Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 82 of 199
Found at i:23119076 original size:73 final size:73
Alignment explanation
Indices: 23118957--23119142 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
23118947 TATTATTATT
*
23118957 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
23119022 ATTTTAAG
66 ATTTTAAG
23119030 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
23119095 ATTTTAAG
66 ATTTTAAG
23119103 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
23119143 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:23121258 original size:18 final size:18
Alignment explanation
Indices: 23121226--23121297 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
23121216 TTGGAGAACA
*
23121226 CGCAGTCTTGAGTGAGCT
1 CGCAGTTTTGAGTGAGCT
* *
23121244 TGCAGTTTTGGGTGAGCT
1 CGCAGTTTTGAGTGAGCT
*
23121262 CGCAGCTTT--GTAGAGCT
1 CGCAGTTTTGAGT-GAGCT
*
23121279 CGCACTTTTG-GTGAGCT
1 CGCAGTTTTGAGTGAGCT
23121296 CG
1 CG
23121298 TAGTCTTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.04
17 19 0.42
18 24 0.53
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (18 bp):
CGCAGTTTTGAGTGAGCT
Found at i:23121288 original size:17 final size:17
Alignment explanation
Indices: 23121195--23121297 Score: 70
Period size: 17 Copynumber: 5.9 Consensus size: 17
23121185 GAGACTTCGT
*
23121195 AGCTTTGATGAGCTCGC
1 AGCTTTGGTGAGCTCGC
* * *
23121212 A-CTATTGGAGAACACGC
1 AGCT-TTGGTGAGCTCGC
*
23121229 AG-TCTTGAGTGAGCTTGC
1 AGCT-TTG-GTGAGCTCGC
*
23121247 AGTTTTGGGTGAGCTCGC
1 AGCTTT-GGTGAGCTCGC
23121265 AGCTTT-GTAGAGCTCGC
1 AGCTTTGGT-GAGCTCGC
23121282 A-CTTTTGGTGAGCTCG
1 AGC-TTTGGTGAGCTCG
23121298 TAGTCTTGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.07
17 34 0.51
18 26 0.39
19 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.30
Consensus pattern (17 bp):
AGCTTTGGTGAGCTCGC
Found at i:23121297 original size:34 final size:34
Alignment explanation
Indices: 23121171--23121297 Score: 98
Period size: 34 Copynumber: 3.7 Consensus size: 34
23121161 TCACCTAACA
* *
23121171 AGCTTGCACTTTTGGAGA-CTTCGTAGCTTTG-ATG
1 AGCTCGCACTTTTGGAGAGC-TCGCAGCTTTGTA-G
* * * *
23121205 AGCTCGCACTATTGGAGAACACGCAGTCTTGAGT-G
1 AGCTCGCACTTTTGGAGAGCTCGCAG-CTT-TGTAG
* * *
23121240 AGCTTGCAGTTTTGGGTGAGCTCGCAGCTTTGTAG
1 AGCTCGCACTTTT-GGAGAGCTCGCAGCTTTGTAG
*
23121275 AGCTCGCACTTTTGGTGAGCTCG
1 AGCTCGCACTTTTGGAGAGCTCG
23121298 TAGTCTTGCA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
34 32 0.44
35 30 0.41
36 11 0.15
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (34 bp):
AGCTCGCACTTTTGGAGAGCTCGCAGCTTTGTAG
Found at i:23134335 original size:11 final size:11
Alignment explanation
Indices: 23134315--23134375 Score: 81
Period size: 11 Copynumber: 5.6 Consensus size: 11
23134305 ATTTTTTTAA
23134315 AAAAAGTATTTT
1 AAAAA-TATTTT
23134327 AAAAATATTTT
1 AAAAATATTTT
**
23134338 AAAAATA--AA
1 AAAAATATTTT
23134347 AAAAATATTTT
1 AAAAATATTTT
23134358 AAAAATATTTT
1 AAAAATATTTT
23134369 AAAAATA
1 AAAAATA
23134376 AAAAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
9 7 0.16
11 31 0.72
12 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23134384 original size:20 final size:20
Alignment explanation
Indices: 23134327--23134364 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23134317 AAAGTATTTT
23134327 AAAAATATTTTAAAAATAAA
1 AAAAATATTTTAAAAATAAA
23134347 AAAAATATTTTAAAAATA
1 AAAAATATTTTAAAAATA
23134365 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATATTTTAAAAATAAA
Found at i:23134397 original size:31 final size:31
Alignment explanation
Indices: 23134312--23134390 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
23134302 CAAATTTTTT
*
23134312 TAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TAAAAAAAATATTTTAAAAATATTTTAAAAA
23134343 TAAAAAAAATATTTTAAAAATATTTTAAAAA
1 TAAAAAAAATATTTTAAAAATATTTTAAAAA
23134374 TAAAAAAAATATATTTA
1 TAAAAAAAATAT-TTTA
23134391 TTATATTCGG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 42 0.91
32 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (31 bp):
TAAAAAAAATATTTTAAAAATATTTTAAAAA
Found at i:23136595 original size:28 final size:28
Alignment explanation
Indices: 23136558--23136613 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
23136548 ATACATGTTA
* *
23136558 TTAATTGTGTTACTACCTTCATGGTATT
1 TTAATCGTGTTACTACCTTCATGATATT
*
23136586 TTAATCGTGTTACTATCTTCATGATATT
1 TTAATCGTGTTACTACCTTCATGATATT
23136614 AATTGTGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.50
Consensus pattern (28 bp):
TTAATCGTGTTACTACCTTCATGATATT
Found at i:23138991 original size:18 final size:18
Alignment explanation
Indices: 23138968--23139010 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23138958 TGCCAAGTGC
* *
23138968 GTATCCTATCCCTTTTAT
1 GTATCCTAACCCTTATAT
23138986 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
23139004 GTTTCCT
1 GTATCCT
23139011 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:23139605 original size:27 final size:27
Alignment explanation
Indices: 23139564--23139653 Score: 74
Period size: 33 Copynumber: 3.1 Consensus size: 27
23139554 CCCTAACCCT
*
23139564 AACCC-AACCCTAACCTTTAACTTAAA
1 AACCCTAACCATAACCTTTAACTTAAA
*
23139590 AACCCTAACTATAACCCTAACCATTAACTTAAA
1 AACCCTAACCATAA-CCT-----TTAACTTAAA
* * *
23139623 AACTCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCATAACCTTTAACTTAAA
23139650 AACC
1 AACC
23139654 TTTAACTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
26 5 0.10
27 19 0.38
28 3 0.06
32 2 0.04
33 21 0.42
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (27 bp):
AACCCTAACCATAACCTTTAACTTAAA
Found at i:23139610 original size:33 final size:29
Alignment explanation
Indices: 23139569--23139653 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 29
23139559 ACCCTAACCC
*
23139569 AACCCTAACCTTTAACTTAAAAACCCTAACTAT
1 AACCCTAACCATTAACTTAAAAACCCT--C--T
23139602 AACCCTAACCATTAACTTAAAAA--CTCT
1 AACCCTAACCATTAACTTAAAAACCCTCT
*
23139629 AACCCTAACCCTTAACTTAAAAACC
1 AACCCTAACCATTAACTTAAAAACC
23139654 TTTAACTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 23 0.48
29 1 0.02
31 2 0.04
33 22 0.46
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.25
Consensus pattern (29 bp):
AACCCTAACCATTAACTTAAAAACCCTCT
Found at i:23139665 original size:14 final size:15
Alignment explanation
Indices: 23139635--23139667 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23139625 CTCTAACCCT
23139635 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
23139650 AACCTTTAACTTAAA
1 AACCCTTAACTTAAA
23139665 AAC
1 AAC
23139668 ACCAAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:23139809 original size:6 final size:6
Alignment explanation
Indices: 23139792--23139848 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
23139782 CCCTAACAAA
* **
23139792 AACCCT AGCCCT AACCCT AACCCTT AACTTATT AACCCT AACCCT AACCCT
1 AACCCT AACCCT AACCCT AACCC-T AAC--CCT AACCCT AACCCT AACCCT
23139843 AACCCT
1 AACCCT
23139849 TAACTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 34 0.81
7 4 0.10
8 4 0.10
ACGTcount: A:0.32, C:0.44, G:0.02, T:0.23
Consensus pattern (6 bp):
AACCCT
Found at i:23139837 original size:33 final size:33
Alignment explanation
Indices: 23139792--23139855 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
23139782 CCCTAACAAA
*
23139792 AACCCTAGCCCTAACCCTAACCCTTAACTTATT
1 AACCCTAACCCTAACCCTAACCCTTAACTTATT
23139825 AACCCTAACCCTAACCCTAACCCTTAACTTA
1 AACCCTAACCCTAACCCTAACCCTTAACTTA
23139856 AAAACACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.41, G:0.02, T:0.25
Consensus pattern (33 bp):
AACCCTAACCCTAACCCTAACCCTTAACTTATT
Found at i:23139837 original size:101 final size:103
Alignment explanation
Indices: 23139627--23139860 Score: 330
Period size: 107 Copynumber: 2.3 Consensus size: 103
23139617 CTTAAAAACT
* *
23139627 CTAACCCTAACCCTTAACTTAAAAACCTTTAACTTAAAAACACCAAAACCCTAACAAAAACCCAA
1 CTAACCCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAA
* *
23139692 GCCCTAGCCCTAACCCTTAATTTAAAAATCCTAACCATAACC
66 GCCCTAACCCTAACCCTTAACTT---AAT-CTAACCATAACC
* * *
23139734 CTAACTCC-AACCCTTAACTTAAAAACCCTTAAATTAATAACACTAAAACCCTAACAAAAACCCT
1 CTAAC-CCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCA
*
23139798 AGCCCTAACCCTAACCCTTAACTT-AT-TAACCCTAACC
65 AGCCCTAACCCTAACCCTTAACTTAATCTAACCATAACC
23139835 CTAACCCTAACCCTTAACTTAAAAAC
1 CTAACCCTAACCCTTAACTTAAAAAC
23139861 ACCAAAACCC
Statistics
Matches: 117, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
100 2 0.02
101 33 0.28
103 2 0.02
107 78 0.67
108 2 0.02
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (103 bp):
CTAACCCTAACCCTTAACTTAAAAACCCTTAAATTAAAAACACCAAAACCCTAACAAAAACCCAA
GCCCTAACCCTAACCCTTAACTTAATCTAACCATAACC
Found at i:23139897 original size:18 final size:18
Alignment explanation
Indices: 23139864--23139898 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23139854 TAAAAACACC
**
23139864 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
23139882 AAAACCCTAACCCTAAC
1 AAAACCCTAACCCTAAC
23139899 CCTAATATGA
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:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:23139958 original size:35 final size:36
Alignment explanation
Indices: 23139918--23140080 Score: 102
Period size: 35 Copynumber: 4.4 Consensus size: 36
23139908 ATATAATTTG
23139918 ATAATTTTACTAACAATTAATATAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
* * * *
23139953 ATAATTTGACTAACAA--AATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAACAATTAAT-ATA-A--TTACACAAT-TA
* * ** * * * *
23139992 TTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATATAATT-ACACAA-TTA
*
23140030 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATATAATTACACAATTA
