATACTCAATGGTATAGAGTGAAATCAAG
1 ACATAGCAACCACCTTTATAATCAATGGTATCG-GTGAAATCAAT
* * * * *
49939630 ACATAGGAACCACCTATATAACCATTGGTATCTGGTGAAATCAGT
1 ACATAGCAACCACCTTTATAATCAATGGTATC-GGTGAAATCAAT
*
49939675 ACATAGCAACTACCTTT
1 ACATAGCAACCACCTTT
49939692 CTTTTCATTA
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
43 6 0.07
44 5 0.06
45 73 0.86
46 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (44 bp):
ACATAGCAACCACCTTTATAATCAATGGTATCGGTGAAATCAAT
Found at i:49943704 original size:179 final size:179
Alignment explanation
Indices: 49943404--49943744 Score: 610
Period size: 179 Copynumber: 1.9 Consensus size: 179
49943394 TTTTGCTTTC
*
49943404 AATTTACCACAGCATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAACTCATTAAAT
1 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAACTCATTAAAT
* * *
49943469 GGTAATATTATTAAATCAACTGGGAAACAATAACCCTGTATCATTAACGGACAATTCTTACAAAT
66 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
*
49943534 TTTATCCACCATCACGTACCGGGCTAGGGGGTTTGATACTTTAACCACA
131 TTTATCCACCATCACGTACCGGCCTAGGGGGTTTGATACTTTAACCACA
* * *
49943583 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCTAGAATCATATCAAATTCATTAAAT
1 AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAACTCATTAAAT
49943648 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
66 GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
49943713 TTTATCCACCATCACGTACCGGCCTAGGGGGT
131 TTTATCCACCATCACGTACCGGCCTAGGGGGT
49943745 AATTTAGTGG
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
179 154 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (179 bp):
AATTTACCACAACATCATGTTGAGTTAACTAGTCCATACCCAGAATCACATCAAACTCATTAAAT
GGTAATAATATTAAATCAACCGGGAAACAATAACCCCGTATCATTAACGGACAATTCTTACAAAT
TTTATCCACCATCACGTACCGGCCTAGGGGGTTTGATACTTTAACCACA
Found at i:49944398 original size:17 final size:17
Alignment explanation
Indices: 49944368--49944401 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49944358 AGCTTGTCTT
49944368 TTCTCTTTACTAAGCTC
1 TTCTCTTTACTAAGCTC
49944385 TTCTGCTTTA-TAAGCTC
1 TTCT-CTTTACTAAGCTC
49944402 GATCAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.47
Consensus pattern (17 bp):
TTCTCTTTACTAAGCTC
Found at i:49946677 original size:16 final size:16
Alignment explanation
Indices: 49946656--49946690 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
49946646 GAATCATTTA
49946656 AAGTATCGATGGATAC
1 AAGTATCGATGGATAC
49946672 AAGTATCGATGGATAC
1 AAGTATCGATGGATAC
49946688 AAG
1 AAG
49946691 GGTAGTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (16 bp):
AAGTATCGATGGATAC
Found at i:49955454 original size:51 final size:52
Alignment explanation
Indices: 49955378--49955497 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
49955368 CGGTGGCCCA
* *
49955378 CACATAGTACCACCCTTGTAGCCAAAGCTA-CATTCTTCACAAAGTGACCTT
1 CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
* *
49955429 CACATAGTACCACACTTGTAACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
49955481 CACATAGTACCACACTT
1 CACATAGTACCACACTT
49955498 AAGTCACTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 28 0.44
52 36 0.56
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.27
Consensus pattern (52 bp):
CACATAGTACCACACTTGTAACCAAAGCTATCATTCTTCACAAAGTGACCTT
Found at i:49963946 original size:39 final size:39
Alignment explanation
Indices: 49963884--49963968 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
49963874 AGCCATAAAT
*
49963884 AACATTCTTTAATCAACAGAATTTCCTATCAATCAAGAA
1 AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
* * *
49963923 AACAATCTTTATTCAACATAATTTCCTATCAATCAAGCA
1 AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
49963962 AACAATC
1 AACAATC
49963969 ACAATGTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.31
Consensus pattern (39 bp):
AACAATCTTTAATCAACAGAATTTCCTATCAATCAAGAA
Found at i:49971741 original size:52 final size:51
Alignment explanation
Indices: 49971627--49971751 Score: 162
Period size: 52 Copynumber: 2.4 Consensus size: 51
49971617 CGGATACCTG
* **
49971627 GTGGCCTGCACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAATTGTAGCCAAAGCTACCTTCTTCACAAA
* * * *
49971678 CTGACCTTCACATGGTACCACAATTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAATTGTAG-CCAAAGCTA-CCTTCTTCACAAA
49971730 GTGGCCTTCACATAGTACCACA
1 GTGGCCTTCACATAGTACCACA
49971752 CTTGAGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.02
51 30 0.48
52 31 0.50
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACAATTGTAGCCAAAGCTACCTTCTTCACAAA
