Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 48 of 144
Found at i:15160860 original size:21 final size:21
Alignment explanation
Indices: 15160819--15160887 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
15160809 ATTAAAAAGA
*
15160819 TTTTTCTTGTAAAA-ATCCAAG
1 TTTTTCTTATAAAACAT-CAAG
*
15160840 TTTTTCTTATAAAACCTCAAG
1 TTTTTCTTATAAAACATCAAG
* * *
15160861 TAATTCCTTATAAAACTTCATAG
1 T-TTTTCTTATAAAACATCA-AG
15160884 TTTT
1 TTTT
15160888 CCCTTTTACT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 18 0.46
22 18 0.46
23 3 0.08
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (21 bp):
TTTTTCTTATAAAACATCAAG
Found at i:15160889 original size:22 final size:21
Alignment explanation
Indices: 15160836--15160889 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
15160826 TGTAAAAATC
*
15160836 CAAGTTTTTCTTATAAAACCT
1 CAAGTTTTCCTTATAAAACCT
* *
15160857 CAAGTAATTCCTTATAAAACTT
1 CAAGT-TTTCCTTATAAAACCT
15160879 CATAGTTTTCC
1 CA-AGTTTTCC
15160890 CTTTTACTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 19 0.70
23 3 0.11
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (21 bp):
CAAGTTTTCCTTATAAAACCT
Found at i:15160942 original size:28 final size:30
Alignment explanation
Indices: 15160901--15160962 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
15160891 TTTTACTAGG
15160901 AAAAAAACTAAAATTAA-TTCTAAAAAGAT
1 AAAAAAACTAAAATTAATTTCTAAAAAGAT
* *
15160930 AAAAAAA-TAAAATTAATTTTTAAAAATAT
1 AAAAAAACTAAAATTAATTTCTAAAAAGAT
15160959 AAAA
1 AAAA
15160963 TGAGTGACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAAAAACTAAAATTAATTTCTAAAAAGAT
Found at i:15161760 original size:31 final size:31
Alignment explanation
Indices: 15161693--15161760 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
15161683 TTTGTTGTTA
*
15161693 GTCAAATTCAACTCTTTTTGAAAAGTTGATG
1 GTCAAATTCAACTCTTTTTGAAAAGTTGAGG
* **
15161724 ATCAAATTCGTCTCTTTTT-AAAATGTTGAGG
1 GTCAAATTCAACTCTTTTTGAAAA-GTTGAGG
15161755 GTCAAA
1 GTCAAA
15161761 ATTAGCTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (31 bp):
GTCAAATTCAACTCTTTTTGAAAAGTTGAGG
Found at i:15171260 original size:33 final size:33
Alignment explanation
Indices: 15171223--15171286 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
15171213 AAATGTGTTT
15171223 TTATAAAGGTTTAGCATAGGCTGATAACCTACA
1 TTATAAAGGTTTAGCATAGGCTGATAACCTACA
15171256 TTATAAAGGTTTAGCATAGGCTGATAACCTA
1 TTATAAAGGTTTAGCATAGGCTGATAACCTA
15171287 ACACAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (33 bp):
TTATAAAGGTTTAGCATAGGCTGATAACCTACA
Found at i:15179580 original size:94 final size:96
Alignment explanation
Indices: 15179411--15179594 Score: 300
Period size: 94 Copynumber: 1.9 Consensus size: 96
15179401 GTAATCTATA
*
15179411 CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTTAGATAATTACGTTTATCTTT
1 CCGAAAATATTAAACACGTCCATTCATTTTGAAACC-TTTTTTTTAGATAATTACATTTATCTTT
15179476 AAATTAAGAGTTATTTTTTTAACTTATTATTG
65 AAATTAAGAGTTATTTTTTTAACTTATTATTG
* ** *
15179508 CCGAAAATATTAAACATGTGTATTCATTTTGAAA-C-TTTTTTTAGATAATTATATTTATCTTTA
1 CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTAGATAATTACATTTATCTTTA
15179571 AATTAAGAGTTATTTTTTTAACTT
66 AATTAAGAGTTATTTTTTTAACTT
15179595 CATGAATTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 50 0.61
96 1 0.01
97 31 0.38
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (96 bp):
CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTAGATAATTACATTTATCTTTA
AATTAAGAGTTATTTTTTTAACTTATTATTG
Found at i:15181258 original size:27 final size:27
Alignment explanation
Indices: 15181220--15181300 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
15181210 GATATCTACT
* * * *
15181220 CCGAAGTACCCCAACAGGTTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
15181247 CCGAAATACCCCCATAGGGTAGAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
15181274 CCCAAATACCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
15181301 TTGTTATACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.15
Consensus pattern (27 bp):
CCGAAATACCCCCATAGGGTAAAATGA
Found at i:15184363 original size:27 final size:26
Alignment explanation
Indices: 15184305--15184355 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
15184295 TTAATTTTAG
* *
15184305 AATAAATAATATATAAAATAACTTAA
1 AATAAATAATATACAAAACAACTTAA
15184331 AATAAAATAATATACAAAACAACTT
1 AAT-AAATAATATACAAAACAACTT
15184356 GATGTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAAATAATATACAAAACAACTTAA
Found at i:15185621 original size:21 final size:22
Alignment explanation
Indices: 15185595--15185637 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15185585 GGGCCAGGGT
15185595 ATTGGGCTTAG-GTTTAGGCTA
1 ATTGGGCTTAGTGTTTAGGCTA
* *
15185616 ATTGGGTTTAGTGTTTGGGCTA
1 ATTGGGCTTAGTGTTTAGGCTA
15185638 GGTTAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.35, T:0.42
Consensus pattern (22 bp):
ATTGGGCTTAGTGTTTAGGCTA
Found at i:15197358 original size:30 final size:29
Alignment explanation
Indices: 15197321--15197435 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 29
15197311 TAGGGCTGAG
*
15197321 ATGTAATTTTTAGAAAGTTTAGAGGTCAA
1 ATGTAATTTTTAGAAAGTTTAGGGGTCAA
* *
15197350 AGTGTAATTTTAAGAAAGTTTAGGGGTTGAA
1 A-TGTAATTTTTAGAAAGTTTAGGGG-TCAA
15197381 ATGTAA-TTTTAGAAAAGTTT-GGGGTCAAA
1 ATGTAATTTTTAG-AAAGTTTAGGGGTC-AA
* * *
15197410 ATGTAAATTTTAAAAAGTATAGGGGT
1 ATGTAATTTTTAGAAAGTTTAGGGGT
15197436 TAAAACATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.01
29 24 0.33
30 44 0.60
31 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (29 bp):
ATGTAATTTTTAGAAAGTTTAGGGGTCAA
Found at i:15197434 original size:59 final size:58
Alignment explanation
Indices: 15197280--15197436 Score: 176
Period size: 59 Copynumber: 2.7 Consensus size: 58
15197270 ACACAAAATA
* * * *
15197280 TTTGGGGTAAAAATGTAATTTTGGGAAAA-TATA-GGGCTGAGATGTAATTTTTAGAAAG
1 TTTGGGGTCAAAATGTAATTTT--AAAAAGTATAGGGGTTGAAATGTAATTTTTAGAAAG
* * *
15197338 TTTAGAGGTCAAAGTGTAATTTTAAGAAAGTTTAGGGGTTGAAATGTAA-TTTTAGAAAAG
1 TTT-GGGGTCAAAATGTAATTTTAA-AAAGTATAGGGGTTGAAATGTAATTTTTAG-AAAG
15197398 TTTGGGGTCAAAATGTAAATTTTAAAAAGTATAGGGGTT
1 TTTGGGGTCAAAATGT-AATTTTAAAAAGTATAGGGGTT
15197437 AAAACATAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
57 1 0.01
58 6 0.07
59 49 0.59
60 27 0.33
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (58 bp):
TTTGGGGTCAAAATGTAATTTTAAAAAGTATAGGGGTTGAAATGTAATTTTTAGAAAG
Found at i:15198292 original size:77 final size:76
Alignment explanation
Indices: 15197766--15199209 Score: 1578
Period size: 75 Copynumber: 18.8 Consensus size: 76
15197756 GATTCGAAGT
* * *** * * *
15197766 TCAACTCACTTCTCGGATTATGAGTTGAGCCTT--GAAAAATAGAAATTGAAAAATACCTCGACG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTC-A-G
* * *
15197829 TGTGTCGCGAGGC
64 CGTGACCCGAGGC
* * *
15197842 TCAACTCACCTCTCGCAGTATGAGTTGATTTTTAACAACAAAACAGAAATGTAAAAGAAGTATCT
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAA-AA-AAAACAGAAAT-TAAAA-AA-TACCT
* *
15197907 CGGTATGTGACCCGAGGC
61 CAG--CGTGACCCGAGGC
* * * * *
15197925 TCAACTCACCTCTCGCAATATGAGTTGGTTTGT--GAAAAACAGAAATTTAAAAGAAATACCTCA
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCA
*
15197988 GCATGTGACCTGAGGC
63 GC--GTGACCCGAGGC
* * * * *
15198004 TCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAACAAAACAAAAATGTAAAAGAAGTACCT
1 TCAACTCACCTCTCGTATTATGAGTTGATTTT-TAAAA-AAAACAGAAAT-TAAAA-AA-TACCT
* *
15198069 CGGTATGTGACCCGAGGC
61 CAG--CGTGACCCGAGGC
* * * * *
15198087 TCAACTCACCTCTCGCAATATGAGTTGATTTGT--GAAAAATAGAAATTTAAAAGAAATACCTCA
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCA
*
15198150 ACATGTGACCCGAGGC
63 GC--GTGACCCGAGGC
* * * *
15198166 TCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAACAGAAATT-AAAAATACCTCAGCG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
15198230 TGACCCGAGGC
66 TGACCCGAGGC
* * *
15198241 GCAACTCACCTTTCGTATTATGAGTTGATTTTTAAAAAAAAGACAGAAATT-AAAAACACCTCAG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTT-AAAAAAA-ACAGAAATTAAAAAATACCTCAG
15198305 CGTGACCCGAGGC
64 CGTGACCCGAGGC
* * *
15198318 TTCAACTCACCTCTCGAATTATGAGTTTATTTTTAAAAAAGACAGAAATT-AAAAATACCTCAGC
1 -TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGC
*
15198382 GTGACTCGAGGC
65 GTGACCCGAGGC
* **
15198394 TCAACTCACCTCTCGTATTATGAGTT-A-ATTTATGAAAAACAGAAATTTAAAAGAAATACCTCA
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCA
15198457 GCATGTGACCCGAGGC
63 GC--GTGACCCGAGGC
* * * *
15198473 TCAACTCACTTCTCGCAATATGAGTTGA--TTT-AAAAAAACAGAAATT-AAAAATACCTCAGCT
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
*
15198534 TGACCCAAGGC
66 TGACCCGAGGC
* * *
15198545 TCAACTCACCTCTCGTATTATGAGTTGATTTTTTTTAAAAAATATAAAAATT-AAAAATACCTCA
1 TCAACTCACCTCTCGTATTATGAGTTGA---TTTTTAAAAAAAACAGAAATTAAAAAATACCTCA
15198609 GCGTGACCCGAGGC
63 GCGTGACCCGAGGC
* *
15198623 GCAACTCACCTTTCGTATTATGAGTTGATTTTTAAAAAACAGACAGAAATT-AAAAATACCTCAG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAA-A-ACAGAAATTAAAAAATACCTCAG
*
15198687 CGTGACTCGAGGC
64 CGTGACCCGAGGC
**
15198700 TCAACTCACCTCTCGTATTATGAGTTGA--TTTATGAAAAACAGAAATTTAAAAGAAATACCTCA
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCA
*
15198763 GCATGTGACCCGATGC
63 GC--GTGACCCGAGGC
* * * * *
15198779 TGAACTCACTTCTCGCAATATGAGTTGA--TTT-AAAAAAACAAAAATT-AAAAATACCTCAGCG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
15198840 TGACCCGAGGC
66 TGACCCGAGGC
*
15198851 TCAACTCACATCTCGTATTATGAGTTGATTTTTAAAAAACAGACAGAAATT-AAAAATACCTCAG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAA-A-ACAGAAATTAAAAAATACCTCAG
15198915 CGTGACCCGAGGC
64 CGTGACCCGAGGC
15198928 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATT-AAAAATACCTCAG
1 -TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAA-ACAGAAATTAAAAAATACCTCAG
*
15198992 CGTGACTCGAGGC
64 CGTGACCCGAGGC
*
15199005 TCAACTCACCTCTCGTATTATGAGTTGATTTTT-GAAAAAACAGAAATTAAAAAATACCTCAGCG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
15199069 TGACCCGAGGC
66 TGACCCGAGGC
*
15199080 TCAACTCACCTCTCGTATTATGAGTTGATTTTT-GAAAAAACAGAAATTAAAAAATACCTCAGCG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
15199144 TGACCCGAGGC
66 TGACCCGAGGC
* * *
15199155 TCAACTCACCTCTCGTATTATGAGTTGATTTTT--GAAAAACAAAAATTGAAAAATA
1 TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATA
15199210 TAATTCTTGA
Statistics
Matches: 1195, Mismatches: 112, Indels: 124
0.84 0.08 0.09
Matches are distributed among these distances:
72 70 0.06
73 21 0.02
74 61 0.05
75 229 0.19
76 105 0.09
77 210 0.18
78 152 0.13
79 189 0.16
80 27 0.02
81 18 0.02
82 9 0.01
83 104 0.09
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (76 bp):
TCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCG
TGACCCGAGGC
Found at i:15198745 original size:306 final size:305
Alignment explanation
Indices: 15197766--15199209 Score: 1852
Period size: 306 Copynumber: 4.7 Consensus size: 305
15197756 GATTCGAAGT
* * ** * *
15197766 TCAACTCACTTCTCGGATTATGAGTTGAGCCT-TGAAAAATAGAAA-TT-GAA-AAATACCTC-G
1 TCAACTCACCTCTCGTATTATGAGTTGA-TTTATGAAAAACAGAAATTTAAAAGAAATACCTCAG
* * * * *
15197826 ACGTGTGTCGCGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTAACAACAAAACAGAAA
65 -CATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTT-A-AA-AAAACAGAAA