23140065 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
23140081 AATGTTAGAT
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 34 0.36
36 3 0.03
37 23 0.24
38 13 0.14
39 3 0.03
40 11 0.12
42 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATATAATTACACAATTA
Found at i:23139966 original size:19 final size:19
Alignment explanation
Indices: 23139918--23139968 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 19
23139908 ATATAATTTG
*
23139918 ATAATTTTACTAACAATTA
1 ATAATTTAACTAACAATTA
*
23139937 AT-A--TAATTAACAATTA
1 ATAATTTAACTAACAATTA
*
23139953 ATAATTTGACTAACAA
1 ATAATTTAACTAACAA
23139969 AATGTTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 1 0.04
19 10 0.40
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAATTTAACTAACAATTA
Found at i:23140103 original size:112 final size:110
Alignment explanation
Indices: 23139901--23140138 Score: 404
Period size: 112 Copynumber: 2.1 Consensus size: 110
23139891 ACCCTAACCC
* *
23139901 TAATATGATATAATTTGATAATTTTACTAACAATTAATATAATTAACAATTAATAATTTGACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* *
23139966 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTAC-AAAAAAT-A
*
23140013 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
*
23140078 CAAAATGTTAGATTTTACAAAATGTTTTGATTGGTACAAAAAATA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATA
23140123 TAATTTGATATAATTT
1 TAATTTGATATAATTT
23140139 TAATAACAAT
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
110 17 0.14
111 5 0.04
112 98 0.82
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (110 bp):
TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACAAAAAATA
Found at i:23140158 original size:22 final size:23
Alignment explanation
Indices: 23140133--23140181 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
23140123 TAATTTGATA
* *
23140133 TAATTTTAATAACAAT-TAGTTT
1 TAATTTTAATAAAAATATAATTT
23140155 TAATTTTAATAAAAATATAATTT
1 TAATTTTAATAAAAATATAATTT
23140178 TAAT
1 TAAT
23140182 AAACCGGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATTTTAATAAAAATATAATTT
Found at i:23140684 original size:28 final size:30
Alignment explanation
Indices: 23140643--23140703 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
23140633 TTTAATAAAT
23140643 AAATACATATTATTTA-TTTTTTAATTTTA
1 AAATACATATTATTTATTTTTTTAATTTTA
* *
23140672 AAATAC-TTTTATTTATTTTTTTTATTTTA
1 AAATACATATTATTTATTTTTTTAATTTTA
23140701 AAA
1 AAA
23140704 ATAATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
AAATACATATTATTTATTTTTTTAATTTTA
Found at i:23140916 original size:7 final size:7
Alignment explanation
Indices: 23140906--23140936 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
23140896 CTTAACCCTA
23140906 AAACTCT
1 AAACTCT
23140913 AAACTCT
1 AAACTCT
23140920 AAACTCT
1 AAACTCT
*
23140927 AAACCCT
1 AAACTCT
23140934 AAA
1 AAA
23140937 AGTGCAGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACTCT
Found at i:23140925 original size:14 final size:14
Alignment explanation
Indices: 23140899--23140936 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
23140889 TTTAATTCTT
23140899 AACCCTAAAACTCTA
1 AACCCT-AAACTCTA
*
23140914 AACTCTAAACTCTA
1 AACCCTAAACTCTA
23140928 AACCCTAAA
1 AACCCTAAA
23140937 AGTGCAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAACTCTA
Found at i:23143183 original size:44 final size:44
Alignment explanation
Indices: 23143118--23143222 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
23143108 GATTTAATTT
* * * *
23143118 TTAAATTTTTAGTTT-AA-TAGATTTCTAGATCTTTTAGCTGAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
*
23143160 TTAAGTTTTAAGTTTAAATTAGATTTTTAAATCTTTTAGCTCAA
1 TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
23143204 TTAGAG-TTTAAGTTTAAAT
1 TTA-AGTTTTAAGTTTAAAT
23143223 CTTTAATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 13 0.24
43 2 0.04
44 38 0.69
45 2 0.04
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (44 bp):
TTAAGTTTTAAGTTTAAATTAGATTTCTAAATCTTTTAGCTCAA
Found at i:23144575 original size:24 final size:24
Alignment explanation
Indices: 23144546--23144593 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23144536 TTTGAAATTC
* *
23144546 TCTCGAATCGAGTCGAGTGAAATG
1 TCTCGAATCAAGTCAAGTGAAATG
*
23144570 TCTCGAATCAAGTTAAGTGAAATG
1 TCTCGAATCAAGTCAAGTGAAATG
23144594 AAATTCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (24 bp):
TCTCGAATCAAGTCAAGTGAAATG
Found at i:23145051 original size:9 final size:9
Alignment explanation
Indices: 23145029--23145061 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
23145019 ATTCGAAAAA
23145029 AATTCGAGTT
1 AATTCGA-TT
23145039 AATTCGATT
1 AATTCGATT
23145048 AATTCGATT
1 AATTCGATT
23145057 AATTC
1 AATTC
23145062 TATTCGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (9 bp):
AATTCGATT
Found at i:23147278 original size:39 final size:40
Alignment explanation
Indices: 23147206--23147287 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
23147196 TCATGAATTA
* * *
23147206 TTGTTTCCACGTCAGCAATTCGCGCTTACGTGGACGCGAT
1 TTGTTGCCACGTAAGCAATTCGCGCTGACGTGGACGCGAT
* *
23147246 TTGTTGCCACGTAAGTAA-TCGCGCTGATGTGGACGCGAT
1 TTGTTGCCACGTAAGCAATTCGCGCTGACGTGGACGCGAT
23147285 TTG
1 TTG
23147288 CTGACACATC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 22 0.59
40 15 0.41
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.30
Consensus pattern (40 bp):
TTGTTGCCACGTAAGCAATTCGCGCTGACGTGGACGCGAT
Found at i:23147618 original size:18 final size:18
Alignment explanation
Indices: 23147592--23147650 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
23147582 AAGGGTTAAT
*
23147592 TTTATTTTTTA-AATATTA
1 TTTAATTTTTATAAT-TTA
23147610 TTTAATTTTTATAATTTAA
1 TTTAATTTTTATAATTT-A
*
23147629 TTAATATTTTTATAATTT-
1 TTTA-ATTTTTATAATTTA
23147647 TTTA
1 TTTA
23147651 TAATAGTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATTTTTATAATTTA
Found at i:23148590 original size:7 final size:7
Alignment explanation
Indices: 23148575--23148612 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
23148565 AACATAGTCG
*
23148575 ATTTCGT
1 ATTTAGT
23148582 ATTTAGT
1 ATTTAGT
23148589 ATTTAGT
1 ATTTAGT
23148596 ATTTAGT
1 ATTTAGT
23148603 ATTTAGT
1 ATTTAGT
23148610 ATT
1 ATT
23148613 ATGTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (7 bp):
ATTTAGT
Found at i:23150872 original size:25 final size:24
Alignment explanation
Indices: 23150835--23150946 Score: 107
Period size: 25 Copynumber: 4.5 Consensus size: 24
23150825 GACTCACCAC
*
23150835 AGCTCGTATGAGCTTACCGATTTAT
1 AGCTCGTAAGAGCTTACCGATTT-T
* *
23150860 AGCTCGTAAGAGCTTTCCGATTCTC
1 AGCTCGTAAGAGCTTACCGATT-TT
* *
23150885 AGCTCGTATGAGCTTATCGTATTTT
1 AGCTCGTAAGAGCTTACCG-ATTTT
* * *
23150910 AACTCGGAAGAGCTTACCGATTAT
1 AGCTCGTAAGAGCTTACCGATTTT
* *
23150934 GGGTCGTAAGAGC
1 AGCTCGTAAGAGC
23150947 ATACATGTAC
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
24 13 0.19
25 52 0.75
26 4 0.06
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCGATTTT
Found at i:23150893 original size:50 final size:50
Alignment explanation
Indices: 23150834--23150931 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
23150824 GGACTCACCA
* * *
23150834 CAGCTCGTATGAGCTTACCG-ATTTATAGCTCGTAAGAGCTTTCCGATTCT
1 CAGCTCGTATGAGCTTACCGTATTT-TAACTCGGAAGAGCTTACCGATTCT
*
23150884 CAGCTCGTATGAGCTTATCGTATTTTAACTCGGAAGAGCTTACCGATT
1 CAGCTCGTATGAGCTTACCGTATTTTAACTCGGAAGAGCTTACCGATT
23150932 ATGGGTCGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 39 0.91
51 4 0.09
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGTATTTTAACTCGGAAGAGCTTACCGATTCT
Found at i:23163890 original size:3 final size:3
Alignment explanation
Indices: 23163882--23163917 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
23163872 TAGACTGAGG
*
23163882 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
23163918 ATTTGGAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23166616 original size:101 final size:101
Alignment explanation
Indices: 23166501--23166739 Score: 406
Period size: 101 Copynumber: 2.4 Consensus size: 101
23166491 AAAGTGATGG
* * *
23166501 TCACGTTTGTAGTACTATGTGTAGGTTACTACGTGTACCAGAATGATAAGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAAAATGATAAGTCGCATGTGTAGTAC
* *
23166566 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGA
66 TATGTGCAGGATACTATGCGTACCGGATAGCTTCGA
* *
23166602 TCACGTGTGTAGTACTATGCGTAGGCTACTACGTGTACCAAAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAAAATGATAAGTCGCATGTGTAGTAC
23166667 TATGTGCAGGATACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGATACTATGCGTACCGGATAGCTTCGA
*
23166703 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
23166740 TCGGATAGTG
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAAAATGATAAGTCGCATGTGTAGTAC
TATGTGCAGGATACTATGCGTACCGGATAGCTTCGA
Found at i:23166763 original size:51 final size:52
Alignment explanation
Indices: 23166493--23166766 Score: 235
Period size: 51 Copynumber: 5.4 Consensus size: 52
23166483 TGAAAGTGAA
* * * * *
23166493 AGTGAT-GGTCACGTTTGTAGTACTATGTGTAGGTTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * * *
23166543 A-TGATAAGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * * * *
23166594 AGCT--TCGATCACGTGTGTAGTACTATGCGTAGGCTACTACGTGTACC--AA
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * * *
23166643 AATGATAGGTCGCATGTGTAGTACTATGTGCAGGATACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
23166695 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
23166746 AGTGAT-GGTCACATGTGTAGT
1 AGTGATAGGTCACATGTGTAGT
23166767 GTAGTACTAT
Statistics
Matches: 170, Mismatches: 43, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
48 1 0.01
49 6 0.04
50 70 0.41
51 88 0.52
52 3 0.02
53 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:23166909 original size:42 final size:43
