Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 34 of 163
Found at i:11139600 original size:20 final size:18
Alignment explanation
Indices: 11139567--11139612 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
11139557 TAACATTGAA
*
11139567 TTTTTACAATTTTTTTAT
1 TTTTTAAAATTTTTTTAT
11139585 GTTTTTAAAATCTTTTTTAT
1 -TTTTTAAAAT-TTTTTTAT
11139605 TTTTTAAA
1 TTTTTAAA
11139613 TTCTAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTAAAATTTTTTTAT
Found at i:11147391 original size:90 final size:90
Alignment explanation
Indices: 11147274--11147439 Score: 323
Period size: 90 Copynumber: 1.8 Consensus size: 90
11147264 ATCTTCGAGG
11147274 CATCCTGTGTTTGTGTCACCTCCATTCCCAGAAAATAGGACATTTTCCCTAAATCAGACATTTCA
1 CATCCTGTGTTTGTGTCACCTCCATTCCCAGAAAATAGGACATTTTCCCTAAATCAGACATTTCA
11147339 AACATCTCCTGTCTTAGGAATATCC
66 AACATCTCCTGTCTTAGGAATATCC
*
11147364 CATCTTGTGTTTGTGTCACCTCCATTCCCAGAAAATAGGACATTTTCCCTAAATCAGACATTTCA
1 CATCCTGTGTTTGTGTCACCTCCATTCCCAGAAAATAGGACATTTTCCCTAAATCAGACATTTCA
11147429 AACATCTCCTG
66 AACATCTCCTG
11147440 CATCTTGATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (90 bp):
CATCCTGTGTTTGTGTCACCTCCATTCCCAGAAAATAGGACATTTTCCCTAAATCAGACATTTCA
AACATCTCCTGTCTTAGGAATATCC
Found at i:11171309 original size:24 final size:24
Alignment explanation
Indices: 11171282--11171337 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
11171272 GATCAAGGAC
11171282 CAAATCAACTGCCATCACAACACT
1 CAAATCAACTGCCATCACAACACT
* *
11171306 CAAACCAATTGCCATCACAACACT
1 CAAATCAACTGCCATCACAACACT
11171330 CAAATCAA
1 CAAATCAA
11171338 AACTCAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.45, C:0.36, G:0.04, T:0.16
Consensus pattern (24 bp):
CAAATCAACTGCCATCACAACACT
Found at i:11173280 original size:22 final size:22
Alignment explanation
Indices: 11173252--11173297 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11173242 TCAAGAATTA
11173252 AGAAGAAGTAAAATGATTATAG
1 AGAAGAAGTAAAATGATTATAG
11173274 AGAAGAAGTAAAATGATTATAG
1 AGAAGAAGTAAAATGATTATAG
11173296 AG
1 AG
11173298 GTTATAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (22 bp):
AGAAGAAGTAAAATGATTATAG
Found at i:11176838 original size:12 final size:11
Alignment explanation
Indices: 11176813--11176865 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
11176803 ATAAATTTTA
11176813 TTTTAAAATAT
1 TTTTAAAATAT
11176824 TTTTAAAATACT
1 TTTTAAAATA-T
***
11176836 TTTT-TTTTAT
1 TTTTAAAATAT
11176846 TTTTAAAA-AT
1 TTTTAAAATAT
11176856 TTTTAAAATA
1 TTTTAAAATA
11176866 AAAATGGGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 15 0.45
11 13 0.39
12 5 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:11178148 original size:102 final size:102
Alignment explanation
Indices: 11178024--11178254 Score: 390
Period size: 102 Copynumber: 2.3 Consensus size: 102
11178014 CCAATGAGTC
* *
11178024 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
11178089 CCAATGATTCGAGAAATCAGCACTTAGCAACCCCTCA
66 CCAATGAATCGAGAAATCAGCACTTAGCAACCCCTCA
*
11178126 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * **
11178191 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCGAGAAATCAGCACTTAGCAACCCCTCA
11178228 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
11178255 TATATTCAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 120 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGAGAAATCAGCACTTAGCAACCCCTCA
Found at i:11178212 original size:33 final size:27
Alignment explanation
Indices: 11178170--11178251 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 27
11178160 AAGATACGGT
11178170 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACC-CC--T---TCGG
*
11178203 GGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTCGG
11178230 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
11178252 CTTTATATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 25 0.52
30 1 0.02
32 2 0.04
33 20 0.42
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTCGG
Found at i:11182813 original size:149 final size:150
Alignment explanation
Indices: 11182520--11182821 Score: 534
Period size: 149 Copynumber: 2.0 Consensus size: 150
11182510 TAAGCTTCAC
* * *
11182520 ATCCTTTTCTCAAGTATTTTTTTAGCAGACATGTGTGAAATCACCATAGGCAATTTATTCGACTC
1 ATCCTTTTCTCAAGTATTTTCTGAGCAGACATGTGTGAAATCACCATAGACAATTTATTCGACTC
* *
11182585 CTCTGCTTCAATCTGGAGAACTTCACCATTTTCACATTTCAATTCCAGGATGTTCTGTCTACAAT
66 CTCTGCTTCAATCCGGAGAACTTCACCATTTTCACATTTCAATTCCAAGATGTTCTGTCTACAAT
11182650 TTACCTTGGCATCATGCAAT
131 TTACCTTGGCATCATGCAAT
11182670 ATCCTTTTCTCAAGTA-TTTCTGAGCAGACATGTGTGAAATCACCATAGACAATTTATTCGACTC
1 ATCCTTTTCTCAAGTATTTTCTGAGCAGACATGTGTGAAATCACCATAGACAATTTATTCGACTC
* *
11182734 CTCTGCTTCAATCCGGAGAATTTCACCATTTTCACATTTCAATTCCAAGATTTTCTGTCTACAAT
66 CTCTGCTTCAATCCGGAGAACTTCACCATTTTCACATTTCAATTCCAAGATGTTCTGTCTACAAT
11182799 TTACCTTGGCATCATGCAAT
131 TTACCTTGGCATCATGCAAT
11182819 ATC
1 ATC
11182822 AACCAATCCA
Statistics
Matches: 145, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
149 129 0.89
150 16 0.11
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (150 bp):
ATCCTTTTCTCAAGTATTTTCTGAGCAGACATGTGTGAAATCACCATAGACAATTTATTCGACTC
CTCTGCTTCAATCCGGAGAACTTCACCATTTTCACATTTCAATTCCAAGATGTTCTGTCTACAAT
TTACCTTGGCATCATGCAAT
Found at i:11185805 original size:33 final size:33
Alignment explanation
Indices: 11185763--11185909 Score: 108
Period size: 33 Copynumber: 4.4 Consensus size: 33
11185753 GTGGATTCAA
*
11185763 CACTTAGCAACCACCAATGAGTCAGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
* * *
11185796 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAG
1 CACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAATCAG
* *
11185838 CACTTTGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
*
11185871 CACTTAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAGTCGGGGAATCAG
11185898 CACTTAGCAACC
1 CACTTAGCAACC
11185910 CCCTTTATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
27 23 0.24
30 1 0.01
32 2 0.02
33 31 0.33
34 3 0.03
35 1 0.01
36 4 0.04
37 1 0.01
38 1 0.01
39 5 0.05
40 1 0.01
41 2 0.02
42 19 0.20
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAGTCGGGGAATCAG
Found at i:11191955 original size:20 final size:19
Alignment explanation
Indices: 11191939--11191977 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11191929 GGTGAGAAGT
11191939 AAAAGTTTAGGGGGAGATA
1 AAAAGTTTAGGGGGAGATA
11191958 AAAAGTTT-GGGGGAG-TA
1 AAAAGTTTAGGGGGAGATA
11191975 AAA
1 AAA
11191978 TTTTGCGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.21
Consensus pattern (19 bp):
AAAAGTTTAGGGGGAGATA
Found at i:11192299 original size:186 final size:183
Alignment explanation
Indices: 11191970--11192306 Score: 509
Period size: 186 Copynumber: 1.8 Consensus size: 183
11191960 AAGTTTGGGG
* * *
11191970 GAGTAAAATTTTGCGGGAAAGTAACTAGGGGGAGTAAAATTTTGGAGGGAAAATATTAAAAAAAA
1 GAGTAAAATTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTAGAGGGAAAATATTAAAAAAAA
** *
11192035 ATTGGGGGATGGGTTTGGGGTAGATGGGGGTGGGATGGGAGGGGAGTAAAAGTTTTAGGGGAAAA
66 ATTGGGGGATGAATTTGGGGTAGATGGGGGTGGGATGGGAGGGAAGTAAAAGTTTTAGGGGAAAA
*
11192100 GTGGGAGGGAGTAAAAATTTTGGAGAAGAATAAAAAGTTTTGAGGGTTTTTGA
131 GTGGGAAGGAGTAAAAATTTTGGAGAAGAATAAAAAGTTTTGAGGGTTTTTGA
* *
11192153 GAGTAAAATTTTTAGGGAAAGTAAAT-GGGGGAGTAAAATTTTAGAGGGAAAATATTAAAAAGAA
1 GAGTAAAATTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTAGAGGGAAAATATTAAAAAAAA
11192217 ATTGGTGGGAAATGAATTT-GGGTAGATGGGGGGTTGGGATGGGAGGGAAGTAAAAGTTTT-GGG
66 ATTGG-GGG--ATGAATTTGGGGTAGAT-GGGGG-TGGGATGGGAGGGAAGTAAAAGTTTTAGGG
*
11192280 AGTAAAGTGGGAAGGAGTAAAAATTTT
126 -GAAAAGTGGGAAGGAGTAAAAATTTT
11192307 AGGGGGAAAG
Statistics
Matches: 138, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
182 41 0.30
183 26 0.19
184 8 0.06
185 14 0.10
186 49 0.36
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.26
Consensus pattern (183 bp):
GAGTAAAATTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTAGAGGGAAAATATTAAAAAAAA
ATTGGGGGATGAATTTGGGGTAGATGGGGGTGGGATGGGAGGGAAGTAAAAGTTTTAGGGGAAAA
GTGGGAAGGAGTAAAAATTTTGGAGAAGAATAAAAAGTTTTGAGGGTTTTTGA
Found at i:11192317 original size:30 final size:31
Alignment explanation
Indices: 11192256--11192317 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
11192246 GGGGTTGGGA
* * *
11192256 TGGGAGGGAAGTAAAAGTTTTGGGAGTAAAG
1 TGGGAAGGAAGTAAAAATTTTGGGAGGAAAG
11192287 TGGGAAGG-AGTAAAAATTTTAGGG-GGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGGAGGAAAG
11192317 T
1 T
11192318 AGAAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (31 bp):
TGGGAAGGAAGTAAAAATTTTGGGAGGAAAG
Found at i:11192323 original size:20 final size:20
Alignment explanation
Indices: 11192295--11192332 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11192285 AGTGGGAAGG
11192295 AGTAAAAAT-TTTAGGGGGAA
1 AGTAAAAATGTTT-GGGGGAA
*
11192315 AGTAGAAATGTTTGGGGG
1 AGTAAAAATGTTTGGGGG
11192333 CTTGGGGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (20 bp):
AGTAAAAATGTTTGGGGGAA
Found at i:11194750 original size:18 final size:17
Alignment explanation
Indices: 11194705--11194751 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
11194695 TTCATAGTTT
*
11194705 AAATAA-AAATATAAAA
1 AAATAATAATTATAAAA
*
11194721 AAATTATAATTATAAAA
1 AAATAATAATTATAAAA
*
11194738 AAGTAATATATTAT
1 AAATAATA-ATTAT
11194752 GATAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAATAATAATTATAAAA
Found at i:11195199 original size:16 final size:16
Alignment explanation
Indices: 11195160--11195200 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11195150 TTAGATAAGA
11195160 TTGAATTTTTATATTT
1 TTGAATTTTTATATTT
11195176 TT-ATATTTTTATATTT
1 TTGA-ATTTTTATATTT
11195192 TTGAATTTT
1 TTGAATTTT
11195201 AAAGGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (16 bp):
TTGAATTTTTATATTT
Found at i:11195200 original size:8 final size:8
Alignment explanation
Indices: 11195164--11195193 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
11195154 ATAAGATTGA
11195164 ATTTTTAT
1 ATTTTTAT
11195172 ATTTTTAT
1 ATTTTTAT
11195180 ATTTTTAT
1 ATTTTTAT
11195188 ATTTTT
1 ATTTTT
11195194 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:11202530 original size:13 final size:13
Alignment explanation
Indices: 11202512--11202536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11202502 TCGTGTTTCC
11202512 AAAAACCATTTGT
1 AAAAACCATTTGT
11202525 AAAAACCATTTG
1 AAAAACCATTTG
11202537 CTTTTGTAAA
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (13 bp):
AAAAACCATTTGT
Found at i:11211687 original size:171 final size:169
Alignment explanation
Indices: 11211298--11211741 Score: 687