Found at i:49979386 original size:66 final size:66
Alignment explanation
Indices: 49979280--49979428 Score: 264
Period size: 66 Copynumber: 2.3 Consensus size: 66
49979270 AAGGAGGTGT
* *
49979280 TAGCAACCACATACTCATTTAGGCATACATTACCTTACACATATATACATTTTAAGATAATTTGA
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49979345 A
66 A
*
49979346 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGC
1 TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
49979411 A
66 A
49979412 TAGCAACCACATA-TCAT
1 TAGCAACCACATACTCAT
49979429 ATAATCTCGT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 4 0.05
66 76 0.95
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (66 bp):
TAGCAACCACATACTCATTTAGGCATACATCACATTACACATATATACATTTTAAGATAATTTGA
A
Found at i:49980713 original size:10 final size:10
Alignment explanation
Indices: 49980700--49980728 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49980690 AAAATTCATT
49980700 AAATCCTTAG
1 AAATCCTTAG
49980710 AAATCCTTAG
1 AAATCCTTAG
49980720 AAATCCTTA
1 AAATCCTTA
49980729 AAAAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (10 bp):
AAATCCTTAG
Found at i:49983237 original size:61 final size:61
Alignment explanation
Indices: 49983167--49983289 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
49983157 TTTCCTATTG
*
49983167 AAAGTAAGAAAATAATTTCTAGTTCGA-TGTCTGATTAGAAATTTTTCGAGCCCACACTCGA
1 AAAGTAAGAAAATAATTTCTAGTTCGATTG-ATGATTAGAAATTTTTCGAGCCCACACTCGA
*
49983228 AAAGTAAGAAAATAATTTCTAGTTCTATTGATGATTAGAAATTTTTCGAGCCCACACTCGA
1 AAAGTAAGAAAATAATTTCTAGTTCGATTGATGATTAGAAATTTTTCGAGCCCACACTCGA
49983289 A
1 A
49983290 GTAGTTCATG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (61 bp):
AAAGTAAGAAAATAATTTCTAGTTCGATTGATGATTAGAAATTTTTCGAGCCCACACTCGA
Found at i:49986618 original size:62 final size:59
Alignment explanation
Indices: 49986530--49986663 Score: 180
Period size: 62 Copynumber: 2.2 Consensus size: 59
49986520 TCCAAAAATA
* * * * *
49986530 ATATTATTTTAAT-ATATTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTA-AG--AAATATT
*
49986591 CTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
49986650 ATATTAATTTAATA
1 ATATTAATTTAATA
49986664 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.31
61 13 0.20
62 32 0.49
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTCATCTTAAGAAATATT
Found at i:49987791 original size:8 final size:8
Alignment explanation
Indices: 49987778--49987803 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
49987768 AATCCACTTG
49987778 TTTAGTTC
1 TTTAGTTC
49987786 TTTAGTTC
1 TTTAGTTC
49987794 TTTAGTTC
1 TTTAGTTC
49987802 TT
1 TT
49987804 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:49990767 original size:42 final size:43
Alignment explanation
Indices: 49990667--49990768 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 43
49990657 AGAAATGATT
* *
49990667 ATGGTTTTCTCCAAAATAGAGAAATGAAATTATTTGGAAATAAAT
1 ATGGTTTTCT-CAAAATAGAGAAATG-AATTATTTGCAAATAAAC
* * *
49990712 GTGGTTTTTTCAAAAT-GAGAAATG-ATTCATTTGCAAATGAAC
1 ATGGTTTTCTCAAAATAGAGAAATGAATT-ATTTGCAAATAAAC
*
49990754 ATGGATTTCTCAAAA
1 ATGGTTTTCTCAAAA
49990769 ATGATTGGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.06
42 23 0.48
43 8 0.17
44 6 0.12
45 8 0.17
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (43 bp):
ATGGTTTTCTCAAAATAGAGAAATGAATTATTTGCAAATAAAC
Found at i:49991078 original size:15 final size:15
Alignment explanation
Indices: 49991058--49991088 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49991048 TGAACCCGAT
49991058 ATGGAAGAGGCCCAA
1 ATGGAAGAGGCCCAA
49991073 ATGGAAGAGGCCCAA
1 ATGGAAGAGGCCCAA
49991088 A
1 A
49991089 AGCCCCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.32, T:0.06
Consensus pattern (15 bp):
ATGGAAGAGGCCCAA
Found at i:49993523 original size:31 final size:31
Alignment explanation
Indices: 49993488--49993600 Score: 99
Period size: 30 Copynumber: 3.7 Consensus size: 31
49993478 AATTATCCAT
*
49993488 ATTTGCATTATCATACCCTGTAATCGTTCAT
1 ATTTGCATTATCATACCCTGTAATCGTTCAC
* *
49993519 ATTTGCA-TATTCATACTCTGTAATGGCTT-AC
1 ATTTGCATTA-TCATACCCTGTAATCG-TTCAC
* * * * *
49993550 ATTTAC-TTGTCATACCCTATAACCGGTCAC
1 ATTTGCATTATCATACCCTGTAATCGTTCAC
*
49993580 ATTTTCATT-TCATACCCTGTA
1 ATTTGCATTATCATACCCTGTA
49993601 CACTATACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
29 1 0.02
30 32 0.49
31 30 0.46
32 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.41
Consensus pattern (31 bp):
ATTTGCATTATCATACCCTGTAATCGTTCAC