Alignment explanation
Indices: 23166801--23167008 Score: 264
Period size: 43 Copynumber: 4.9 Consensus size: 43
23166791 GTGAATCCGC
23166801 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * * *
23166844 ATTATTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGC
1 ATCATTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
23166886 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
23166929 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
23166971 ATCATTGATTAT-AAGGTGGTTGCTAAGTGTTGATTCCA
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCA
23167009 TCGTGTAACG
Statistics
Matches: 140, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
40 4 0.03
41 23 0.16
42 44 0.31
43 59 0.42
44 10 0.07
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:23166940 original size:85 final size:85
Alignment explanation
Indices: 23166797--23167008 Score: 372
Period size: 85 Copynumber: 2.5 Consensus size: 85
23166787 CTATGTGAAT
*
23166797 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATTATTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTGAAAGG
23166862 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
*
23166882 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTGAAAGG
23166947 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
* * *
23166967 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGTTGATTCCA
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCA
23167009 TCGTGTAACG
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 25 0.20
85 97 0.80
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (85 bp):
CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTGAAAGG
GGTTGCTATGTGCTGATTCC
Found at i:23174746 original size:23 final size:23
Alignment explanation
Indices: 23174714--23174757 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23174704 CCTAGGTCAG
*
23174714 GTATTGGGGTATTACATTTAGTT
1 GTATTAGGGTATTACATTTAGTT
23174737 GTATTAGGGTATTACATTTAG
1 GTATTAGGGTATTACATTTAG
23174758 GGGACCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (23 bp):
GTATTAGGGTATTACATTTAGTT
Found at i:23179430 original size:16 final size:16
Alignment explanation
Indices: 23179409--23179439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23179399 GAGTACACCA
23179409 CATCACTCTACTAGCT
1 CATCACTCTACTAGCT
*
23179425 CATCACTTTACTAGC
1 CATCACTCTACTAGC
23179440 AGGGTGGGGA
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:0.26, C:0.35, G:0.06, T:0.32
Consensus pattern (16 bp):
CATCACTCTACTAGCT
Found at i:23179527 original size:32 final size:32
Alignment explanation
Indices: 23179459--23179529 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
23179449 AGCTAGAGAG
* * * *
23179459 TGGCAAGTTGGCGAGGAGGCGAGATAGTAGAG
1 TGGCAAGTTAGCGAGGAGGCGAGATAGCAAAA
23179491 TGGCAAGTTAGCGAGGAGGCGA-ACTAGCAAAA
1 TGGCAAGTTAGCGAGGAGGCGAGA-TAGCAAAA
23179523 TGGCAAG
1 TGGCAAG
23179530 CTAGAAAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 33 0.97
ACGTcount: A:0.32, C:0.13, G:0.41, T:0.14
Consensus pattern (32 bp):
TGGCAAGTTAGCGAGGAGGCGAGATAGCAAAA
Found at i:23179610 original size:16 final size:16
Alignment explanation
Indices: 23179578--23179681 Score: 75
Period size: 16 Copynumber: 6.5 Consensus size: 16
23179568 AAATGGTGAC
*
23179578 GAGCTAGC-AGAGTGGT
1 GAGCTAGCGAG-GAGGT
*
23179594 GAGGTAGCGAGGAGGT
1 GAGCTAGCGAGGAGGT
* * * *
23179610 GAGCTAGCAAAGTGGC
1 GAGCTAGCGAGGAGGT
*
23179626 GAGCTAGCGAGGAGGC
1 GAGCTAGCGAGGAGGT
* * *
23179642 AAGCTAGCAATGAGGT
1 GAGCTAGCGAGGAGGT
* * *
23179658 GAGCTAACAAGGAGGC
1 GAGCTAGCGAGGAGGT
23179674 GAGCTAGC
1 GAGCTAGC
23179682 AGAGAGTGGC
Statistics
Matches: 68, Mismatches: 19, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
16 66 0.97
17 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.42, T:0.12
Consensus pattern (16 bp):
GAGCTAGCGAGGAGGT
Found at i:23179618 original size:32 final size:32
Alignment explanation
Indices: 23179577--23179685 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 32
23179567 TAAATGGTGA
*
23179577 CGAGCTAGCAGAGTGGTGAGGTAGCGAGGAGG
1 CGAGCTAGCAGAGTGGTGAGCTAGCGAGGAGG
* * *
23179609 TGAGCTAGCAAAGTGGCGAGCTAGCGAGGAGG
1 CGAGCTAGCAGAGTGGTGAGCTAGCGAGGAGG
* * * *
23179641 CAAGCTAGCA-ATGAGGTGAGCTAACAAGGAGG
1 CGAGCTAGCAGA-GTGGTGAGCTAGCGAGGAGG
23179673 CGAGCTAGCAGAG
1 CGAGCTAGCAGAG
23179686 AGTGGCAAGC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
31 1 0.02
32 62 0.97
33 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.42, T:0.12
Consensus pattern (32 bp):
CGAGCTAGCAGAGTGGTGAGCTAGCGAGGAGG
Found at i:23179631 original size:48 final size:48
Alignment explanation
Indices: 23179476--23179694 Score: 122
Period size: 48 Copynumber: 4.5 Consensus size: 48
23179466 TTGGCGAGGA
* * * * * *
23179476 GGCGAGATAGTAGAGTGGCAAGTTAGCGAGGAGGCGAACTAGCAAAAT
1 GGCGAGCTAGCAGAGTGGCAAGGTAGCGAGGAGGTGAGCTAGCAAAGT
* * ** * * *
23179524 GGCAAGCTAG-AAAGTGG-TGGGCTAGC-AGATAGTGATTAGCTAGTAAATGGT
1 GGCGAGCTAGCAGAGTGGCAAGG-TAGCGAG-GAG-G-TGAGCTAGCAAA--GT
* **
23179575 GACGAGCTAGCAGAGTGGTGAGGTAGCGAGGAGGTGAGCTAGCAAAGT
1 GGCGAGCTAGCAGAGTGGCAAGGTAGCGAGGAGGTGAGCTAGCAAAGT
* * * * * * *
23179623 GGCGAGCTAGC-GAGGAGGCAAGCTAGCAATGAGGTGAGCTAACAAGGA
1 GGCGAGCTAGCAGA-GTGGCAAGGTAGCGAGGAGGTGAGCTAGCAAAGT
23179671 GGCGAGCTAGCAGAGAGTGGCAAG
1 GGCGAGCTAGC--AGAGTGGCAAG
23179695 CTAGTAGAGT
Statistics
Matches: 127, Mismatches: 31, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
46 3 0.02
47 14 0.11
48 57 0.45
49 8 0.06
50 17 0.13
51 12 0.09
52 12 0.09
53 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.40, T:0.15
Consensus pattern (48 bp):
GGCGAGCTAGCAGAGTGGCAAGGTAGCGAGGAGGTGAGCTAGCAAAGT
Found at i:23179705 original size:16 final size:16
Alignment explanation
Indices: 23179684--23179719 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23179674 GAGCTAGCAG
*
23179684 AGAGTGGCAAGCTAGT
1 AGAGTGGCAAGCTACT
*
23179700 AGAGTGGCGAGCTACT
1 AGAGTGGCAAGCTACT
23179716 AGAG
1 AGAG
23179720 AGTCGCGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.39, T:0.17
Consensus pattern (16 bp):
AGAGTGGCAAGCTACT
Found at i:23179721 original size:18 final size:18
Alignment explanation
Indices: 23179671--23179728 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
23179661 CTAACAAGGA
23179671 GGCGAGCTAGC-AGAGAGT
1 GGCGAGCTA-CTAGAGAGT
* *
23179689 GGCAAGCTAGT--AGAGT
1 GGCGAGCTACTAGAGAGT
23179705 GGCGAGCTACTAGAGAGT
1 GGCGAGCTACTAGAGAGT
*
23179723 CGCGAG
1 GGCGAG
23179729 GTGGTGTCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 14 0.44
18 18 0.56
ACGTcount: A:0.28, C:0.17, G:0.41, T:0.14
Consensus pattern (18 bp):
GGCGAGCTACTAGAGAGT
Found at i:23181096 original size:23 final size:23
Alignment explanation
Indices: 23181061--23181119 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
23181051 TGACTAGACC
* *
23181061 AAAAATTTA-AAAATAATAATAAT
1 AAAAA-TTAGAAAAAAATAATAAG
* *
23181084 AAAAATTAGAAAAAAATATTGAG
1 AAAAATTAGAAAAAAATAATAAG
23181107 AAAAATATAGAAA
1 AAAAAT-TAGAAA
23181120 TTGTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 21 0.70
24 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAAATTAGAAAAAAATAATAAG
Found at i:23181129 original size:17 final size:16
Alignment explanation
Indices: 23181107--23181219 Score: 66
Period size: 18 Copynumber: 6.3 Consensus size: 16
23181097 AAATATTGAG
23181107 AAAAATATAGAAATTGT
1 AAAAATATA-AAATTGT
* *
23181124 AAAAATATTTAAATTATT
1 AAAAATA-TAAAATT-GT
23181142 AAAAATATCAAAATTTGT
1 AAAAATAT-AAAA-TTGT
*
23181160 AAAAATA-AATATTGT
1 AAAAATATAAAATTGT
*
23181175 AAATAATAATTAAATATTTTT
1 AAA-AAT-A-TAAA-A-TTGT
23181196 AAAAATATTTTAAAATTGT
1 AAAAATA---TAAAATTGT
23181215 AAAAA
1 AAAAA
23181220 AGTTATTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
15 7 0.09
16 6 0.08
17 14 0.18
18 20 0.26
19 13 0.17
20 5 0.07
21 11 0.14
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (16 bp):
AAAAATATAAAATTGT
Found at i:23181201 original size:54 final size:52
Alignment explanation
Indices: 23181119--23181237 Score: 127
Period size: 54 Copynumber: 2.3 Consensus size: 52
23181109 AAATATAGAA
*
23181119 ATTGTAAA-AAT-ATTTAAATTATTAAAAATA-TCAAAATTTGTAAAAATAAAT
1 ATTGTAAATAATAATTAAAATTATTAAAAATATTCAAAA-TTGTAAAAA-AAAT
* * **
23181170 ATTGTAAATAATAATTAAATATTTTTAAAAATATTTTAAAATTGTAAAAAAGTT
1 ATTGTAAATAATAATTAAA-ATTATTAAAAATA-TTCAAAATTGTAAAAAAAAT
*
23181224 ATTGAAAATAATAA
1 ATTGTAAATAATAA
23181238 AACATTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
51 8 0.14
52 3 0.05
53 5 0.09
54 27 0.47
55 9 0.16
56 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (52 bp):
ATTGTAAATAATAATTAAAATTATTAAAAATATTCAAAATTGTAAAAAAAAT
Found at i:23181219 original size:20 final size:20
Alignment explanation
Indices: 23181165--23181220 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
23181155 TTTGTAAAAA
*
23181165 TAAATATTGTAAATAATAAT
1 TAAATATTGTAAAAAATAAT
* * *
23181185 TAAATATTTTTAAAAATATTT
1 TAAATATTGTAAAAAATA-AT
23181206 TAAA-ATTGTAAAAAA
1 TAAATATTGTAAAAAA
23181221 GTTATTGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TAAATATTGTAAAAAATAAT
Found at i:23181601 original size:20 final size:19
Alignment explanation
Indices: 23181546--23181704 Score: 67
Period size: 20 Copynumber: 8.2 Consensus size: 19
23181536 ATTTGCAATT
23181546 TTTTTAATAATTTTTATAAA
1 TTTTTAATAATTTTTAT-AA
* * *
23181566 TTTTAAAAAATGTTTTGTAA
1 TTTTTAATAAT-TTTTATAA
*
23181586 TTTTTAATAACTTTTTTTAAA
1 TTTTTAATAA-TTTTTAT-AA
* * * *
23181607 ATTTTAAGTTATTTTCAACAA
1 TTTTTAA-TAATTTT-TATAA
* **
23181628 TATTTAATAATTATTTGCAA
1 TTTTTAATAATT-TTTATAA
*
23181648 -TATT--TAATTTTTATAA
1 TTTTTAATAATTTTTATAA
*
23181664 TTTTTAAT-TTTTTTAATAA
1 TTTTTAATAATTTTT-ATAA
* * *
23181683 -TTTAAATATTTTTTACAA