Period size: 171 Copynumber: 2.6 Consensus size: 169
11211288 ACCCATTCAT
*
11211298 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTGATTCATTCATTTCCCTAAACA
11211363 AAGGTCT-AAAT-CTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCAATCGTATGA
66 AAGGTCTGAAATCCT-AACTTCA-AACTAAAAATAAATTGTAATTGCAAGACTCCAATCGTATGA
*
11211425 TGAAAATAATATTAAGAGAGGTTACAATAAGTATTGAACAC
129 CGAAAATAATATTAAGAGAGGTTACAATAAGTATTGAACAC
* * * *
11211466 TTATAGTTATTGGAACAGTATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTGATTCATTCATTTCCCTAAACA
*
11211531 AAGGTCTGAAATCCTAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTTCATATCGTATGAC
66 AAGGTCTGAAATCCTAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCA-ATCGTATGAC
* *
11211596 GAAACTAATATTACGAGAGGTTACAATAAGTATTAGAACAC
130 GAAAATAATATTAAGAGAGGTTACAATAAGTATT-GAACAC
* * * * *
11211637 TTATAGTTATTGGAACACTATAAATATTTAAAAATATTCCAGTAATTCATTTATTTCCCTAAACG
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTGATTCATTCATTTCCCTAAACA
* *
11211702 AAGGTCTGAAATCCAAACTTCAAATTAAAAATAAATTGTA
66 AAGGTCTGAAATCCTAACTTCAAACTAAAAATAAATTGTA
11211742 CTCCATACCA
Statistics
Matches: 251, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
168 67 0.27
169 40 0.16
170 44 0.18
171 100 0.40
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (169 bp):
TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTGATTCATTCATTTCCCTAAACA
AAGGTCTGAAATCCTAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCAATCGTATGACG
AAAATAATATTAAGAGAGGTTACAATAAGTATTGAACAC
Found at i:11227124 original size:26 final size:26
Alignment explanation
Indices: 11227093--11227151 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
11227083 CAATTTAAGG
*
11227093 TAAATAATATGCAAAACAAATTAAAA
1 TAAATAATATACAAAACAAATTAAAA
* * * *
11227119 TGAATAATATACACAGCAATTTAAAA
1 TAAATAATATACAAAACAAATTAAAA
11227145 TAAATAA
1 TAAATAA
11227152 CCTCCATGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.25
Consensus pattern (26 bp):
TAAATAATATACAAAACAAATTAAAA
Found at i:11227664 original size:10 final size:11
Alignment explanation
Indices: 11227643--11227671 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
11227633 ATTACAAGAA
11227643 AAAATGAAAAT
1 AAAATGAAAAT
11227654 AAAAT-AAAAT
1 AAAATGAAAAT
11227664 AAAATGAA
1 AAAATGAA
11227672 GGGCCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAATGAAAAT
Found at i:11228628 original size:15 final size:15
Alignment explanation
Indices: 11228608--11228637 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11228598 GTGTAAATGA
11228608 ACTTTTAATTATTGG
1 ACTTTTAATTATTGG
*
11228623 ACTTTTAATTTTTGG
1 ACTTTTAATTATTGG
11228638 GGGGTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (15 bp):
ACTTTTAATTATTGG
Found at i:11229022 original size:45 final size:44
Alignment explanation
Indices: 11228956--11229827 Score: 415
Period size: 44 Copynumber: 19.3 Consensus size: 44
11228946 TCAATGTAAT
* * *
11228956 CTTCAGGGAGACAAGATTTGCTATATTCAGTCTGCTCCACTGCAA
1 CTTCAGGGAGATAAGACTTG-TATATTCAATCTGCTCCACTGCAA
* * **
11229001 CTTCAGGGAGATAAGACTTGCTATGGTAGATTTAATCTGAC-CTACTATAA
1 CTTCAGGGAGATAAGACTTG-TA---T--ATTCAATCTG-CTCCACTGCAA
* * * * * * *
11229051 CTTTAAAGG-TATAAGA-TT-CATCATTTTAATCCGCTCCAATGCAA
1 C-TTCAGGGAGATAAGACTTGTAT-A-TTCAATCTGCTCCACTGCAA
* ** * * *
11229095 CTTCAGGGAGATAGGA-TTAGTAGCTTTAACCTGCTCCACTGTAA
1 CTTCAGGGAGATAAGACTT-GTATATTCAATCTGCTCCACTGCAA
* * * *
11229139 CTTTAGGGAGATAAG-GTTGGATATCTTCAATCTGCTCCACTGTAA
1 CTTCAGGGAGATAAGACTT-G-TATATTCAATCTGCTCCACTGCAA
** * *
11229184 CTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCCCCATTGCAA
1 CTTCAGGGAGATAAGACTTGTATATTCAATCTGCTCCACTGCAA
* * * * * * *
11229228 ATTTAGGGGGATAAGATTTGTATCTTCAGTCTACTCCACTGCAA
1 CTTCAGGGAGATAAGACTTGTATATTCAATCTGCTCCACTGCAA
*
11229272 CTTCAGGGAGATAAGACTTGTA-ACTTCAACCTGCTCCACTGCAA
1 CTTCAGGGAGATAAGACTTGTATA-TTCAATCTGCTCCACTGCAA
* * * **
11229316 CTTCAGGGAGATAATG-TTTG-ATA-T-GATCTGCTCTACTAAAA
1 CTTCAGGGAGATAA-GACTTGTATATTCAATCTGCTCCACTGCAA
** * * *
11229357 CTTCAAAGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAA
1 CTTCAGGGAGATAAGA-C--T--TGTATA--TTCAATCTGCTCCACTGCAA
* * * * *
11229408 CTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACTGCAA
1 CTTCAGGGAGATAAGACTTG-TATATTCAATCTGCTCCACTGCAA
*
11229453 CTTCAGGGAGATAAGACTTGTA-ACTTCAACCTGCTCCACTGCAA
1 CTTCAGGGAGATAAGACTTGTATA-TTCAATCTGCTCCACTGCAA
* * * **
11229497 CTTCAGGGAGATAATG-TTTG-ATA-T-GATCTGCTCTACTAAAA
1 CTTCAGGGAGATAA-GACTTGTATATTCAATCTGCTCCACTGCAA
** * * *
11229538 CTTCAATGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAA
1 CTTCAGGGAGATAAGA-C--T--TGTATA--TTCAATCTGCTCCACTGCAA
* * * * *
11229589 CTTCAGGGACATACG-CTTTGCTATCTTCAGTCTACTCCACTGCAA
1 CTTCAGGGAGATAAGAC-TTG-TATATTCAATCTGCTCCACTGCAA
*
11229634 CTTCAGGGAGATAAGACTTGTA-ACTTCAATCTGC-CCTACTGAAA
1 CTTCAGGGAGATAAGACTTGTATA-TTCAATCTGCTCC-ACTGCAA
* *
11229678 CTTCAGGG-GAATAAGA-TTGGTGACT-TT-AACCTGCTCCACTACAA
1 CTTCAGGGAG-ATAAGACTT-GT-A-TATTCAATCTGCTCCACTGCAA
* * * * *
11229722 CTTCAGGGAGATAAGGTCTATAATTTAGCCTT-AATCTGTTCCACTACAA
1 CTTCAGGGAGATAA-GACT-T-GTATA---TTCAATCTGCTCCACTGCAA
* * * * *
11229771 CTTTAGGGAAATGAGACTTGCTATCTTCAATCTGCTCCACTGCAT
1 CTTCAGGGAGATAAGACTTG-TATATTCAATCTGCTCCACTGCAA
*
11229816 CTTTAGGGAGAT
1 CTTCAGGGAGAT
11229828 CAAAGTTGTA
Statistics
Matches: 623, Mismatches: 140, Indels: 128
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.00
41 46 0.07
42 2 0.00
43 14 0.02
44 258 0.41
45 160 0.26
46 9 0.01
47 18 0.03
48 6 0.01
49 31 0.05
50 23 0.04
51 54 0.09
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTTCAGGGAGATAAGACTTGTATATTCAATCTGCTCCACTGCAA
Found at i:11229461 original size:181 final size:181
Alignment explanation
Indices: 11229204--11229840 Score: 858
Period size: 181 Copynumber: 3.5 Consensus size: 181
11229194 ATAAGACTTG
** * * * **
11229204 TAGCTTCAATCTGCCCCATTGCAAATTTAGGGGGATAAGATTTG-TATCTTCAGTCTACTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACT
11229268 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGT
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGT
11229333 TTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
131 TTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
11229384 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACT
11229449 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGT
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGT
*
11229514 TTGATATGATCTGCTCTACTAAAACTTCAATGATATAAGATCTGTAATTTA
131 TTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
* *
11229565 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATACGCTTTGCTATCTTCAGTCTACTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACT
* *
11229630 GCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC-CCTACTGAAACTTCAGGG-GAATAA-
66 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCC-ACTGCAACTTCAGGGAG-ATAAT
* * * * * ** * * *
11229692 GATTGGTGACTTTAACCTGCTCCACTACAACTTCAGGGAGATAAGGTCTATAA-TT-
129 G-TT--TGA-TATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
* * * * * * *
11229747 TAGCCTT-AATCTGTTCCACTACAACTTTAGGGAAATGAGACTTGCTATCTTCAATCTGCTCCAC
1 TAG-CTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCAC
* * *
11229811 TGCATCTTTAGGGAGATCAA-AGTTGTAACT
65 TGCAACTTCAGGGAGAT-AAGACTTGTAACT
11229841 GCAATCTACC
Statistics
Matches: 414, Mismatches: 34, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
180 41 0.10
181 255 0.62
182 75 0.18
183 10 0.02
184 33 0.08
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (181 bp):
TAGCTTCAATCTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTCAGTCTACTCCACT
GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGT
TTGATATGATCTGCTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTA
Found at i:11229684 original size:89 final size:86
Alignment explanation
Indices: 11229084--11229736 Score: 487
Period size: 89 Copynumber: 7.3 Consensus size: 86
11229074 TTTTAATCCG
* * * * * * *
11229084 CTCCAATGCAACTTCAGGGAGATAGGA-TTAGTAGCTTTAACCTGCTCCACTGTAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTGC-CCACTGCAACTTCAGGGA
* * *
11229148 GATAAGGTTGGATATCTTCAATCTG
64 GATAA-GTTTG-TATCTTCAGTCTA
* * * * * *
11229173 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTGCCCCATTGCAAATTTAGGGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTG-CCCACTGCAACTTCAGGGAG
11229238 ATAAGATTTGTATCTTCAGTCTA
65 ATAAG-TTTGTATCTTCAGTCTA
*
11229261 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC-CCACTGCAACTTCAGGGAG
* * *
11229326 ATAATGTTTG-AT-ATGA-TCTG
65 ATAA-GTTTGTATCTTCAGTCTA
* ** ** * * *
11229346 CTCTACTAAAACTTCAAAGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTT
1 CTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTA-A-CTTCAATCTG-CCCACTGCAACTT
*
11229411 CAGGGACATAAGATTTGCTATCTTCAGTCTA
58 CAGGGAGATAAG-TTTG-TATCTTCAGTCTA
*
11229442 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC-CCACTGCAACTTCAGGGAG
* * *
11229507 ATAATGTTTG-AT-ATGA-TCTG
65 ATAA-GTTTGTATCTTCAGTCTA
* ** ** * * *
11229527 CTCTACTAAAACTTCAATGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTT
1 CTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTA-A-CTTCAATCTG-CCCACTGCAACTT
* *
11229592 CAGGGACATACGCTTTGCTATCTTCAGTCTA
58 CAGGGAGATAAG-TTTG-TATCTTCAGTCTA
*
11229623 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCTACTGAAACTTCAGGG-G
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCC-ACTGCAACTTCAGGGAG
* * ** *
11229687 AATAAGATTGGTGA-CTTTAACCTG
65 -ATAAG-TTTGT-ATCTTCAGTCTA
*
11229711 CTCCACTACAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
11229737 GTCTATAATT
Statistics
Matches: 448, Mismatches: 80, Indels: 73
0.75 0.13 0.12
Matches are distributed among these distances:
85 48 0.11
86 6 0.01
87 5 0.01
88 112 0.25
89 126 0.28
90 12 0.03
91 10 0.02
92 69 0.15
93 2 0.00
94 4 0.01
95 6 0.01
96 48 0.11
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (86 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCACTGCAACTTCAGGGAGA
TAAGTTTGTATCTTCAGTCTA
Found at i:11234803 original size:27 final size:27
Alignment explanation
Indices: 11234750--11234805 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
11234740 ATTTTAATGG
* **
11234750 TAATAAAAACAAAATAAATTTTTATTT
1 TAATAAAAACAAAAAAAATTTAAATTT
11234777 TAATAAAAA-ATAAAAAAATTTAAATTT
1 TAATAAAAACA-AAAAAAATTTAAATTT
11234804 TA
1 TA
11234806 TCATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TAATAAAAACAAAAAAAATTTAAATTT
Found at i:11235143 original size:20 final size:21
Alignment explanation
Indices: 11235110--11235148 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11235100 GGTTTATAGA
