Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 33 of 128
Found at i:10190803 original size:73 final size:73
Alignment explanation
Indices: 10190684--10190836 Score: 288
Period size: 73 Copynumber: 2.1 Consensus size: 73
10190674 GGACTCAACA
*
10190684 TACATGTGACATAGGTTTAGGTCGGACGAGTAACCTGATGCCGTTTTATAGGTTTAGCCTATACG
1 TACATGTGACATAGGTTTAGGTCGGACGAGTAACCTGATGCCGTTTTATAGGTTTAGCCTAGACG
10190749 GGTAACCT
66 GGTAACCT
*
10190757 TACATGTGACATAGGTTTAGGTCGGACGAGTAACCTGATGTCGTTTTATAGGTTTAGCCTAGACG
1 TACATGTGACATAGGTTTAGGTCGGACGAGTAACCTGATGCCGTTTTATAGGTTTAGCCTAGACG
10190822 GGTAACCT
66 GGTAACCT
10190830 TACATGT
1 TACATGT
10190837 ATATACAACT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (73 bp):
TACATGTGACATAGGTTTAGGTCGGACGAGTAACCTGATGCCGTTTTATAGGTTTAGCCTAGACG
GGTAACCT
Found at i:10197298 original size:42 final size:42
Alignment explanation
Indices: 10197251--10197340 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
10197241 AAGGCTGAAC
*
10197251 AGAAGCACATAACTGCTAAATAGAAACCCATAAGGGTTAAAA
1 AGAAGCACATAACAGCTAAATAGAAACCCATAAGGGTTAAAA
* * * * *
10197293 AGAAGCTCGTAAGAGCTGAATAGAAACCCATAAGGGTTAAAC
1 AGAAGCACATAACAGCTAAATAGAAACCCATAAGGGTTAAAA
10197335 AGAAGC
1 AGAAGC
10197341 TCAAAAGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AGAAGCACATAACAGCTAAATAGAAACCCATAAGGGTTAAAA
Found at i:10197341 original size:42 final size:42
Alignment explanation
Indices: 10197269--10197385 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
10197259 ATAACTGCTA
* **
10197269 AATAGAAACCCATAAGGGTTAAAAAGAAGCTCGTAAGAGCTG
1 AATAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
*
10197311 AATAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTG
1 AATAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
** * * * *
10197353 AACGGAAACTCATTAGGGTTGAACAGAAACTCA
1 AATAGAAACCCATAAGGGTTAAACAGAAGCTCA
10197386 TATGAGTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (42 bp):
AATAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTG
Found at i:10197398 original size:21 final size:21
Alignment explanation
Indices: 10197267--10197423 Score: 107
Period size: 21 Copynumber: 7.5 Consensus size: 21
10197257 ACATAACTGC
* * *
10197267 TAAATAGAAACCCATAAGGGT
1 TAAACAGAAACTCATAAGAGT
* * * *
10197288 TAAAAAGAAGCTCGTAAGAGC
1 TAAACAGAAACTCATAAGAGT
* * * *
10197309 TGAATAGAAACCCATAAGGGT
1 TAAACAGAAACTCATAAGAGT
* *
10197330 TAAACAGAAGCTCAAAAGAGT
1 TAAACAGAAACTCATAAGAGT
* * * *
10197351 TGAACGGAAACTCATTAGGGT
1 TAAACAGAAACTCATAAGAGT
* *
10197372 TGAACAGAAACTCATATGAGT
1 TAAACAGAAACTCATAAGAGT
* * *
10197393 TAAACAGAAGCTCGTAAGAGC
1 TAAACAGAAACTCATAAGAGT
*
10197414 TAAACGGAAA
1 TAAACAGAAA
10197424 GTAAACACGA
Statistics
Matches: 100, Mismatches: 36, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (21 bp):
TAAACAGAAACTCATAAGAGT
Found at i:10199044 original size:57 final size:58
Alignment explanation
Indices: 10198955--10199076 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 58
10198945 ACAGAAATGG
* * *
10198955 TGAAAATGGAGAAATAAGAAACATTTTGAAATGATTATGGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
* * *
10199013 TGAACATGGAGAAAT-AGAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
10199070 TGAAAAT
1 TGAAAAT
10199077 AACCTGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 43 0.75
58 14 0.25
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.30
Consensus pattern (58 bp):
TGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:10202657 original size:19 final size:19
Alignment explanation
Indices: 10202633--10202743 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
10202623 AATCTTCAGG
10202633 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10202652 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
10202671 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10202690 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
10202709 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10202728 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10202744 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10202683 original size:38 final size:38
Alignment explanation
Indices: 10202640--10202743 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
10202630 AGGGATATGC
10202640 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
10202678 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
10202716 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
10202744 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:10206919 original size:28 final size:30
Alignment explanation
Indices: 10206888--10206951 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
10206878 ATAAAAAATG
*
10206888 AAAAATGTTAAATATAAAATATT-GTT-AA
1 AAAAATATTAAATATAAAATATTAGTTGAA
* *
10206916 AAAATTATTAAATATAAATTATTAGTTGAA
1 AAAAATATTAAATATAAAATATTAGTTGAA
10206946 AAAAAT
1 AAAAAT
10206952 TATAACCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 20 0.67
29 3 0.10
30 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATATTAAATATAAAATATTAGTTGAA
Found at i:10214273 original size:24 final size:22
Alignment explanation
Indices: 10214227--10214275 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
10214217 TTATATTTGT
*
10214227 AAAAATTTAAAAATAAATTTTA
1 AAAAATTTAAAAATAAATATTA
*
10214249 AAAAAGTTCTAAAAATATATATTA
1 AAAAA-TT-TAAAAATAAATATTA
10214273 AAA
1 AAA
10214276 TTGAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 2 0.09
24 16 0.70
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATTTAAAAATAAATATTA
Found at i:10215384 original size:20 final size:20
Alignment explanation
Indices: 10215339--10215386 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
10215329 TTTTTTTCTT
** *
10215339 TTGAAAAATGATTTAGGTAA
1 TTGAAAAAACATTTAGATAA
*
10215359 TT-AAAAAACATTTAGATCA
1 TTGAAAAAACATTTAGATAA
10215378 TTGAAAAAA
1 TTGAAAAAA
10215387 AAAATTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TTGAAAAAACATTTAGATAA
Found at i:10221138 original size:12 final size:12
Alignment explanation
Indices: 10221119--10221152 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10221109 TGTTATATTG
10221119 CATTATTATTAT
1 CATTATTATTAT