1 TTTTTAATAATTTTTATAA
23181701 TTTT
1 TTTT
23181705 ATATTTTTTA
Statistics
Matches: 103, Mismatches: 24, Indels: 25
0.68 0.16 0.16
Matches are distributed among these distances:
16 5 0.05
17 8 0.08
18 14 0.14
19 16 0.16
20 31 0.30
21 27 0.26
22 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTAATAATTTTTATAA
Found at i:23181612 original size:21 final size:19
Alignment explanation
Indices: 23181547--23181718 Score: 67
Period size: 21 Copynumber: 9.1 Consensus size: 19
23181537 TTTGCAATTT
23181547 TTTTAATAATTTTTATAAA
1 TTTTAATAATTTTTATAAA
* * *
23181566 TTTTAAAAAATGTTTTGTAAT
1 TTTT-AATAAT-TTTTATAAA
*
23181587 TTTTAATAACTTTTTTTAAAA
1 TTTTAATAA-TTTTTAT-AAA
* *
23181608 TTTTAAGTTATTTTCA-ACAA
1 TTTTAA-TAATTTTTATA-AA
**
23181628 TATTTAATAATTATTT-GCAA
1 T-TTTAATAATT-TTTATAAA
* *
23181648 TATT--TAATTTTTATAAT
1 TTTTAATAATTTTTATAAA
*
23181665 TTTTAAT-TTTTTTA-ATAA
1 TTTTAATAATTTTTATA-AA
*
23181683 TTTAAAT-ATTTTT-TACAA
1 TTTTAATAATTTTTATA-AA
*
23181701 TTTT-ATATTTTTTA-AAA
1 TTTTAATAATTTTTATAAA
23181718 T
1 T
23181719 ATTTTTTATG
Statistics
Matches: 113, Mismatches: 24, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
16 3 0.03
17 15 0.13
18 30 0.27
19 8 0.07
20 24 0.21
21 31 0.27
22 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTAATAATTTTTATAAA
Found at i:23181671 original size:16 final size:16
Alignment explanation
Indices: 23181650--23181680 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23181640 ATTTGCAATA
23181650 TTTAATTTTTATAATT
1 TTTAATTTTTATAATT
*
23181666 TTTAATTTTTTTAAT
1 TTTAATTTTTATAAT
23181681 AATTTAAATA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTAATTTTTATAATT
Found at i:23181678 original size:18 final size:17
Alignment explanation
Indices: 23181655--23181713 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
23181645 CAATATTTAA
23181655 TTTTTATAATTTTTAATT
1 TTTTTATAA-TTTTAATT
*
23181673 TTTTTAATAATTTAAATAT
1 TTTTT-ATAATTTTAAT-T
*
23181692 TTTTTACAATTTTATATT
1 TTTTTATAATTTTA-ATT
23181710 TTTT
1 TTTT
23181714 AAAATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 23 0.66
19 12 0.34
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATAATTTTAATT
Found at i:23183281 original size:26 final size:26
Alignment explanation
Indices: 23183224--23183274 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23183214 AAAAAACCTT
* **
23183224 AAAAATCT-TTAAAAATGGAAAAATA
1 AAAAATTTATTAAAAATAAAAAAATA
23183249 AAAAATTTATTAAAAATAAAAAAATA
1 AAAAATTTATTAAAAATAAAAAAATA
23183275 TGAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAAATTTATTAAAAATAAAAAAATA
Found at i:23188484 original size:20 final size:20
Alignment explanation
Indices: 23188461--23188536 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 20
23188451 TACTTTCCTA
*
23188461 CTCCTGTTAGCACTATGGTG
1 CTCCTGATAGCACTATGGTG
* * * *
23188481 CTCCTGATAGTACTTTCGTA
1 CTCCTGATAGCACTATGGTG
* * **
23188501 CTCTTGTTAGCACTACAGTG
1 CTCCTGATAGCACTATGGTG
23188521 CTCCTGATAGCA-TATG
1 CTCCTGATAGCACTATG
23188537 CATGCTTCTA
Statistics
Matches: 40, Mismatches: 16, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
19 2 0.05
20 38 0.95
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CTCCTGATAGCACTATGGTG
Found at i:23188493 original size:80 final size:80
Alignment explanation
Indices: 23188357--23188525 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
23188347 ATCTTGAATA
* ** * * *
23188357 GGTGCTCCTGACAGTACTTTTGTGCTCCTGATAGCATTACGGTGTTCCTAAAAGTACTTTCATAC
1 GGTGCTCCTAACAGTACTTTCCTACTCCTGATAGCACTACGGTGCTCCTAAAAGTACTTTCATAC
23188422 CCTTGATAGCACCAC
66 CCTTGATAGCACCAC
* * * * *
23188437 GGTGCTCCTAACAGTACTTTCCTACTCCTGTTAGCACTATGGTGCTCCTGATAGTACTTTCGTAC
1 GGTGCTCCTAACAGTACTTTCCTACTCCTGATAGCACTACGGTGCTCCTAAAAGTACTTTCATAC
* * *
23188502 TCTTGTTAGCACTAC
66 CCTTGATAGCACCAC
*
23188517 AGTGCTCCT
1 GGTGCTCCT
23188526 GATAGCATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.34
Consensus pattern (80 bp):
GGTGCTCCTAACAGTACTTTCCTACTCCTGATAGCACTACGGTGCTCCTAAAAGTACTTTCATAC
CCTTGATAGCACCAC
Found at i:23188530 original size:40 final size:40
Alignment explanation
Indices: 23188357--23188527 Score: 182
Period size: 40 Copynumber: 4.3 Consensus size: 40
23188347 ATCTTGAATA
* * *
23188357 GGTGCTCCTGACAGTACTTTTGTGCTCCTGATAGCATTAC
1 GGTGCTCCTGACAGTACTTTCGTACTCCTGATAGCACTAC
* * * * *
23188397 GGTGTTCCTAAAAGTACTTTCATAC-CCTTGATAGCACCAC
1 GGTGCTCCTGACAGTACTTTCGTACTCC-TGATAGCACTAC
* * * *
23188437 GGTGCTCCTAACAGTACTTTCCTACTCCTGTTAGCACTAT
1 GGTGCTCCTGACAGTACTTTCGTACTCCTGATAGCACTAC
* * *
23188477 GGTGCTCCTGATAGTACTTTCGTACTCTTGTTAGCACTAC
1 GGTGCTCCTGACAGTACTTTCGTACTCCTGATAGCACTAC
*
23188517 AGTGCTCCTGA
1 GGTGCTCCTGA
23188528 TAGCATATGC
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 105 0.96
41 2 0.02
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (40 bp):
GGTGCTCCTGACAGTACTTTCGTACTCCTGATAGCACTAC
Found at i:23188607 original size:20 final size:20
Alignment explanation
Indices: 23188582--23188660 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
23188572 ATTATGGTTT
*
23188582 CCTGATTGCACTTTTGTGCC
1 CCTGATTGCACTTTAGTGCC
* *
23188602 CCTGATTGCACTTCAGTGTC
1 CCTGATTGCACTTTAGTGCC
* *
23188622 ACTGATTGCACTTT-GTTCC
1 CCTGATTGCACTTTAGTGCC
* * *
23188641 CTTGATTTCTCTTTAGTGCC
1 CCTGATTGCACTTTAGTGCC
23188661 TCCGTAAGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.42
Consensus pattern (20 bp):
CCTGATTGCACTTTAGTGCC
Found at i:23200084 original size:3 final size:3
Alignment explanation
Indices: 23200076--23200113 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23200066 ATCACATGTT
23200076 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23200114 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23200231 original size:72 final size:72
Alignment explanation
Indices: 23200114--23200297 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
23200104 TATTATTATT
23200114 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
23200179 TTTTAAG
66 TTTTAAG
23200186 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
23200251 TTTTAAG
66 TTTTAAG
*
23200258 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
23200298 GTCAAGTTAT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:23204525 original size:3 final size:3
Alignment explanation
Indices: 23204517--23204557 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
23204507 ATCACATGTT
23204517 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23204558 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23204639 original size:72 final size:72
Alignment explanation
Indices: 23204558--23204741 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
23204548 TATTATTATT
23204558 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
23204623 TTTTAAG
66 TTTTAAG
23204630 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
23204695 TTTTAAG
66 TTTTAAG
*
23204702 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
23204742 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:23218482 original size:26 final size:26
Alignment explanation
Indices: 23218442--23218511 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
23218432 TTTTTTGAAT
**
23218442 TTTTACTAAGGGTAAAATCATCAAAA
1 TTTTACTGGGGGTAAAATCATCAAAA
* *
23218468 TTTTA-TCGGGTGTAAAATCGTCAAAA
1 TTTTACT-GGGGGTAAAATCATCAAAA
23218494 TTTTACTGGGGGTAAAAT
1 TTTTACTGGGGGTAAAAT
23218512 AGGGATGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 35 0.95
27 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (26 bp):
TTTTACTGGGGGTAAAATCATCAAAA
Found at i:23222454 original size:17 final size:17
Alignment explanation
Indices: 23222432--23222468 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23222422 GCTAGACTGG
23222432 GGAAAGGAAAAGATTGA
1 GGAAAGGAAAAGATTGA
23222449 GGAAAGGAAAAGATTGA
1 GGAAAGGAAAAGATTGA
23222466 GGA
1 GGA
23222469 CAAAAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.38, T:0.11
Consensus pattern (17 bp):
GGAAAGGAAAAGATTGA
Found at i:23222768 original size:50 final size:50
Alignment explanation
Indices: 23222693--23222984 Score: 338
Period size: 50 Copynumber: 5.9 Consensus size: 50
23222683 CATTTGGGTA
23222693 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
23222743 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
23222793 AAGAGGTCCAATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
23222843 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * *
23222893 GAGAACTCCCATGTAAGGCCATATCTGGGATATGGCATTGGCA--GTACAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
** * * *
23222942 GAA-ACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
23222985 TGTTATATTC
Statistics
Matches: 209, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
48 1 0.00
49 35 0.17
50 173 0.83
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:23223213 original size:16 final size:16
Alignment explanation
Indices: 23223192--23223222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23223182 GTTATTTAAG
23223192 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
23223208 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
23223223 GTAAAGAAGA
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:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:23223236 original size:20 final size:20
Alignment explanation
Indices: 23223193--23223238 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23223183 TTATTTAAGC
*
23223193 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
23223213 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
23223233 AAGTAA
1 AAGTAA
23223239 AGATCCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:23229477 original size:50 final size:50
Alignment explanation
Indices: 23229396--23229588 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