*
11235110 ATTTTGGTTTTTATTTGAAGT
1 ATTTTGGTTTTTATATGAAGT
11235131 ATTTTGG-TTTTATATGAA
1 ATTTTGGTTTTTATATGAA
11235149 ATGAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (21 bp):
ATTTTGGTTTTTATATGAAGT
Found at i:11239279 original size:27 final size:27
Alignment explanation
Indices: 11239226--11239281 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
11239216 ATTTTAATGG
* **
11239226 TAATAAAAACAAAATAAATTTTTATTT
1 TAATAAAAACAAAAAAAATTTAAATTT
11239253 TAATAAAAA-ATAAAAAAATTTAAATTT
1 TAATAAAAACA-AAAAAAATTTAAATTT
11239280 TA
1 TA
11239282 TCATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TAATAAAAACAAAAAAAATTTAAATTT
Found at i:11241714 original size:171 final size:171
Alignment explanation
Indices: 11241393--11242009 Score: 1008
Period size: 171 Copynumber: 3.6 Consensus size: 171
11241383 ACCCATTCAT
* * *
11241393 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGC-AGTGATTCATTCATTTCCCTAAAC
1 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTT-CTAGTGATTCATTCATTTCCCAAAAC
*
11241457 AAAGGTCT-AAATCTAAACTT-AGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATG
65 AAAGGTCTGAAATCCAAACTTCA-AACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATG
11241520 ATGAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
129 ATGAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
11241563 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
11241628 AAGGTCTGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTTCATATCGTATGAT
66 AAGGTCTGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11241693 GAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
11241734 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
1 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
*
11241799 AAGGT-TCGAAATCCAAACTTCAAACTAAAAATAAATTATAATTGCAAGACTCCATATCGTATGA
66 AAGGTCT-GAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGA
** *
11241863 CAAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
130 TGAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
* * * * * * *
11241905 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTCCAGTAATTCATTTATTTCCCTAAACG
1 TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
* * *
11241970 AACGTCCGAAATCCAAACTTCAAATTAAAAATAAATTGTA
66 AAGGTCTGAAATCCAAACTTCAAACTAAAAATAAATTGTA
11242010 CTCCATACCG
Statistics
Matches: 421, Mismatches: 21, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
169 1 0.00
170 68 0.16
171 351 0.83
172 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (171 bp):
TTATAGTTATTGGAACACAATAAATATTTGAAAACGTTCTAGTGATTCATTCATTTCCCAAAACA
AAGGTCTGAAATCCAAACTTCAAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
GAAAATAATATTACGAGAGGTTACAATAAGTACTGGAACAC
Found at i:11241932 original size:17 final size:18
Alignment explanation
Indices: 11241889--11241932 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11241879 AGAGGTTACA
*
11241889 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11241907 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11241924 ATAAATATT
1 ATAAATATT
11241933 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11262500 original size:15 final size:16
Alignment explanation
Indices: 11262480--11262512 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11262470 TTTTTTGCTG
*
11262480 TTCTGC-TTGTTTTCT
1 TTCTGCTTTGATTTCT
11262495 TTCTGCTTTGATTTCT
1 TTCTGCTTTGATTTCT
11262511 TT
1 TT
11262513 TGTTCTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.03, C:0.18, G:0.12, T:0.67
Consensus pattern (16 bp):
TTCTGCTTTGATTTCT
Found at i:11265204 original size:26 final size:26
Alignment explanation
Indices: 11265166--11265244 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 26
11265156 TTTTAAAGTA
**
11265166 AATA-GCACAACAATTTAAGGTAAAT
1 AATATGCACAACAATTTAAAATAAAT
* * *
11265191 AATATGCAAAACAAATTAAAATGAAT
1 AATATGCACAACAATTTAAAATAAAT
*
11265217 AATATACACAACAATTTAAAATAAAT
1 AATATGCACAACAATTTAAAATAAAT
11265243 AA
1 AA
11265245 CCTCCATGAC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.24
Consensus pattern (26 bp):
AATATGCACAACAATTTAAAATAAAT
Found at i:11266311 original size:12 final size:12
Alignment explanation
Indices: 11266296--11266328 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11266286 AAAAAAATTT
11266296 AAAAGAAATAAA
1 AAAAGAAATAAA
11266308 AAAAGAAA-AAA
1 AAAAGAAATAAA
*
11266319 AAAGGAAATA
1 AAAAGAAATA
11266329 TCAATCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAAGAAATAAA
Found at i:11267222 original size:44 final size:43
Alignment explanation
Indices: 11267162--11267810 Score: 287
Period size: 44 Copynumber: 14.5 Consensus size: 43
11267152 TCCGCTCTGG
* * * * * *
11267162 TGCAATTTCAGTGAGATAGGATTAGTAGCTTTAACCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATT-GTAGCTTCAATCTACTCCAC
** * * *
11267206 TATAACTTCAGGGAGATAAGGTTAGATATCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATT-G-TAGCTTCAATCTACTCCAC
* * *
11267251 TGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACCCCAT
1 TGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCTACTCCAC
* * * * *
11267295 TGCAAATTTAGGGGGATAAGATTTGTATCTTCAGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCTACTCCAC
* *
11267339 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCTACTCCAC
* * * *
11267383 TGTAACTTCAGGGAGATAATG-TT-T-G-AT-ATATCTGCTCTAC
1 TGCAACTTCAGGGAGATAA-GATTGTAGCTTCA-ATCTACTCCAC
** ** * **
11267423 TAAAACTTCAATGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TG-------TAGCTTCAATCTACTCCAC
* * * * *
11267474 TGCAACTTCAGGGACATACGCTTTGCTATCTTCAGTCTACTCCAC
1 TGCAACTTCAGGGAGATAAG-ATTG-TAGCTTCAATCTACTCCAC
* *
11267519 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC-CCTAC
1 TGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCTACTCC-AC
* * * *
11267563 TGAAACTTCAGGG-GATTAAGATTGGT-GACTTTAACCTGCTCCAC
1 TGCAACTTCAGGGAGA-TAAGATT-GTAG-CTTCAATCTACTCCAC
* * **
11267607 TACAACTTCAGGGAGATAAGGTCTATAATTTAGCCTT-AATCTGTTCCAC
1 TGCAACTTCAGGGAGATAA-G---AT--TGTAG-CTTCAATCTACTCCAC
* * * * * *
11267656 TACAACTTTAGGGAAATGAGACTTGCTATCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTG-TAGCTTCAATCTACTCCAC
* * * * *
11267701 TGCATCTTTAGGGAGATCAA-AGTTGTAACTGCAATCTACCCCAC
1 TGCAACTTCAGGGAGAT-AAGA-TTGTAGCTTCAATCTACTCCAC
** * * * * *
11267745 TATAACTTCAGGG-GGTAAGATTAGT-GACTTTAATCTGCTTCGC
1 TGCAACTTCAGGGAGATAAGATT-GTAG-CTTCAATCTACTCCAC
* *
11267788 TGTAACTTTAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
11267811 TGCCATAATG
Statistics
Matches: 460, Mismatches: 105, Indels: 80
0.71 0.16 0.12
Matches are distributed among these distances:
39 2 0.00
40 24 0.05
41 1 0.00
42 5 0.01
43 34 0.07
44 216 0.47
45 109 0.24
46 4 0.01
48 3 0.01
49 28 0.06
50 6 0.01
51 26 0.06
52 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTGTAGCTTCAATCTACTCCAC
Found at i:11267401 original size:88 final size:88
Alignment explanation
Indices: 11267162--11267808 Score: 402
Period size: 88 Copynumber: 7.2 Consensus size: 88
11267152 TCCGCTCTGG
* * * * * * **
11267162 TGCAATTTCAGTGAGATAGGA-TTAGTAGCTTTAACCTGCTCCACTATAACTTCAGGGAGATAAG
1 TGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
11267226 GTTAGATATCTTCAATCTGCTCCAC
65 ATTTG-TATCTTCAATCTGCTCCAC
* * * * * * * *
11267251 TGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACCCCATTGCAAATTTAGGGGGATAAGA
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
11267316 TTTGTATCTTCAGTCTACTCCAC
66 TTTGTATCTTCAATCTGCTCCAC
* * *
11267339 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGTAACTTCAGGGAGATAATG
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-G
* *
11267404 -TTTG-AT-AT--ATCTGCTCTAC
65 ATTTGTATCTTCAATCTGCTCCAC
** ** * * *
11267423 TAAAACTTCAATGATATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
1 TGCAACTTCAGGGAGATAAGA-C--T--TGTA-A-CTTCAATCTGCTCCACTGCAACTTCAGGGA
* * * * *
11267488 CATACGCTTTGCTATCTTCAGTCTACTCCAC
59 GATAAGATTTG-TATCTTCAATCTGCTCCAC
*
11267519 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC-CCTACTGAAACTTCAGGG-GATTAA
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC-ACTGCAACTTCAGGGAGA-TAA
* * *
11267582 GATTGGTGA-CTTTAACCTGCTCCAC
64 GATTTGT-ATCTTCAATCTGCTCCAC
* * * * * * * *
11267607 TACAACTTCAGGGAGATAAG-GTCTATAATTTAGCCTTAATCTGTTCCACTACAACTTTAGGGAA
1 TGCAACTTCAGGGAGATAAGACT-TGTAACTT---C--AATCTGCTCCACTGCAACTTCAGGGAG
* *
11267671 ATGAGACTTGCTATCTTCAATCTGCTCCAC
60 ATAAGATTTG-TATCTTCAATCTGCTCCAC
* * * * * * ** *
11267701 TGCATCTTTAGGGAGATCAA-AGTTGTAACTGCAATCTACCCCACTATAACTTCAGGG-GGTAAG
1 TGCAACTTCAGGGAGAT-AAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
11267764 ATTAGTGA-CTTTAATCTGCTTCGC
65 ATTTGT-ATCTTCAATCTGCTCCAC
* *
11267788 TGTAACTTTAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGA
11267809 TTTGCCATAA
Statistics
Matches: 430, Mismatches: 96, Indels: 66
0.73 0.16 0.11
Matches are distributed among these distances:
84 24 0.06
85 1 0.00
86 3 0.01
87 34 0.08
88 123 0.29
89 107 0.25
90 5 0.01
91 38 0.09
93 28 0.07
94 38 0.09
95 5 0.01
96 24 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (88 bp):
TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTTGTATCTTCAATCTGCTCCAC
Found at i:11267523 original size:180 final size:181
Alignment explanation
Indices: 11267316--11267783 Score: 519
Period size: 182 Copynumber: 2.6 Consensus size: 181
11267306 GGGGATAAGA
*
11267316 TTTG-TATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTC
1 TTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTAC-C
* * * *
11267380 CACTGTAACTTCAGGGAGA-TAATG-TT-TGA-TAT-ATCTGCTCTACTAAAACTTCAATGATAT
65 CACTGTAACTTCAGGG-GATTAA-GATTGTGACTATAACCTGCTCCACTAAAACTTCAAGGAGAT
* * *
11267440 AAGATCTGTAATTTATAG-CTTCAATCTGTTCCACTGCAACTTCAGGGACAT-ACG-C
128 AAGATCTATAA-TT-TAGCCTT-AATCTGTTCCACTACAACTTCAGGGAAATGA-GAC
*
11267495 TTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCC
1 TTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACCC
* * * *
11267560 TACTGAAACTTCAGGGGATTAAGATTGGTGACTTTAACCTGCTCCACTACAACTTCAGGGAGATA
66 -ACTGTAACTTCAGGGGATTAAGATT-GTGACTATAACCTGCTCCACTAAAACTTCAAGGAGATA
* *
11267625 AGGTCTATAATTTAGCCTTAATCTGTTCCACTACAACTTTAGGGAAATGAGAC
129 AGATCTATAATTTAGCCTTAATCTGTTCCACTACAACTTCAGGGAAATGAGAC
* * * * * *
11267678 -TTGCTATCTTCAATCTGCTCCACTGCATCTTTAGGGAGATCAA-AGTTGTAACTGCAATCTACC
1 TTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGAT-AAGACTTGTAACTTCAATCTA-C
* * * *
11267741 CCACTATAACTTCAGGGG-GTAAGATTAGTGACTTTAATCTGCT
64 CCACTGTAACTTCAGGGGATTAAGATT-GTGACTATAACCTGCT
11267784 TCGCTGTAAC
Statistics
Matches: 249, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