Found at i:49998860 original size:21 final size:20
Alignment explanation
Indices: 49998834--49998873 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49998824 TTATAAGGCA
* *
49998834 AGATTTTGAGAGAAGAAATAC
1 AGATTTAGAGA-AAAAAATAC
49998855 AGATTTAGAGAAAAAAATA
1 AGATTTAGAGAAAAAAATA
49998874 GAGCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.20, T:0.23
Consensus pattern (20 bp):
AGATTTAGAGAAAAAAATAC
Found at i:50006670 original size:22 final size:22
Alignment explanation
Indices: 50006645--50006692 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
50006635 AAAATTGCAT
50006645 CTAATGCCAGGATGTCGCGACA
1 CTAATGCCAGGATGTCGCGACA
50006667 CTAATGCCAGGATGTCGCGACA
1 CTAATGCCAGGATGTCGCGACA
50006689 CTAA
1 CTAA
50006693 ACCTTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.19
Consensus pattern (22 bp):
CTAATGCCAGGATGTCGCGACA
Found at i:50006833 original size:22 final size:22
Alignment explanation
Indices: 50006795--50006838 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50006785 GACACTGAGC
*
50006795 CCAAGGTCGTGAATCCATTTCT
1 CCAAGGTCGTGAATCCACTTCT
50006817 CCAAGGTCGT-AATTCCACTTCT
1 CCAAGGTCGTGAA-TCCACTTCT
50006839 GATGGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (22 bp):
CCAAGGTCGTGAATCCACTTCT
Found at i:50008353 original size:14 final size:14
Alignment explanation
Indices: 50008334--50008361 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50008324 AAAAAATAAA
50008334 AATTTTTATAAAAT
1 AATTTTTATAAAAT
50008348 AATTTTTATAAAAT
1 AATTTTTATAAAAT
50008362 TCTAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTTATAAAAT
Found at i:50008418 original size:29 final size:30
Alignment explanation
Indices: 50008356--50008421 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
50008346 ATAATTTTTA
*
50008356 TAAAATTCTAAAATATATAAATATAAATTT
1 TAAAATTCTAAAATATATAAATATAAATTG
*
50008386 TAAAAGTTC-AAAATA-ATATATATAAATTG
1 TAAAA-TTCTAAAATATATAAATATAAATTG
50008415 TAAAATT
1 TAAAATT
50008422 TTATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
30 11 0.33
31 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAAATTCTAAAATATATAAATATAAATTG
Found at i:50008516 original size:20 final size:20
Alignment explanation
Indices: 50008482--50008530 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
50008472 TTAAATTTTC
* *
50008482 AAAAATATATAATTTAGAAA
1 AAAAATAAATTATTTAGAAA
* *
50008502 AAAATTAAATTATTTTGAAA
1 AAAAATAAATTATTTAGAAA
50008522 AAAAATAAA
1 AAAAATAAA
50008531 ATGTATGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATAAATTATTTAGAAA
Found at i:50008856 original size:23 final size:22
Alignment explanation
Indices: 50008830--50008882 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
50008820 AAATGTATTT
*
50008830 TTTTAATATTTAAATATTTAAAA
1 TTTTAATATTTAAAAATTT-AAA
* *
50008853 TTTTAATTTTTTAAAAATTTTAA
1 TTTTAA-TATTTAAAAATTTAAA
50008876 TTTTAAT
1 TTTTAAT
50008883 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 14 0.54
24 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAATATTTAAAAATTTAAA
Found at i:50009723 original size:32 final size:33
Alignment explanation
Indices: 50009673--50009734 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
50009663 ATCCTAATTC
*
50009673 TAAAAAATTCAAAGAAATAT-ATAA-AAATGCA
1 TAAAAAATTCAAAAAAATATAATAATAAATGCA
*
50009704 TAAATAATTACAAAAAAATATAATAATAAAT
1 TAAAAAATT-CAAAAAAATATAATAATAAAT
50009735 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.31
32 10 0.38
33 4 0.15
34 4 0.15
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (33 bp):
TAAAAAATTCAAAAAAATATAATAATAAATGCA
Found at i:50012846 original size:27 final size:29
Alignment explanation
Indices: 50012792--50012856 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 29
50012782 AATTAAAATT
* *
50012792 TATTAGTATATATATTTAAAATAATTATG
1 TATTATTATATATATTTAAAATAATTATA
* *
50012821 TATTCTTATATAT-TTTAAAAT-TTTATA
1 TATTATTATATATATTTAAAATAATTATA
50012848 TATTATTAT
1 TATTATTAT
50012857 TTTCAACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 12 0.39
28 8 0.26
29 11 0.35
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
TATTATTATATATATTTAAAATAATTATA
Found at i:50012915 original size:29 final size:27
Alignment explanation
Indices: 50012883--50012938 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
50012873 TATATTTTTA
*
50012883 ATTTTATTATTATATTTTTGAAAATATTT
1 ATTTGATTA-TATATTTTTGAAAA-ATTT
* *
50012912 ATTTGGTTATATATTTTTTAAAAATTT
1 ATTTGATTATATATTTTTGAAAAATTT