**
10221131 TGTTATTATTAT
1 CATTATTATTAT
10221143 CATTATTATT
1 CATTATTATT
10221153 TCTATACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:10221206 original size:25 final size:23
Alignment explanation
Indices: 10221172--10221228 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
10221162 ATACACACGT
*
10221172 ATATTTTTTTATAACATATATATGC
1 ATATATTTTTATAA-A-ATATATGC
*
10221197 ATATA-TTTT-TAAAATATATGT
1 ATATATTTTTATAAAATATATGC
10221218 ATATATTTTTA
1 ATATATTTTTA
10221229 GACTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 12 0.43
22 5 0.18
23 3 0.11
24 4 0.14
25 4 0.14
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
ATATATTTTTATAAAATATATGC
Found at i:10221214 original size:21 final size:21
Alignment explanation
Indices: 10221189--10221228 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10221179 TTTATAACAT
10221189 ATATATGCATATATTTTTAAA
1 ATATATGCATATATTTTTAAA
*
10221210 ATATATGTATATATTTTTA
1 ATATATGCATATATTTTTA
10221229 GACTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
ATATATGCATATATTTTTAAA
Found at i:10221263 original size:18 final size:18
Alignment explanation
Indices: 10221240--10221278 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10221230 ACTTTTATAA
*
10221240 ATACATGTATATATTTTT
1 ATACATATATATATTTTT
10221258 ATACATATATATATTTTT
1 ATACATATATATATTTTT
10221276 ATA
1 ATA
10221279 TTTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATACATATATATATTTTT
Found at i:10222279 original size:4 final size:4
Alignment explanation
Indices: 10222251--10222294 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
10222241 AATGGTATAG
* * *
10222251 AAAT AATAT AAAC AAAC AAAC AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10222295 ATCAATGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:10222919 original size:24 final size:24
Alignment explanation
Indices: 10222857--10222928 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
10222847 NNNNNTGTAC
*
10222857 ATATA-AAAAAATAAATATATACAT
1 ATATATAAAAAATAAA-AAATACAT
**
10222881 ATATATAAATTATAAAAAATACAT
1 ATATATAAAAAATAAAAAATACAT
* *
10222905 ATATATAAAAAATAATAATTACAT
1 ATATATAAAAAATAAAAAATACAT
10222929 TATTGAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
ATATATAAAAAATAAAAAATACAT
Found at i:10234995 original size:133 final size:134
Alignment explanation
Indices: 10234853--10235122 Score: 533
Period size: 133 Copynumber: 2.0 Consensus size: 134
10234843 TTTATTCCAT
10234853 AATAAAATAATACAATTAATATAAATTACAATTTAAATAAATAAAATAATTTTAATTTACACAGT
1 AATAAAATAATACAATTAATATAAATTACAATTTAAATAAATAAAATAATTTTAATTTACACAGT
10234918 AGATTCTTGAAAAATGAGATCATATCTCGATATGGAATGCCTGAGAGGATCATATCCGAT-ATGC
66 AGATTCTTGAAAAATGAGATCATATCTCGATATGGAATGCCTGAGAGGATCATATCCGATAATGC
10234982 GCTG
131 GCTG
10234986 AATAAAATAATACAATTAATATAAATTACAATTTAAATAAATAAAATAATTTTAATTTACACAGT
1 AATAAAATAATACAATTAATATAAATTACAATTTAAATAAATAAAATAATTTTAATTTACACAGT
10235051 AGATTCTTGAAAAATGAGATCATATCTCGATATGGAATGCCTGAGAGGATCATATCCGATAATGC
66 AGATTCTTGAAAAATGAGATCATATCTCGATATGGAATGCCTGAGAGGATCATATCCGATAATGC
10235116 GCTG
131 GCTG
10235120 AAT
1 AAT
10235123 TTGAACAATA
Statistics
Matches: 136, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
133 125 0.92
134 11 0.08
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (134 bp):
AATAAAATAATACAATTAATATAAATTACAATTTAAATAAATAAAATAATTTTAATTTACACAGT
AGATTCTTGAAAAATGAGATCATATCTCGATATGGAATGCCTGAGAGGATCATATCCGATAATGC
GCTG
Found at i:10237041 original size:45 final size:45
Alignment explanation
Indices: 10236918--10237279 Score: 334
Period size: 45 Copynumber: 8.0 Consensus size: 45
10236908 AACAGATCGG
* * *
10236918 TGAAGATAGCAAATCCTATCTCCTTGAAGTTGTAGTAGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
* * * ** ** *
10236963 TGAAGATATGCAAGTCTTATCTCTCTGAAGTTGCAACGGAGCAGAC
1 TGAAGATA-GCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
10237009 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
* * * * ** *
10237054 TGAAGATATGCAAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGAC
1 TGAAGATA-GCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
* *
10237100 TGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
* ** * *
10237145 TGAAGATAGCAAGTTTTATCCCCCTGAAGTTGCAGTGG-GATAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAG-TGGAT
* ** ** **
10237190 TGAAGATGGTGAA-CCTTATCTCCCTGGGGTTGCAGTGGAGCAGAT
1 TGAAGATAGCAAATCC-TATCTCCCTGAAGTTGCAGTGGAGTGGAT
* * * * *
10237235 TGAAGTTAG-TAATCCTATCTCCCTAAATTTACAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
10237279 T
1 T
10237280 AAAACATCCA
Statistics
Matches: 249, Mismatches: 62, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
44 26 0.10
45 150 0.60
46 73 0.29
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
Found at i:10237073 original size:91 final size:91
Alignment explanation
Indices: 10236918--10237178 Score: 425
Period size: 91 Copynumber: 2.9 Consensus size: 91
10236908 AACAGATCGG
* * *
10236918 TGAAGATAGCAAATCCTATCTCCTTGAAGTTGTAGTAGAGTGGATTGAAGATATGCAAGTCTTAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTAT
*
10236983 CTCTCTGAAGTTGCAACGGAGCAGAC
66 CTCCCTGAAGTTGCAACGGAGCAGAC
10237009 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTAT
* *
10237074 CTCCCTGAAGTTACAGCGGAGCAGAC
66 CTCCCTGAAGTTGCAACGGAGCAGAC
* * *
10237100 TGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATTGAAGATA-GCAAGTTTTAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTAT
*
10237164 CCCCCTGAAGTTGCA
66 CTCCCTGAAGTTGCA
10237179 GTGGGATAGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 23 0.14
91 136 0.86
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (91 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTAT
CTCCCTGAAGTTGCAACGGAGCAGAC
Found at i:10237170 original size:136 final size:135
Alignment explanation
Indices: 10236963--10237279 Score: 336
Period size: 136 Copynumber: 2.3 Consensus size: 135
10236953 TAGAGTGGAT
* * * ** ** *
10236963 TGAAGATATGCAAGTCTTATCTCTCTGAAGTTGCAACGGAGCAGACTGAAGATAGCAAATCCTAT
1 TGAAGATA-GCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATTGAAGATAGCAAATCCTAT
* * *
10237028 CTCCCTGAAGTTGCAGT-GGAGTGGATTGAAGAT-ATGCAAGTCTTATCTCCCTGAAGTTACAGC