* * * * * *
15197891 TGTAAAAGAAGTATCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--GT
125 T-T-AAA-AA-TACCTCAG--CGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTT
* * * * * *
15197954 TTGTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCTGAGGC-TCAACTCACTTCTC
184 TTTTAAAAAACAAAAAATT--AA-AAATACCTCAGC--GTGACCCGAGGCTTCAACTCACCTCTC
* * * * * * * *
15198018 GCAATATGAGTTGATTTTAAAAAACAAAACAAAAATGTAAAAGAAGTACCTCGGTATGTGACCCG
244 GTATTATGAGTTGATTTTTAAAAA-AAGACAGAAAT-T-AAA-AA-TACCTCAG--CGTGACTCG
15198083 AGGC
302 AGGC
* * * * *
15198087 TCAACTCACCTCTCGCAATATGAGTTGATTTGTGAAAAATAGAAATTTAAAAGAAATACCTCAAC
1 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
15198152 ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAACAGAAATTAA
66 ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT--AAAAAAACAGAAATTAA
* * **
15198217 AAATACCTCAGCGTGACCCGAGGCGCAACTCACCTTTCGTATTATGAGTTGATTTTTAAAAAAAA
129 AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTAAAAAA
* * * * *
15198282 GACAGAAATTAAAAACACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGAATTATGAGTTTA
194 CA-AAAAATTAAAAATACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGTATTATGAGTTGA
15198347 TTTTT-AAAAAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
258 TTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
*
15198394 TCAACTCACCTCTCGTATTATGAGTTAATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
15198459 ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTAAAAAAACAGAAATTAAAA
66 ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAACAGAAATTAAAA
* * *
15198523 ATACCTCAGCTTGACCCAAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTTAAAAAAT
131 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTTTTAAAAAAC
* *
15198588 ATAAAAATTAAAAATACCTCAGCGTGACCCGAGGC-GCAACTCACCTTTCGTATTATGAGTTGAT
195 A-AAAAATTAAAAATACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGTATTATGAGTTGAT
15198652 TTTTAAAAAACAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
259 TTTTAAAAAA-AGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
15198700 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
* * *
15198765 ATGTGACCCGATGCTGAACTCACTTCTCGCAATATGAGTTGA-TTTAAAAAAACAAAAATTAAAA
66 ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAACAGAAATTAAAA
*
15198829 ATACCTCAGCGTGACCCGAGGCTCAACTCACATCTCGTATTATGAGTTGA--TTTTTAAAAAACA
131 ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTAAAAAACA
15198892 GACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGTATTATGAGTTGA
196 -A-A-AAATTAAAAATACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGTATTATGAGTTGA
15198957 TTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
258 TTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
*
15199005 TCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAA-TT-AAA-AAATACCTCAG
1 TCAACTCACCTCTCGTATTATGAGTTGATTTATG-AAAAACAGAAATTTAAAAGAAATACCTCAG
* * * *
15199067 C--GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAA
65 CATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTAAAAAAACAGAAATT-A
*
15199130 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTTTGAAAA
128 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTAAAAA
15199193 AC-AAAAATTGAAAAATA
193 ACAAAAAATT-AAAAATA
15199210 TAATTCTTGA
Statistics
Matches: 1022, Mismatches: 80, Indels: 62
0.88 0.07 0.05
Matches are distributed among these distances:
300 5 0.00
301 43 0.04
302 1 0.00
303 41 0.04
304 162 0.16
305 151 0.15
306 260 0.25
307 112 0.11
309 7 0.01
310 2 0.00
311 3 0.00
312 1 0.00
313 9 0.01
314 15 0.01
315 28 0.03
316 46 0.05
317 2 0.00
318 15 0.01
319 6 0.01
320 4 0.00
321 39 0.04
322 13 0.01
323 8 0.01
324 49 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (305 bp):
TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
ATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAACAGAAATTAAAA
ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTTTAAAAAACA
AAAAATTAAAAATACCTCAGCGTGACCCGAGGCTTCAACTCACCTCTCGTATTATGAGTTGATTT
TTAAAAAAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGC
Found at i:15200078 original size:9 final size:9
Alignment explanation
Indices: 15200064--15200103 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
15200054 TCTGGATTCT
15200064 TTTTTTTTG
1 TTTTTTTTG
15200073 TTTTTTTT-
1 TTTTTTTTG
*
15200081 TTGTTTTTG
1 TTTTTTTTG
15200090 TTTTTTTTG
1 TTTTTTTTG
15200099 TTTTT
1 TTTTT
15200104 AGGCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:15200081 original size:15 final size:15
Alignment explanation
Indices: 15200063--15200103 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
15200053 ATCTGGATTC
*
15200063 TTTTTTT-TTGTT-T
1 TTTTTTTGTTTTTGT
15200076 TTTTTTTGTTTTTGT
1 TTTTTTTGTTTTTGT
15200091 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
15200104 AGGCATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 7 0.28
14 4 0.16
15 14 0.56
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTGTTTTTGT
Found at i:15200087 original size:17 final size:16
Alignment explanation
Indices: 15200063--15200103 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 16
15200053 ATCTGGATTC
15200063 TTTTTTTTTGTTTTTT
1 TTTTTTTTTGTTTTTT
15200079 TTTTGTTTTTGTTTTTT
1 TTTT-TTTTTGTTTTTT
15200096 TTGTTTTT
1 TT-TTTTT
15200104 AGGCATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 17 0.74
18 2 0.09
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTT
Found at i:15211225 original size:19 final size:20
Alignment explanation
Indices: 15211201--15211248 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
15211191 AACACGAAAG
**
15211201 TTTTTGAAATGCGAG-AATA
1 TTTTTGAAACACGAGAAATA
*
15211220 TTTTTGAAACACGAGAAATT
1 TTTTTGAAACACGAGAAATA
15211240 TTTTTGAAA
1 TTTTTGAAA
15211249 ACGCAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTTGAAACACGAGAAATA
Found at i:15211330 original size:18 final size:18
Alignment explanation
Indices: 15211267--15211400 Score: 97
Period size: 18 Copynumber: 7.7 Consensus size: 18
15211257 AAGTGAAAAA
* *
15211267 TTTTTGAAATAC-GAGAAA
1 TTTTTGAAA-ACACAGAAT
15211285 TTTTTGAAAACAC-GAA-
1 TTTTTGAAAACACAGAAT
* * *
15211301 TATTAG-AAACACAGGAT
1 TTTTTGAAAACACAGAAT
15211318 TTTTTGAAAACACGAGAAT
1 TTTTTGAAAACAC-AGAAT
*
15211337 TTTTT-AAAA-ACATGAAAA
1 TTTTTGAAAACACA-G-AAT
15211355 TTTTTG-AAACAC-G-AT
1 TTTTTGAAAACACAGAAT
*
15211370 TTTTTTAAAACACGAGAAT
1 TTTTTGAAAACAC-AGAAT
15211389 TTTTTGAAAACA
1 TTTTTGAAAACA
15211401 TGAAAATTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
15 12 0.13
16 13 0.14
17 13 0.14
18 30 0.33
19 24 0.26
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACAGAAT
Found at i:15211339 original size:17 final size:18
Alignment explanation
Indices: 15211265--15211428 Score: 121
Period size: 19 Copynumber: 9.4 Consensus size: 18
15211255 AAAAGTGAAA
*
15211265 AATTTTTG-AAATACGAG
1 AATTTTTGAAAACACGAG
15211282 AAATTTTTGAAAACAC--G
1 -AATTTTTGAAAACACGAG
* *
15211299 AATATTAG-AAACAC-AGG
1 AATTTTTGAAAACACGA-G
*
15211316 ATTTTTTGAAAACACGAG
1 AATTTTTGAAAACACGAG
* * *
15211334 AATTTTTTAAAAACATGAA
1 AA-TTTTTGAAAACACGAG
15211353 AATTTTTG-AAACAC--G
1 AATTTTTGAAAACACGAG
* *
15211368 ATTTTTTTAAAACACGAG
1 AATTTTTGAAAACACGAG
* *
15211386 AATTTTTTGAAAACATGAA
1 AA-TTTTTGAAAACACGAG
*
15211405 AATTTGTG-AAACACGAG
1 AATTTTTGAAAACACGAG
15211422 AATTTTT
1 AATTTTT
15211429 TTTTGAAAAC
Statistics
Matches: 113, Mismatches: 23, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
15 12 0.11
16 12 0.11
17 25 0.22
18 28 0.25
19 36 0.32
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (18 bp):
AATTTTTGAAAACACGAG
Found at i:15211445 original size:17 final size:16
Alignment explanation
Indices: 15211425--15211456 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15211415 ACACGAGAAT
15211425 TTTTTTTTGAAAACTAA
1 TTTTTTTT-AAAACTAA
15211442 TTTTTTTTAAAACTA
1 TTTTTTTTAAAACTA
15211457 GAAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTTTTTAAAACTAA
Found at i:15211447 original size:16 final size:16
Alignment explanation
Indices: 15211426--15211456 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15211416 CACGAGAATT
15211426 TTTTTTTGAAAACTAA
1 TTTTTTTGAAAACTAA
*
15211442 TTTTTTTTAAAACTA
1 TTTTTTTGAAAACTA
15211457 GAAATTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTTTTTGAAAACTAA
Found at i:15211492 original size:54 final size:54
Alignment explanation
Indices: 15211267--15211492 Score: 198
Period size: 52 Copynumber: 4.2 Consensus size: 54
15211257 AAGTGAAAAA
* * * * * *
15211267 TTTTTGAAATACGAGAAATTTTTGAAAACACG--AATATTAGAAACACAGG-ATT
1 TTTTTAAAAAACGAGAATTTTTTGAAAACATGAAAATTTTTGAAACAC-GGAATT
* * *
15211319 TTTTGAAAACACGAGAATTTTTTAAAAACATGAAAATTTTTGAAACAC-G-ATT
1 TTTTTAAAAAACGAGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAATT
* *
15211371 TTTTTAAAACACGAGAATTTTTTGAAAACATGAAAATTTGTGAAACACGAGAATTT
1 TTTTTAAAAAACGAGAATTTTTTGAAAACATGAAAATTTTTGAAACACG-GAA-TT
** * * *
15211427 TTTTTTGAAAACTA-ATTTTTTTTAAAAC-T-AGAAATTTTTGAAACACGGGAATT
1 TTTTTAAAAAACGAGAATTTTTTGAAAACATGA-AAATTTTTGAAACAC-GGAATT
15211480 TTTTCTAAAAAAC
1 TTTT-TAAAAAAC
15211493 ATACCGTATT
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
52 75 0.52
53 7 0.05
54 37 0.26
55 14 0.10
56 12 0.08
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (54 bp):
TTTTTAAAAAACGAGAATTTTTTGAAAACATGAAAATTTTTGAAACACGGAATT
Found at i:15211807 original size:17 final size:17
Alignment explanation
Indices: 15211772--15211805 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15211762 TAAAATTATT
*
15211772 TAAAATTAATAAATAAA
1 TAAAATTAAAAAATAAA
15211789 TAAAATTAAAAACATAA
1 TAAAATTAAAAA-ATAA
15211806 TACAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATTAAAAAATAAA
Found at i:15211873 original size:19 final size:19
Alignment explanation
Indices: 15211849--15211887 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15211839 ATTAAATACG
* * *
15211849 AGACAATATTTAAATATTA
1 AGACAAAATTAAAAGATTA
15211868 AGACAAAATTAAAAGATTA
1 AGACAAAATTAAAAGATTA
15211887 A
1 A
15211888 AAATTTACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (19 bp):
AGACAAAATTAAAAGATTA
Found at i:15212117 original size:15 final size:15
Alignment explanation
Indices: 15212097--15212149 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
15212087 CCTGCTGGCT
15212097 GGCCTGTTGAGTGCA
1 GGCCTGTTGAGTGCA
* *
15212112 GGCCTGGTCTG-CTGGCT
1 GGCCT-GT-TGAGT-GCA
15212129 GGCCTGTTGAGTGCA
1 GGCCTGTTGAGTGCA
15212144 GGCCTG
1 GGCCTG
15212150 GTCTGCTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 15 0.50
16 6 0.20
17 9 0.30
ACGTcount: A:0.08, C:0.25, G:0.42, T:0.26
Consensus pattern (15 bp):
GGCCTGTTGAGTGCA
Found at i:15212124 original size:32 final size:32
Alignment explanation
Indices: 15212088--15212156 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
15212078 GAACCTGGGC
15212088 CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
1 CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
15212120 CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
1 CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
15212152 CTGCT
1 CTGCT