23229386 CATTTGGGTA
* *
23229396 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
23229446 AAGAGGTCACATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
23229496 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * * *
23229546 GAGAACTCCCATGTTAGGCCATATTTGGGATATGGCATTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23229589 GTACAGGAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:23229573 original size:100 final size:100
Alignment explanation
Indices: 23229397--23229588 Score: 240
Period size: 100 Copynumber: 1.9 Consensus size: 100
23229387 ATTTGGGTAA
* * * * **
23229397 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATAAGAGGTCACATGTAA
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATAGCATGGGCACCGAGATAAGAACTCACATGTAA
* *
23229462 GACCATGTTTGGGACATGGCGTTGGCACCGAGACG
66 GACCATATTTGGGACATGGCATTGGCACCGAGACG
* * * * * *
23229497 AGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAACTCCCATGTTA
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATAGCATGGGCACCGAGATAAGAACTCACATGTAA
* *
23229562 GGCCATATTTGGGATATGGCATTGGCA
66 GACCATATTTGGGACATGGCATTGGCA
23229589 GTACAGGAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCACGTAAGACCATGTCTAGGACATAGCATGGGCACCGAGATAAGAACTCACATGTAA
GACCATATTTGGGACATGGCATTGGCACCGAGACG
Found at i:23229862 original size:16 final size:16
Alignment explanation
Indices: 23229841--23229871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23229831 GTTATTTAAG
23229841 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
23229857 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
23229872 GTAAAGAAGA
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:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:23229885 original size:20 final size:20
Alignment explanation
Indices: 23229842--23229887 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23229832 TTATTTAAGC
*
23229842 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
23229862 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
23229882 AAGTAA
1 AAGTAA
23229888 AGATCTTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:23230532 original size:24 final size:24
Alignment explanation
Indices: 23230505--23230556 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23230495 TTAGTAAGTC
*
23230505 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
23230529 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
23230553 AAAT
1 AAAT
23230557 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:23232502 original size:24 final size:24
Alignment explanation
Indices: 23232475--23232526 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23232465 TTAGTAAGTC
*
23232475 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
23232499 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
23232523 AAAT
1 AAAT
23232527 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:23236121 original size:24 final size:24
Alignment explanation
Indices: 23236094--23236164 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
23236084 ATTTATATTC
* * *
23236094 ATCTCCATCGTTGTCTTCATCTTT
1 ATCTCCACCCTTGGCTTCATCTTT
23236118 ATCTCCACCCTTGGCTTCATCTTT
1 ATCTCCACCCTTGGCTTCATCTTT
* **
23236142 ATCCCCACCCTTAACTTCATCTT
1 ATCTCCACCCTTGGCTTCATCTT
23236165 CGTCTCTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.15, C:0.37, G:0.06, T:0.42
Consensus pattern (24 bp):
ATCTCCACCCTTGGCTTCATCTTT
Found at i:23243450 original size:16 final size:17
Alignment explanation
Indices: 23243419--23243451 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23243409 AATATGTAAT
*
23243419 ATTTTATATGAATTTTA
1 ATTTTATATCAATTTTA
23243436 ATTTTATA-CAATTTTA
1 ATTTTATATCAATTTTA
23243452 TACATGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTATATCAATTTTA
Found at i:23243694 original size:29 final size:30
Alignment explanation
Indices: 23243613--23243694 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
23243603 GAATCAAAAC
23243613 TAAAATTTCATATAT-AAATTTAAACCACAAT
1 TAAAATTT-ATATATCAAA-TTAAACCACAAT
*
23243644 TAAAATTT-TATATCTATAATTACACCA-AAT
1 TAAAATTTATATATC-A-AATTAAACCACAAT
23243674 TAAAATTTATATATCAAATTA
1 TAAAATTTATATATCAAATTA
23243695 TATAGTACTC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
29 10 0.22
30 12 0.26
31 22 0.48
32 2 0.04
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAAATTTATATATCAAATTAAACCACAAT
Found at i:23254219 original size:22 final size:23
Alignment explanation
Indices: 23254186--23254228 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
23254176 CACAACGCAA
23254186 CAAAAAACAAAGACAA-TAATTT
1 CAAAAAACAAAGACAACTAATTT
*
23254208 CAAAATAA-AAAGGCAACTAAT
1 CAAAA-AACAAAGACAACTAAT
23254229 CCGAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.63, C:0.14, G:0.07, T:0.16
Consensus pattern (23 bp):
CAAAAAACAAAGACAACTAATTT
Found at i:23269780 original size:29 final size:30
Alignment explanation
Indices: 23269727--23269785 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
23269717 GAATTGAATC
23269727 AAATCAAAATTTCATATATAAAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
* *
23269757 AAATCAAAATTT-ATGTATATAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
23269786 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTACACA
Found at i:23269799 original size:31 final size:29
Alignment explanation
Indices: 23269731--23269807 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
23269721 TGAATCAAAT
*
23269731 CAAAATTTCATATATAAAATTACACAAAAT
1 CAAAATTT-ATATATAAAATTACACAAAAC
* *
23269761 CAAAATTTATGTATATAATTACACATTAAAC
1 CAAAATTTATATATAAAATTACACA--AAAC
* *
23269792 CATAATTTATCTATAA
1 CAAAATTTATATATAA
23269808 TTTTGAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 15 0.38
30 8 0.21
31 16 0.41
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (29 bp):
CAAAATTTATATATAAAATTACACAAAAC
Found at i:23270562 original size:126 final size:126
Alignment explanation
Indices: 23270337--23270690 Score: 636
Period size: 126 Copynumber: 2.8 Consensus size: 126
23270327 TAATTTCGAG
* *
23270337 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGTATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
23270402 AAATCGCGCCCTCGTGGACTCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
*
23270463 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGATAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
23270528 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
* *
23270589 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTTTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
23270654 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAG
23270691 CATGTTTGGT
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 219 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
Found at i:23273924 original size:116 final size:116
Alignment explanation
Indices: 23273720--23273959 Score: 426
Period size: 116 Copynumber: 2.1 Consensus size: 116
23273710 TGATAAATTG
*
23273720 TATTAACTCAAAAAATTGTATTACTAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
23273785 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
* *
23273836 TATTAACTCTAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
23273901 TAGTAGCAGTCAAAATATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
23273952 TATTAACT
1 TATTAACT
23273960 TAGTTTAGGG
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATAGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:23274019 original size:21 final size:22
Alignment explanation
Indices: 23273994--23274047 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
23273984 AGGTTAGGAG
23273994 TAGGGTTTTAAAGTTAA-GGGT
1 TAGGGTTTTAAAGTTAAGGGGT
*
23274015 TAGGGTTTTTAAGTTAAGGGGT
1 TAGGGTTTTAAAGTTAAGGGGT
23274037 TAGGGTTTTAA
1 TAGGGTTTTAA
23274048 TTAAATTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.41
Consensus pattern (22 bp):
TAGGGTTTTAAAGTTAAGGGGT
Found at i:23274063 original size:29 final size:28
Alignment explanation
Indices: 23274033--23274229 Score: 168
Period size: 29 Copynumber: 7.2 Consensus size: 28
23274023 TTAAGTTAAG
23274033 GGGTTAGGGTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTAATTAAATTAGGTTA
23274061 GGGTTAGGGTTTCTAATTAAATTAGGTTA
1 GGGTTAGGGTTT-TAATTAAATTAGGTTA
*
23274090 GGGTTAGGGTTTTTAGTTAAATTA---T-
1 GGGTTAGGG-TTTTAATTAAATTAGGTTA
*
23274115 --GTTA-GGATTT--TTAAAGTTAAGGTTTA
1 GGGTTAGGGTTTTAATTAAA-TT-AGG-TTA
* * * *
23274141 GGGTT----TTTAAGTTAAGGTTAAGTTA
1 GGGTTAGGGTTTTAATTAA-ATTAGGTTA
23274166 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGG-TTTTAATTAAATTAGGTTA
*
23274195 GGATTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGG-TTTTAATTAAATTAGGTTA
23274224 GGGTTA
1 GGGTTA
23274230 AAGTTAAGGT
Statistics
Matches: 138, Mismatches: 12, Indels: 37
0.74 0.06 0.20
Matches are distributed among these distances:
19 5 0.04
20 2 0.01
21 4 0.03
22 2 0.01
23 4 0.03
25 11 0.08
26 3 0.02
27 6 0.04
28 15 0.11
29 75 0.54
30 11 0.08
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (28 bp):
GGGTTAGGGTTTTAATTAAATTAGGTTA
Found at i:23274152 original size:21 final size:22
Alignment explanation
Indices: 23274116--23274159 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
23274106 TTAAATTATG
23274116 TTAGGATTTTTAAAGTTAAGGT
1 TTAGGATTTTTAAAGTTAAGGT
*
23274138 TTAGGGTTTTT-AAGTTAAGGT
1 TTAGGATTTTTAAAGTTAAGGT
23274159 T
1 T
23274160 AAGTTAGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGATTTTTAAAGTTAAGGT
Found at i:23274262 original size:37 final size:40
Alignment explanation
Indices: 23274198--23274285 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 40
23274188 TAGGTTAGGA
23274198 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAAGTTAAGG-T