179 9 0.04
180 75 0.30
181 22 0.09
182 98 0.39
183 14 0.06
184 31 0.12
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
TTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACCC
ACTGTAACTTCAGGGGATTAAGATTGTGACTATAACCTGCTCCACTAAAACTTCAAGGAGATAAG
ATCTATAATTTAGCCTTAATCTGTTCCACTACAACTTCAGGGAAATGAGAC
Found at i:11276692 original size:14 final size:14
Alignment explanation
Indices: 11276673--11276712 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 14
11276663 AATCGGTAAA
11276673 ATTTTCCTATCGAT
1 ATTTTCCTATCGAT
11276687 ATTTTCCTA-CG--
1 ATTTTCCTATCGAT
11276698 ATTTTCCTATC-AT
1 ATTTTCCTATCGAT
11276711 AT
1 AT
11276713 CAATATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (14 bp):
ATTTTCCTATCGAT
Found at i:11278223 original size:18 final size:19
Alignment explanation
Indices: 11278172--11278223 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
11278162 CAATTATTGA
11278172 ATTTTATTTTAATAAGGAT
1 ATTTTATTTTAATAAGGAT
* * *
11278191 ATTAATATTAATAATAA-TAT
1 ATT-TTATT-TTAATAAGGAT
11278211 ATTTTATTTTAAT
1 ATTTTATTTTAAT
11278224 TAAAACAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 4 0.15
19 7 0.27
20 9 0.35
21 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTTTATTTTAATAAGGAT
Found at i:11283467 original size:17 final size:18
Alignment explanation
Indices: 11283424--11283467 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11283414 AGAGGTTACA
*
11283424 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11283442 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11283459 ATAAATATT
1 ATAAATATT
11283468 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11286975 original size:44 final size:43
Alignment explanation
Indices: 11286930--11287591 Score: 270
Period size: 44 Copynumber: 14.8 Consensus size: 43
11286920 TCATCGTTTT
* * * *
11286930 AATCTGCTCCAGTGCAACTTCAGGGAGATAGGATTAGGAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * * * ** *
11286974 AACCTGCTCCACTGTAACTTCAGAGAGATAAGGTTAGATATTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAGCTTC
*
11287019 AATCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * * *
11287063 AATCTGC-CCTATTGCAAATTTAGGGGGATAAGATTTGTATCTTC
1 AATCTGCTCC-ACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * * *
11287107 AGTTTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * *
11287151 AACCTGCTCCACTACAACTTCAGGGAGATAATG-TT-T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTAGCT-TC
* * * ** ** *
11287192 GATAC-GCTCTAATAAAACTTCAAAGATATAAGATCTGTAATTTATAGCTTC
1 AAT-CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-------TAGCTTC
* * * *
11287243 AATTTGTTCCACTGCAACTTCAGGGACATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* * * *
11287288 AGTCTACTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * *
11287332 AATCTAC-CCTAGTGAAACTTCAGGG-GAATAAGATTGGT-GACTTT
1 AATCTGCTCC-ACTGCAACTTCAGGGAG-ATAAGATT-GTAG-CTTC
* * * * *
11287376 AACCTGCTCCACTACAAATTTAGGGAGATAAGGTCTGTAATTTAGCCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-----TAG-CTTC
* * * *
11287425 AATCTGTTCCACTGCAACTTCAGGGAAATGAGACTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* * * * *
11287470 AGTCTGCTCCACTTCATCTTCAGGGAGATCAA-ACTTGTAACTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-AAGA-TTGTAGCTTC
* * ** * *
11287514 AATCTACCCCACTATAACTTCAGGG-GGTAAGATTAGT-GACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG-CTTC
* * * *
11287557 AATCTGCTTCGCTGTAACTTTAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
11287592 TGCCATAATG
Statistics
Matches: 460, Mismatches: 117, Indels: 82
0.70 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 23 0.05
42 8 0.02
43 35 0.08
44 221 0.48
45 107 0.23
46 3 0.01
49 28 0.06
50 7 0.02
51 26 0.06
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
Found at i:11287314 original size:181 final size:179
Alignment explanation
Indices: 11287090--11287564 Score: 495
Period size: 182 Copynumber: 2.6 Consensus size: 179
11287080 ATTTAGGGGG
* *
11287090 ATAAGATTTG-TATCTTCAGTTTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* *
11287154 CTGCTCCACTACAACTTCA-GGGAGATAATG-TT-TGA-TATGATA-C-GCTCTAATA-AAACTT
66 CTAC-CCACTA-AACTTCAGGGGA-ATAA-GATTGTGACT-TGA-ACCTGCTCCAATACAAA-TT
* * *
11287212 CAAAGATATAAGATCTGTAATTTATAG-CTTCAATTTGTTCCACTGCAACTTCAGGGAC
124 CAAAGAGATAAGATCTGTAA-TT-TAGCCTT-AATCTGTTCCACTGCAACTTCAGGGAA
* *
11287270 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTCAAT
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* * * * **
11287335 CTACCCTAGTGAAACTTCAGGGGAATAAGATTGGTGACTTTAACCTGCTCCACTACAAATTTAGG
66 CTACCC-ACT-AAACTTCAGGGGAATAAGATT-GTGACTTGAACCTGCTCCAATACAAATTCAAA
*
11287400 GAGATAAGGTCTGTAATTTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAA
128 GAGATAAGATCTGTAATTTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAA
* * * * * *
11287452 ATGAGACTTGCTATCTTCAGTCTGCTCCACTTCATCTTCAGGGAGATCAA-ACTTGTAACTGCAA
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGAT-AAGACTTGTAACTTCAA
* * *
11287516 TCTACCCCACTATAACTTCAGGGG-GTAAGATTAGTGACTTTAATCTGCT
65 TCTA-CCCACTA-AACTTCAGGGGAATAAGATT-GTGACTTGAACCTGCT
11287565 TCGCTGTAAC
Statistics
Matches: 253, Mismatches: 27, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
180 13 0.05
181 91 0.36
182 105 0.42
183 16 0.06
184 25 0.10
185 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (179 bp):
ATAAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCAAT
CTACCCACTAAACTTCAGGGGAATAAGATTGTGACTTGAACCTGCTCCAATACAAATTCAAAGAG
ATAAGATCTGTAATTTAGCCTTAATCTGTTCCACTGCAACTTCAGGGAA
Found at i:11295809 original size:14 final size:14
Alignment explanation
Indices: 11295790--11295829 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 14
11295780 AATTGGTAAA
11295790 ATTTTCCTATCGAT
1 ATTTTCCTATCGAT
11295804 ATTTTCCTA-CG--
1 ATTTTCCTATCGAT
11295815 ATTTTCCTATC-AT
1 ATTTTCCTATCGAT
11295828 AT
1 AT
11295830 CAATATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (14 bp):
ATTTTCCTATCGAT
Found at i:11298396 original size:17 final size:18
Alignment explanation
Indices: 11298353--11298396 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11298343 AGAGGTTACA
*
11298353 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11298371 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11298388 ATAAATATT
1 ATAAATATT
11298397 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11298488 original size:171 final size:171
Alignment explanation
Indices: 11298198--11299941 Score: 3461
Period size: 171 Copynumber: 10.2 Consensus size: 171
11298188 ACCCATTCAT
* *
11298198 TTATCGTTATTGGAACACTATAAATATTTGAAAACGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11298263 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
*
11298328 GAAAATAATATTACAAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11298369 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11298434 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11298499 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11298540 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11298605 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11298670 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11298711 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11298776 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11298841 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11298882 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11298947 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299012 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299053 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11299118 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299183 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299224 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11299289 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299354 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299395 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11299460 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299525 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299566 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11299631 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299696 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299737 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
11299802 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
66 AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
11299867 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
131 GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
11299908 TTATAGTTATTGGAACACTATAAATATTTGAAAA
1 TTATAGTTATTGGAACACTATAAATATTTGAAAA
11299942 GGGTTTAGAA
Statistics
Matches: 1570, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 1570 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (171 bp):
TTATAGTTATTGGAACACTATAAATATTTGAAAATGTTGCAGTGATTCATTCATTTCCCTAAACA
AAGGTCTGAAATCTAAACTTAGAACTAAAAATAAATTGTAATTGCAAGACTCCATATCGTATGAT
GAAAATAATATTACGAGAGGTTACAATAAGTATTGGAACAC
Found at i:11298567 original size:17 final size:18
Alignment explanation
Indices: 11298524--11298567 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11298514 AGAGGTTACA
*
11298524 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11298542 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11298559 ATAAATATT
1 ATAAATATT
11298568 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11298738 original size:17 final size:18
Alignment explanation
Indices: 11298695--11298738 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11298685 AGAGGTTACA
*
11298695 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11298713 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11298730 ATAAATATT
1 ATAAATATT
11298739 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11298909 original size:17 final size:18
Alignment explanation
Indices: 11298866--11298909 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11298856 AGAGGTTACA
*
11298866 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11298884 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11298901 ATAAATATT
1 ATAAATATT
11298910 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299080 original size:17 final size:18
Alignment explanation
Indices: 11299037--11299080 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299027 AGAGGTTACA
*
11299037 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299055 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299072 ATAAATATT