50012939 TAGAATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 13 0.54
29 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
ATTTGATTATATATTTTTGAAAAATTT
Found at i:50021719 original size:25 final size:26
Alignment explanation
Indices: 50021667--50021742 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 26
50021657 ATTCGAGAGT
* * *
50021667 GCTCATACGAG-CATATAATCGGGTA
1 GCTCATCCGAGCCATATAATCAGGAA
*
50021692 GCTCTTCCGAGCCATAT-ATCAGGAA
1 GCTCATCCGAGCCATATAATCAGGAA
**
50021717 GCTCATGTGAGCCATATAAT-AGGAA
1 GCTCATCCGAGCCATATAATCAGGAA
50021742 G
1 G
50021743 TTCAAGCGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 35 0.83
26 7 0.17
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (26 bp):
GCTCATCCGAGCCATATAATCAGGAA
Found at i:50021753 original size:25 final size:25
Alignment explanation
Indices: 50021699--50021769 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
50021689 GTAGCTCTTC
*
50021699 CGAGCCATATATCAGGAAGCTCATG
1 CGAGCCATATATCAGGAAGCTCAAG
* *
50021724 TGAGCCATATAAT-AGGAAGTTCAAG
1 CGAGCCATAT-ATCAGGAAGCTCAAG
* *
50021749 CGAGCCA-ACATCGGGAAGCTC
1 CGAGCCATATATCAGGAAGCTC
50021770 TGGAGAGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.05
24 8 0.22
25 25 0.68
26 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
CGAGCCATATATCAGGAAGCTCAAG
Found at i:50021838 original size:25 final size:25
Alignment explanation
Indices: 50021713--50021851 Score: 76
Period size: 25 Copynumber: 5.7 Consensus size: 25
50021703 CCATATATCA
* *
50021713 GGAAGCTCATG-TGAGCCATATAATA
1 GGAAGCTCATGAAGAGCCA-ATAATG
* * * *
50021738 GGAAGTTCAAG-CGAGCCAA-CATCG
1 GGAAGCTCATGAAGAGCCAATAAT-G
* * *
50021762 GGAAGCTC-TGGAGAGCCATTAACG
1 GGAAGCTCATGAAGAGCCAATAATG
* * *
50021786 GGAAGCTCAT-AAGATCCATTTATCG
1 GGAAGCTCATGAAGAGCCAATAAT-G
50021811 GGAAGCTC-TGAAGAGCCAAATAATG
1 GGAAGCTCATGAAGAGCC-AATAATG
*
50021836 GGAAGCTCGTG-AGAGC
1 GGAAGCTCATGAAGAGC
50021852 TAAATATCGG
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.03
24 33 0.38
25 46 0.52
26 6 0.07
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGAAGAGCCAATAATG
Found at i:50021861 original size:50 final size:49
Alignment explanation
Indices: 50021750--50021876 Score: 123
Period size: 50 Copynumber: 2.6 Consensus size: 49
50021740 AAGTTCAAGC
* * *
50021750 GAGCC-AACATCGGGAAGCTCTGGAGAGCCATTAACGGGAAGCTCATAA
1 GAGCCAAATATCGGGAAGCTCTGAAGAGCCAATAACGGGAAGCTCATAA
* ** * * *
50021798 GATCCATTTATCGGGAAGCTCTGAAGAGCCAAATAATGGGAAGCTCGTGA
1 GAGCCAAATATCGGGAAGCTCTGAAGAGCC-AATAACGGGAAGCTCATAA
* *
50021848 GAGCTAAATATCGGGACA-CTCAGAAGAGC
1 GAGCCAAATATCGGGA-AGCTCTGAAGAGC
50021877 TGCGGTGTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
48 4 0.06
49 20 0.32
50 37 0.60
51 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.17
Consensus pattern (49 bp):
GAGCCAAATATCGGGAAGCTCTGAAGAGCCAATAACGGGAAGCTCATAA
Found at i:50021863 original size:25 final size:25
Alignment explanation
Indices: 50021750--50021876 Score: 95
Period size: 25 Copynumber: 5.2 Consensus size: 25
50021740 AAGTTCAAGC
* *
50021750 GAGCC-AACATCGGGAAGCTCTGGA
1 GAGCCAAATATCGGGAAGCTCTGAA
* *
50021774 GAGCC-ATTAACGGGAAGCTCAT-AA
1 GAGCCAAATATCGGGAAGCTC-TGAA
* **
50021798 GATCCATTTATCGGGAAGCTCTGAA
1 GAGCCAAATATCGGGAAGCTCTGAA
50021823 GAGCCAAATAAT-GGGAAGCTCGTG-A
1 GAGCCAAAT-ATCGGGAAGCTC-TGAA
* *
50021848 GAGCTAAATATCGGGACA-CTCAGAA
1 GAGCCAAATATCGGGA-AGCTCTGAA
50021873 GAGC
1 GAGC
50021877 TGCGGTGTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
24 26 0.31
25 52 0.63
26 5 0.06
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.17
Consensus pattern (25 bp):
GAGCCAAATATCGGGAAGCTCTGAA
Found at i:50025402 original size:22 final size:22
Alignment explanation
Indices: 50025362--50025425 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
50025352 TGCTCTTTGT
* **
50025362 TCAGTACTTCGGTAATCTCTAA
1 TCAGCACTTCGGTGCTCTCTAA
*
50025384 TCAGCACTTCGGTGCTCTCTAC
1 TCAGCACTTCGGTGCTCTCTAA
* * *
50025406 TTAGCACTACGATGCTCTCT
1 TCAGCACTTCGGTGCTCTCT
50025426 GGTGTGGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (22 bp):
TCAGCACTTCGGTGCTCTCTAA
Found at i:50026653 original size:6 final size:7
Alignment explanation
Indices: 50026636--50026667 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
50026626 AAATATATAT
50026636 TTTTTAA
1 TTTTTAA
50026643 TTTTTAA
1 TTTTTAA
50026650 TTTTTAA
1 TTTTTAA
50026657 -TTTTAA
1 TTTTTAA
50026663 TTTTT
1 TTTTT
50026668 TTTCTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:50026660 original size:13 final size:14