15212157 TGTGTTGGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.06, C:0.26, G:0.39, T:0.29
Consensus pattern (32 bp):
CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
Found at i:15212266 original size:20 final size:20
Alignment explanation
Indices: 15212242--15212284 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15212232 TTTTTTTGTT
*
15212242 TTTTTTCTTTCTTT-TTCTCTC
1 TTTTTT-TTCCTTTCTTCT-TC
15212263 TTTTTTTTCCTTTCTTCTTC
1 TTTTTTTTCCTTTCTTCTTC
15212283 TT
1 TT
15212285 CTCTTAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCCTTTCTTCTTC
Found at i:15212275 original size:24 final size:24
Alignment explanation
Indices: 15212240--15212289 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15212230 GTTTTTTTTG
*
15212240 TTTTTTTTCTTTCTTTTTC-TCTC
1 TTTTTTTTCTTTCTTCTTCTTCTC
15212263 TTTTTTTTCCTTTCTTCTTCTTCTC
1 TTTTTTTT-CTTTCTTCTTCTTCTC
15212288 TT
1 TT
15212290 AACTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 10 0.42
25 6 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTTTCTTTCTTCTTCTTCTC
Found at i:15212299 original size:24 final size:23
Alignment explanation
Indices: 15212245--15212299 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
15212235 TTTTGTTTTT
* ***
15212245 TTTCTTTCTTTTTCTCTCTTTTT
1 TTTCTTTCTTCTTCTCTCTTAAC
15212268 TTTCCTTTCTTCTTCTTCTCTTAAC
1 TTT-CTTTCTTCTTC-TCTCTTAAC
15212293 TTTCTTT
1 TTTCTTT
15212300 TCCTTCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.12
24 14 0.54
25 9 0.35
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCTTTCTTCTTCTCTCTTAAC
Found at i:15212414 original size:21 final size:20
Alignment explanation
Indices: 15212390--15212437 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
15212380 GTTCCTTCTA
15212390 TTCTTTTCTTCCTTCCTCCTT
1 TTCTTTT-TTCCTTCCTCCTT
*
15212411 TTCTTCTTTTCCTT-TTCTCTT
1 TTCTT-TTTTCCTTCCTC-CTT
15212432 TTCTTT
1 TTCTTT
15212438 CCCCTTTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TTCTTTTTTCCTTCCTCCTT
Found at i:15212433 original size:13 final size:14
Alignment explanation
Indices: 15212392--15212434 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
15212382 TCCTTCTATT
*
15212392 CTTTTCTTCCTTCCTC
1 CTTTTCTT-CTT-TTC
15212408 CTTTTCTTCTTTTC
1 CTTTTCTTCTTTTC
15212422 CTTTTC-TCTTTTC
1 CTTTTCTTCTTTTC
15212435 TTTCCCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 3 0.12
16 8 0.31
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTTCTTCTTTTC
Found at i:15212437 original size:18 final size:18
Alignment explanation
Indices: 15212414--15212448 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15212404 CCTCCTTTTC
* *
15212414 TTCTTTTCCTTTTCTCTT
1 TTCTTTCCCCTTTCTCTT
15212432 TTCTTTCCCCTTTCTCT
1 TTCTTTCCCCTTTCTCT
15212449 CCTTCCCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTTCCCCTTTCTCTT
Found at i:15213080 original size:30 final size:30
Alignment explanation
Indices: 15213035--15213165 Score: 135
Period size: 30 Copynumber: 4.4 Consensus size: 30
15213025 TAGGGCCGAT
15213035 ATGTAATCTTT-AGAAAGTTTAGGGGTCAAA
1 ATGTAAT-TTTAAGAAAGTTTAGGGGTCAAA
* **
15213065 GTGTAATTTTAAGAAAGTTTAGGGGTTGAA
1 ATGTAATTTTAAGAAAGTTTAGGGGTCAAA
*
15213095 ATGTAATTTT-AGAAAATTTTA-GGGTCAAA
1 ATGTAATTTTAAG-AAAGTTTAGGGGTCAAA
* * *
15213124 ATGTAAATTTTAA-AAAGTATAAGGGTTAAA
1 ATGT-AATTTTAAGAAAGTTTAGGGGTCAAA
*
15213154 ACGTAATTTTAA
1 ATGTAATTTTAA
15213166 TTTTTTTGCA
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
29 29 0.34
30 55 0.65
31 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
ATGTAATTTTAAGAAAGTTTAGGGGTCAAA
Found at i:15213106 original size:59 final size:59
Alignment explanation
Indices: 15213035--15213164 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 59
15213025 TAGGGCCGAT
* * * *
15213035 ATGTAATCTTTAG-AAAGTTTAGGGGTCAAAGTGT-AATTTTAAGAAAGTTTAGGGGTTGAA
1 ATGTAAT-TTTAGAAAAGTTTA-GGGTCAAAATGTAAATTTTAA-AAAGTATAAGGGTTAAA
*
15213095 ATGTAATTTTAGAAAATTTTAGGGTCAAAATGTAAATTTTAAAAAGTATAAGGGTTAAA
1 ATGTAATTTTAGAAAAGTTTAGGGTCAAAATGTAAATTTTAAAAAGTATAAGGGTTAAA
*
15213154 ACGTAATTTTA
1 ATGTAATTTTA
15213165 ATTTTTTTGC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 40 0.65
60 22 0.35
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (59 bp):
ATGTAATTTTAGAAAAGTTTAGGGTCAAAATGTAAATTTTAAAAAGTATAAGGGTTAAA
Found at i:15216029 original size:23 final size:24
Alignment explanation
Indices: 15216003--15216047 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
15215993 TATATCTTGT
* *
15216003 TGGTTTTAGCATTGTC-ATATTCA
1 TGGTATTAACATTGTCAATATTCA
*
15216026 TGGTATTAATATTGTCAATATT
1 TGGTATTAACATTGTCAATATT
15216048 ATTTATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.49
Consensus pattern (24 bp):
TGGTATTAACATTGTCAATATTCA
Found at i:15224931 original size:59 final size:59
Alignment explanation
Indices: 15224867--15225010 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
15224857 TATTTTTAAA
* * * * *
15224867 AAAATATTACTCAGTTACATAAATTATTATAATTTTTGT-GATATTTTGTGTAATTACAT
1 AAAATATTACTCAATTACATAAATTATTATAATATTTATAG-TATTTTGTATAAATACAT
* * *
15224926 AAAATATTACTAAATTACATAAATTATTGTAATATTTATAGTGTTTTGTATAAATACAT
1 AAAATATTACTCAATTACATAAATTATTATAATATTTATAGTATTTTGTATAAATACAT
*
15224985 AAAATATTA-TCTAATTACACAAATTA
1 AAAATATTACTC-AATTACATAAATTA
15225011 CTACAAATCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 1 0.01
59 71 0.97
60 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (59 bp):
AAAATATTACTCAATTACATAAATTATTATAATATTTATAGTATTTTGTATAAATACAT
Found at i:15225404 original size:31 final size:31
Alignment explanation
Indices: 15225346--15225407 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
15225336 AACTATTATT
** *
15225346 TTTTCTTGCTATTTTTTACTGTTTTTTGCTA
1 TTTTCTTGCTATTTTTTACACTATTTTGCTA
* *
15225377 TTTTCTTGTTATTTTTTTCACTATTTTGCTA
1 TTTTCTTGCTATTTTTTACACTATTTTGCTA
15225408 CTATTTCACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.08, T:0.68
Consensus pattern (31 bp):
TTTTCTTGCTATTTTTTACACTATTTTGCTA
Found at i:15225776 original size:11 final size:11
Alignment explanation
Indices: 15225760--15225793 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15225750 TCTATATATA
15225760 TCTCAATATCT
1 TCTCAATATCT
15225771 TCTCAATATCT
1 TCTCAATATCT
*
15225782 TCCCAA-ATCT
1 TCTCAATATCT
15225792 TC
1 TC
15225794 ACATTTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.41
Consensus pattern (11 bp):
TCTCAATATCT
Found at i:15228021 original size:115 final size:115
Alignment explanation
Indices: 15227891--15228204 Score: 592
Period size: 115 Copynumber: 2.7 Consensus size: 115
15227881 ACTTTTGCTT
*
15227891 TTTTTGGGTTTCGAAAACCCTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
1 TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
15227956 TTAGTGAGTTTTTTTGAAAATTGCAAAAACTCCAAAAACTTTCAATTTTG
66 TTAGTGAGTTTTTTTGAAAATTGCAAAAACTCCAAAAACTTTCAATTTTG
15228006 TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
1 TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
15228071 TTAGTGAGTTTTTTTGAAAATTGCAAAAACTCCAAAAACTTTCAATTTTG
66 TTAGTGAGTTTTTTTGAAAATTGCAAAAACTCCAAAAACTTTCAATTTTG
*
15228121 TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACGT
1 TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
* *
15228186 TCAGTAAGTTTTTTTGAAA
66 TTAGTGAGTTTTTTTGAAA
15228205 CCTTTCTCTC
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 195 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (115 bp):
TTTTTGGGTTTCGAAAACCTTAAAAATCACCAAACCCTCTACCCACGGCGGTGGAGTACAAACTT
TTAGTGAGTTTTTTTGAAAATTGCAAAAACTCCAAAAACTTTCAATTTTG
Found at i:15228968 original size:10 final size:10
Alignment explanation
Indices: 15228938--15228970 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15228928 GCCCAATACC
15228938 TTAAACCCAAA
1 TTAAACCC-AA
15228949 TT-AACCCAA
1 TTAAACCCAA
15228958 TTAAACCCAA
1 TTAAACCCAA
15228968 TTA
1 TTA
15228971 TAATGGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.19
10 15 0.71
11 2 0.10
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAACCCAA
Found at i:15229110 original size:17 final size:17
Alignment explanation
Indices: 15229084--15229118 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15229074 TTTCCTCGCA
*
15229084 CGTGTTGCGCCTACGCG
1 CGTGTAGCGCCTACGCG
*
15229101 CGTGTAGCGCCTCCGCG
1 CGTGTAGCGCCTACGCG
15229118 C
1 C
15229119 CAAATCCACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.40, G:0.34, T:0.20
Consensus pattern (17 bp):
CGTGTAGCGCCTACGCG
Found at i:15231394 original size:4 final size:4
Alignment explanation
Indices: 15231377--15231410 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
15231367 TAAAATTAGT
15231377 TAAA T-AA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
15231411 AATGATAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:15231772 original size:31 final size:32
Alignment explanation
Indices: 15231713--15231777 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15231703 GGCAAATTAC
15231713 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15231745 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15231776 AA
1 AA
15231778 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:15236776 original size:19 final size:18
Alignment explanation
Indices: 15236752--15236812 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 18
15236742 AAAGGGTGAG
15236752 AAATAAAAGTTTATGGGGA
1 AAATAAAAGTTT-TGGGGA
*
15236771 AAATAAAAATTTTTGGGG-
1 AAAT-AAAAGTTTTGGGGA
*
15236789 -AATAAAAGTTTGGGGGA
1 AAATAAAAGTTTTGGGGA
*
15236806 AAGTAAA
1 AAATAAA
15236813 TAAGGGGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 11 0.31
17 3 0.09
18 5 0.14
19 9 0.26
20 7 0.20
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
AAATAAAAGTTTTGGGGA
Found at i:15236894 original size:7 final size:7
Alignment explanation
Indices: 15236882--15236907 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15236872 TTGGAGTAGA
15236882 TGGGAGG
1 TGGGAGG
15236889 TGGGAGG
1 TGGGAGG
15236896 TGGGAGG
1 TGGGAGG
15236903 TGGGA
1 TGGGA
15236908 TGGGGAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:15236968 original size:29 final size:30
Alignment explanation
Indices: 15236910--15236968 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15236900 AGGTGGGATG
15236910 GGGAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGGAGGGAATAAAAGTTTTAGGGGAAAAGT
15236940 GGGAGGGAATGAAAA-TTTT-GGGGAAAAGT
1 GGGAGGGAAT-AAAAGTTTTAGGGGAAAAGT
15236969 AAAAGGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.36
30 14 0.50
31 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
GGGAGGGAATAAAAGTTTTAGGGGAAAAGT
Found at i:15237195 original size:9 final size:9
Alignment explanation
Indices: 15237181--15237217 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15237171 TATAGTTTGA
15237181 TATTCGAAT
1 TATTCGAAT
*
15237190 TATTCGAGT
1 TATTCGAAT
15237199 TATTCGAAT
1 TATTCGAAT
*
15237208 TATTTGAAT
1 TATTCGAAT
15237217 T
1 T
15237218 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15237220 original size:15 final size:16
Alignment explanation
Indices: 15237176--15237221 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
15237166 AATATTATAG
15237176 TTTGATATTCGAATTA
1 TTTGATATTCGAATTA
*
15237192 TTCGAGTTATTCGAATTA
1 TTTGA--TATTCGAATTA