1 ATAAATATT
11299081 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299251 original size:17 final size:18
Alignment explanation
Indices: 11299208--11299251 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299198 AGAGGTTACA
*
11299208 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299226 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299243 ATAAATATT
1 ATAAATATT
11299252 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299422 original size:17 final size:18
Alignment explanation
Indices: 11299379--11299422 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299369 AGAGGTTACA
*
11299379 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299397 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299414 ATAAATATT
1 ATAAATATT
11299423 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299593 original size:17 final size:18
Alignment explanation
Indices: 11299550--11299593 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299540 AGAGGTTACA
*
11299550 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299568 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299585 ATAAATATT
1 ATAAATATT
11299594 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299764 original size:17 final size:18
Alignment explanation
Indices: 11299721--11299764 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299711 AGAGGTTACA
*
11299721 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299739 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299756 ATAAATATT
1 ATAAATATT
11299765 TGAAAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11299935 original size:17 final size:18
Alignment explanation
Indices: 11299892--11299935 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11299882 AGAGGTTACA
*
11299892 ATAAGTATTGGAACACTT
1 ATAAATATTGGAACACTT
**
11299910 ATAGTTATTGGAACAC-T
1 ATAAATATTGGAACACTT
11299927 ATAAATATT
1 ATAAATATT
11299936 TGAAAAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (18 bp):
ATAAATATTGGAACACTT
Found at i:11303240 original size:20 final size:21
Alignment explanation
Indices: 11303202--11303240 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11303192 GTTTCAAAGC
*
11303202 AAATAAATTATTGAAAAATAA
1 AAATAAATTATTAAAAAATAA
11303223 AAATAAATTA-TAAAAAAT
1 AAATAAATTATTAAAAAAT
11303241 GATTTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATAAATTATTAAAAAATAA
Found at i:11310604 original size:20 final size:20
Alignment explanation
Indices: 11310581--11310620 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11310571 TTAAAGAAAG
11310581 CTCTTTTATCATCATTAATT
1 CTCTTTTATCATCATTAATT
11310601 CTCTTTTATCATCATTAATT
1 CTCTTTTATCATCATTAATT
11310621 TTAAACCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCTTTTATCATCATTAATT
Found at i:11310692 original size:15 final size:15
Alignment explanation
Indices: 11310672--11310704 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11310662 ATATATCATT
11310672 TATTGTAAACTATTA
1 TATTGTAAACTATTA
11310687 TATTGTAAACTATTA
1 TATTGTAAACTATTA
11310702 TAT
1 TAT
11310705 ATATATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTGTAAACTATTA
Found at i:11310742 original size:23 final size:22
Alignment explanation
Indices: 11310692--11310753 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
11310682 TATTATATTG
*
11310692 TAAACTATTATATATATATCTT
1 TAAACTTTTATATATATATCTT
*
11310714 TCAACTTTTCATATATAT-TCTT
1 TAAACTTTT-ATATATATATCTT
11310736 TAAAACTGTTTGATATAT
1 T-AAACT-TTT-ATATAT
11310754 TTTATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 12 0.36
23 12 0.36
24 9 0.27
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.50
Consensus pattern (22 bp):
TAAACTTTTATATATATATCTT
Found at i:11310866 original size:47 final size:43
Alignment explanation
Indices: 11310785--11310888 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 43
11310775 TTGTTTTATC
* **
11310785 ATTATTTATTTTAAGTTTTCCTATATATTGTTTATTTGAAACTTTT
1 ATTATTTATTTTAAGTTTTCCTATAAATCATTTATTTGAAA---TT
* *
11310831 ATTATTTATTTTGAGTTGTTCCTATAAATCATTTATTTTAAATT
1 ATTATTTATTTTAAGTT-TTCCTATAAATCATTTATTTGAAATT
11310875 ATTATTTATTTTAA
1 ATTATTTATTTTAA
11310889 ATTGTTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
44 15 0.29
46 16 0.31
47 20 0.39
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (43 bp):
ATTATTTATTTTAAGTTTTCCTATAAATCATTTATTTGAAATT
Found at i:11318502 original size:18 final size:18
Alignment explanation
Indices: 11318481--11318519 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11318471 TGTATCTGTG
*
11318481 TCTGAATCCGTATCTGCA
1 TCTGAATCCGTATCTGAA
* *
11318499 TCTGCATCTGTATCTGAA
1 TCTGAATCCGTATCTGAA
11318517 TCT
1 TCT
11318520 ATATCAGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (18 bp):
TCTGAATCCGTATCTGAA
Found at i:11323907 original size:15 final size:14
Alignment explanation
Indices: 11323866--11323919 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
11323856 CCTTTCACCC
*
11323866 TTTTCTTTATTGTAAT
1 TTTTATTTATT-T-AT
11323882 TTATTATTTATTTAT
1 TT-TTATTTATTTAT
11323897 TTTTATATTATTTAT
1 TTTTAT-TTATTTAT
11323912 TTTTATTT
1 TTTTATTT
11323920 TACTGATCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 6 0.17
15 18 0.51
16 3 0.09
17 8 0.23
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:11324071 original size:3 final size:3
Alignment explanation
Indices: 11324063--11324135 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
11324053 GTTTTCATGT
* * * *
11324063 TTA TTA TTA TT- TTCA TTA CTA TTA TTA TT- TGTT TTA CTG TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
11324108 TTA TGA TTA TGA TTA TGA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11324136 AGATTTTTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11324089 original size:21 final size:19
Alignment explanation
Indices: 11324063--11324112 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
11324053 GTTTTCATGT
*
11324063 TTATTATTATTTTCATTACTA
1 TTATTATTATGTT--TTACTA
*
11324084 TTATTATT-TGTTTTACTG
1 TTATTATTATGTTTTACTA
11324102 TTATTATTATG
1 TTATTATTATG
11324113 ATTATGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 13 0.50
19 2 0.08
20 3 0.12
21 8 0.31
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (19 bp):
TTATTATTATGTTTTACTA
Found at i:11324122 original size:12 final size:12
Alignment explanation
Indices: 11324102--11324140 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
11324092 TGTTTTACTG
11324102 TTATTATTATGA
1 TTATTATTATGA
*
11324114 TTATGATTATGA
1 TTATTATTATGA
11324126 TTATTATTATAGA
1 TTATTATTAT-GA
11324139 TT
1 TT
11324141 TTTTTGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (12 bp):
TTATTATTATGA
Found at i:11324179 original size:15 final size:14
Alignment explanation
Indices: 11324160--11324221 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 14
11324150 TCTTTTTTCT
11324160 TTTTTTTCTTTTTA
1 TTTTTTTCTTTTTA
* *
11324174 -TGTTTTGTTTTTA
1 TTTTTTTCTTTTTA
* *
11324187 GTTGTTTTATTTTTA
1 -TTTTTTTCTTTTTA
*
11324202 TTTTTTGTTTTTTTA
1 TTTTTT-TCTTTTTA
11324217 TTTTT
1 TTTTT
11324222 ATTTTCTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 11 0.28
14 5 0.12
15 24 0.60
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.82
Consensus pattern (14 bp):
TTTTTTTCTTTTTA
Found at i:11324200 original size:21 final size:21
Alignment explanation
Indices: 11324169--11324226 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
11324159 TTTTTTTTCT
*
11324169 TTTTATGTTTTGTTTTTAGTTG
1 TTTTAT-TTTTATTTTTAGTTG
* *
11324191 TTTTATTTTTATTTTTTGTTT
1 TTTTATTTTTATTTTTAGTTG
11324212 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
11324227 CTTAGACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.10, C:0.00, G:0.09, T:0.81
Consensus pattern (21 bp):
TTTTATTTTTATTTTTAGTTG
Found at i:11334426 original size:286 final size:286
Alignment explanation
Indices: 11333908--11334480 Score: 995
Period size: 286 Copynumber: 2.0 Consensus size: 286
11333898 CAAGCTGCGA
*
11333908 AGCATCTTCCTTACCACTTTTTCATTTGGATATGTCTTCCTATAAGACTTTAATCCATTGATGAT
1 AGCATCTTCCTTACCACCTTTTCATTTGGATATGTCTTCCTATAAGACTTTAATCCATTGATGAT
* *
11333973 GATAGTAAACTGATCGAACATCGTCTTGATATCTCCCTCGAGCTTCATTTTGAAGGTTTCATAAT
66 GATAGTAAACCGATCGAACATCGTCTTGATATCTCCCTCGAGCTTCATCTTGAAGGTTTCATAAT
* * *
11334038 TTAGAGTAAGAATTCCAACTTTAGACTTTTTTAATTGGCTGATATGTTCATGTGTGACTTCAAGC
131 TTAGAGTAAGAATTCCAACTTTAGACTTCTTTAATTGGCTAATACGTTCATGTGTGACTTCAAGC
* * * *
11334103 TTATCACATATCTCATTGGCATTGGAACAAGATGATACTCTAATATATTCTTTCAAGCCAAGTGC
196 TAATCACATATCTCATTGGCATTGGAACAAAATGATACTCTAATATATCCTTCCAAGCCAAGTGC
11334168 ACAAAATAAGGTGTGCATAGCCTTGG
261 ACAAAATAAGGTGTGCATAGCCTTGG
11334194 AGCATCTTCCTTACCACCTTTTCATTTGGATATGTCTT-CTCATAAGACTTTAATCCATTGATGA
1 AGCATCTTCCTTACCACCTTTTCATTTGGATATGTCTTCCT-ATAAGACTTTAATCCATTGATGA
* *
11334258 TGATAGTAAACCGATCGAACATCGTCTTGATATCTTCTTCGAGCTTCATCTTGAAGGTTTCATAA
65 TGATAGTAAACCGATCGAACATCGTCTTGATATCTCCCTCGAGCTTCATCTTGAAGGTTTCATAA
11334323 TTTAGAGTAAGAATTCCAACTTTAGACTTCTTTAATTGGCTAATACGTTCATGTGTGACTTCAAG
130 TTTAGAGTAAGAATTCCAACTTTAGACTTCTTTAATTGGCTAATACGTTCATGTGTGACTTCAAG
* *
11334388 CTAATCCCATATCTCATTGGCATTGGAACAAAATGATACTTTAATATATCCTTCCAAGCCAAGTG
195 CTAATCACATATCTCATTGGCATTGGAACAAAATGATACTCTAATATATCCTTCCAAGCCAAGTG
*
11334453 CACAAAATAAGGTGTGCATAGCTTTGG
260 CACAAAATAAGGTGTGCATAGCCTTGG
11334480 A
1 A
11334481 ATTCAACTAA
Statistics
Matches: 271, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
285 2 0.01
286 269 0.99
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (286 bp):
AGCATCTTCCTTACCACCTTTTCATTTGGATATGTCTTCCTATAAGACTTTAATCCATTGATGAT
GATAGTAAACCGATCGAACATCGTCTTGATATCTCCCTCGAGCTTCATCTTGAAGGTTTCATAAT
TTAGAGTAAGAATTCCAACTTTAGACTTCTTTAATTGGCTAATACGTTCATGTGTGACTTCAAGC
TAATCACATATCTCATTGGCATTGGAACAAAATGATACTCTAATATATCCTTCCAAGCCAAGTGC
ACAAAATAAGGTGTGCATAGCCTTGG
Found at i:11340264 original size:32 final size:32
Alignment explanation
Indices: 11340219--11340280 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
11340209 TGAAAAATAG
* *
11340219 GAGGGACTGCGCGCGTAAATACCCCCTTTTAA
1 GAGGGACTACGCGCGTAAATACCCACTTTTAA
11340251 GAGGGACTACGCGCGTAAATACCCACTTTT
1 GAGGGACTACGCGCGTAAATACCCACTTTT
11340281 CTGAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (32 bp):
GAGGGACTACGCGCGTAAATACCCACTTTTAA
Found at i:11340303 original size:21 final size:21
Alignment explanation
Indices: 11340279--11340320 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11340269 ATACCCACTT
11340279 TTCTGAAAAAATTCATTTTAA
1 TTCTGAAAAAATTCATTTTAA
11340300 TTCTGAAAAAATTCATTTTAA