Alignment explanation
Indices: 50026636--50026667 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
50026626 AAATATATAT
50026636 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
50026650 TTTTTAA-TTTTAA
1 TTTTTAATTTTTAA
50026663 TTTTT
1 TTTTT
50026668 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:50027610 original size:24 final size:23
Alignment explanation
Indices: 50027583--50027636 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
50027573 ATATTATTTG
50027583 TATTAATATTTTATACTATTA-AAA
1 TATTAATATTTT-TA-TATTATAAA
*
50027607 TATTCATATTTTTATATTATAAA
1 TATTAATATTTTTATATTATAAA
*
50027630 AATTAAT
1 TATTAAT
50027637 TAATAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTAATATTTTTATATTATAAA
Found at i:50027619 original size:25 final size:24
Alignment explanation
Indices: 50027583--50027641 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
50027573 ATATTATTTG
*
50027583 TATTAATATTTTATACTATTAAAA
1 TATTAATATTTTATACTATAAAAA
* *
50027607 TATTCATATTTTTATATTATAAAAA
1 TATTAATA-TTTTATACTATAAAAA
50027632 TTAATTAATA
1 -T-ATTAATA
50027642 AACATTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.25
25 14 0.50
26 1 0.04
27 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTAATATTTTATACTATAAAAA
Found at i:50027768 original size:21 final size:19
Alignment explanation
Indices: 50027743--50027813 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
50027733 TAATGTTGAC
50027743 ATTTATTATTAAAATAATA
1 ATTTATTATTAAAATAATA
* *
50027762 GATTTTAATATT-ACATAATA
1 -A-TTTATTATTAAAATAATA
50027782 ATTTATTA--AAATATAATAA
1 ATTTATTATTAAA-ATAAT-A
50027801 ATTTATTATTAAA
1 ATTTATTATTAAA
50027814 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 1 0.02
18 11 0.27
19 10 0.24
20 8 0.20
21 11 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
ATTTATTATTAAAATAATA
Found at i:50027827 original size:20 final size:22
Alignment explanation
Indices: 50027784--50027828 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
50027774 ACATAATAAT
* *
50027784 TTATTAAAATATAATAAATTTA
1 TTATTAAAATATAAAAAATATA
50027806 TTATT-AAAT-TAAAAAATATA
1 TTATTAAAATATAAAAAATATA
50027826 TTA
1 TTA
50027829 CATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATTAAAATATAAAAAATATA
Found at i:50028258 original size:20 final size:23
Alignment explanation
Indices: 50028212--50028264 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 23
50028202 TTTTTGAATT
50028212 TATTTATATTTAATAATAAATAA
1 TATTTATATTTAATAATAAATAA
*
50028235 TATTTAT-TTTTA-AATAAA-AA
1 TATTTATATTTAATAATAAATAA
50028255 TATTTATATT
1 TATTTATATT
50028265 ATTTTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 4 0.14
23 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTATATTTAATAATAAATAA
Found at i:50036666 original size:18 final size:17
Alignment explanation
Indices: 50036626--50036676 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
50036616 AAACGGACGG
*
50036626 ATAGAA-AGAAAATTAA
1 ATAGAAGAGAAAAATAA
50036642 A-AG-AGAGAAGAAATAA
1 ATAGAAGAGAA-AAATAA
50036658 ATAGAAGAGGAAAAATAA
1 ATAGAAGA-GAAAAATAA
50036676 A
1 A
50036677 AAGCCAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 7 0.24
17 2 0.07
18 10 0.34
19 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
ATAGAAGAGAAAAATAA
Found at i:50037163 original size:3 final size:3
Alignment explanation
Indices: 50037157--50037215 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
50037147 CCCTAATAGT
*
50037157 AGA AGA AGA AGA AGA ATA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
50037205 AGA AG- AGA AGA
1 AGA AGA AGA AGA
50037216 GACTGTAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:50038828 original size:16 final size:17
Alignment explanation
Indices: 50038803--50038837 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
50038793 ACTTTTTCAA
50038803 TCATCCCTCATCC-CTC
1 TCATCCCTCATCCTCTC
*
50038819 TCATCTCTCATCCTCTC
1 TCATCCCTCATCCTCTC
50038836 TC
1 TC
50038838 TCAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.11, C:0.51, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATCCCTCATCCTCTC
Found at i:50041572 original size:43 final size:43
Alignment explanation
Indices: 50041511--50041599 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
50041501 CGATAATGAG
50041511 CACGTTGAAAATGAGGAAAGTCAACCAGCTATTGAAGTTCTTA
1 CACGTTGAAAATGAGGAAAGTCAACCAGCTATTGAAGTTCTTA
50041554 CACGTTGAAAATGAGGAAAGTCAACCAGCTATTGAAGTTCTTA
1 CACGTTGAAAATGAGGAAAGTCAACCAGCTATTGAAGTTCTTA