15237210 TTTGA-ATTCGAA
1 TTTGATATTCGAA
15237222 AACTCAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
18 15 0.58
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (16 bp):
TTTGATATTCGAATTA
Found at i:15243573 original size:36 final size:37
Alignment explanation
Indices: 15243490--15243574 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 37
15243480 TTTTTTAGTT
15243490 TATATATACATACATACATATTTTTATATACTTTATA
1 TATATATACATACATACATATTTTTATATACTTTATA
* * *
15243527 -AT-TCTAACATACGTACATATTTTT-TA-ACTTATTTA
1 TATATAT-ACATACATACATATTTTTATATACTT-TATA
15243562 TATATATACATAC
1 TATATATACATAC
15243575 TTATGTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
34 4 0.10
35 7 0.17
36 27 0.68
37 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.01, T:0.47
Consensus pattern (37 bp):
TATATATACATACATACATATTTTTATATACTTTATA
Found at i:15245163 original size:21 final size:21
Alignment explanation
Indices: 15245146--15245199 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 21
15245136 ACAATCAACT
15245146 TTTTTAAT-TTTTACATCAAA
1 TTTTTAATATTTTACATCAAA
*
15245166 TTTTTAATATTTTAAATACATAAA
1 TTTTTAATATTTTACAT-C--AAA
15245190 TTTTTAATAT
1 TTTTTAATAT
15245200 GTTCTAGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 1 0.03
24 13 0.45
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTAATATTTTACATCAAA
Found at i:15245526 original size:52 final size:52
Alignment explanation
Indices: 15245464--15245566 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
15245454 ATAAAATTGA
* *
15245464 TATGTTTCTTATTTCAATTATTAGGAAATTGTCTTTTTTTTTTTATTTTTTT
1 TATGTCTCTTATTTCAATTATTAGGAAATTGTCTTTTTTTTTTTACTTTTTT
*
15245516 TATGTCTCTTATTTCAATTATTATGAAATTGTCTTTTTTTTTTTACTTTTT
1 TATGTCTCTTATTTCAATTATTAGGAAATTGTCTTTTTTTTTTTACTTTTT
15245567 AGAAGTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.19, C:0.08, G:0.07, T:0.66
Consensus pattern (52 bp):
TATGTCTCTTATTTCAATTATTAGGAAATTGTCTTTTTTTTTTTACTTTTTT
Found at i:15251588 original size:369 final size:370
Alignment explanation
Indices: 15250898--15251591 Score: 1257
Period size: 369 Copynumber: 1.9 Consensus size: 370
15250888 ATATATGTAT
* ** *
15250898 CCAAAGATAATATGAAAGAAATTGTATGGAGCATTTACCTAAAAACAACATAAAATAGGTTGTAG
1 CCAAAGATAACATGAAAGAAATTGTAAAGAGCATTTACCTAAAAACAACAAAAAATAGGTTGTAG
15250963 AAAGCCACAAGGAGATGAATTTTGTCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
66 AAAGCCACAAGGAGATGAATTTTGTCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
* *
15251028 AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAGAATTGATGTTGCATT
131 AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTCATGTTGCATT
15251093 TCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAGGGTTGCAAAATTGTCACCACAA
196 TCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAGGGTTGCAAAATTGTCACCACAA
15251158 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
261 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
15251223 AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAACTTAAAAAAAAA
326 AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAACTTAAAAAAAAA
15251268 CCAAA-ATAACATGAAAGAAATTGTAAAGAGCATTTACCTAAAAACAACAAAAAATAGGTTGTAG
1 CCAAAGATAACATGAAAGAAATTGTAAAGAGCATTTACCTAAAAACAACAAAAAATAGGTTGTAG
* * *
15251332 GAAGCCACAAGGAGATGAA-TTTGATCTAAGGGATATAGAATTGGTATTGTATATTTGGGTTGCA
66 AAAGCCACAAGGAGATGAATTTTG-TCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCA
*
15251396 GAATTGTGACTACAAATTCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTCATGTTGCAT
130 GAATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTCATGTTGCAT
15251461 TTCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAGGGTTGCAAAATTGTCACCACA
195 TTCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAGGGTTGCAAAATTGTCACCACA
* *
15251526 AAGTTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAGGAGACCCAAAAATAACATGAGTATT
260 AAATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATT
15251591 G
325 G
15251592 GGTTGCATTT
Statistics
Matches: 311, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
368 4 0.01
369 302 0.97
370 5 0.02
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (370 bp):
CCAAAGATAACATGAAAGAAATTGTAAAGAGCATTTACCTAAAAACAACAAAAAATAGGTTGTAG
AAAGCCACAAGGAGATGAATTTTGTCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTCATGTTGCATT
TCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAGGGTTGCAAAATTGTCACCACAA
AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAACTTAAAAAAAAA
Found at i:15251612 original size:12 final size:12
Alignment explanation
Indices: 15251595--15251619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15251585 AGTATTGGGT
15251595 TGCATTTCCCTA
1 TGCATTTCCCTA
15251607 TGCATTTCCCTA
1 TGCATTTCCCTA
15251619 T
1 T
15251620 TTCTTCGTGA
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:0.16, C:0.32, G:0.08, T:0.44
Consensus pattern (12 bp):
TGCATTTCCCTA
Found at i:15251801 original size:59 final size:58
Alignment explanation
Indices: 15251709--15251825 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 58
15251699 AATGGGTGAA
*
15251709 GATCGAGGAATCTGCCGGTTCAGGTACCCTTTACTTTAGAGCTGAACAGCATGTAGTG
1 GATCGAGGAATCTGCCGGTTCAGGTACCATTTACTTTAGAGCTGAACAGCATGTAGTG
*
15251767 NGATCGAGGAATCTGCCGGTTCAGGTACCATTTACTTTAGAGCTGAACCGCATGTAGTG
1 -GATCGAGGAATCTGCCGGTTCAGGTACCATTTACTTTAGAGCTGAACAGCATGTAGTG
15251826 AGACCTAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (58 bp):
GATCGAGGAATCTGCCGGTTCAGGTACCATTTACTTTAGAGCTGAACAGCATGTAGTG
Found at i:15255874 original size:44 final size:44
Alignment explanation
Indices: 15255826--15256006 Score: 131
Period size: 44 Copynumber: 4.1 Consensus size: 44
15255816 TTGCAGATCA
* *
15255826 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGGTGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCT
* ** ****
15255870 TATCTTCCC-AAG--GTAGTAAGGAAGCAAATTTAA-ACCACCAATCT
1 TATC-TCCCTAAGCAGTAGT--GG-AGCAGATCGAAGACGGTGAATCT
* * * *
15255914 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA--TTGCACATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG-A-ATCT
* *
15255958 TGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCT
15256002 TATCT
1 TATCT
15256007 TTCCAAGGTA
Statistics
Matches: 103, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
42 5 0.05
43 13 0.13
44 65 0.63
45 13 0.13
46 7 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCT
Found at i:15256025 original size:132 final size:132
Alignment explanation
Indices: 15255779--15256079 Score: 413
Period size: 132 Copynumber: 2.3 Consensus size: 132
15255769 AAGCCATTAG
* * ** * * *
15255779 TCCTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAAATTGCAGATCATATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCACATCATATCTCCCTAAGCAGTAG
* * * *
15255844 TGGAGCAGATCGAATATGGTGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAAATTTAAACCACC
66 TGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGGAAGCAAATTTAAACCACC
15255909 AA
131 AA
* * *
15255911 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCACATCCTGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCACATCATATCTCCCTAAGCAGTAG
* * * *
15255976 TGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAATAGGGAAGCAGATTTAAACCACT
66 TGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGGAAGCAAATTTAAACCACC
*
15256041 AG
131 AA
* *
15256043 TCCTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA
15256080 CAGTGAATCT
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 147 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCACATCATATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAATAAGGAAGCAAATTTAAACCACC
AA
Found at i:15256173 original size:50 final size:50
Alignment explanation
Indices: 15256117--15256276 Score: 167
Period size: 50 Copynumber: 3.2 Consensus size: 50
15256107 CAAGTGGAAC
*
15256117 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* ** * * * ** * ** *
15256167 AGATTGAAGCCACAACGGCGAATCTTATTTCTTTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* *
15256217 AGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
* *
15256267 ATATTAAAGC
1 AGATTGAAGC
15256277 CACTATTAGA
Statistics
Matches: 81, Mismatches: 29, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGCAATTAAAA
Found at i:15256217 original size:100 final size:102
Alignment explanation
Indices: 15256084--15256279 Score: 306
Period size: 100 Copynumber: 1.9 Consensus size: 102
15256074 TGAAGACAGT
*
15256084 GAATCTTACTTTCTCGGGCAGTGCAAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCC
1 GAATCTTACTTTCTCGGGCAGTGCAAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCC
* *
15256149 CCGACATTGCAATTAAAAAGATTGAAGCCACAACGGC
66 CCGACATTACAATTAAAAAGATTAAAGCCACAACGGC
** *
15256186 GAATCTTA-TTTCTTTGGCGGTGC-AGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCC
1 GAATCTTACTTTCTCGGGCAGTGCAAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCC
* *
15256249 TCGACATTACAATTAAAAATATTAAAGCCAC
66 CCGACATTACAATTAAAAAGATTAAAGCCAC
15256280 TATTAGAGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 66 0.77
101 12 0.14
102 8 0.09
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (102 bp):
GAATCTTACTTTCTCGGGCAGTGCAAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCC
CCGACATTACAATTAAAAAGATTAAAGCCACAACGGC
Found at i:15257940 original size:50 final size:49
Alignment explanation
Indices: 15257782--15258404 Score: 422
Period size: 50 Copynumber: 12.5 Consensus size: 49
15257772 TCCAACAGCC
* * * *
15257782 ACAATGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAATAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * * *
15257832 ATAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAAGATTGAAGCT
* * ** * *
15257881 ACAATGGCGAATCTTATTTCTTTGGCGGTGCAGTGAAATAAATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAA-AGATTGAAGCT
* * * * * * *
15257931 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAGGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAA-GATTGAAGCT
* *
15257981 ACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
** * * * * * *
15258031 ACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAG-T
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
* * ** *
15258080 CACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGATCATATTGAAGCT
1 -ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * * *
15258131 ACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAAGAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAA-AAGATTGAAGCT
* * * * * * *
15258181 ACAACAGCGAATCTTACCTCCCTAGCGGTGTAGTGGAACAGATTAAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* *** * * * *
15258231 ACAACGGCGAATCTTGCTTCCCCCACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
* * **
15258281 ACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGTAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAAAAGATTGAAGCT
* * * * * * * *
15258331 ACAACGACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGC-AGTGAAAAGATTGAAGCT
15258381 ACAACGGCGAATCTTA-TCTCCCTG
1 ACAACGGCGAATCTTACT-TCCCTG
15258405 AAGATAGCGA
Statistics
Matches: 416, Mismatches: 144, Indels: 26
0.71 0.25 0.04
Matches are distributed among these distances:
49 45 0.11