1 TTCTGAAAAAATTCATTTTAA
11340321 CAGACCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (21 bp):
TTCTGAAAAAATTCATTTTAA
Found at i:11342962 original size:129 final size:129
Alignment explanation
Indices: 11342723--11343043 Score: 464
Period size: 129 Copynumber: 2.5 Consensus size: 129
11342713 CTCCGCAACG
* * * * * * * * * *
11342723 TCAGGGAGATAGAATTACTGGCTTAAATGTACTCCACTGTAACCAT-AGGGAGGTAAAACCTGAT
1 TCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTGAC
* * * * *
11342787 GCGATCTACTCTACTGTAACTTCAGTGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
65 ACGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATC
*
11342852 TCAGGGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
1 TCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
*
11342917 CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATT
66 CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATC
*
11342981 TCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
11343044 AATTCTTCGG
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
128 1 0.01
129 172 0.99
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
TCAGGGAGATAGGATTACTAGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATC
Found at i:11343113 original size:175 final size:175
Alignment explanation
Indices: 11342891--11343214 Score: 540
Period size: 175 Copynumber: 1.9 Consensus size: 175
11342881 TGCTCCGCTG
* * *
11342891 TAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATT
1 TAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATT
* * *
11342956 TATTTTAATCCGCTCCACTGTAATTTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGT
66 TATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGT
*
11343021 AATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTA
131 AATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTA
* * * * *
11343066 TAATCTCAGGGAAATAAGACCTAACGCGATCTACTCTGCTGTAACTTCAGGGAGATAAGATCCTT
1 TAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATT
11343131 TATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGT
66 TATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGT
11343196 AATCTCAAGGAGATAAGAT
131 AATCTCAAGGAGATAAGAT
11343215 TTGACACGAT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 137 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (175 bp):
TAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATT
TATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGT
AATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTA
Found at i:11343240 original size:129 final size:129
Alignment explanation
Indices: 11343054--11343343 Score: 445
Period size: 129 Copynumber: 2.2 Consensus size: 129
11343044 AATTCTTCGG
* * * * ** * * * *
11343054 TCTGTTCCACTATAATCTCAGGGAAATAAGACCTAACGCGATCTACTCTGCTGTAACTTCAGGGA
1 TCTGCTCCACTGTAATCTCAAGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
11343119 GATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
66 GATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
*
11343183 TCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAAGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
* * *
11343248 GATAGGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
66 GATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
*
11343312 TCTGCTCCACTGTAATCTCAGGGAGATAAGAT
1 TCTGCTCCACTGTAATCTCAAGGAGATAAGAT
11343344 CTGAAATTCT
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 145 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
TCTGCTCCACTGTAATCTCAAGGAGATAAGATTTGACACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
Found at i:11343336 original size:304 final size:304
Alignment explanation
Indices: 11342787--11343522 Score: 1238
Period size: 304 Copynumber: 2.4 Consensus size: 304
11342777 AAAACCTGAT
*
11342787 GCGATCTACTCTACTGTAACTTCAGTGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
1 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
* *
11342852 TCAGGGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
66 TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
*
11342917 CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATTT
131 CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCT
*
11342982 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
196 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
11343047 TCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTAAC
261 TCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTAAC
* * * *
11343091 GCGATCTACTCTGCTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC
1 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
* *
11343156 TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTTGACA
66 TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
* * *
11343221 CGATCTACTCTACTGTAACTTCAGAGAGATAGGATCCTTTATTTTAATCCGCTCCACTGTAATCT
131 CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCT
*
11343286 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
196 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
* ***
11343351 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGT
261 TCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTAAC
* * * * *
11343395 GCGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATC
1 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
* *
11343460 TCAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
66 TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
11343523 AATTCTTCGA
Statistics
Matches: 401, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
304 401 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (304 bp):
GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
CGATCTACTCTACTCTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTAAC
Found at i:11343373 original size:175 final size:175
Alignment explanation
Indices: 11343221--11344328 Score: 2072
Period size: 175 Copynumber: 6.3 Consensus size: 175
11343211 AGATTTGACA
* * * * * **
11343221 CGATCTACTCTACTGTAACTTCAGAGAGATAGGATCCTTTATTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
* *
11343286 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
* *
11343351 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
11343396 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
11343461 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
11343526 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
11343571 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
11343636 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
11343701 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
11343746 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
11343811 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
11343876 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
11343921 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
11343986 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
11344051 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
11344096 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
11344161 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
11344226 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
* ** * *
11344271 CGATCTACTCTACTATAACTTTAGAGAGATAAGATCATTTATTTTAATCAGCTTCACT
1 CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACT
11344329 ACAACTGATG
Statistics
Matches: 917, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 917 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
CGATCTAGTCTACTATAACTTTAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
CAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
TCTTCGATTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
Found at i:11344490 original size:88 final size:88
Alignment explanation
Indices: 11344361--11344921 Score: 942
Period size: 88 Copynumber: 6.4 Consensus size: 88
11344351 TGTTTTCAAT
* * * * ** * * * * *
11344361 CTGCTTCGTTGTTAACGCAGGAAGGCAAGGTCTGCTATCTTCAATCAGCTCCACCATAACTGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
11344426 GAGGCAAGGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTTGAC
11344449 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
11344514 GAGGCAAGGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTTGAC
11344537 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
11344602 GAGGCAAGGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTTGAC
11344625 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
11344690 GAGGCAAGGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTTGAC
11344713 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
11344778 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTTGAC
* * * * *
11344801 CTGCTTCGCTATCAACGCCGGAAGGCAAGATCTTTTATCTTCAACCAACTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* * *
11344866 GAGGCACGGTTTGTGTCTTCGAA
66 GAGGCAAGGTTTGTGTCTTTGAC
11344889 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
11344922 ATAACTTCGT
Statistics
Matches: 451, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 451 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
GAGGCAAGGTTTGTGTCTTTGAC
Found at i:11346028 original size:21 final size:21
Alignment explanation
Indices: 11346002--11346048 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11345992 GGTATAGCAG
11346002 GATCACTACATGCCCCAATCT
1 GATCACTACATGCCCCAATCT
* *
11346023 GATCACTTCATGCCCCATTCT
1 GATCACTACATGCCCCAATCT
11346044 GATCA
1 GATCA
11346049 ATATTTGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACTACATGCCCCAATCT
Found at i:11347054 original size:9 final size:9
Alignment explanation
Indices: 11347042--11347096 Score: 78
Period size: 9 Copynumber: 6.3 Consensus size: 9
11347032 CTATTTTGAC
11347042 TTTGATTTT
1 TTTGATTTT
11347051 TTTGA-TTT
1 TTTGATTTT
*
11347059 TTTGATTAT
1 TTTGATTTT
*
11347068 TTTGATTAT
1 TTTGATTTT
11347077 TTTGA-TTT
1 TTTGATTTT
11347085 TTTGATTTT
1 TTTGATTTT
11347094 TTT
1 TTT
11347097 TTGAATTCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 15 0.36
9 27 0.64
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.75
Consensus pattern (9 bp):
TTTGATTTT
Found at i:11347071 original size:26 final size:26
Alignment explanation
Indices: 11347042--11347096 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
11347032 CTATTTTGAC
*
11347042 TTTGATTTTTTTGATTTTTTGATTAT
1 TTTGATTATTTTGATTTTTTGATTAT
*
11347068 TTTGATTATTTTGATTTTTTGATTTT
1 TTTGATTATTTTGATTTTTTGATTAT
11347094 TTT
1 TTT
11347097 TTGAATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.75
Consensus pattern (26 bp):
TTTGATTATTTTGATTTTTTGATTAT