50041597 CAC
1 CAC
50041600 CAAAAGAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (43 bp):
CACGTTGAAAATGAGGAAAGTCAACCAGCTATTGAAGTTCTTA
Found at i:50045368 original size:15 final size:17
Alignment explanation
Indices: 50045348--50045385 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
50045338 AAAATAAGTC
50045348 AAAAATGAAGA-TA-AA
1 AAAAATGAAGACTATAA
*
50045363 AAAAATGAATACTATAA
1 AAAAATGAAGACTATAA
50045380 AAAAAT
1 AAAAAT
50045386 AATATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (17 bp):
AAAAATGAAGACTATAA
Found at i:50045763 original size:27 final size:26
Alignment explanation
Indices: 50045708--50045770 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
50045698 TTTAAAGCAC
* *
50045708 AAAAGTATATATACATAAATATTTAA
1 AAAAGTATATAAAAATAAATATTTAA
*
50045734 AAAAGTATCATAAAAATAAA-ATTATTA
1 AAAAGTAT-ATAAAAATAAATATT-TAA
50045761 AAAA-TATATA
1 AAAAGTATATA
50045771 GATAATATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 15 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAAGTATATAAAAATAAATATTTAA
Found at i:50045876 original size:21 final size:21
Alignment explanation
Indices: 50045834--50045876 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
50045824 AGCAAAATCA
* *
50045834 GTATTTAATAAAGTAATTTAC
1 GTATATAATAAAGTAATATAC
50045855 GTATATAA-AAAGTAAATATAC
1 GTATATAATAAAGT-AATATAC
50045876 G
1 G
50045877 AACTAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
GTATATAATAAAGTAATATAC
Found at i:50047283 original size:44 final size:44
Alignment explanation
Indices: 50047186--50047487 Score: 359
Period size: 44 Copynumber: 6.9 Consensus size: 44
50047176 CATAGAAACT
* * *
50047186 AATCTTCCACATATTCCACTGCTGGTTAGGGAGA-AGGACTGAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
50047229 AATCTTCCACCTATTCTACTGCTGGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* **
50047273 AATCTTCCACCTATTCCACTGCTGGTCAGAGAGATAGGACTTGT
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
50047317 AATCTTCGACC---T--A--GCTGGTCAGGGAGATAGGACTAAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
50047354 AATCTTCCACCTATTCCAATGCTGGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
50047398 AATATTCCACCTATTCCACTGCTGGTCAGAGAGATAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTC--------AGGGAGATAGGACTTAC
* *
50047450 AATATTCCACCTATTCCACTGCTGGTCAGAGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
50047488 GCTGGTATCT
Statistics
Matches: 225, Mismatches: 18, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
37 30 0.13
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 31 0.14
44 116 0.52
52 44 0.20
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (44 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:50047358 original size:37 final size:37
Alignment explanation
Indices: 50047286--50047366 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
50047276 CTTCCACCTA
***
50047286 TTCCA-CT-GCTGGTCAGAGAGATAGGACTTGTAATC
1 TTCCACCTAGCTGGTCAGAGAGATAGGACTAACAATC
* *
50047321 TTCGACCTAGCTGGTCAGGGAGATAGGACTAACAATC
1 TTCCACCTAGCTGGTCAGAGAGATAGGACTAACAATC
50047358 TTCCACCTA
1 TTCCACCTA
50047367 TTCCAATGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 4 0.11
36 2 0.05
37 32 0.84
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (37 bp):
TTCCACCTAGCTGGTCAGAGAGATAGGACTAACAATC
Found at i:50047410 original size:81 final size:81
Alignment explanation
Indices: 50047249--50047410 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 81
50047239 CTATTCTACT
* *
50047249 GCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTCAGAGAGATAGGACT
1 GCTGGTCAGGGAGATAGGACTAACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
** * *
50047314 TGTAATCTTCGACCTA
66 TACAATATTCCACCTA
*
50047330 GCTGGTCAGGGAGATAGGACTAACAATCTTCCACCTATTCCAATGCTGGTCAGGGAGATAGGACT
1 GCTGGTCAGGGAGATAGGACTAACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
50047395 TACAATATTCCACCTA
66 TACAATATTCCACCTA
50047411 TTCCACTGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (81 bp):
GCTGGTCAGGGAGATAGGACTAACAATCTTCCACCTATTCCAATGCTGGTCAGAGAGATAGGACT
TACAATATTCCACCTA
Found at i:50047442 original size:52 final size:52
Alignment explanation
Indices: 50047381--50047488 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
50047371 AATGCTGGTC
50047381 AGGGAGATAGGACTTACAATATTCCACCTATTCCACTGCTGGTCAGAGAGAT
1 AGGGAGATAGGACTTACAATATTCCACCTATTCCACTGCTGGTCAGAGAGAT
50047433 AGGGAGATAGGACTTACAATATTCCACCTATTCCACTGCTGGTCAGAGAGAT