50 359 0.86
51 12 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (49 bp):
ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAAAAGATTGAAGCT
Found at i:15258030 original size:100 final size:100
Alignment explanation
Indices: 15257778--15258404 Score: 925
Period size: 100 Copynumber: 6.3 Consensus size: 100
15257768 GCGATCCAAC
* * * * * *
15257778 AGCCACAATGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAATAGATTGAAGCTATAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
15257843 TCTTGCTTCCCCGACATTACAATT-AAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * ** * * *
15257877 AGCCACAATGGCGAATCTTATTTCTTTGGCGGTGCAGTGAAATAAATTGAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
15257942 TCTTGCTTCCCCGACATTGCAATTAAAAGGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
**
15257977 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACAACGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
15258042 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * * *
15258077 AGTCACAACGGCGAATCTTACTTCCCTAGCGGTGCAGTGGATCATATTGAAGCTACAATGGTGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
15258142 TCTTGCTTCCCCGACATTGCAATTAAGAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * *
15258177 AGCCACAACAGCGAATCTTACCTCCCTAGCGGTGTAGTGGAACAGATTAAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
15258242 TCTTGCTTCCCCCACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* ** *
15258277 AGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGTAGATTGAAGCTACAACGACGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
15258342 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
15258377 AGCCACAACGGCGAATCTTA-TCTCCCTG
1 AGCCACAACGGCGAATCTTACT-TCCCTG
15258405 AAGATAGCGA
Statistics
Matches: 478, Mismatches: 48, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
99 84 0.18
100 394 0.82
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (100 bp):
AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
Found at i:15260176 original size:3 final size:3
Alignment explanation
Indices: 15260168--15260192 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15260158 TAATCTTGTG
15260168 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
15260193 CATATTAGTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15260579 original size:17 final size:17
Alignment explanation
Indices: 15260557--15260589 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15260547 ATGTACTTAT
15260557 TTATATATATATGTATG
1 TTATATATATATGTATG
*
15260574 TTATATCTATATGTAT
1 TTATATATATATGTAT
15260590 ATATGCATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
TTATATATATATGTATG
Found at i:15260674 original size:21 final size:21
Alignment explanation
Indices: 15260650--15260697 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
15260640 ATCTACATGC
*
15260650 ATATGTTACTTCCGTAAATAT
1 ATATATTACTTCCGTAAATAT
15260671 ATATATTACTTCCGTAAATAT
1 ATATATTACTTCCGTAAATAT
15260692 ATATAT
1 ATATAT
15260698 CTATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (21 bp):
ATATATTACTTCCGTAAATAT
Found at i:15260807 original size:35 final size:35
Alignment explanation
Indices: 15260736--15260808 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
15260726 TACCCCTTTT
* *
15260736 TACATACATAGTTTTTATATTTTATGATTTGTATA
1 TACATACATAGTTTTTATATTTTATGAATTGCATA
*
15260771 TACATACATATTTTTTATATATTTTAT-AATT-CATA
1 TACATACATA-GTTTT-TATATTTTATGAATTGCATA
15260806 TAC
1 TAC
15260809 GCATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 16 0.48
36 7 0.21
37 10 0.30
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (35 bp):
TACATACATAGTTTTTATATTTTATGAATTGCATA
Found at i:15265338 original size:51 final size:51
Alignment explanation
Indices: 15265262--15265360 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
15265252 TAAAAACCTA
*
15265262 CAATATATACCTAAATACAGCATATCACTAACAATAAGAAACATTTAAATC
1 CAATATATACCTAAATACAGAATATCACTAACAATAAGAAACATTTAAATC
* *
15265313 CAATATATACCTAAATACAGAATATCACTAACAGTCAGAAACATTTAA
1 CAATATATACCTAAATACAGAATATCACTAACAATAAGAAACATTTAA
15265361 GATTTACATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (51 bp):
CAATATATACCTAAATACAGAATATCACTAACAATAAGAAACATTTAAATC
Found at i:15271250 original size:8 final size:8
Alignment explanation
Indices: 15271237--15271263 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15271227 TATAAATCGT
15271237 ATTTTAAA
1 ATTTTAAA
15271245 ATTTTAAA
1 ATTTTAAA
15271253 ATTTTAAA
1 ATTTTAAA
15271261 ATT
1 ATT
15271264 AAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTTTAAA
Found at i:15271354 original size:19 final size:19
Alignment explanation
Indices: 15271319--15271366 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15271309 TTTTAATAAA
*
15271319 ATTTATAAATATAATTTC-
1 ATTTATAAAAATAATTTCT
*
15271337 ATTTATTAAAAATTATTTCT
1 ATTTA-TAAAAATAATTTCT
15271357 ATTTTATAAA
1 A-TTTATAAA
15271367 CATTTTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 5 0.20
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATAAAAATAATTTCT
Found at i:15271543 original size:13 final size:13
Alignment explanation
Indices: 15271527--15271551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15271517 TAAATAGAGA
15271527 ATAAAAATAAAAC
1 ATAAAAATAAAAC
15271540 ATAAAAATAAAA
1 ATAAAAATAAAA
15271552 TTCTACAATA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAATAAAAC
Found at i:15273956 original size:23 final size:22
Alignment explanation
Indices: 15273913--15273970 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
15273903 AAAGGGTATC
* *
15273913 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15273934 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
15273957 TACATATCATATCT
1 TACAAATCATATCT
15273971 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15273973 original size:19 final size:19
Alignment explanation
Indices: 15273926--15274023 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
15273916 AAATTAAATC
*
15273926 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
15273946 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
15273968 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
15273989 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
15274008 TCTAAGATTACATATC
1 TCTAAGATTACATATC
15274024 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:15273986 original size:21 final size:21
Alignment explanation
Indices: 15273960--15274022 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
15273950 CTAAGATTAC
15273960 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
15273981 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
15274000 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
15274021 AT
1 AT
15274023 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:15274743 original size:21 final size:20
Alignment explanation
Indices: 15274706--15274744 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15274696 GAGATGTCAA
*
15274706 TTTTTTTTAAAGCATTTTTC
1 TTTTTTTTAAAACATTTTTC
*
15274726 TTTTTTTTGAAAATATTTT
1 TTTTTTTT-AAAACATTTT
15274745 CTCTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTTTTAAAACATTTTTC
Found at i:15282730 original size:19 final size:19
Alignment explanation
Indices: 15282685--15282737 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
15282675 GGATGACGTA
*
15282685 AATTAAAAAAATAAAAATC
1 AATTAAAAAAATATAAATC
* *
15282704 AA-TCAAAAAATATAAATT
1 AATTAAAAAAATATAAATC
* *
15282722 AATTTAAAAAGTATAA
1 AATTAAAAAAATATAA
15282738 TATTTTGGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATTAAAAAAATATAAATC
Found at i:15296434 original size:57 final size:58
Alignment explanation
Indices: 15296341--15296485 Score: 141
Period size: 57 Copynumber: 2.5 Consensus size: 58
15296331 GCCTAAGCTT
** * * * * * ** *
15296341 TTTTTTTATCCAATTCAACACTTGAACTTGATACTTTTT-TCTAATCTGGTA-CTTGAG
1 TTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTTCT-TAATCTGGCACCTAAAC
* * * *
15296398 TTTTTTTGTCTAATTTGGTACCTAAACTTGACACTTTTTCTTAATTTGGCACCTAAAC
1 TTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTTCTTAATCTGGCACCTAAAC
15296456 TTTTTTTATCCAATTTGATACCTAAACTTG
1 TTTTTTTATCCAATTTGATACCTAAACTTG
15296486 TCAAATGTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
57 38 0.55
58 31 0.45
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.48
Consensus pattern (58 bp):
TTTTTTTATCCAATTTGATACCTAAACTTGACACTTTTTCTTAATCTGGCACCTAAAC
Found at i:15296921 original size:9 final size:9
Alignment explanation
Indices: 15296896--15296928 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
15296886 TAATAAATTT
15296896 TTAAA-AAA
1 TTAAATAAA
15296904 TTGAAATAAA
1 TT-AAATAAA
15296914 TTAAATAAA
1 TTAAATAAA
15296923 TTAAAT
1 TTAAAT
15296929 TGAAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 16 0.70
10 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
TTAAATAAA
Found at i:15296939 original size:24 final size:26
Alignment explanation
Indices: 15296901--15296948 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
15296891 AATTTTTAAA
15296901 AAATTGAAATAAATT-AA-ATAAATT
1 AAATTGAAATAAATTGAACATAAATT
15296925 AAATTGAAAGT-AATTGAACATAAA
1 AAATTGAAA-TAAATTGAACATAAA
15296949 AAGAAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 13 0.62
25 3 0.14
26 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTGAAATAAATTGAACATAAATT
Found at i:15299011 original size:16 final size:16
Alignment explanation
Indices: 15298989--15299057 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
15298979 TTTGGTTCGC
15298989 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
15299005 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15299021 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15299038 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15299054 TGTA
1 TGTA
15299058 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15299035 original size:33 final size:32
Alignment explanation
Indices: 15298989--15299057 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
15298979 TTTGGTTCGC
15298989 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
15299021 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
15299054 TGTA
1 TGTA
15299058 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:15299122 original size:44 final size:45
Alignment explanation
Indices: 15299038--15299128 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15299028 GGATTAGAGG
* * *
15299038 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
15299083 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
15299127 TG
1 TG
15299129 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:15299314 original size:18 final size:17
Alignment explanation
Indices: 15299293--15299327 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15299283 TTATTATTAA
*
15299293 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15299311 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15299328 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15299414 original size:26 final size:26
Alignment explanation
Indices: 15299385--15299475 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 26
15299375 TGATACTGTA
* *