Found at i:11347096 original size:17 final size:17
Alignment explanation
Indices: 11347042--11347095 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
11347032 CTATTTTGAC
11347042 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
*
11347059 TTTGATTATTTTGATTAT
1 TTTGATTTTTTTGATT-T
11347077 TTTGA-TTTTTTGATTT
1 TTTGATTTTTTTGATTT
11347093 TTT
1 TTT
11347096 TTTGAATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 4 0.12
17 24 0.71
18 6 0.18
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (17 bp):
TTTGATTTTTTTGATTT
Found at i:11348390 original size:27 final size:27
Alignment explanation
Indices: 11348360--11348414 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11348350 TGCAAGATTG
*
11348360 ATTTGGAAGAAAATCTAAAAGAATAAA
1 ATTTGGAAGAAAATCGAAAAGAATAAA
11348387 ATTTGGAAGAAAATCGAAAAGAATAAA
1 ATTTGGAAGAAAATCGAAAAGAATAAA
11348414 A
1 A
11348415 GAATCAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.16, T:0.20
Consensus pattern (27 bp):
ATTTGGAAGAAAATCGAAAAGAATAAA
Found at i:11349745 original size:19 final size:20
Alignment explanation
Indices: 11349716--11349764 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
11349706 CAGTTCGTGA
* *
11349716 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
11349735 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
11349755 AAATG-AATGC
1 AAATGTAATGC
11349765 CTAAAGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:11350719 original size:9 final size:8
Alignment explanation
Indices: 11350696--11350720 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11350686 TTCAAATTTC
11350696 GACAAAAA
1 GACAAAAA
11350704 GACAAAAA
1 GACAAAAA
11350712 GACAAAAA
1 GACAAAAA
11350720 G
1 G
11350721 TAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.72, C:0.12, G:0.16, T:0.00
Consensus pattern (8 bp):
GACAAAAA
Found at i:11354455 original size:13 final size:13
Alignment explanation
Indices: 11354437--11354461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11354427 ACTTAAAATG
11354437 ACCCAACTAAAAA
1 ACCCAACTAAAAA
11354450 ACCCAACTAAAA
1 ACCCAACTAAAA
11354462 GAATCTTAAT
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:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCCAACTAAAAA
Found at i:11357910 original size:3 final size:3
Alignment explanation
Indices: 11357897--11357950 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
11357887 TTTGTGAATA
11357897 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11357943 AAT AAT AA
1 AAT AAT AA
11357951 AAGAAGATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11359184 original size:31 final size:32
Alignment explanation
Indices: 11359148--11359212 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
11359138 CTTAGATAAT
*
11359148 TTTAAAGAG-TTTTATTAGTATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11359179 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
11359211 TT
1 TT
11359213 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:11359767 original size:12 final size:14
Alignment explanation
Indices: 11359749--11359782 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
11359739 TTAAAAAAAT
11359749 AGCAAAAAGAAA-A
1 AGCAAAAAGAAAGA
11359762 AG-AAAAAGAAAGA
1 AGCAAAAAGAAAGA
11359775 AGCAAAAA
1 AGCAAAAA
11359783 CCGCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.47
13 5 0.26
14 5 0.26
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (14 bp):
AGCAAAAAGAAAGA
Found at i:11359794 original size:13 final size:13
Alignment explanation
Indices: 11359778--11359820 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
11359768 AGAAAGAAGC
11359778 AAAAACCGC-AAA
1 AAAAACCGCAAAA
11359790 AAAAACCGCAAAA
1 AAAAACCGCAAAA
*
11359803 AAAATCCGCAAAA
1 AAAAACCGCAAAA
11359816 AAAAA
1 AAAAA
11359821 GTTGCCTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.70, C:0.21, G:0.07, T:0.02
Consensus pattern (13 bp):
AAAAACCGCAAAA
Found at i:11359795 original size:12 final size:12
Alignment explanation
Indices: 11359778--11359819 Score: 75
Period size: 12 Copynumber: 3.4 Consensus size: 12
11359768 AGAAAGAAGC
11359778 AAAAACCGCAAA
1 AAAAACCGCAAA
11359790 AAAAACCGCAAA
1 AAAAACCGCAAA
11359802 AAAAATCCGCAAA
1 AAAAA-CCGCAAA
11359815 AAAAA
1 AAAAA
11359820 AGTTGCCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 17 0.59
13 12 0.41
ACGTcount: A:0.69, C:0.21, G:0.07, T:0.02
Consensus pattern (12 bp):
AAAAACCGCAAA
Found at i:11366294 original size:4 final size:4
Alignment explanation
Indices: 11366285--11366310 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11366275 ATTGGTTAGG
11366285 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
11366311 TCTTAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:11366358 original size:31 final size:32
Alignment explanation
Indices: 11366322--11366386 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
11366312 CTTAGATAAT
11366322 TTTAAAGAG-TTTTATTAGGAGTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGAGTCAATTACTC
*
11366353 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGAGTCAATTACTC
11366385 TT
1 TT
11366387 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGAGTCAATTACTC
Found at i:11370646 original size:3 final size:3
Alignment explanation
Indices: 11370622--11370697 Score: 55
Period size: 3 Copynumber: 24.3 Consensus size: 3
11370612 TTTAATAGTG
* * * * * *
11370622 TTA TCA TTA TTT TTA CTA TTA TTA TTA TTT TTA ATA TTA TTA TT- GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11370669 TTTA TTA TTA TTA CTTA CCTTA TTA TTA T
1 -TTA TTA TTA TTA -TTA --TTA TTA TTA T
11370698 AAATATTTAC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
2 1 0.02
3 47 0.82
4 5 0.09
5 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11370648 original size:18 final size:18
Alignment explanation
Indices: 11370622--11370681 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
11370612 TTTAATAGTG
* *
11370622 TTATCATTATTTTTACTA
1 TTATTATTATTTTTAATA
11370640 TTATTATTATTTTTAATA
1 TTATTATTATTTTTAATA
* * *
11370658 TTATTATTGTATTTATTA
1 TTATTATTATTTTTAATA
11370676 TTATTA
1 TTATTA
11370682 CTTACCTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATTATTTTTAATA
Found at i:11370659 original size:15 final size:17
Alignment explanation
Indices: 11370622--11370697 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 17
11370612 TTTAATAGTG
*
11370622 TTATCATTATTTTTACTA
1 TTATTATTATTTTTAC-A
11370640 TTATTATTATTTTTA-A
1 TTATTATTATTTTTACA
* *
11370656 -TATTATTA-TTGTA-T
1 TTATTATTATTTTTACA
* *
11370670 TTATTATTATTACTTACC
1 TTATTATTATT-TTTACA
11370688 TTATTATTAT
1 TTATTATTAT
11370698 AAATATTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.08
15 16 0.33
16 2 0.04
17 2 0.04
18 24 0.50
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (17 bp):
TTATTATTATTTTTACA
Found at i:11372712 original size:19 final size:19
Alignment explanation
Indices: 11372688--11372734 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11372678 TCTCTTTCTT
11372688 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
11372707 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
11372726 TATGCATTA
1 TTTGCATTA
11372735 GATTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:11375764 original size:9 final size:9
Alignment explanation
Indices: 11375733--11375788 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
11375723 ACAGTACAGT
11375733 AAAAAAATAC
1 AAAAAAA-AC
*
11375743 AAAAAACAC
1 AAAAAAAAC
*
11375752 AAAAAAAAG
1 AAAAAAAAC
11375761 AAAATAAAA-
1 AAAA-AAAAC
*
11375770 AACAAAAAAT
1 AA-AAAAAAC
11375780 AAAAAAAAC
1 AAAAAAAAC
11375789 CCTCTACCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 25 0.64
10 14 0.36
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:11375769 original size:23 final size:23
Alignment explanation
Indices: 11375732--11375787 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
11375722 AACAGTACAG
*
11375732 TAAAAAAATACAAAAAACACAAAAA
1 TAAAAAAA-ATAAAAAACA-AAAAA
*
11375757 -AAAGAAAATAAAAAACAAAAAA
1 TAAAAAAAATAAAAAACAAAAAA
11375779 TAAAAAAAA
1 TAAAAAAAA
11375788 CCCTCTACCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 16 0.59
24 6 0.22
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (23 bp):
TAAAAAAAATAAAAAACAAAAAA
Found at i:11375771 original size:14 final size:13
Alignment explanation
Indices: 11375733--11375787 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
11375723 ACAGTACAGT
*
11375733 AAAAAAATACAAA
1 AAAAAAATAAAAA
* *
11375746 AAACACA-AAAAA
1 AAAAAAATAAAAA
*
11375758 AAGAAAATAAAAA
1 AAAAAAATAAAAA
11375771 ACAAAAAATAAAAA
1 A-AAAAAATAAAAA
11375785 AAA
1 AAA
11375788 CCCTCTACCG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
12 8 0.24
13 13 0.39
14 12 0.36
ACGTcount: A:0.85, C:0.07, G:0.02, T:0.05
Consensus pattern (13 bp):
AAAAAAATAAAAA
Found at i:11382185 original size:17 final size:17
Alignment explanation
Indices: 11382129--11382193 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
11382119 GCTCACTAGA
*
11382129 CGAGCTCACCAAGAACTA
1 CGAGCTCACCAAG-ACTG
* *
11382147 TGAGCTCACCAA-ATTGTG
1 CGAGCTCACCAAGA--CTG
11382165 CGAGCTCACCAAGACTG
1 CGAGCTCACCAAGACTG
*
11382182 CGAGCTTACCAA
1 CGAGCTCACCAA
11382194 ACTTGAGAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 23 0.61
19 1 0.03
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (17 bp):
CGAGCTCACCAAGACTG
Found at i:11388316 original size:13 final size:14
Alignment explanation
Indices: 11388298--11388326 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11388288 TTCAATTAGA
11388298 AAATTAATT-AATT
1 AAATTAATTAAATT
11388311 AAATTAATTAAATT
1 AAATTAATTAAATT
11388325 AA
1 AA
11388327 TAATATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTAATTAAATT
Found at i:11388317 original size:9 final size:9
Alignment explanation
Indices: 11388299--11388327 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11388289 TCAATTAGAA
11388299 AATT-AATT
1 AATTAAATT
11388307 AATTAAATT
1 AATTAAATT
11388316 AATTAAATT
1 AATTAAATT
11388325 AAT
1 AAT
11388328 AATATCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTAAATT
Found at i:11397835 original size:39 final size:39
Alignment explanation
Indices: 11397776--11397854 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11397766 ACCACTTGAG
*
11397776 TAGGTTAAAAACACCTTATGACGACACTCTTATAAAGGA
1 TAGGTTAAAAACACCCTATGACGACACTCTTATAAAGGA
11397815 TAGGTTAAAAACACCCTATGACGACACTCTTATAAAGGA
1 TAGGTTAAAAACACCCTATGACGACACTCTTATAAAGGA
11397854 T
1 T
11397855 GAGTTTCCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (39 bp):
TAGGTTAAAAACACCCTATGACGACACTCTTATAAAGGA