1 AGGGAGATAGGACTTACAATATTCCACCTATTCCACTGCTGGTCAGAGAGAT
50047485 AGGG
1 AGGG
50047489 CTGGTATCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (52 bp):
AGGGAGATAGGACTTACAATATTCCACCTATTCCACTGCTGGTCAGAGAGAT
Found at i:50047604 original size:88 final size:87
Alignment explanation
Indices: 50047487--50047765 Score: 285
Period size: 88 Copynumber: 3.2 Consensus size: 87
50047477 AGAGAGATAG
* * * *
50047487 GGCTGGTATCTTTGATCTGCTTCGTTGTCAGTACAAGAAGGCAAGAT-TCATTATATTCAACCTG
1 GGCTAGTATCTTCGATCTGCTTCGATGTCAGTACAAGAAGGCAAGATCTC--TATCTTCAACCTG
*
50047551 CTCCGCTGCAACCCAGGGAGGCAA
64 CTCCGCTGCAACCGAGGGAGGCAA
* ** ***
50047575 GGCTAGTATCTTCGATCTGCTTCGATGTCAGTA-TAGTAAGGCAAGGCCTGCTATCTTCAGTTTG
1 GGCTAGTATCTTCGATCTGCTTCGATGTCAGTACAAG-AAGGCAAGATCT-CTATCTTCAACCTG
* * * *
50047639 CTCTGCTACAACTGAGGGAGACAA
64 CTCCGCTGCAACCGAGGGAGGCAA
* * * * * *
50047663 GGCTGGTATCTTCGATTTGTTTCGCTGTC-GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTG
1 GGCTAGTATCTTCGATCTGCTTCGATGTCAG-TACAAGAAGGCAAGATCT-CTATCTTCAACCTG
*
50047727 CTCCACTGCAACCGAGGGAGGCAA
64 CTCCGCTGCAACCGAGGGAGGCAA
50047751 GGCTAGTATCTTCGA
1 GGCTAGTATCTTCGA
50047766 CCTACTCCAC
Statistics
Matches: 153, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
87 3 0.02
88 147 0.96
89 2 0.01
90 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (87 bp):
GGCTAGTATCTTCGATCTGCTTCGATGTCAGTACAAGAAGGCAAGATCTCTATCTTCAACCTGCT
CCGCTGCAACCGAGGGAGGCAA
Found at i:50047751 original size:44 final size:44
Alignment explanation
Indices: 50047701--50047808 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 44
50047691 CGATGCAGGA
* *
50047701 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGG
* * ** **
50047745 AGGCAAG-GCTAG-TATCTTCGACCTACTCCACTACTGCTTAGGG
1 AGGCAAGATCT-GCTATCTTCAACCTACTCCACTACAACCGAGGG
*
50047788 AGGCCAGATCTGCTATCTTCA
1 AGGCAAGATCTGCTATCTTCA
50047809 CTAATCTGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
43 33 0.66
44 17 0.34
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGG
Found at i:50049055 original size:21 final size:21
Alignment explanation
Indices: 50049031--50049079 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
50049021 TTAGCCTCTC
*
50049031 CATTTTTAATTTTTACTTTTT
1 CATTTTTAATTTTCACTTTTT
** *
50049052 CATTTTCCATTTTCATTTTTT
1 CATTTTTAATTTTCACTTTTT
50049073 CATTTTT
1 CATTTTT
50049080 CGCATTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTAATTTTCACTTTTT
Found at i:50049071 original size:7 final size:7
Alignment explanation
Indices: 50049031--50049080 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
50049021 TTAGCCTCTC
50049031 CATTTTT
1 CATTTTT
*
50049038 AATTTTT
1 CATTTTT
50049045 -ACTTTTT
1 CA-TTTTT
*
50049052 CATTTTC
1 CATTTTT
50049059 CA-TTTT
1 CATTTTT
50049065 CATTTTTT
1 CA-TTTTT
50049073 CATTTTT
1 CATTTTT
50049080 C
1 C
50049081 GCATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:50049987 original size:6 final size:6
Alignment explanation
Indices: 50049969--50050034 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
50049959 CATTTTCATT
* ** * * * *
50049969 TTTTGA CTTTGA TTTTGA TTTTTTCT TTTTGC TTTTGC TTTTGC TTTTGC
1 TTTTGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
50050019 TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTT
50050035 TTTCTTCCCC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
6 47 0.92
8 4 0.08
ACGTcount: A:0.08, C:0.09, G:0.14, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:50050010 original size:18 final size:18
Alignment explanation
Indices: 50049981--50050034 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
50049971 TTGACTTTGA
*
50049981 TTTTGATTTTTTCTTTTTGC
1 TTTTGA-TTTTGC-TTTTGC
*
50050001 TTTTGCTTTTGCTTTTGC
1 TTTTGATTTTGCTTTTGC
*
50050019 TTTTGATTTTGATTTT
1 TTTTGATTTTGCTTTT
50050035 TTTCTTCCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 20 0.67
19 5 0.17
20 5 0.17
ACGTcount: A:0.06, C:0.09, G:0.13, T:0.72
Consensus pattern (18 bp):
TTTTGATTTTGCTTTTGC
Found at i:50054903 original size:59 final size:60
Alignment explanation
Indices: 50054827--50054939 Score: 203
Period size: 59 Copynumber: 1.9 Consensus size: 60
50054817 CAAAATGAAG
50054827 TTTAAAGTGAATATTGTATATGAAGAAAACCAAAATACATGAAATAATATATACATATTAA
1 TTTAAAGTGAATATTGTATATGAAGAAAACCAAAATACATGAAATAATAT-TACATATTAA
50054888 TTTAAA-T-AATATTGTATATGAAGAAAACCAAAATACATGAAATAATATTACA
1 TTTAAAGTGAATATTGTATATGAAGAAAACCAAAATACATGAAATAATATTACA
50054940 CATGAAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 4 0.08