15299385 AAATATAAATTAACATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
* *
15299411 AAATATATTTTAATTAA-AATATATGATT
1 AAATATAATTTAA--AATAAT-TATTATT
* *
15299439 TAATACAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
15299465 AAATATAATTT
1 AAATATAATTT
15299476 CATAAAATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 28 0.55
27 6 0.12
28 17 0.33
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:15315347 original size:64 final size:64
Alignment explanation
Indices: 15315215--15315370 Score: 145
Period size: 64 Copynumber: 2.4 Consensus size: 64
15315205 CTGTGTGACT
** * * ** ** * * *
15315215 CTAAATTTGAACTCATGA-AGTTACATGGCCTAGACACACGCTCGTTTTCCTTGTCTGTGTGACT
1 CTAAATTAAAACTCA-GAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
* * *
15315279 CTAAATCT-TAACTCAGAGCGTTACACGGCCTGGACACACGCTCGTGTGACTTACCCGTGTAACC
1 CTAAAT-TAAAACTCAGAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
*
15315343 CTAAATTAAAACTCAGAGAGTTATACGG
1 CTAAATTAAAACTCAGAGAGTTACACGG
15315371 TCCACCCCAC
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
63 3 0.04
64 70 0.95
65 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (64 bp):
CTAAATTAAAACTCAGAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCCGTGTAACC
Found at i:15317239 original size:15 final size:15
Alignment explanation
Indices: 15317196--15317239 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15317186 TTCCTATGTG
*
15317196 GGGTTCACACATACA
1 GGGTTCACACATATA
* *
15317211 TGGTTCGCACATATA
1 GGGTTCACACATATA
*
15317226 GGGTTCACAAATAT
1 GGGTTCACACATAT
15317240 GATTGGTTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
GGGTTCACACATATA
Found at i:15321083 original size:28 final size:28
Alignment explanation
Indices: 15321041--15321107 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
15321031 AAATAAAAAA
*
15321041 TACCAAAATAATATACAAAAAA-AATATT
1 TACCAAAATATTATA-AAAAAATAATATT
**
15321069 TACCAAAATATTATAAAAAAATTTTATT
1 TACCAAAATATTATAAAAAAATAATATT
*
15321097 TACAAAAATAT
1 TACCAAAATAT
15321108 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (28 bp):
TACCAAAATATTATAAAAAAATAATATT
Found at i:15321114 original size:28 final size:25
Alignment explanation
Indices: 15321050--15321117 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 25
15321040 ATACCAAAAT
*
15321050 AATATACAAAAAAAATATTTACCAA
1 AATATACAAAAAAAATATTTACAAA
* *
15321075 AATATTATAAAAAAATTTTATTTACAAA
1 AATA-TACAAAAAAA--ATATTTACAAA
*
15321103 AATATACCAAAAAAA
1 AATATACAAAAAAAA
15321118 CAAAAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 4 0.12
26 9 0.26
27 8 0.24
28 13 0.38
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
AATATACAAAAAAAATATTTACAAA
Found at i:15321206 original size:27 final size:27
Alignment explanation
Indices: 15321175--15321252 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
15321165 GGAGGGTTCC
* * *
15321175 TGATTGGCGGCACCAAAGGTGCCAATG
1 TGATTGGCGGCACCGATGGTGCCAAGG
*
15321202 TGATTGGTGGCACCGATGGTGCCAAGG
1 TGATTGGCGGCACCGATGGTGCCAAGG
*
15321229 AGATTGGCGGCACCGATGGTGCCA
1 TGATTGGCGGCACCGATGGTGCCA
15321253 TACTAAGTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (27 bp):
TGATTGGCGGCACCGATGGTGCCAAGG
Found at i:15321263 original size:27 final size:27
Alignment explanation
Indices: 15321179--15321268 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
15321169 GGTTCCTGAT
* * * * *
15321179 TGGCGGCACCAAAGGTGCCAATGTGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
* * *
15321206 TGGTGGCACCGATGGTGCCAAGGAGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
*
15321233 TGGCGGCACCGATGGTGCCATACTA-AG
1 TGGCGGCACCGATGGTGCCA-ACGAGAG
15321260 TGGCGGCAC
1 TGGCGGCAC
15321269 TACTTGTGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 51 0.96
28 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (27 bp):
TGGCGGCACCGATGGTGCCAACGAGAG
Found at i:15321743 original size:28 final size:28
Alignment explanation
Indices: 15321682--15321787 Score: 108
Period size: 28 Copynumber: 3.8 Consensus size: 28
15321672 GGTGCCACAT
*
15321682 TTTTTTTGTAATATTTTGGTAAA-AAACC
1 TTTTTTTGTAATATTTTGGTAAATAAA-A
** *
15321710 CATTTTTGTATTATTTTGGTAAATAAAA
1 TTTTTTTGTAATATTTTGGTAAATAAAA
* * ***
15321738 TTTTTTTATAATATTTTGGT-ATTTTTA
1 TTTTTTTGTAATATTTTGGTAAATAAAA
15321765 TTTTTTTGTAATATTTTGGTAAA
1 TTTTTTTGTAATATTTTGGTAAA
15321788 AAACCCTTTT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
27 22 0.35
28 37 0.60
29 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (28 bp):
TTTTTTTGTAATATTTTGGTAAATAAAA
Found at i:15321837 original size:83 final size:82
Alignment explanation
Indices: 15321682--15321837 Score: 183
Period size: 83 Copynumber: 1.9 Consensus size: 82
15321672 GGTGCCACAT
*** **
15321682 TTTTTTTGTAATATTTTGGTAAAAAACCCATTTTTGTATTATTTTGGTAAATAAAATTTTTTTAT
1 TTTTTTTGTAATATTTTGGTAAAAAACCCATTTTTGTATTATTTT-GTAAATAAAACCCTAATAT
15321747 AATATTTTGGTATTTTTA
65 AATATTTTGGTATTTTTA
* *
15321765 TTTTTTTGTAATATTTTGGTAAAAAACCCTTTTAGTTAGTATTA-TTT-TAAGTAAAACCCTAAT
1 TTTTTTTGTAATATTTTGGTAAAAAACCCATTT--TT-GTATTATTTTGTAAATAAAACCCTAAT
15321828 -TAATAATTTT
63 ATAAT-ATTTT
15321838 AGTTAGTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
82 4 0.06
83 47 0.76
85 5 0.08
86 6 0.10
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (82 bp):
TTTTTTTGTAATATTTTGGTAAAAAACCCATTTTTGTATTATTTTGTAAATAAAACCCTAATATA
ATATTTTGGTATTTTTA
Found at i:15321865 original size:36 final size:37
Alignment explanation
Indices: 15321794--15321870 Score: 93
Period size: 40 Copynumber: 2.0 Consensus size: 37
15321784 TAAAAAACCC
15321794 TTTTAGTTAGTATTATTTTAAGTAAAACCCTAATTAATAA
1 TTTTAGTTAGTATTATTTTAAGTAAAA--C-AATTAATAA
* * *
15321834 TTTTAGTTAGTATTATTTTGAGTATAA-AATTATTAA
1 TTTTAGTTAGTATTATTTTAAGTAAAACAATTAATAA
15321870 T
1 T
15321871 ATTATTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 9 0.26
40 25 0.74
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (37 bp):
TTTTAGTTAGTATTATTTTAAGTAAAACAATTAATAA
Found at i:15325343 original size:12 final size:12
Alignment explanation
Indices: 15325307--15325359 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
15325297 TTGTTCCGGA
15325307 TCTGGCTGGGGC
1 TCTGGCTGGGGC
* *
15325319 ACTGGCTGTGGC
1 TCTGGCTGGGGC
15325331 TCTGGCTGGGGC
1 TCTGGCTGGGGC
*
15325343 TTCT-GCTTGGGC
1 -TCTGGCTGGGGC
15325355 TCTGG
1 TCTGG
15325360 TGGTTCCGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.09
12 28 0.82
13 3 0.09
ACGTcount: A:0.02, C:0.25, G:0.43, T:0.30
Consensus pattern (12 bp):
TCTGGCTGGGGC
Found at i:15327615 original size:15 final size:16
Alignment explanation
Indices: 15327589--15327618 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15327579 AATAAAAATA
15327589 TATTATTTTTATATTT
1 TATTATTTTTATATTT
15327605 TATTA-TTTTATATT
1 TATTATTTTTATATT
15327619 ATTTCAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTATTTTTATATTT
Found at i:15328203 original size:5 final size:5
Alignment explanation
Indices: 15328195--15328391 Score: 105
Period size: 5 Copynumber: 40.6 Consensus size: 5
15328185 TTTTCTCTTC
* * * * *
15328195 TCCTT TCCTT TTCTT TCC-T TCTTT TTCTT TCTTTT TTCTT CTCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC-CTT TCCTT -TCCTT TCCTT
* * *
15328246 TTCTT TCCTT CTCCTT TCCTT TTCTT TCCTCT T--TT T-CTT TCTTTT
1 TCCTT TCCTT -TCCTT TCCTT TCCTT TCCT-T TCCTT TCCTT TC-CTT
* * * * *
15328291 TTCTT CTCCTT TCCTT TTCTT TCCTT AT--TT TTCTT T-CTT TCCTC TCCTC
1 TCCTT -TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT
* *
15328340 TCCTT TCCTT TTCTT TCTTT TCC-T TCCTT T-CTT T-CTT T-CTT T-CTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
15328385 T-CTT TCC
1 TCCTT TCC
15328392 CTCTCCTTCT
Statistics
Matches: 151, Mismatches: 26, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
3 3 0.02
4 37 0.25
5 89 0.59
6 22 0.15
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:15328247 original size:41 final size:41
Alignment explanation
Indices: 15328138--15328360 Score: 154
Period size: 41 Copynumber: 5.3 Consensus size: 41
15328128 AAAAATTACC
* * *
15328138 TTTT-TTTCTTTTTTTTTCTTCCTTCCCTCTTC-TT-CTTCT
1 TTTTCTTTCTTTTTTCTTC-TCCTTTCCTTTTCTTTCCTTCT
*
15328177 TTCTT-TTT-TTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TT-TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
15328217 TTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
* ** * * * *
15328258 CCTTTCCTTTTCTTTCCTCTTTTTCTTTCTTTTTTCTTCTCCTTTCC
1 --TTTTC-TTTCTTTTTTCTTCTCCTTTC-CTTTTCTT-TCC-TTCT
* * * *
15328305 TTTTCTTTCCTTATTTTTCTT-T-CTTTCCTCTCCTCTCCTTTCC
1 TTTTCTTT-C-T-TTTTTCTTCTCCTTTCCTTTTCTTTCC-TTCT
15328348 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
15328361 CCTTCCTTTC
Statistics
Matches: 151, Mismatches: 19, Indels: 27
0.77 0.10 0.14
Matches are distributed among these distances:
38 11 0.07
39 14 0.09
40 18 0.12
41 32 0.21
42 1 0.01
43 20 0.13
44 24 0.16
45 17 0.11
46 5 0.03
47 9 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.69
Consensus pattern (41 bp):
TTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:15328302 original size:61 final size:62
Alignment explanation
Indices: 15328167--15328316 Score: 257
Period size: 61 Copynumber: 2.4 Consensus size: 62
15328157 TCCTTCCCTC
* * *
15328167 TTCTTCTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTT
1 TTCTTCTCCTTTCCTTTTCTTTC-CTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTT
15328230 TTCTTCTCCTTTCCTTTTCTTTCCTTCTCCTTTCCTTTTCTTTCC-TCTTTTTCTTTCTTTT
1 TTCTTCTCCTTTCCTTTTCTTTCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTT
15328291 TTCTTCTCCTTTCCTTTTCTTTCCTT
1 TTCTTCTCCTTTCCTTTTCTTTCCTT
15328317 ATTTTTCTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
61 42 0.50
62 22 0.26
63 20 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (62 bp):
TTCTTCTCCTTTCCTTTTCTTTCCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTT
Found at i:15328303 original size:10 final size:10
Alignment explanation
Indices: 15328167--15328388 Score: 86
Period size: 10 Copynumber: 21.5 Consensus size: 10
15328157 TCCTTCCCTC
15328167 TTCTTCTTCT
1 TTCTTCTTCT
* *
15328177 TTCTTTTTTTT
1 TTC-TTCTTCT
*
15328188 TCTCTTCTCCT
1 T-TCTTCTTCT
15328199 TTCCTT-TTCT
1 TT-CTTCTTCT
15328209 TTCCTTCTT-T
1 TT-CTTCTTCT
*
15328219 TTCTTTCTTTT
1 TTC-TTCTTCT
*
15328230 TTCTTCTCCT
1 TTCTTCTTCT
15328240 TTCCTT-TTCT
1 TT-CTTCTTCT
*
15328250 TTCCTTCTCCT
1 TT-CTTCTTCT
15328261 TTCCTT-TTCT
1 TT-CTTCTTCT
*
15328271 TTCCTCTT-T
1 TTCTTCTTCT
*
15328280 TTCTTTCTTTT
1 TTC-TTCTTCT
*
15328291 TTCTTCTCCT
1 TTCTTCTTCT
15328301 TTCCTT-TTCT
1 TT-CTTCTTCT
*
15328311 TTCCTTATT-T
1 TT-CTTCTTCT
15328321 TTCTTTCTTTCCT
1 TTC-TTC-TT-CT
* * *
15328334 CTCCTCTCCT
1 TTCTTCTTCT
15328344 TTCCTT-TTCT
1 TT-CTTCTTCT
*
15328354 TTCTT-TTCC
1 TTCTTCTTCT
*
15328363 TTCCT-TTCT
1 TTCTTCTTCT
15328372 TTCTTTCTTTCT
1 TTC-TTC-TTCT
15328384 TTCTT
1 TTCTT
15328389 TCCCTCTCCT
Statistics
Matches: 164, Mismatches: 27, Indels: 41
0.71 0.12 0.18
Matches are distributed among these distances:
9 24 0.15
10 78 0.48
11 48 0.29
12 11 0.07
13 3 0.02
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:15328304 original size:40 final size:42
Alignment explanation
Indices: 15328253--15328356 Score: 158