1 TTAGGGTTTTTAATTAAA-TA-GTTA-GGTTAAAGTTAAGGTT
** *
23274240 TTAGGGTTTTTAATT-AA-A-TTAGGTTAGGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATAGTTAGGTTAAAGTTAAGGTT
23274277 TTAGGGTTT
1 TTAGGGTTT
23274286 AGGGTTAGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 11 0.26
37 13 0.31
39 1 0.02
41 2 0.05
42 15 0.36
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.45
Consensus pattern (40 bp):
TTAGGGTTTTTAATTAAATAGTTAGGTTAAAGTTAAGGTT
Found at i:23274282 original size:14 final size:15
Alignment explanation
Indices: 23274263--23274291 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23274253 TTAAATTAGG
23274263 TTAGGG-TTAGGGTT
1 TTAGGGTTTAGGGTT
23274277 TTAGGGTTTAGGGTT
1 TTAGGGTTTAGGGTT
23274292 AGGGGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (15 bp):
TTAGGGTTTAGGGTT
Found at i:23274375 original size:139 final size:133
Alignment explanation
Indices: 23274230--23274574 Score: 453
Period size: 134 Copynumber: 2.5 Consensus size: 133
23274220 GTTAGGGTTA
* **
23274230 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAGGGTTTAGGGTTAGG
1 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTA---ATTA-AATTA--
** *
23274295 GGTTTTAATTA-AATTAGGTT-ATGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGT
60 GGTTAGAATTAGAATT--GTTAAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGT
23274358 TTAGGAG-TTTT
123 TTA-GAGTTTTT
23274369 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTA
* ** * *
23274434 GAGTTAGGGTTTTTAAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAATGTTTAGAGT
65 GAATTAGAATTGTTAAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGT
23274499 TTTT
130 TTTT
*
23274503 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTA
1 AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTA
*
23274568 GAGTTAG
65 GAATTAG
23274575 GGTTTTTAAT
Statistics
Matches: 190, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
133 5 0.03
134 127 0.67
135 2 0.01
136 3 0.02
137 3 0.02
139 45 0.24
140 5 0.03
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.46
Consensus pattern (133 bp):
AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTAG
AATTAGAATTGTTAAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTT
TTT
Found at i:23274389 original size:21 final size:21
Alignment explanation
Indices: 23274336--23274395 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
23274326 TTAAATTAGG
23274336 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTT-AAGTTAAGGT
23274358 TTAGGAG-TTTTAAGTTAAGGT
1 TTAGG-GTTTTTAAGTTAAGGT
23274379 TTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAA
23274396 ATTAGGTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.14
21 21 0.58
22 9 0.25
23 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGT
Found at i:23274412 original size:29 final size:29
Alignment explanation
Indices: 23274379--23274449 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
23274369 AAGTTAAGGT
*
23274379 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGAG
23274408 TTAGGGTTTTTAATTAAATTAGGTTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGAG
23274437 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
23274450 GGGTTTTGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGAG
Found at i:23274434 original size:23 final size:23
Alignment explanation
Indices: 23274240--23274409 Score: 101
Period size: 23 Copynumber: 7.3 Consensus size: 23
23274230 AAGTTAAGGT
23274240 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* **
23274263 TTAGGGTTAGGGTT--TTAGGGTTTAGGG
1 TTAGGGTT---TTTAATTA--AATTA-GG
*
23274290 TTAGGGGTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
23274313 TTATGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
*
23274336 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
23274357 TTTAGGAG-TTTTAAGTT--A--AGG
1 -TTAGG-GTTTTTAA-TTAAATTAGG
23274378 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
23274402 TTAGGGTT
1 TTAGGGTT
23274410 AGGGTTTTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 42
0.68 0.07 0.25
Matches are distributed among these distances:
20 7 0.06
21 18 0.16
22 12 0.11
23 48 0.42
24 12 0.11
26 8 0.07
27 9 0.08
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:23274494 original size:134 final size:134
Alignment explanation
Indices: 23274317--23274583 Score: 500
Period size: 134 Copynumber: 2.0 Consensus size: 134
23274307 ATTAGGTTAT
23274317 GGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGAG-TTTTAAGTTAAGGTTT
1 GGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTA-GAGTTTTTAAGTTAAGGTTT
*
23274381 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTT
65 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGAGTTAGGGTTT
23274446 TTAAG
130 TTAAG
*
23274451 GGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAATGTTTAGAGTTTTTAAGTTAAGGTTTA
1 GGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTA
23274516 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGAGTTAGGGTTTT
66 GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGAGTTAGGGTTTT
23274581 TAA
131 TAA
23274584 TTAAATTAGG
Statistics
Matches: 130, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
133 3 0.02
134 127 0.98
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (134 bp):
GGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGAGTTTTTAAGTTAAGGTTTA
GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGAGTTAGGGTTTT
TAAG
Found at i:23274500 original size:22 final size:22
Alignment explanation
Indices: 23274470--23274525 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
23274460 TTAAATTAGG
*
23274470 TTAGGGTTTTTAAAGTTAATGT
1 TTAGGGTTTTTAAAGTTAAGGT
*
23274492 TTAGAGTTTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
23274513 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
23274526 TTAAATTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:23274543 original size:23 final size:23
Alignment explanation
Indices: 23274449--23274626 Score: 97
Period size: 29 Copynumber: 7.3 Consensus size: 23
23274439 AGGGTTTTTA
23274449 AGGGTTTTGT-ATTAAATTAGGTT
1 AGGGTTTT-TAATTAAATTAGGTT
*
23274472 AGGGTTTTTAAAGTT-AA-T-GTTT
1 AGGGTTTTT-AA-TTAAATTAGGTT
*
23274494 AGAGTTTTTAAGTT--A--AGGTTT
1 AGGGTTTTTAA-TTAAATTAGG-TT
23274515 AGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AGGGTTTTTAATT-AA--A--TTA-GGTT
23274544 AGGGTTTTTAATTAAATTAGATTAGAGTT
1 AGGGTTTTTAATT-A---A-ATTAG-GTT
23274573 AGGGTTTTTAATTAAATTAGGTT
1 AGGGTTTTTAATTAAATTAGGTT
23274596 AGGG--TTTAAGGTTAAATTAGGTT
1 AGGGTTTTTAA--TTAAATTAGGTT
23274619 AGGGTTTT
1 AGGGTTTT
23274627 ATTACATCAA
Statistics
Matches: 127, Mismatches: 5, Indels: 44
0.72 0.03 0.25
Matches are distributed among these distances:
20 4 0.03
21 22 0.17
22 12 0.09
23 32 0.25
24 8 0.06
25 6 0.05
28 2 0.02
29 37 0.29
30 2 0.02
31 1 0.01
32 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (23 bp):
AGGGTTTTTAATTAAATTAGGTT
Found at i:23274546 original size:29 final size:29
Alignment explanation
Indices: 23274513--23274601 Score: 160
Period size: 29 Copynumber: 3.1 Consensus size: 29
23274503 AAGTTAAGGT
23274513 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
23274542 TTAGGGTTTTTAATTAAATTAGATTAGAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
23274571 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
23274600 TT
1 TT
23274602 TAAGGTTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:23274651 original size:25 final size:25
Alignment explanation
Indices: 23274623--23274760 Score: 146
Period size: 25 Copynumber: 5.7 Consensus size: 25
23274613 TAGGTTAGGG
23274623 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
23274648 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *** *
23274671 --AAATAAC-TCGAAAT-TTTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
23274693 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
23274718 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
23274743 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
23274761 TATCAAAATA
Statistics
Matches: 92, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 2 0.02
23 2 0.02
24 12 0.13
25 65 0.71
ACGTcount: A:0.41, C:0.14, G:0.01, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:23274803 original size:44 final size:45
Alignment explanation
Indices: 23274633--23274814 Score: 156
Period size: 45 Copynumber: 4.0 Consensus size: 45
23274623 TTTTATTACA
*
23274633 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*** * * ** *
23274678 TCGAAAT-TTTTTTTATTTTATTACATCAAATAA-ACTTCTATTTTATTAC
1 TC-AAATAAACTTCTATTTTATTACATAAAATAATA--TC-A--AAATAAC
*
23274727 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 -TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
23274773 TCAAA-AAATTTCTATCTTT-TTATATAAAATAATATCAAAATA
1 TCAAATAAACTTCTAT-TTTATTACATAAAATAATATCAAAATA
23274815 TTCAAAATAT
Statistics
Matches: 110, Mismatches: 17, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
44 31 0.28
45 32 0.29
46 10 0.09
47 1 0.01
48 1 0.01
49 10 0.09
50 24 0.22
51 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:23275260 original size:18 final size:18
Alignment explanation
Indices: 23275237--23275271 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23275227 CAGAAAAGGA
*
23275237 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
23275255 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
23275272 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:23275933 original size:7 final size:7
Alignment explanation
Indices: 23275923--23275948 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23275913 TTATATACAT
23275923 AATACTA
1 AATACTA
23275930 AATACTA
1 AATACTA
23275937 AATACTA
1 AATACTA
23275944 AATAC