59 41 0.79
60 1 0.02
61 6 0.12
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (60 bp):
TTTAAAGTGAATATTGTATATGAAGAAAACCAAAATACATGAAATAATATTACATATTAA
Found at i:50060706 original size:7 final size:7
Alignment explanation
Indices: 50060694--50060723 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
50060684 ACTTTTTCAT
50060694 TCATCCC
1 TCATCCC
50060701 TCATCCC
1 TCATCCC
*
50060708 TCAACCC
1 TCATCCC
50060715 TCATCCC
1 TCATCCC
50060722 TC
1 TC
50060724 TCATCTCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.57, G:0.00, T:0.27
Consensus pattern (7 bp):
TCATCCC
Found at i:50067384 original size:27 final size:27
Alignment explanation
Indices: 50067339--50067391 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
50067329 CCCTTTCGCC
* *
50067339 CTGTGTTTACTGTCTTGGCAGACTACT
1 CTGTGTTTACAGTCCTGGCAGACTACT
*
50067366 CTGTGTTTACAGTCCTGGCAGGCTAC
1 CTGTGTTTACAGTCCTGGCAGACTAC
50067392 CCAAGGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGTGTTTACAGTCCTGGCAGACTACT
Found at i:50074728 original size:26 final size:26
Alignment explanation
Indices: 50074692--50074745 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
50074682 AGTGTCTGCC
50074692 ATAAACAAAAGCATGAAATAATCAAA
1 ATAAACAAAAGCATGAAATAATCAAA
50074718 ATAAACAAAAGCATGAAATAATCAAA
1 ATAAACAAAAGCATGAAATAATCAAA
50074744 AT
1 AT
50074746 TGACTAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.65, C:0.11, G:0.07, T:0.17
Consensus pattern (26 bp):
ATAAACAAAAGCATGAAATAATCAAA
Found at i:50075857 original size:31 final size:30
Alignment explanation
Indices: 50075800--50075858 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
50075790 CATTTGACTG
* * *
50075800 TTTGGTCACTTTGGCCCTTTATGTTTTTAT
1 TTTGGTCACTTTGGCCCCTAACGTTTTTAT
50075830 TTTGGATCACTTTGGCCCCTAACGTTTTT
1 TTTGG-TCACTTTGGCCCCTAACGTTTTT
50075859 TTGTCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.51
Consensus pattern (30 bp):
TTTGGTCACTTTGGCCCCTAACGTTTTTAT
Found at i:50076029 original size:10 final size:10
Alignment explanation
Indices: 50076006--50076071 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
50075996 GCAAATCATT
50076006 TTAAAATT-A
1 TTAAAATTAA
50076015 TTAAAATTAA
1 TTAAAATTAA
*
50076025 TTAAAATTTA
1 TTAAAATTAA
* *
50076035 TTAAAATGATT
1 TTAAAATTA-A
*
50076046 TTAAAA-TCA
1 TTAAAATTAA
*
50076055 TTAAAATTAT
1 TTAAAATTAA
50076065 TTAAAAT
1 TTAAAAT
50076072 AATAATAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
9 14 0.31
10 25 0.56
11 6 0.13
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:50076035 original size:20 final size:19
Alignment explanation
Indices: 50076005--50076071 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
50075995 AGCAAATCAT
50076005 TTTAAAATTATTAAAATTA
1 TTTAAAATTATTAAAATTA
* *
50076024 ATTAAAATTTATTAAAATGA
1 TTTAAAA-TTATTAAAATTA
*
50076044 TTTTAAAATCATTAAAATTA
1 -TTTAAAATTATTAAAATTA
50076064 TTTAAAAT
1 TTTAAAAT
50076072 AATAATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 14 0.34
20 21 0.51
21 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (19 bp):
TTTAAAATTATTAAAATTA
Found at i:50076081 original size:30 final size:30
Alignment explanation
Indices: 50076024--50076081 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
50076014 ATTAAAATTA
* **
50076024 ATTAAAATTTATTAAAATGATTTTAAAATC
1 ATTAAAATTTATTAAAATAATAATAAAATC
50076054 ATTAAAA-TTATTTAAAATAATAATAAAA
1 ATTAAAATTTA-TTAAAATAATAATAAAA
50076082 AACCCTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTAAAATTTATTAAAATAATAATAAAATC
Found at i:50076755 original size:28 final size:29
Alignment explanation
Indices: 50076692--50076763 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
50076682 GTGAGCAATC
* *
50076692 CCCAATATCTCCAAACTCAAAAACCCTAA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
* * * *
50076721 ACAAAAATCTCCAAAAT-AAAAACCTTTA
1 CCCAAAATCTCCAAAATCAAAAACCCTAA
*
50076749 CCCAAAATCCCCAAA
1 CCCAAAATCTCCAAA
50076764 TTTAGCTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (29 bp):
CCCAAAATCTCCAAAATCAAAAACCCTAA
Found at i:50076802 original size:22 final size:23
Alignment explanation
Indices: 50076777--50076826 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
50076767 AGCTATCCAA
50076777 AACCCAAAATCCC-AAATTCAAC
1 AACCCAAAATCCCTAAATTCAAC
* **
50076799 AACCCTAAATCCCTAAATTTGAC
1 AACCCAAAATCCCTAAATTCAAC
50076822 AACCC
1 AACCC
50076827 TAAACAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (23 bp):
AACCCAAAATCCCTAAATTCAAC
Done.