Period size: 40 Copynumber: 2.5 Consensus size: 42
15328243 CTTTTCTTTC
* *
15328253 CTTCTCCTTTCCTTTTCTTTCC-TCTTTTTCTTTCTTT-TTT
1 CTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCT
15328293 CTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCT
1 CTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTT-CTCT
*
15328336 CCTCTCCTTTCCTTTTCTTTC
1 CTTCTCCTTTCCTTTTCTTTC
15328357 TTTTCCTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
40 22 0.38
41 14 0.24
43 22 0.38
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (42 bp):
CTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCT
Found at i:15328315 original size:102 final size:101
Alignment explanation
Indices: 15328171--15328389 Score: 320
Period size: 102 Copynumber: 2.2 Consensus size: 101
15328161 TCCCTCTTCT
* * * *
15328171 TCTTCTTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTT-TTTCTT
1 TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCTCCT
15328235 CTCCTTTCCTTTTCTTTCCTTCTCCTTTCCTTTTCTTTCC
66 CTCCTTTCCTTTTCTTT-CTTCTCC-TTCC-TTTCTTT-C
15328275 TCTT-TTTCTTTCTTTTT-TCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCTCC
1 TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTT-CTCTCC
*
15328338 TCTCCTTTCCTTTTCTTTCTTTTCCTTCCTTTCTTTC
65 TCTCCTTTCCTTTTCTTTCTTCTCCTTCCTTTCTTTC
15328375 T-TTCTTTCTTTCTTT
1 TCTTCTTTCTTTCTTT
15328390 CCCTCTCCTT
Statistics
Matches: 107, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
99 2 0.02
100 13 0.12
101 7 0.07
102 42 0.39
103 18 0.17
104 25 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.68
Consensus pattern (101 bp):
TCTTCTTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCTCTCCT
CTCCTTTCCTTTTCTTTCTTCTCCTTCCTTTCTTTC
Found at i:15328351 original size:61 final size:59
Alignment explanation
Indices: 15328204--15328404 Score: 198
Period size: 61 Copynumber: 3.3 Consensus size: 59
15328194 CTCCTTTCCT
* * * *
15328204 TTTCTTTCCT-TCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCTCCTTTCC
1 TTTCTTTCCTCTCCTCTCCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTT-T--TTTTC
* *
15328265 TTTTCTTTCCTCT--TTTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTATTTTTC
1 -TTTCTTTCCTCTCCTCTCCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTT-TTTTTC
* *
15328324 TTTCTTTCCTCTCCTCTCCTTTCCTTTTCTTTCTTTTCC-TTCC-TTTCTTT-CTTTCTTTC
1 TTTCTTTCCTCTCCTCTCCTTT-C-TTT-TTTCTTCTCCTTTCCTTTTCTTTCCTTTTTTTC
15328383 TTTCTTTCCCTCTCCTTCTCCT
1 TTTCTTT-CCTCTCC-TCTCCT
15328405 CCCCACCACC
Statistics
Matches: 125, Mismatches: 6, Indels: 17
0.84 0.04 0.11
Matches are distributed among these distances:
58 12 0.10
59 16 0.13
60 16 0.13
61 54 0.43
62 17 0.14
63 10 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.66
Consensus pattern (59 bp):
TTTCTTTCCTCTCCTCTCCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTTTTTTC
Found at i:15339720 original size:76 final size:76
Alignment explanation
Indices: 15339594--15340488 Score: 1727
Period size: 76 Copynumber: 11.8 Consensus size: 76
15339584 ACCGTTATCT
* * * * *
15339594 GTGGATTCAGCACTTAGCAGCCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15339659 TCAAAGATATG
66 TCAAAGATATG
15339670 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15339735 TCAAAGATATG
66 TCAAAGATATG
15339746 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15339811 TCAAAGATATG
66 TCAAAGATATG
15339822 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15339887 TCAAAGATATG
66 TCAAAGATATG
15339898 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15339963 TCAAAGATATG
66 TCAAAGATATG
15339974 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340039 TCAAAGATATG
66 TCAAAGATATG
15340050 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340115 TCAAAGATATG
66 TCAAAGATATG
15340126 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340191 TCAAAGATATG
66 TCAAAGATATG
15340202 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340267 TCAAAGATATG
66 TCAAAGATATG
15340278 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340343 TCAAAGATATG
66 TCAAAGATATG
15340354 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
15340419 TCAAAGATATG
66 TCAAAGATATG
* *
15340430 GTGGAATCAGCACTTAGCAACCACCAATCATTCGGGGAATCAACACTTAGCAACCCCTT
1 GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTT
15340489 GGGAGAATTA
Statistics
Matches: 812, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 812 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (76 bp):
GTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACAT
TCAAAGATATG
Found at i:15340540 original size:179 final size:179
Alignment explanation
Indices: 15340314--15340667 Score: 557
Period size: 179 Copynumber: 2.0 Consensus size: 179
15340304 ATCATTCAGG
*
15340314 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
* *
15340379 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACT
66 AATCAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAATCAGCACT
*
15340444 TAGCAACCACCAATCATTCGGGGAATCAACACTTAGCAACCCCTTGGGA
131 TAGCAACCACCAATCAGTCGGGGAATCAACACTTAGCAACCCCTTGGGA
* *
15340493 GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACT-GTGGAATCAGCACTTAGCAACCAC
1 GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATA-TGGTGGAATCAGCACTTAGCAACCAC
* * * * * * *
15340557 CAATGAGTCGGGGAATTAGCACTTAGCAACCCCTTTTATATTTAAAGATACGGTGGAATTAGCAC
65 CAATCAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAATCAGCAC
* *
15340622 TTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
130 TTAGCAACCACCAATCAGTCGGGGAATCAACACTTAGCAACCCCTT
15340668 CATATTCAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
179 158 0.99
180 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (179 bp):
GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
AATCAGTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAATCAGCACT
TAGCAACCACCAATCAGTCGGGGAATCAACACTTAGCAACCCCTTGGGA
Found at i:15340541 original size:103 final size:103
Alignment explanation
Indices: 15340390--15340591 Score: 325
Period size: 103 Copynumber: 2.0 Consensus size: 103
15340380 ATCATTCAGG
*
15340390 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
*
15340455 AATCATTCGGGGAATCAACACTTAGCAACCCCTTGGGA
66 AATCAGTCGGGGAATCAACACTTAGCAACCCCTTGGGA
* *
15340493 GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACT-GTGGAATCAGCACTTAGCAACCAC
1 GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATA-TGGTGGAATCAGCACTTAGCAACCAC
* * *
15340557 CAATGAGTCGGGGAATTAGCACTTAGCAACCCCTT
65 CAATCAGTCGGGGAATCAACACTTAGCAACCCCTT
15340592 TTATATTTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 90 0.99
104 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (103 bp):
GAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
AATCAGTCGGGGAATCAACACTTAGCAACCCCTTGGGA
Found at i:15340578 original size:33 final size:33
Alignment explanation
Indices: 15340535--15340663 Score: 125
Period size: 33 Copynumber: 3.6 Consensus size: 33
15340525 AAGATACTGT
15340535 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* *
15340568 GGAATTAGCACTTAGCAACC-CCTTTTATATTTAAAGATACGG
1 GGAATCAGCACTTAGCAACCACC----A-A--T-GAG-T-CGG
*
15340610 TGGAATTAGCACTTAGCAACCACCAATGAGTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTCGG
15340644 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
15340664 CCTTCATATT
Statistics
Matches: 80, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
32 2 0.03
33 38 0.47
34 3 0.04
35 1 0.01
36 3 0.04
37 2 0.03
39 2 0.03
40 3 0.04
41 1 0.01
42 3 0.04
43 20 0.25
44 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTCGG
Found at i:15340587 original size:76 final size:76
Alignment explanation
Indices: 15340493--15340669 Score: 293
Period size: 76 Copynumber: 2.3 Consensus size: 76
15340483 CCCCTTGGGA
*
15340493 GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACCACC
1 GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15340558 AATGAGTCGGG
66 AATGAGTCGGG
* * * *
15340569 GAATTAGCACTTAGCAACCCCTTTTATATTTAAAGATACGGTGGAATTAGCACTTAGCAACCACC
1 GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15340634 AATGAGTCGGG
66 AATGAGTCGGG
*
15340645 GAATCAGCACTTAGCAA-CCCCTTCA
1 GAATTAGCACTTAGCAACCCCCTTCA
15340670 TATTCAATGT
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 6 0.06
76 87 0.94
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (76 bp):
GAATTAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
AATGAGTCGGG
Found at i:15341470 original size:78 final size:78
Alignment explanation
Indices: 15341341--15341495 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
15341331 ATAAAATAAG
15341341 CTAAACCGAGCTACGAGAATTTCAAAAATGCAAAGAACATTAAAAACGGGGCTAGGATGCACTTA
1 CTAAACCGAGCTACGAGAATTTCAAAAATGCAAAGAACATTAAAAACGGGGCTAGGATGCACTTA
15341406 CTATGAGCTTGAT
66 CTATGAGCTTGAT
*
15341419 CTAAACCGAGCTACGAGGATTTCAAAAATGCAAAGAACATTAAAAACGGGGCTAGGATGCACTTA
1 CTAAACCGAGCTACGAGAATTTCAAAAATGCAAAGAACATTAAAAACGGGGCTAGGATGCACTTA
15341484 CTATGAGCTTGA
66 CTATGAGCTTGA
15341496 GAAAGAAAAG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (78 bp):
CTAAACCGAGCTACGAGAATTTCAAAAATGCAAAGAACATTAAAAACGGGGCTAGGATGCACTTA
CTATGAGCTTGAT
Found at i:15341838 original size:11 final size:12
Alignment explanation
Indices: 15341811--15341843 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15341801 CCCAAACGTA
15341811 GAAATTTTTGAAC
1 GAAATTTTT-AAC
15341824 GAAATTTTT-AC
1 GAAATTTTTAAC
15341835 GAAATTTTT
1 GAAATTTTT
15341844 CCGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (12 bp):
GAAATTTTTAAC
Found at i:15347834 original size:33 final size:33
Alignment explanation
Indices: 15347797--15348794 Score: 248
Period size: 33 Copynumber: 28.5 Consensus size: 33
15347787 ATTGGTGGAT
*
15347797 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
15347830 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAA
* *
15347873 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
15347906 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAA
* *
15347949 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
15347982 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAA
* *
15348025 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348058 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * *
15348085 TCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GATTCGG-GGAA
* *
15348128 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348161 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * *
15348188 TCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GATTCGG-GGAA
* *
15348231 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348264 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * *
15348291 TCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GATTCGG-GGAA
* *
15348334 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348367 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * *
15348394 TCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GATTCGG-GGAA
* *
15348437 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348470 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* * *
15348497 TCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GATTCGG-GGAA
* *