65 CCCCCTGAAGTTGCAGTGGGA-TAGATTGAAGATGATG-AA-CCTTATCTCCCTGAAGTTACAGC
10237091 GGAGCAGAC
127 GGAGCAGAC
* **
10237100 TGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATTGAAGATAGCAAGTTTTATC
1 TGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATTGAAGATAGCAAATCCTATC
* ** * *
10237165 CCCCTGAAGTTGCAGTGGGATAGATTGAAGATGGTGAACCTTATCTCCCTGGGGTTGCAGTGGAG
66 CCCCTGAAGTTGCAGTGGGATAGATTGAAGATGATGAACCTTATCTCCCTGAAGTTACAGCGGAG
*
10237230 CAGAT
131 CAGAC
* * * * *
10237235 TGAAGTTAG-TAATCCTATCTCCCTAAAT-TTACAGTGGAGTGGATT
1 TGAAGATAGCAAATCCTATCTCTCT-GATGTTGCAGTGGAGTGGATT
10237280 AAAACATCCA
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
134 29 0.19
135 36 0.24
136 74 0.49
137 13 0.09
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (135 bp):
TGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATTGAAGATAGCAAATCCTATC
CCCCTGAAGTTGCAGTGGGATAGATTGAAGATGATGAACCTTATCTCCCTGAAGTTACAGCGGAG
CAGAC
Found at i:10237298 original size:134 final size:136
Alignment explanation
Indices: 10237016--10237313 Score: 311
Period size: 134 Copynumber: 2.2 Consensus size: 136
10237006 GACTGAAGAT
* * * *
10237016 AGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATATGCAAGTCTTATCTCCCTG
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATGCAAGCCTTATCTCCCTG
* * *
10237081 AAGTTACAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCTCTGATGTTGCAGTGGAGTGGATT
66 AAGTTACAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTAATGTTACAGTGGAGTGGATT
* *
10237146 GAAGAT
131 GAAAAC
* * *
10237152 AGCAAGTTTTATCCCCCTGAAGTTGCAGTGG-GATAGATTGAAGATGGTG-AA-CCTTATCTCCC
1 AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG-TAGATTGAAGAT-ATGCAAGCCTTATCTCCC
** * * * * *
10237214 TGGGGTTGCAGTGGAGCAGATTGAAGTTAG-TAATCCTATCTCCCTAAAT-TTACAGTGGAGTGG
64 TGAAGTTACAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCCCT-AATGTTACAGTGGAGTGG
10237277 ATT-AAAAC
128 ATTGAAAAC
* * **
10237285 ATCCAGATCTTATCTTTCTGAAGTTGCAG
1 AGCAAG-TCTTATCTCCCTGAAGTTGCAG
10237314 AAAGCAGATC
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
133 7 0.05
134 47 0.35
135 37 0.28
136 40 0.30
137 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (136 bp):
AGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATATGCAAGCCTTATCTCCCTG
AAGTTACAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTAATGTTACAGTGGAGTGGATT
GAAAAC
Found at i:10237350 original size:40 final size:40
Alignment explanation
Indices: 10237292--10237522 Score: 185
Period size: 40 Copynumber: 5.5 Consensus size: 40
10237282 AACATCCAGA
* *
10237292 TCTTATCTTTCTGAAGTTGCAGAAAGCAGATCGCATCTAG
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* * * ** **
10237332 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATCTAG
1 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCTAG
*
10237376 ATCTTATCTTTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
1 -TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* * ** *
10237417 TCTTATCTCTCTGAAGTTGCAGTTGA-CTGGATTAAAACATCCAG
1 TCTTATCTCTCTGAAGTTGCAG-AGAGC-AGA-T--CGCATCTAG
* * *
10237461 ATCTTATCTTTCTGAAGTTGTAGAGAGTAGATCGCATCTAG
1 -TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
*
10237502 TCTTATCTCTCTAAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCA
10237523 ATGGAGTAGA
Statistics
Matches: 145, Mismatches: 34, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
40 59 0.41
41 21 0.14
42 2 0.01
43 2 0.01
44 22 0.15
45 39 0.27
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
Found at i:10237358 original size:85 final size:85
Alignment explanation
Indices: 10237247--10237529 Score: 431
Period size: 85 Copynumber: 3.3 Consensus size: 85
10237237 AAGTTAGTAA
* *
10237247 TCCTATCTCCCTAAATTTACAGTGGAGTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGC
1 TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGC
*
10237312 AGAAAGCAGATCGCATCTAG
66 AGAGAGCAGATCGCATCTAG
* *
10237332 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACATCTAGATCTTATCTTTCTGAAGTTGC
1 TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGC
10237397 AGAGAGCAGATCGCATCTAG
66 AGAGAGCAGATCGCATCTAG
* * * * * *
10237417 TCTTATCTCTCTGAAGTTGCAGTTGACTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGT
1 TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGC
*
10237482 AGAGAGTAGATCGCATCTAG
66 AGAGAGCAGATCGCATCTAG
* * *
10237502 TCTTATCTCTCTAAAGTTGCAATGGAGT
1 TCCTATCTCCCTAAAGTTGCAGTGGAGT
10237530 AGACTGAATG
Statistics
Matches: 182, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 182 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (85 bp):
TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAACATCCAGATCTTATCTTTCTGAAGTTGC
AGAGAGCAGATCGCATCTAG
Found at i:10239001 original size:15 final size:16
Alignment explanation
Indices: 10238981--10239012 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
10238971 TTATATTGCA
10238981 TTATTATTG-TATTAT
1 TTATTATTGTTATTAT
10238996 TTATTATTGTTATTAT
1 TTATTATTGTTATTAT
10239012 T
1 T
10239013 ATCATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTATTATTGTTATTAT
Found at i:10239014 original size:15 final size:15
Alignment explanation
Indices: 10238980--10239024 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10238970 GTTATATTGC
10238980 ATTATTATTG-TATT
1 ATTATTATTGTTATT
10238994 ATTTATTATTGTTATT
1 A-TTATTATTGTTATT
* *
10239010 ATTATCATTATTATT
1 ATTATTATTGTTATT
10239025 TCTATACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 1 0.04
15 21 0.78
16 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (15 bp):
ATTATTATTGTTATT
Found at i:10240134 original size:30 final size:30
Alignment explanation
Indices: 10240073--10240134 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
10240063 TTACGGTCGG
* * * *
10240073 TAAAATTTTAATTTAATACTTTATAATTTA
1 TAAAATTTTAAATTAATAATGTATAAATTA
10240103 TAAAATTTTAAATTAATAATGGTA-AAATTA
1 TAAAATTTTAAATTAATAAT-GTATAAATTA
10240133 TA
1 TA
10240135 TTTTGACCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATTTTAAATTAATAATGTATAAATTA
Found at i:10241336 original size:101 final size:102
Alignment explanation
Indices: 10241197--10241381 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