1 AATAC
23275949 CAATCGACTA
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:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:23277148 original size:22 final size:22
Alignment explanation
Indices: 23277123--23277171 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
23277113 AAATATGGAT
23277123 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
23277145 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
23277167 TTGAG
1 TTGAG
23277172 TGGAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:23277178 original size:11 final size:11
Alignment explanation
Indices: 23277139--23277195 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
23277129 GAATTTTGGA
23277139 AGGAAATTGAG
1 AGGAAATTGAG
*
23277150 A-GAATTTTG-G
1 AGGAA-ATTGAG
23277160 AAGGAAATTGAG
1 -AGGAAATTGAG
*
23277172 TGGAAATTGAG
1 AGGAAATTGAG
23277183 AGGAAATATGAG
1 AGGAAAT-TGAG
23277195 A
1 A
23277196 AAGAATTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
10 4 0.11
11 24 0.65
12 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:23279010 original size:21 final size:21
Alignment explanation
Indices: 23278980--23279023 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23278970 TCATTTGGTC
23278980 AAGTACCGATACTTCCTTT-AA
1 AAGTACCGATACTT-CTTTCAA
*
23279001 AAGTATCGATACTTCTTTCAA
1 AAGTACCGATACTTCTTTCAA
23279022 AA
1 AA
23279024 AACCAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
AAGTACCGATACTTCTTTCAA
Found at i:23281262 original size:43 final size:44
Alignment explanation
Indices: 23281161--23281272 Score: 181
Period size: 44 Copynumber: 2.6 Consensus size: 44
23281151 TATCATTTGT
*
23281161 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* *
23281205 CACTTATCACTTGTCACCGATCAGATAAGTGTAGTTAAA-CTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
23281248 CACTTATCACTTGTCATTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
23281273 AGTACTCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
43 27 0.43
44 36 0.57
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:23281366 original size:17 final size:17
Alignment explanation
Indices: 23281344--23281376 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23281334 TATTCTCAAT
23281344 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
23281361 TCATCATACAATATAT
1 TCATCATACAATATAT
23281377 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:23290996 original size:29 final size:30
Alignment explanation
Indices: 23290953--23291010 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
23290943 CTTTCACTTG
23290953 AAAGAAAAAACTAAAATTAA-ATTTAATAA
1 AAAGAAAAAACTAAAATTAATATTTAATAA
*
23290982 AAAGAAAAGAA-TAAAATTAATTTTTAATA
1 AAAGAAAA-AACTAAAATTAATATTTAATA
23291011 GATAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAGAAAAAACTAAAATTAATATTTAATAA
Found at i:23302724 original size:17 final size:16
Alignment explanation
Indices: 23302698--23302744 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
23302688 AAATTTTAGA
*
23302698 ATAAAAAAATAAAAAT
1 ATAAATAAATAAAAAT
23302714 CATAAATAAATAAGAAAT
1 -ATAAATAAATAA-AAAT
*
23302732 AAAAATAAA-AAAA
1 ATAAATAAATAAAA
23302745 GTGGCAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 19 0.70
18 4 0.15
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
ATAAATAAATAAAAAT
Found at i:23304130 original size:24 final size:24
Alignment explanation
Indices: 23304087--23304135 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
23304077 GTTTAGTATC
* *
23304087 ACTATCATCATAATTTGCACTATT
1 ACTATCATCATAACTCGCACTATT
*
23304111 ACTATCATCATAGCTCGCACTATT
1 ACTATCATCATAACTCGCACTATT
23304135 A
1 A
23304136 TTATTAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (24 bp):
ACTATCATCATAACTCGCACTATT
Found at i:23315630 original size:17 final size:17
Alignment explanation
Indices: 23315593--23315642 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
23315583 CATATATTGC
*
23315593 AAAAAAATAAAAATAAAT
1 AAAAAAATAAAAA-AGAT
*
23315611 AAAAAAATAAAAAAGCT
1 AAAAAAATAAAAAAGAT
* *
23315628 AAATAAATTAAAAAG
1 AAAAAAATAAAAAAG
23315643 TCCGATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAAAAATAAAAAAGAT
Found at i:23328056 original size:13 final size:13
Alignment explanation
Indices: 23328038--23328062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23328028 TAATTTATAT
23328038 GTGTGAAAATTTC
1 GTGTGAAAATTTC
23328051 GTGTGAAAATTT
1 GTGTGAAAATTT
23328063 TATCGTTGGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:23329892 original size:41 final size:41
Alignment explanation
Indices: 23329855--23329972 Score: 209
Period size: 41 Copynumber: 2.9 Consensus size: 41
23329845 GACTATATGT
*
23329855 CTAGCAGGCTAAGTGCCGGTGAACCGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
*
23329896 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
*
23329937 CTAGCAGGCTAAGTGCTGGTGAACTGAATCAGGCTA
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTA
23329973 AGTGCCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
Found at i:23329975 original size:25 final size:25
Alignment explanation
Indices: 23329941--23329990 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23329931 ATAAGCCTAG
**
23329941 CAGGCTAAGTGCTGGTGAACTGAAT
1 CAGGCTAAGTGCCAGTGAACTGAAT
23329966 CAGGCTAAGTGCCAGTGAACTGAAT
1 CAGGCTAAGTGCCAGTGAACTGAAT
23329991 TATACTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (25 bp):
CAGGCTAAGTGCCAGTGAACTGAAT
Found at i:23330025 original size:66 final size:66
Alignment explanation
Indices: 23329900--23330025 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
23329890 ATAAGCCTAG
* * * * * * *
23329900 CAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCTGGTGAACTGAA
1 CAGGCTAAGTGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGATAAATGCTAGTGAACTGAA
23329965 T
66 T
* * *
23329966 CAGGCTAAGTGCCAGTGAACTGAATTATACTTTAAACCTAGCA-GATGAAATGCTAGTGAA
1 CAGGCTAAGTGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGAT-AAATGCTAGTGAA
23330026 TCTGTTTAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
65 2 0.04
66 47 0.96
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (66 bp):
CAGGCTAAGTGCCAGTGAACTGAATCAGACTATAAACCTAGCAGGATAAATGCTAGTGAACTGAA
T
Found at i:23333285 original size:13 final size:13
Alignment explanation
Indices: 23333267--23333292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23333257 ATGAACCCTA
23333267 GGATTATGCAGGG
1 GGATTATGCAGGG
23333280 GGATTATGCAGGG
1 GGATTATGCAGGG
23333293 TAATAAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (13 bp):
GGATTATGCAGGG
Found at i:23363012 original size:44 final size:44
Alignment explanation
Indices: 23362964--23363148 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
23362954 AAGATTATAG
23362964 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
* ** ** *
23363008 ATCTTATCTTTCC-AAG--ATAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAATAGT-GG-AGCAGATCGAAGACGGCGA
* * * * * * ** * * * ** *
23363051 ACCCTTGTCTCCCTGAGTAACAGCGGAAAAGGTTGAATATTG-TA
1 A-TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
23363095 GATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
23363140 ATCTTATCT
1 ATCTTATCT
23363149 TTCCAAGATA
Statistics
Matches: 96, Mismatches: 35, Indels: 20
0.64 0.23 0.13
Matches are distributed among these distances:
42 5 0.05
43 9 0.09
44 72 0.75
45 7 0.07
46 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
Found at i:23363412 original size:44 final size:44
Alignment explanation
Indices: 23363096--23363544 Score: 154
Period size: 44 Copynumber: 10.2 Consensus size: 44
23363086 AATATTGTAG
* *
23363096 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* ** * *
23363140 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCGA
* * * * * * * * * **
23363183 AGCCTTGTCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATTATAG-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGCGA
* **
23363228 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* ** * *
23363272 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCGA
* * * * * * * * * **
23363315 AGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGCGA
* *
23363361 TTC-TATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACAGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
* ** * *
23363404 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACAGCGA
* * * * * * * **
23363447 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAG-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CAGCGA
* **
23363492 ATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
23363536 ATCTTATCT
1 ATCTTATCT
23363545 TTCCAAGATA
Statistics
Matches: 282, Mismatches: 93, Indels: 60
0.65 0.21 0.14
Matches are distributed among these distances:
42 12 0.04
43 33 0.12
44 203 0.72
45 24 0.09
46 10 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
Found at i:23363679 original size:132 final size:132
Alignment explanation
Indices: 23362720--23363661 Score: 1456
Period size: 132 Copynumber: 7.1 Consensus size: 132
23362710 CTGCATTGAC
**
23362720 AGTGGAGCAGATCGAAGACAAC-AAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCGAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* *
23362784 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGC
65 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGC
23362849 AGT
130 AGT
* * * * *
23362852 AGTGGAACAGATCGAAGATGACGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTGAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * **
23362917 CAAACCTTGTCTCCTTGAGTAACAGCAGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
*
23362982 AT
131 GT
23362984 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * * * *
23363049 CAACCCTTGTCTCCCTGAGTAACAGCGGAAAAGGTTGAATATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
*
23363114 AT
131 GT
23363116 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
23363181 CAAGCCTTGTCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
23363246 GT
131 GT
* *
23363248 AGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
23363313 CAAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT-TCTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCT-TATCTCCCTAAGC
23363377 AGT
130 AGT
* *
23363380 AGTGGAGCAAATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
23363445 CAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCTTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
23363510 GT
131 GT
* *
23363512 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * ** * *
23363577 CAAACCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAATATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
23363642 GT
131 GT
23363644 AGTGGAGCAGATCGAAGA
1 AGTGGAGCAGATCGAAGA
23363662 TGGCAGATTT
Statistics
Matches: 747, Mismatches: 60, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 743 0.99
133 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
GT
Found at i:23363737 original size:264 final size:263
Alignment explanation
Indices: 23362720--23363809 Score: 1408
Period size: 264 Copynumber: 4.1 Consensus size: 263
23362710 CTGCATTGAC
***
23362720 AGTGGAGCAGATCGAAGACAAC-AAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
* * *
23362784 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGC
65 CCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * * *
23362849 AGTAGTGGAACAGATCGAAGATGACGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTG-AG
130 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTGAAG
* * * * ** *
23362913 CCACCAAACCTTGTCTCCTTGAGTAACAGCAGAGAAGGTTGAAGATTATAGATCTTATCTCCCTA
194 CCACCAAGCC-TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTA
*
23362978 AGCAAT
258 AGCAGT
*
23362984 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
23363049 CAACCCTTGTCTCCCTGAGTAACAGCGGA-AAAGGTTGAATATTGTAGATCTTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAA-GTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
23363113 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
130 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAGC
* * *
23363178 CACCAAGCCTTGTCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAA
195 CACCAAGCC-TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAA
23363243 GCAGT
259 GCAGT
*
23363248 AGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * *
23363313 CAAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT-TCTATCTCCCTAAGC
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAGTTGAAGATTGTAGATCT-TATCTCCCTAAGC
* * *
23363377 AGTAGTGGAGCAAATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
130 AGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAGC
* *
23363442 CACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCTTAA
195 CACCAAGCC-TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAA
23363507 GCAGT
259 GCAGT
*
23363512 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCAC
1 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
23363577 CAAACCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAATATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * * *** * * *
23363642 GTAGTGGAGCAGATCGAAGATGGC-AGATTTTACCTTTCTGTGGTTATAAT-GG-AGTACATTGA
131 GTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTTTC-CAAG--ATAGTGGGAAGCAGATTGA
* ** ** * * * *
23363704 ATCCAATAATTCTA-CTTCCCTG-GACAACAGTGGAATAGATTAAAGATTACAGATCTTATCTCC
192 AGCCACCAAGCCTATC-TCCCTGAG-CAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCC
*
23363767 CTAGGCAGT
255 CTAAGCAGT
*
23363776 AGTGGAGCAGATCGAAGATGAC-AAGTCTTATCTT
1 AGTGGAGCAGATCGAAGATGGCGAA-TCTTATCTT
23363810 CCTGAAGTTG
Statistics
Matches: 736, Mismatches: 77, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
263 10 0.01
264 701 0.95
265 19 0.03
266 2 0.00
267 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (263 bp):
AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAAGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAGCC
ACCAAGCCTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGC
AGT
Found at i:23363807 original size:396 final size:395
Alignment explanation
Indices: 23362720--23363809 Score: 1455
Period size: 396 Copynumber: 2.8 Consensus size: 395
23362710 CTGCATTGAC
**
23362720 AGTGGAGCAGATCGAAGACAAC-AAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCGAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
*
23362784 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGC
65 CCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* * *
23362849 AGTAGTGGAACAGATCGAAGATGACGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTG-AG
130 AGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTGAAG
* **
23362913 CCACCAAACCTTGTCTCCTTGAGTAACAGCAGAGA-AGGTTGAAGATTATAGATCTTATCTCCCT
194 CCACCAAACCTTGTCTCCTTGAGCAACAGTGGA-ATAGGTTGAAGATTATAGATCTTATCTCCCT
* *
23362977 AAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
258 AAGCAGTAGTGGAGCAGATCGAAGA-GACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
* * * *
23363042 AAGCCACCAACCCTTGTCTCCCTGAGTAACAGCGGAAAAGGTTGAATATTGTAGATCTTATCTCC
322 AAGCCACCAACCCTTATCTCCCTGAGCAACAGCGGAAAAGGTTGAAGATTATAGATCTTATCTCC
23363107 CTAAGCAAT
387 CTAAGCAAT
23363116 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
23363181 CAAGCCTTGTCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* *
23363246 GTAGTAGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCC
131 GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAGCC
* * *
23363311 ACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT-TCTATCTCCCTAA
196 ACCAAACCTTGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCT-TATCTCCCTAA
* *
23363375 GCAGTAGTGGAGCAAATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
260 GCAGTAGTGGAGCAGATCGAAGAGA-CGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * ** *
23363440 GCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCTT
324 GCCACCAACCCTTATCTCCCTGAGCAACAGCGGAAAAGGTTGAAGATTATAGATCTTATCTCCCT
*
23363505 AAGCAGT
389 AAGCAAT
* *
23363512 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * ** *
23363577 CAAACCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTGAATATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
* * *** * * *
23363642 GTAGTGGAGCAGATCGAAGATGGC-AGATTTTACCTTTCTGTGGTTATAAT-GG-AGTACATTGA
131 GTAGTGGAGCAGATCGAAGATGGCGA-ATCTTATCTTTC-CAAG--ATAGTGGGAAGCAGATTGA
* ** ** * * * *
23363704 ATCCAATAATTCTACT-TC-CCTGGA-CAACAGTGGAATAGATTAAAGATTACAGATCTTATCTC
192 AGCCACCAAACCT--TGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCTTATCTC
*
23363766 CCTAGGCAGTAGTGGAGCAGATCGAAGATGAC-AAGTCTTATCTT
255 CCTAAGCAGTAGTGGAGCAGATCGAAGA-GACGAA-TCTTATCTT
23363810 CCTGAAGTTG
Statistics
Matches: 613, Mismatches: 67, Indels: 28
0.87 0.09 0.04
Matches are distributed among these distances:
395 6 0.01
396 573 0.93
397 25 0.04
398 4 0.01
399 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (395 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTGAAGCC
ACCAAACCTTGTCTCCTTGAGCAACAGTGGAATAGGTTGAAGATTATAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGAGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CACCAACCCTTATCTCCCTGAGCAACAGCGGAAAAGGTTGAAGATTATAGATCTTATCTCCCTAA
GCAAT
Found at i:23365843 original size:98 final size:98
Alignment explanation
Indices: 23365727--23365921 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
23365717 AAAAATCATG
* *
23365727 AAGGAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
23365792 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
23365825 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
23365890 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
23365922 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:23370074 original size:16 final size:15
Alignment explanation
Indices: 23370053--23370088 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
23370043 CTAAATAACG
*
23370053 AAAATAAATAAACAA
1 AAAATAAACAAACAA
23370068 TAAAATAAACAAACAA
1 -AAAATAAACAAACAA
23370084 AAAAT
1 AAAAT
23370089 TCAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAACAAACAA
Found at i:23372555 original size:133 final size:133
Alignment explanation
Indices: 23372317--23372583 Score: 525
Period size: 133 Copynumber: 2.0 Consensus size: 133
23372307 TTTTATACTT
23372317 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
1 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
23372382 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
66 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
23372447 TTC
131 TTC
23372450 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
1 ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
*
23372515 AAACATCAAGTAAACAACATTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
66 AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
23372580 TTC
131 TTC
23372583 A
1 A
23372584 GTTGAGTTTC
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (133 bp):
ATTTTGCAGTTAAATAATCTATTATTTTAATTTAGGAAATTGTTAGCAAGCCATTTCAGGTGTAT
AAACATCAAGTAAACAACACTTGGTCAAATAATGTTTACAATATATTTTTCTTTAGTTGTTTTTA
TTC
Found at i:23381190 original size:24 final size:24
Alignment explanation
Indices: 23381163--23381213 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
23381153 AATTCTAATT
*
23381163 AATGTAAAATATATTATGCTACTA
1 AATGTAAAATATATTATACTACTA
*
23381187 AATGTTAAATATATTATACTACTA
1 AATGTAAAATATATTATACTACTA
23381211 AAT
1 AAT
23381214 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (24 bp):
AATGTAAAATATATTATACTACTA
Done.