Found at i:11400158 original size:43 final size:43
Alignment explanation
Indices: 11400107--11400191 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
11400097 CATATTTCTA
*
11400107 TTCTCATCTCATAATCATTTCTCATATTTTCCGTTTCAATATT
1 TTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATT
* *
11400150 TTCTCATCTCATACTCATTTCTCATCTTTTCCATTTCAATAT
1 TTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
11400192 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.01, T:0.51
Consensus pattern (43 bp):
TTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATT
Found at i:11400671 original size:8 final size:8
Alignment explanation
Indices: 11400658--11400682 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11400648 TAATTCAATC
11400658 CCAAAGTA
1 CCAAAGTA
11400666 CCAAAGTA
1 CCAAAGTA
11400674 CCAAAGTA
1 CCAAAGTA
11400682 C
1 C
11400683 TCACCTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.28, G:0.12, T:0.12
Consensus pattern (8 bp):
CCAAAGTA
Found at i:11401480 original size:80 final size:80
Alignment explanation
Indices: 11401376--11401536 Score: 256
Period size: 80 Copynumber: 2.0 Consensus size: 80
11401366 TTTGTATGTC
*
11401376 TTCTTTCACATTTCTTCACTTTCTATCTAATATAATT-TCATTTATTATATATTATTTATTATAT
1 TTCTTTCACATTTCTCCACTTTCTATCTAATATAATTAT-ATTTATTATATATTA--TATTATAT
11401440 AATACATA-ACATACTTT
63 AATACATATACATACTTT
*
11401457 TTCTTTTACATTTC-CCACTTTCTATCTAATATAATTATATTTATTATATATTATATTATATAAT
1 TTCTTTCACATTTCTCCACTTTCTATCTAATATAATTATATTTATTATATATTATATTATATAAT
11401521 ACATATACATACTTT
66 ACATATACATACTTT
11401536 T
1 T
11401537 AACTTTTAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
78 16 0.21
79 10 0.13
80 36 0.47
81 14 0.18
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (80 bp):
TTCTTTCACATTTCTCCACTTTCTATCTAATATAATTATATTTATTATATATTATATTATATAAT
ACATATACATACTTT
Found at i:11402628 original size:35 final size:35
Alignment explanation
Indices: 11402587--11402655 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
11402577 AACCCAAGTT
*
11402587 TTATTTA-TTTATTTATTTTTATTTTCTTTATTTTA
1 TTATTTATTTTATTTATTTTTACTTT-TTTATTTTA
*
11402622 TTATTTATTTTCTTTATTTTTACTTTTTTATTTT
1 TTATTTATTTTATTTATTTTTACTTTTTTATTTT
11402656 TACTTTCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (35 bp):
TTATTTATTTTATTTATTTTTACTTTTTTATTTTA
Found at i:11402643 original size:27 final size:26
Alignment explanation
Indices: 11402585--11402654 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 26
11402575 GCAACCCAAG
11402585 TTTTA-TTTATTTATTTATTTTTATTT
1 TTTTATTTTA-TTATTTATTTTTATTT
11402611 TCTTTATTTTATTATTTATTTTCT-TTAT
1 T-TTTATTTTATTATTTATTTT-TATT-T
11402639 TTTTACTTTT-TTATTT
1 TTTTA-TTTTATTATTT
11402655 TTACTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
26 1 0.03
27 27 0.69
28 11 0.28
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTATTTTATTATTTATTTTTATTT
Found at i:11402658 original size:14 final size:14
Alignment explanation
Indices: 11402617--11402661 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
11402607 ATTTTCTTTA
*
11402617 TTTTATTATTTATTT
1 TTTTATT-TTTACTT
11402632 TCTTTATTTTTACTT
1 T-TTTATTTTTACTT
11402647 TTTTATTTTTACTT
1 TTTTATTTTTACTT
11402661 T
1 T
11402662 CATGTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 14 0.50
15 8 0.29
16 6 0.21
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTACTT
Found at i:11404623 original size:24 final size:25
Alignment explanation
Indices: 11404577--11404626 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
11404567 TAAATGGGTC
*
11404577 TTTTTTATTTATCAATTATAAAATA
1 TTTTTTATTTATCAATTAAAAAATA
* *
11404602 TTTTTTATTTTTC-CTTAAAAAATA
1 TTTTTTATTTATCAATTAAAAAATA
11404626 T
1 T
11404627 AGTTTAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTTTATTTATCAATTAAAAAATA
Found at i:11415701 original size:11 final size:11
Alignment explanation
Indices: 11415685--11415717 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
11415675 AAGAAAAACA
11415685 ATGACATGTTG
1 ATGACATGTTG
11415696 ATGACATGTTG
1 ATGACATGTTG
11415707 ATGACATGTTG
1 ATGACATGTTG
11415718 TGTATCTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (11 bp):
ATGACATGTTG
Found at i:11425623 original size:34 final size:34
Alignment explanation
Indices: 11425570--11425637 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
11425560 GCACAGTTGA
* *
11425570 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGAGCCTAAGCCCTTCTCAGTA-CAGTG
*
11425605 ACAGT-TTGAGCCTTAGCCCTTCTCAGTACAGTG
1 ACAGTCTTGAGCCTAAGCCCTTCTCAGTACAGTG
11425638 TCAAAAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (34 bp):
ACAGTCTTGAGCCTAAGCCCTTCTCAGTACAGTG
Found at i:11425943 original size:26 final size:26
Alignment explanation
Indices: 11425914--11425965 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11425904 TGCAACATAC
11425914 AATGGATGATATGTGTAACACGTAGG
1 AATGGATGATATGTGTAACACGTAGG
11425940 AATGGATGATATGTGTAACACGTAGG
1 AATGGATGATATGTGTAACACGTAGG
11425966 TTTGTGCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (26 bp):
AATGGATGATATGTGTAACACGTAGG
Found at i:11443387 original size:30 final size:30
Alignment explanation
Indices: 11443332--11443388 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11443322 TTTTAGGAGC
* * *
11443332 CACACGGGCTGGGCACATGCACATGTGATT
1 CACACGGGCTAGACACACGCACATGTGATT
*
11443362 CACACGGGCTAGACACACGCCCATGTG
1 CACACGGGCTAGACACACGCACATGTG
11443389 CCAGTCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGCTAGACACACGCACATGTGATT
Found at i:11444481 original size:18 final size:17
Alignment explanation
Indices: 11444460--11444502 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
11444450 TAATTTATCC
*
11444460 ATTTTTATTTTATTTTA
1 ATTTTTATTTTAGTTTA
*
11444477 TATTTTTGTTTTTAGTTTA
1 -ATTTTT-ATTTTAGTTTA
11444496 ATTTTTA
1 ATTTTTA
11444503 CATTCTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTTTATTTTAGTTTA
Found at i:11460688 original size:23 final size:23
Alignment explanation
Indices: 11460644--11460689 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11460634 ACCACACTAG
* **
11460644 TATAACATGCATAAAGGGTTGAA
1 TATAACACGCATAAAGCATTGAA
11460667 TATAACACGCATAAAGCATTGAA
1 TATAACACGCATAAAGCATTGAA
11460690 ACTCCCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (23 bp):
TATAACACGCATAAAGCATTGAA
Found at i:11465237 original size:16 final size:16
Alignment explanation
Indices: 11465216--11465246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11465206 CATATGTGCA
*
11465216 TTAAAAATTAATAATT
1 TTAAAAATAAATAATT
11465232 TTAAAAATAAATAAT
1 TTAAAAATAAATAAT
11465247 AAAATAGCTT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAAATAAATAATT
Found at i:11466884 original size:48 final size:48
Alignment explanation
Indices: 11466829--11466926 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
11466819 GTGCAAAGAG
11466829 ATAGAATATTGAATATTACAATGTTTGAATGCTTTTGAATTAATTGCA
1 ATAGAATATTGAATATTACAATGTTTGAATGCTTTTGAATTAATTGCA
11466877 ATAGAATATTGAATATTACAATGTTTGAATGCTTTTGAATTAATTGCA
1 ATAGAATATTGAATATTACAATGTTTGAATGCTTTTGAATTAATTGCA
11466925 AT
1 AT
11466927 GCATTTGCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (48 bp):
ATAGAATATTGAATATTACAATGTTTGAATGCTTTTGAATTAATTGCA
Found at i:11471245 original size:50 final size:50
Alignment explanation
Indices: 11471116--11471357 Score: 213
Period size: 50 Copynumber: 4.8 Consensus size: 50
11471106 TGATAATAAC
* ** * * *
11471116 ATGCCAAAGCCATACCCCAGACATGGTCTTACATGGGATGTTTTC-TGT--
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCG
* * * * *
11471164 ACTACCAATGTCATATCCCAGATATGGTCTTACATGGGAATTCTCATATCG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * *
11471215 ATGCCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
* * * *
11471265 GTGCCAACGCCATGTCCCA-ACATGGTCATACATGGGACCTCTCATAATATCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CT-TC-TCATATC---G
*
11471320 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
11471358 TCTCTTTACC
Statistics
Matches: 156, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 5 0.03
49 51 0.33
50 58 0.37
51 3 0.02
52 5 0.03
55 17 0.11
56 17 0.11
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCG
Found at i:11474126 original size:34 final size:34
Alignment explanation
Indices: 11474088--11474153 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
11474078 CATTTGCCAC
11474088 TGTTACTG-TAATGGGCTAAGGCCTACACTGATAT
1 TGTTACTGTTAA-GGGCTAAGGCCTACACTGATAT
* *
11474122 TGTTACTGTTAAGGGCTCAGGCCTAGACTGAT
1 TGTTACTGTTAAGGGCTAAGGCCTACACTGAT
11474154 TCTGTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.90
35 3 0.10
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (34 bp):
TGTTACTGTTAAGGGCTAAGGCCTACACTGATAT
Found at i:11474998 original size:29 final size:28
Alignment explanation
Indices: 11474935--11475019 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
11474925 GTGTGTCCCT
* **
11474935 TATTTTTTAAATTTTACAATTTTACCAT
1 TATTTTTTAAATTTTATAATTTTACCCC
* * *
11474963 TAGTTTTTAGATTTTATAGTTTTTACCCC
1 TATTTTTTAAATTTTATA-ATTTTACCCC
11474992 TATTTTTTAAATTTTTATAATTTTACCC
1 TATTTTTTAAA-TTTTATAATTTTACCC
11475020 AGAATTGTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 15 0.33
29 24 0.52
30 7 0.15
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.58
Consensus pattern (28 bp):
TATTTTTTAAATTTTATAATTTTACCCC
Found at i:11479060 original size:20 final size:20
Alignment explanation
Indices: 11478993--11479063 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
11478983 TCATCTCCAA
* * *
11478993 CCATTTTTCATTTCATATAA
1 CCATTTTCCATTTCATACAT
*
11479013 CCATTTTTCATTTCATACAT
1 CCATTTTCCATTTCATACAT
11479033 CCATTTTCCATTTCATACAT
1 CCATTTTCCATTTCATACAT
11479053 CCATTTTCCAT
1 CCATTTTCCAT
11479064 CCAATGAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.48
Consensus pattern (20 bp):
CCATTTTCCATTTCATACAT
Found at i:11486739 original size:15 final size:17
Alignment explanation
Indices: 11486719--11486752 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
11486709 ATTTAATCTC
11486719 TTATAAA-TAAAG-AAA
1 TTATAAATTAAAGTAAA
11486734 TTATAAATTAAAGTAAA
1 TTATAAATTAAAGTAAA
11486751 TT
1 TT
11486753 TACACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATAAATTAAAGTAAA
Found at i:11487236 original size:2 final size:2
Alignment explanation
Indices: 11487231--11487274 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11487221 ACTCTCTTTT
*
11487231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11487273 TA
1 TA
11487275 ATAGTATTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.