10241187 AAAATGATGG
* * *
10241197 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGATACCACGTGTATCGG-ATGATAATGGTCACATGTGTAGT
10241260 ACTATGTGCAGGCTACTATGCGTACCAAATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAAATAGTTTCGA
* * *
10241298 TCACGTGTGTAGTACTATGTGCAGTATACCACGTGTATCGGATGGTAATGGTCATATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGATACCACGTGTATCGGATGATAATGGTCACATGTGTAGTA
*
10241363 TTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
10241382 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGATACCACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAAATAGTTTCGA
Found at i:10243575 original size:30 final size:30
Alignment explanation
Indices: 10243541--10243602 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10243531 ACTTATTTTA
10243541 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
10243571 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
10243601 TT
1 TT
10243603 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:10246214 original size:22 final size:25
Alignment explanation
Indices: 10246164--10246217 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
10246154 ATTAATATTT
10246164 TAAAATTCAAAATATATAAACTTTTAA
1 TAAAATTCAAAATATATAAA--TTTAA
10246191 TAAAATT-AAAATATAT-AA-TTAA
1 TAAAATTCAAAATATATAAATTTAA
10246213 TAAAA
1 TAAAA
10246218 ATATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.33
25 2 0.07
26 9 0.33
27 7 0.26
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAATTCAAAATATATAAATTTAA
Found at i:10254443 original size:10 final size:10
Alignment explanation
Indices: 10254428--10254462 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
10254418 TTCGATTCGA
10254428 TTAAAAAAAT
1 TTAAAAAAAT
10254438 TTAAAAAAAT
1 TTAAAAAAAT
10254448 TTAAAAAAAT
1 TTAAAAAAAT
10254458 TTAAA
1 TTAAA
10254463 TTTTGAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TTAAAAAAAT
Found at i:10254566 original size:9 final size:9
Alignment explanation
Indices: 10254554--10254584 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10254544 CTAAATTTTT
10254554 ATAATTCGA
1 ATAATTCGA
*
10254563 ATAACTCGA
1 ATAATTCGA
10254572 ATAATTCGA
1 ATAATTCGA
10254581 ATAA
1 ATAA
10254585 CAGATTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (9 bp):
ATAATTCGA
Found at i:10254719 original size:19 final size:19
Alignment explanation
Indices: 10254668--10254752 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 19
10254658 ATTACAAAAA
* * *
10254668 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTT
*
10254687 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTT
*
10254707 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
10254725 AGAAATTCTAAAATTTATATTTTT
1 A-AAATTC-AAAA--TA-ATTTTT
10254749 AAAA
1 AAAA
10254753 AAATTATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
18 6 0.12
19 17 0.33
20 19 0.37
22 1 0.02
23 3 0.06
24 6 0.12
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:10254740 original size:18 final size:19
Alignment explanation
Indices: 10254695--10254743 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10254685 TCAAAATTTG
*
10254695 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
10254714 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
10254733 TAAA-ATTTATA
1 AAAATATTTATA
10254744 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:10254767 original size:19 final size:19
Alignment explanation
Indices: 10254734--10254797 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
10254724 TAGAAATTCT
*
10254734 AAAATT-TATATTTTTAAA
1 AAAATTATAAATTTTTAAA
10254752 AAAATTATAAATTTTTAAA
1 AAAATTATAAATTTTTAAA
* *
10254771 AAAATCTAAAAAATTTATAAA
1 AAAAT-T-ATAAATTTTTAAA
10254792 AAAATT
1 AAAATT
10254798 TAATACAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.15
19 16 0.40
20 2 0.05
21 16 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTATAAATTTTTAAA
Found at i:10254784 original size:21 final size:19
Alignment explanation
Indices: 10254743--10254797 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 19
10254733 TAAAATTTAT
*
10254743 ATTTTTAAAAAAATTATAA
1 ATTTTTAAAAAAATTAAAA
10254762 ATTTTTAAAAAAATCTAAAAA
1 ATTTTTAAAAAAAT-T-AAAA
*
10254783 ATTTATAAAAAAATT
1 ATTTTTAAAAAAATT
10254798 TAATACAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 14 0.44
20 2 0.06
21 16 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTTTAAAAAAATTAAAA
Found at i:10255142 original size:21 final size:22
Alignment explanation
Indices: 10255106--10255146 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10255096 ACATTTTCTA
*
10255106 AAGTTAAAAAGTCAAAACTATC
1 AAGTTAAAAAGGCAAAACTATC
10255128 AAGTT-AAAAGGCAAAACTA
1 AAGTTAAAAAGGCAAAACTA
10255147 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (22 bp):
AAGTTAAAAAGGCAAAACTATC
Found at i:10258309 original size:18 final size:19
Alignment explanation
Indices: 10258271--10258313 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
10258261 TCTAAATGAA
10258271 TTCATTTCTCATTTTTATT
1 TTCATTTCTCATTTTTATT
10258290 TTCATTTCT-ATTTTCT-TT
1 TTCATTTCTCATTTT-TATT
10258308 TTCATT
1 TTCATT
10258314 CTGAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (19 bp):
TTCATTTCTCATTTTTATT
Found at i:10269574 original size:26 final size:26
Alignment explanation
Indices: 10269524--10269576 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
10269514 AGCTATTTAA
*
10269524 AATTTTAAAATATATTATGTATAATT
1 AATTTTAAAATATATTATATATAATT
10269550 AATTTTACAAATA-ATT-TATACTAATT
1 AATTTTA-AAATATATTATATA-TAATT
10269576 A
1 A
10269577 CTCAAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 16 0.67
27 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTTAAAATATATTATATATAATT
Found at i:10271724 original size:14 final size:14
Alignment explanation
Indices: 10271705--10271735 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10271695 GTATACAAGA
10271705 ATACATACATATAT
1 ATACATACATATAT
*
10271719 ATACATATATATAT
1 ATACATACATATAT
10271733 ATA
1 ATA
10271736 ATTGTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATACATACATATAT
Found at i:10273952 original size:3 final size:3
Alignment explanation