15348540 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348573 TCAGCACTTAGCAACC-CC-----TT-GGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGG-GAA
* *
15348600 TCAGCACTTATCAACCCCCTTTATATTTAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAACCACC---A-A--T---GAT-TCGG-GGAA
* *
15348643 TCAGCACTTAGCAACCACCAATCATTCAGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
15348676 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
15348703 TCAGCACTTAGCAACCCCCTTCACATTTAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T---GAT-TCGG-GGAA
*
15348746 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
15348779 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
15348795 CCTTGGGAGA
Statistics
Matches: 735, Mismatches: 67, Indels: 326
0.65 0.06 0.29
Matches are distributed among these distances:
26 12 0.02
27 141 0.19
28 14 0.02
29 1 0.00
31 1 0.00
32 14 0.02
33 215 0.29
34 45 0.06
36 3 0.00
37 16 0.02
39 16 0.02
40 11 0.01
42 31 0.04
43 209 0.28
44 6 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:15347887 original size:43 final size:43
Alignment explanation
Indices: 15347826--15348040 Score: 222
Period size: 43 Copynumber: 5.5 Consensus size: 43
15347816 AGTGATTCGG
15347826 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
* *
15347869 GGAATCAGCACTTAGCAACCAC---CA-A-TC----AT-TCAG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGT
15347902 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
* *
15347945 GGAATCAGCACTTAGCAACCAC---CA-A-TC----AT-TCAG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGT
15347978 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
15348021 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
15348041 ACCAATCATT
Statistics
Matches: 140, Mismatches: 8, Indels: 48
0.71 0.04 0.24
Matches are distributed among these distances:
33 44 0.31
34 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 2 0.01
40 4 0.03
42 6 0.04
43 64 0.46
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
Found at i:15347915 original size:76 final size:76
Alignment explanation
Indices: 15347789--15348077 Score: 542
Period size: 76 Copynumber: 3.8 Consensus size: 76
15347779 TAACCGTTAT
* * * *
15347789 TGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
15347854 ATTCAAAGATA
66 ATTCAAAGATA
15347865 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
1 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
15347930 ATTCAAAGATA
66 ATTCAAAGATA
15347941 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
1 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
15348006 ATTCAAAGATA
66 ATTCAAAGATA
15348017 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTT
1 TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTT
15348078 GGGAGAATCA
Statistics
Matches: 209, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 209 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (76 bp):
TGGTGGAATCAGCACTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAAGATA
Found at i:15348130 original size:103 final size:103
Alignment explanation
Indices: 15347979--15348901 Score: 1679
Period size: 103 Copynumber: 9.0 Consensus size: 103
15347969 ATCATTCAGG
* * * *
15347979 GAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCAC
1 GAATCAGCACTTATCAACCCCCTTT-ATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
15348043 CAATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
65 CAATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348082 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348147 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348185 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348250 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348288 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348353 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348391 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348456 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348494 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348559 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
*
15348597 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATATGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
*
15348662 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGG
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
* * * *
15348700 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATATGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
* * *
15348765 AATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGA
66 AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
15348803 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
* *
15348868 AATGAGTT-AGGGAATCAGCAGTTAGCAACCCCTT
66 AATCA-TTCAGGGAATCAGCACTTAGCAACCCCTT
15348902 CATATTCATT
Statistics
Matches: 798, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
103 790 0.99
104 8 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (103 bp):
GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
AATCATTCAGGGAATCAGCACTTAGCAACCCCTTGGGA
Found at i:15348267 original size:179 final size:186
Alignment explanation
Indices: 15347827--15348281 Score: 494
Period size: 179 Copynumber: 2.5 Consensus size: 186
15347817 GTGATTCGGG
* *
15347827 GAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCAC
1 GAATCAGCACTTAGCAACCCCCTTT-A-ATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
*
15347891 CAATCATTCAGGGAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATATGGTGGAATCAGCA
64 CAATCATTCAGGGAATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAGCA
15347955 CTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGG
129 CTTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAA-CCC--TCACATT---AG--A-GG
*
15348020 TG
185 TA
* * * *
15348022 GAATCAGCACTTAGCAACCACC---AA--T---CATTCAG-GGAATCAGCACTTAGCAA-C-CC-
1 GAATCAGCACTTAGCAACCCCCTTTAATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACCA
* * * *
15348075 --C-TT-GGGAGAATCAGCACTTATCAACCCCCTTT-ATATTTAAAGATACGGTGGAATCAGCAC
66 ATCATTCAGG-GAATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAGCAC
15348135 TTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAA-CC-C-C-TT-G-GG-A
130 TTAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCTCACATTAGAGGTA
*
15348185 GAATCAGCACTTATCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAACCCCCTTTA-ATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACC
15348250 AATCATTCAGGGAATCAGCACTTAGCAACCCC
65 AATCATTCAGGGAATCAGCACTTAGCAACCCC
15348282 TTGGGAGAAT
Statistics
Matches: 221, Mismatches: 19, Indels: 56
0.75 0.06 0.19
Matches are distributed among these distances:
163 20 0.09
164 2 0.01
166 1 0.00
167 1 0.00
168 1 0.00
169 1 0.00
172 6 0.03
173 19 0.09
174 2 0.01
175 2 0.01
177 2 0.01
178 3 0.01
179 105 0.48
180 10 0.05
183 2 0.01
184 1 0.00
185 18 0.08
186 3 0.01
191 1 0.00
192 1 0.00
195 17 0.08
196 3 0.01
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (186 bp):
GAATCAGCACTTAGCAACCCCCTTTAATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACCA
ATCATTCAGGGAATCAGCACTTAGCAACCCCCTTTCACATTCAAAGATACGGTGGAATCAGCACT
TAGCAACCACCAATCATTCAGGGAATCAGCACTTAGCAACCCTCACATTAGAGGTA
Found at i:15349992 original size:11 final size:12
Alignment explanation
Indices: 15349964--15349997 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
15349954 GCCCAAACGT
15349964 CGAAATTTTTGAA
1 CGAAATTTTT-AA
15349977 CGAAATTTTT-A
1 CGAAATTTTTAA
15349988 CGAAATTTTT
1 CGAAATTTTT
15349998 CCATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:15361092 original size:17 final size:17
Alignment explanation
Indices: 15361070--15361103 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15361060 ATCCACTAAT
*
15361070 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15361087 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15361104 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15364002 original size:17 final size:17
Alignment explanation
Indices: 15363980--15364013 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15363970 ATCCACTAAT
*
15363980 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15363997 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15364014 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15377275 original size:35 final size:35
Alignment explanation
Indices: 15377235--15377304 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
15377225 AAAATAGTCA
* *
15377235 GCAGGATTACCAGACCATACCTCTTGTGGAGTCTT
1 GCAGGAATACCAGAACATACCTCTTGTGGAGTCTT
15377270 GCAGGAATACCAGAACATACCTCTTGTGGAGTCTT
1 GCAGGAATACCAGAACATACCTCTTGTGGAGTCTT
15377305 TTTCTCAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (35 bp):
GCAGGAATACCAGAACATACCTCTTGTGGAGTCTT
Found at i:15383833 original size:33 final size:33
Alignment explanation
Indices: 15383794--15383903 Score: 145
Period size: 33 Copynumber: 3.3 Consensus size: 33
15383784 ATTATAAAGC
15383794 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
15383827 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
*
15383860 AATGT-T-ATTGACCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTGA-CCTAAAATTA-ATTGTTGGTGT
15383893 ATGTATAATTG
1 ATGTATAATTG
15383904 TTGGTTTAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 49 0.73
34 8 0.12
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:15383915 original size:12 final size:12
Alignment explanation
Indices: 15383898--15383925 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15383888 GGTGTATGTA
15383898 TAATTGTTGGTT
1 TAATTGTTGGTT
15383910 TAATTGTTGGTT
1 TAATTGTTGGTT
15383922 TAAT
1 TAAT
15383926 GTTATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (12 bp):
TAATTGTTGGTT
Found at i:15383942 original size:63 final size:63
Alignment explanation
Indices: 15383850--15384102 Score: 497
Period size: 63 Copynumber: 4.0 Consensus size: 63
15383840 CTAAAATTAC
*
15383850 TTGTTGGTTTAATGTTATTGACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
15383913 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
15383976 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
15384039 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
15384102 T
1 T
15384103 GTTATTTACC
Statistics
Matches: 189, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 189 1.00
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.47
Consensus pattern (63 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
Found at i:15383978 original size:12 final size:12
Alignment explanation
Indices: 15383961--15383988 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15383951 GGTGTATGTA
15383961 TAATTGTTGGTT
1 TAATTGTTGGTT
15383973 TAATTGTTGGTT
1 TAATTGTTGGTT
15383985 TAAT
1 TAAT
15383989 GTTATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (12 bp):
TAATTGTTGGTT
Found at i:15384041 original size:12 final size:12
Alignment explanation
Indices: 15384024--15384051 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15384014 GGTGTATGTA
15384024 TAATTGTTGGTT
1 TAATTGTTGGTT
15384036 TAATTGTTGGTT
1 TAATTGTTGGTT
15384048 TAAT
1 TAAT
15384052 GTTATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (12 bp):
TAATTGTTGGTT
Done.