Indices: 10273944--10273994 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10273934 GAATATGGAG
* * * *
10273944 ATA ATA ATA GTA ATA ATG ATA ATA TATA AT- ATA ATA ATA GTG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
10273989 ATA ATA
1 ATA ATA
10273995 GTAAAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:10273996 original size:12 final size:12
Alignment explanation
Indices: 10273944--10273994 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
10273934 GAATATGGAG
* *
10273944 ATAATAATAGTA
1 ATAATGATAATA
10273956 ATAATGATAATA
1 ATAATGATAATA
10273968 TATAAT-ATAATA
1 -ATAATGATAATA
*
10273980 ATAGTGATAATA
1 ATAATGATAATA
10273992 ATA
1 ATA
10273995 GTAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.12
12 25 0.74
13 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:10279165 original size:20 final size:20
Alignment explanation
Indices: 10279140--10279179 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10279130 ATAATCAAGG
10279140 ATGCAATCAAGAAGGTTGAT
1 ATGCAATCAAGAAGGTTGAT
*
10279160 ATGCAATCAAGGAGGTTGAT
1 ATGCAATCAAGAAGGTTGAT
10279180 TGGATTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.28, T:0.25
Consensus pattern (20 bp):
ATGCAATCAAGAAGGTTGAT
Found at i:10285004 original size:3 final size:3
Alignment explanation
Indices: 10284993--10285057 Score: 91
Period size: 3 Copynumber: 22.7 Consensus size: 3
10284983 TGTTTTGCTT
* *
10284993 TTA TT- TTA TTA TTA -TA TTG CTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10285038 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
10285058 TGGATATTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10285498 original size:21 final size:20
Alignment explanation
Indices: 10285457--10285496 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10285447 AATTTTGACT
*
10285457 TCAAAATTTTTAAATAAAAA
1 TCAAAATTTTTAAAAAAAAA
10285477 TCAAAATTTTTAAAAAAAAA
1 TCAAAATTTTTAAAAAAAAA
10285497 ATTGATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TCAAAATTTTTAAAAAAAAA
Found at i:10287460 original size:32 final size:31
Alignment explanation
Indices: 10287422--10287493 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 31
10287412 TATAAAAATT
10287422 AAATCAAAACATTTAAAGTATAAAATTACATA-
1 AAATCAAAA-ATTT-AAGTATAAAATTACATAC
* *
10287454 AAATC-AAAATTTATGTATAATATTACATATC
1 AAATCAAAAATTTAAGTATAAAATTACATA-C
10287485 AAATCAAAA
1 AAATCAAAA
10287494 TTCATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 15 0.43
30 4 0.11
31 8 0.23
32 8 0.23
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.31
Consensus pattern (31 bp):
AAATCAAAAATTTAAGTATAAAATTACATAC
Found at i:10287760 original size:6 final size:6
Alignment explanation
Indices: 10287751--10287778 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10287741 AAATGGAAGG
10287751 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
10287779 TGGTTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:10288997 original size:17 final size:17
Alignment explanation
Indices: 10288971--10289004 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10288961 TATGGTCTAT
*
10288971 ATATAGTATACTAAAAA
1 ATATAGTATAATAAAAA
*
10288988 ATATATTATAATAAAAA
1 ATATAGTATAATAAAAA
10289005 TTTAAGTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAGTATAATAAAAA
Found at i:10289993 original size:31 final size:30
Alignment explanation
Indices: 10289958--10290017 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
10289948 GGAGGTGGGA
*
10289958 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
10289989 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
10290018 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:10300011 original size:910 final size:902
Alignment explanation
Indices: 10298133--10299816 Score: 2503
Period size: 910 Copynumber: 1.9 Consensus size: 902
10298123 TTTGCAGCGG
* * ** * * * * *
10298133 CTAATAATCACTAAAACATTTCTTTCATCGTTTAGAAATCATATAAGAAC-AATTCATGCATCAA
1 CTAATAATTACCAAAACATTTCGATCAACATTTAGAAATCACATAA-AACAAATT-ATGGATAAA
10298197 ACCTTATTACCAAAATAGTGTCCCATACCACAGTTCATAATATAAAATTTAAAGTCCCAAAACCA
64 ACCTTATTACCAAAATAGTGTCCCATACCACAGTTCATAATATAAAATTTAAAGTCCCAAAACCA
*
10298262 TTTAAACAAACCCAATTTAAAGTTCATAGTAAAAGTCCAAAAGAAGTTAAAAAAGCCTATAAAAA
129 TTTAAACAAACCCAATTTAAAGTCCATAGTAAAAGTCCAAAAGAAGTTAAAAAAGCCTATAAAAA
* * *
10298327 TACCAAACCATTTCCAAAATCCATAACCACGAAAACATATTATACCGAGAGCCTCTCCGAAGATC
194 CACCAAACCATTTCCAAAATCCATAACCACGAAAACATATTATACCGAGAGCCTATCCAAAGATC
* *
10298392 CAAATCTGAGCCGTAAGTATGAGGATTACCTGAAACACACGAAAATCATGGGTGAGCTTTAAAAG
259 CAAATCTGAGCCGTAAGTATAAGGATCACCTGAAACACACGAAAATCATGGGTGAGCTTTAAAAG
*
10298457 ACTCAGTGTGAGATCAATACAAACAGTTATTTTAACACATAACATAACACATCAAAATATCACAA
324 ACTCAGTGTGAGATCAATACAAACAATTATTTTAACACATAACATAACACATCAAAATATCACAA
* * *
10298522 AGCATTTTTCATAGAATTCACATATTATCACATTTATTGAATCAAAACATGACATGCTTATGAAC
389 AGCATCTTTCACAGAATTCACATATTATCACATTTATTGAATCAAAACATGACATGCTTACGAAC
*
10298587 AATGCACAATTACAGGATTTCCTACCCATCTCCGCTACACACTAATATCGAGTTCCACAAAACTC
454 AATGCACAATTACAGGATTTCCTACCCATCTCCGCTACACACCAATATCGAGTTCCACAAAACTC
** * * * *
10298652 ATCCATCCAATAACACACCAGTTTGTGGATAATCCATAACACAGATACCGATGAACGGTCACATA
519 ATCCATCCAATAACACACCAACTTATGGACAAGCCACAACACAGATACCGATGAACGGTCACATA
* * * *
10298717 GCACATCGTGGACAAGTCACCATATAATTGCCAATAACGACCACATAATTGAAGTTAAACTGCCA
584 GCACATCATGGACAAGCCACCACATAATTGCCAATAACAACCACATAATTGAAGTTAAACTGCCA
*
10298782 CATAGCTTCCTCCTTTCACAAACCCGCGCCATGCATGTGATATGACCATTTTAACACATATTTAT
649 CATAGCTTCCTCCTTTCACAAACCCACGCCATGCATGTGATATGACCATTTTAACACATATTTAT
10298847 CACTTATCACATTTTTCACATTTTCATGCTCATAACTCATGTATCTCAATTTTCACATATCCATA
714 CACTTATCACATTTTTCACATTTTCATGCTCATAACTCATGTATCTCAATTTTCACATATCCATA
* * * * ** *
10298912 CATCATAACTCATGCATGTATCTCGATTTTTTAAAAGATCTTGTACTTTTCATTATATAGTTATG
779 CATCATAACTCAT-CATGTATCTCGA-TTATCAAAAGATCTTGCACTTTGCATTATATACATACG
** * * ** * * *
10298977 TGTTCCTTTATATTTAAAAATGATTTGAAATGTAACTTAGTTTTTAAAACACTTATTTGGAGCAA
842 TAATCC-TTATAGTTAAAAATGATTTGAAATATAAC-TA--TTACAAAACACGTATTTAGAGAAA
* ** * *
10299042 CTAATAATTACTAAAACATTTCTTTCATCATTTAGAAATCACATAAAACAATTTATGGATAAAAC
1 CTAATAATTACCAAAACATTTCGATCAACATTTAGAAATCACATAAAACAAATTATGGATAAAAC
*
10299107 CTTATTATATCAAAATAGTGTCCCATACCACAGTTCATAATATAAAATTTAAAGTCCCAAAACCA
66 CTTA-T-TACCAAAATAGTGTCCCATACCACAGTTCATAATATAAAATTTAAAGTCCCAAAACCA
* *
10299172 TTTAAACAAACCCAATTTAAAGTCCATAGTAAAATTCCAAAAGAAGTTCAAAAAGTCC-ATAAAA
129 TTTAAACAAACCCAATTTAAAGTCCATAGTAAAAGTCCAAAAGAAGTTAAAAAAG-CCTATAAAA
* * *
10299236 ACACTAAACCATTTCCAAAATCCATAACCACGAAAAGATATTATACTGAGAGCCTATCCAAAGAT
193 ACACCAAACCATTTCCAAAATCCATAACCACGAAAACATATTATACCGAGAGCCTATCCAAAGAT
* * * * *
10299301 CGAAATAC-GAGCCTTAAGTATAAGGATCACTTGAGACACATGAAAATCATGGGTGAGCTTTAAA
258 CCAAAT-CTGAGCCGTAAGTATAAGGATCACCTGAAACACACGAAAATCATGGGTGAGCTTTAAA
* * *
10299365 AGACTCAGTGTGAGATCAGTACAGACAATTATTTTAACATATAACATAACACATCAAAATATCAC
322 AGACTCAGTGTGAGATCAATACAAACAATTATTTTAACACATAACATAACACATCAAAATATCAC
* * *
10299430 AAAGCATCTTTCACAGAATTCACATATTATCGCATTTATTGCATCAAAACATGGCATGCTTACGA
387 AAAGCATCTTTCACAGAATTCACATATTATCACATTTATTGAATCAAAACATGACATGCTTACGA
*
10299495 ACAATGCACAATTACAGGATTTCCTACCCATCTCCGCTACACACCAATATCGAGTTCCCCAAAAC
452 ACAATGCACAATTACAGGATTTCCTACCCATCTCCGCTACACACCAATATCGAGTTCCACAAAAC
* * * * *
10299560 TCGTCCATCCAATAACACACCAACTTATGTACAAGCCACCACATAGATACCGATGATCGGTCACA
517 TCATCCATCCAATAACACACCAACTTATGGACAAGCCACAACACAGATACCGATGAACGGTCACA
*
10299625 TAGCACATCATGGACAAGCCACCACATAATTGCCGATAACAACCACATAATTGAAGTTAAACTGC
582 TAGCACATCATGGACAAGCCACCACATAATTGCCAATAACAACCACATAATTGAAGTTAAACTGC
* *
10299690 CACATAGCTTCCTCCTTTCACAAACCCAC-CACATGCATGTGATATGGCCATTTTAATACATATT
647 CACATAGCTTCCTCCTTTCACAAACCCACGC-CATGCATGTGATATGACCATTTTAACACATATT
* *
10299754 TATCACTTATCACATTTTTCGCATTTTCATGCTCATAACTCATGTATCTTAATTTTCACATAT
711 TATCACTTATCACATTTTTCACATTTTCATGCTCATAACTCATGTATCTCAATTTTCACATAT
10299817 GCATGTATCA
Statistics
Matches: 713, Mismatches: 56, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
908 16 0.02
909 48 0.07
910 646 0.91
911 3 0.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (902 bp):
CTAATAATTACCAAAACATTTCGATCAACATTTAGAAATCACATAAAACAAATTATGGATAAAAC
CTTATTACCAAAATAGTGTCCCATACCACAGTTCATAATATAAAATTTAAAGTCCCAAAACCATT
TAAACAAACCCAATTTAAAGTCCATAGTAAAAGTCCAAAAGAAGTTAAAAAAGCCTATAAAAACA
CCAAACCATTTCCAAAATCCATAACCACGAAAACATATTATACCGAGAGCCTATCCAAAGATCCA
AATCTGAGCCGTAAGTATAAGGATCACCTGAAACACACGAAAATCATGGGTGAGCTTTAAAAGAC
TCAGTGTGAGATCAATACAAACAATTATTTTAACACATAACATAACACATCAAAATATCACAAAG
CATCTTTCACAGAATTCACATATTATCACATTTATTGAATCAAAACATGACATGCTTACGAACAA
TGCACAATTACAGGATTTCCTACCCATCTCCGCTACACACCAATATCGAGTTCCACAAAACTCAT
CCATCCAATAACACACCAACTTATGGACAAGCCACAACACAGATACCGATGAACGGTCACATAGC
ACATCATGGACAAGCCACCACATAATTGCCAATAACAACCACATAATTGAAGTTAAACTGCCACA
TAGCTTCCTCCTTTCACAAACCCACGCCATGCATGTGATATGACCATTTTAACACATATTTATCA
CTTATCACATTTTTCACATTTTCATGCTCATAACTCATGTATCTCAATTTTCACATATCCATACA
TCATAACTCATCATGTATCTCGATTATCAAAAGATCTTGCACTTTGCATTATATACATACGTAAT
CCTTATAGTTAAAAATGATTTGAAATATAACTATTACAAAACACGTATTTAGAGAAA
Found at i:10304124 original size:24 final size:25
Alignment explanation
Indices: 10304083--10304129 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
10304073 TGCACATCAA
*
10304083 TCGAATCATCTCGAGACACACATAT
1 TCGAATCATATCGAGACACACATAT
* *
10304108 TCGAAT-ATATCGCGACAGACAT
1 TCGAATCATATCGAGACACACAT
10304130 TCATAGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (25 bp):
TCGAATCATATCGAGACACACATAT
Found at i:10304704 original size:190 final size:189
Alignment explanation
Indices: 10304381--10304760 Score: 751
Period size: 190 Copynumber: 2.0 Consensus size: 189
10304371 TATCGTGACC
10304381 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
1 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
10304446 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
66 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTA-TT
10304511 TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
130 TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
10304571 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
1 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
10304636 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
66 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
10304701 TTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
131 TTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
10304760 A
1 A
10304761 TTAAGTCATG
Statistics
Matches: 190, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
189 63 0.33
190 127 0.67
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (189 bp):
AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
TTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
Found at i:10307127 original size:43 final size:43
Alignment explanation
Indices: 10307033--10307130 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
10307023 ACTGGCACTC
* * *
10307033 ATAATGCATCATCGGATAAACCGAAGCAATCATACTGGCACAC
1 ATAATGCATCATCGGATAAACCGAAACAATCATACTGACACAA
* * * *
10307076 ATAGTGCATCATCGGATAAATCGAAACAAAT-ATATTGACATAA
1 ATAATGCATCATCGGATAAACCGAAAC-AATCATACTGACACAA
10307119 ATAATGCATCAT
1 ATAATGCATCAT
10307131 TGGCCAAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.23
Consensus pattern (43 bp):
ATAATGCATCATCGGATAAACCGAAACAATCATACTGACACAA
Found at i:10308904 original size:89 final size:90
Alignment explanation
Indices: 10308753--10308932 Score: 344
Period size: 89 Copynumber: 2.0 Consensus size: 90
10308743 TACTAGATTA
10308753 TACCACAACTATGTTGGGGATTTAAATAATTAATTAAAAACAAAATTTAATTATATTGAATAATT
1 TACCACAACTATGTTGGGGATTTAAATAATTAATTAAAAACAAAATTTAATTATATTGAATAATT
*
10308818 TTCAATTAAAATA-CTTTAAAAAGT
66 GTCAATTAAAATACCTTTAAAAAGT
10308842 TACCACAACTATGTTGGGGATTTAAATAATTAATTAAAAACAAAATTTAATTATATTGAATAATT
1 TACCACAACTATGTTGGGGATTTAAATAATTAATTAAAAACAAAATTTAATTATATTGAATAATT
10308907 GTCAATTAAAATACCTTTAAAAAGT
66 GTCAATTAAAATACCTTTAAAAAGT
10308932 T
1 T
10308933 TAAATTAAAA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 77 0.87
90 12 0.13
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (90 bp):
TACCACAACTATGTTGGGGATTTAAATAATTAATTAAAAACAAAATTTAATTATATTGAATAATT
GTCAATTAAAATACCTTTAAAAAGT
Found at i:10309103 original size:19 final size:20
Alignment explanation
Indices: 10309079--10309117 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10309069 AATTCATTGT
*
10309079 ATAATTTAA-AAATAAAATA
1 ATAATTGAAGAAATAAAATA
*
10309098 ATAATTGAAGTAATAAAATA
1 ATAATTGAAGAAATAAAATA
10309118 TATTTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATTGAAGAAATAAAATA
Found at i:10312298 original size:14 final size:14
Alignment explanation
Indices: 10312260--10312298 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
10312250 AATAGATGTC
10312260 GATAATGGCAATTG
1 GATAATGGCAATTG
*
10312274 GACAATGGCAATTG
1 GATAATGGCAATTG
*
10312288 GATAATCGCAA
1 GATAATGGCAA
10312299 AAATAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (14 bp):
GATAATGGCAATTG
Found at i:10313480 original size:156 final size:156
Alignment explanation
Indices: 10313181--10313485 Score: 486
Period size: 156 Copynumber: 2.0 Consensus size: 156
10313171 TACCTTGTAA
* * *
10313181 GTATATGAAAATCCACTGAATTATTTTTCAATGTTCTTTATTGGGATTCACCATGTATCCACTAA
1 GTATATGAAAATCCACTAAATTATTTTTCAATATTCTTTATCGGGATTCACCATGTATCCACTAA
* *
10313246 CCACACTAACTGCATATGACAAATCTAGACGTAAGCAAACCATAGTGTACATGAGAGATCCCACT
66 CCACACTAACTGCATATGACAAATCTAGACGTAAGCAAACCATAGTATACACGAGAGATCCCACT
*
10313311 GCTCTAAATTATGGAACACATGACAT
131 GCACTAAATTATGGAACACATGACAT
* * *
10313337 GTATCTGAAAATCCACTAAATTGTTTTTCAATATTCTTTATCGGGATTCACCATGTATCTACTAA
1 GTATATGAAAATCCACTAAATTATTTTTCAATATTCTTTATCGGGATTCACCATGTATCCACTAA
* * *
10313402 CCACACTAACTGCATATGACAAATCTGGATGTAAGCAAACCATAGTATACACGAGAGATCCCATT
66 CCACACTAACTGCATATGACAAATCTAGACGTAAGCAAACCATAGTATACACGAGAGATCCCACT
10313467 GCACTAGAA-TATGGAACAC
131 GCACTA-AATTATGGAACAC
10313486 GTAATATGTA
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
156 134 0.99
157 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (156 bp):
GTATATGAAAATCCACTAAATTATTTTTCAATATTCTTTATCGGGATTCACCATGTATCCACTAA
CCACACTAACTGCATATGACAAATCTAGACGTAAGCAAACCATAGTATACACGAGAGATCCCACT
GCACTAAATTATGGAACACATGACAT
Found at i:10319185 original size:7 final size:6
Alignment explanation
Indices: 10319120--10319184 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
10319110 CAACACATAG
***
10319120 AATAAA AATAAA AAT--- AATAAA AATTTT AAT-AA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
*
10319164 AATAAA ATATAAA ACTAAA AA
1 AATAAA A-ATAAA AATAAA AA
10319185 CCTAATCTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
3 3 0.06
5 3 0.06
6 35 0.74
7 6 0.13
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAA
Found at i:10321322 original size:3 final size:3
Alignment explanation
Indices: 10321314--10321338 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10321304 CAAGCTCAAG
10321314 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
10321339 ACCGGTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:10328409 original size:50 final size:50
Alignment explanation
Indices: 10328318--10328505 Score: 151
Period size: 50 Copynumber: 3.6 Consensus size: 50
10328308 TCTTGTACTA
* * * **
10328318 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * * * ** * *
10328368 CCCATGCCCTGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * * *
10328418 CCAAAGCCATGTCCTAGACATAGTCTTACATGAGACCTCTCATAATCTCAATGATG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
* *
10328474 CCAATGTCATGTCCCAGACATGGTCTTACATG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATG
10328506 TGATCTCTTT
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
50 73 0.70
53 1 0.01
56 31 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:10332750 original size:16 final size:16
Alignment explanation
Indices: 10332726--10332756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10332716 TCACCAAAGT
*
10332726 GAAGGGATGATGGTTG
1 GAAGAGATGATGGTTG
10332742 GAAGAGATGATGGTT
1 GAAGAGATGATGGTT
10332757 TTAGGGATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (16 bp):
GAAGAGATGATGGTTG
Found at i:10333126 original size:14 final size:14
Alignment explanation
Indices: 10333107--10333137 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10333097 ATGTTCACCA
10333107 CCACTTAAAGCTTG
1 CCACTTAAAGCTTG
10333121 CCACTTAAAGCTTG
1 CCACTTAAAGCTTG
10333135 CCA
1 CCA
10333138 AAGTGCCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (14 bp):
CCACTTAAAGCTTG
Found at i:10336244 original size:25 final size:24
Alignment explanation
Indices: 10336215--10336271 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
10336205 TCAACCCCCG
* **
10336215 TCTTCGTCTCCACCCCTCATTTTCA
1 TCTTCATCTCCA-CCCTCACCTTCA
*
10336240 TCTTCATCTCGACCCTCACCTTCA
1 TCTTCATCTCCACCCTCACCTTCA
10336264 TCTTCATC
1 TCTTCATC
10336272 CCTTCCCCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.14, C:0.44, G:0.04, T:0.39
Consensus pattern (24 bp):
TCTTCATCTCCACCCTCACCTTCA
Found at i:10336973 original size:20 final size:18
Alignment explanation
Indices: 10336926--10337032 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
10336916 CAAGATAAAC
10336926 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10336943 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
**
10336963 ATTAAATTAATAAAATAAT
1 ATTAAATTAAT-ATTTAAT
*
10336982 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* * *
10337001 -TTAATTTAATAATAAACT
1 ATTAAATTAATATTTAA-T
*
10337019 ATTAAAATAATATT
1 ATTAAATTAATATT
10337033 ATTTTTGGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 14 0.20
18 9 0.13
19 28 0.41
20 18 0.26
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10337022 original size:37 final size:37
Alignment explanation
Indices: 10336939--10337033 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 37
10336929 AAATTAAATT
*
10336939 TAATATTAAGATAATCACTTTAATATTAAATTAATAAAA
1 TAATATTAAGATAAT-A-TTAAATATTAAATTAATAAAA
*
10336978 TAATATTAAGATAAGTATTAAAT-TTAATTTAATAATAA
1 TAATATTAAGATAA-TATTAAATATTAAATTAATAA-AA
* *
10337016 -ACTATTAAAATAATATTA
1 TAATATTAAGATAATATTA
10337034 TTTTTGGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
36 5 0.10
37 22 0.44
38 7 0.14
39 15 0.30
40 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
TAATATTAAGATAATATTAAATATTAAATTAATAAAA
Found at i:10341700 original size:49 final size:49
Alignment explanation
Indices: 10341636--10341729 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
10341626 TGCTATGCAA
* * *
10341636 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCATTATTTATAGAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATAGAT
*
10341685 TGCTAAAATTAGTCTTCCACTGTCTACATTCTTATCACTATTTAT
1 TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
10341730 CCCTTCTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.44
Consensus pattern (49 bp):
TGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATAGAT
Found at i:10346746 original size:19 final size:20
Alignment explanation
Indices: 10346711--10346750 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
10346701 AGCATTCCAT
*
10346711 AACTCAGGATAACATAAAAA
1 AACTCAGGATAAAATAAAAA
10346731 AACTCA-GATAAAATAAAAA
1 AACTCAGGATAAAATAAAAA
10346750 A
1 A
10346751 TCATACTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (20 bp):
AACTCAGGATAAAATAAAAA
Found at i:10360501 original size:39 final size:41
Alignment explanation
Indices: 10360365--10360489 Score: 125
Period size: 40 Copynumber: 3.1 Consensus size: 41
10360355 CGTTGAATAA
* * *
10360365 AAAACGCCGCTAAAAATCAAGCATTAG-TG-GCGCTTTTCA-
1 AAAACGCCGCTAAAAAT-GAGCATTAGCAGCGCGCTTTTTAG
* * *
10360404 AAAATCGCCGCTAAAGATCCAGCATTAGCAGCGCGCTTTTTGG
1 AAAA-CGCCGCTAAAAAT-GAGCATTAGCAGCGCGCTTTTTAG
*
10360447 AAAACGCCGCTAAAAATGAGCATTAGC-G-GCGTTTTTTAG
1 AAAACGCCGCTAAAAATGAGCATTAGCAGCGCGCTTTTTAG
10360486 AAAA
1 AAAA
10360490 GTGCCGCAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 17 0.23
40 22 0.30
41 10 0.14
42 20 0.27
43 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATGAGCATTAGCAGCGCGCTTTTTAG
Found at i:10360693 original size:41 final size:42
Alignment explanation
Indices: 10360541--10360814 Score: 385
Period size: 41 Copynumber: 6.6 Consensus size: 42
10360531 CTTTCGAGAA
* *
10360541 TTTAGCGGTG-TTTTTGGAAAAGCGCCGCTAATGCTCAGACC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
* * *
10360582 CTTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGCTCAGACC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
* *
10360624 TTTAGCGGCGTTTTTTGGAGAAGCGCCGCTAATGCTCAGACC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
* *
10360666 TTTAGCGGC-ATTTTTGAAAAAGTGCCGCTAATGCTCAGACC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
* * * *
10360707 TTTAGCGGTG-TTTTTAAAAAAGCGCCGCTAATGCTTAGAGC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
* *
10360748 TTTAGCGGCTTTTTTTG-AAAAGCGTCGCTAATGCTCAGACC
1 TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
10360789 TTTAGCGGCGTTTTTTGAAAAAGCGC
1 TTTAGCGGCGTTTTTTGAAAAAGCGC
10360815 TGCAAAAACA
Statistics
Matches: 208, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
41 116 0.56
42 92 0.44
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCAGACC
Found at i:10361032 original size:14 final size:15
Alignment explanation
Indices: 10361004--10361036 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
10360994 AAGGTTTATA
10361004 GATTATGGAATTAGG
1 GATTATGGAATTAGG
10361019 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
10361033 GATT
1 GATT
10361037 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:10363956 original size:43 final size:43
Alignment explanation
Indices: 10363895--10364284 Score: 629
Period size: 43 Copynumber: 9.1 Consensus size: 43
10363885 AATTCATGTT
*
10363895 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10363938 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
10363981 TTTAGCGGCGTTTGTGGGAAATGCGCTGCTAAAGTTCTTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10364024 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
10364067 TTTAGCGGCGTTTGTGGGAAATGCGCCGCTAAAGTTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10364110 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
10364153 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCCTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
10364196 TTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGTC-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
10364238 TTTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
10364281 TTTA
1 TTTA
10364285 AAAAACGCCG
Statistics
Matches: 318, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 38 0.12
43 280 0.88
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:10364825 original size:12 final size:12
Alignment explanation
Indices: 10364808--10364832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10364798 TTAGGACTTG
10364808 AATGATGTTGAT
1 AATGATGTTGAT
10364820 AATGATGTTGAT
1 AATGATGTTGAT
10364832 A
1 A
10364833 TTGTGAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATGATGTTGAT
Found at i:10365469 original size:5 final size:5
Alignment explanation
Indices: 10365459--10365483 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10365449 TATTTTTAGC
10365459 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
10365484 ATCCTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:10366989 original size:17 final size:16
Alignment explanation
Indices: 10366962--10366993 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10366952 TGATAGATCT
10366962 TCGATGAGCTTCCAAA
1 TCGATGAGCTTCCAAA
10366978 TCGATCGAGCTTCCAA
1 TCGAT-GAGCTTCCAA
10366994 TTATCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (16 bp):
TCGATGAGCTTCCAAA
Found at i:10369594 original size:18 final size:20
Alignment explanation
Indices: 10369565--10369602 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10369555 TTTTTAGTTT
10369565 TGTTTTTAGTAATT-TTTTA
1 TGTTTTTAGTAATTGTTTTA
10369584 TGTTTTT-GTAATTGTTTTA
1 TGTTTTTAGTAATTGTTTTA
10369603 GCTTAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.68
Consensus pattern (20 bp):
TGTTTTTAGTAATTGTTTTA
Found at i:10371413 original size:21 final size:21
Alignment explanation
Indices: 10371387--10371432 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10371377 AACACGGGCT
* * *
10371387 TGTGGAGTGGCCATACGAGCA
1 TGTGGAATAGCCATACGACCA
10371408 TGTGGAATAGCCATACGACCA
1 TGTGGAATAGCCATACGACCA
10371429 TGTG
1 TGTG
10371433 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (21 bp):
TGTGGAATAGCCATACGACCA
Found at i:10371664 original size:20 final size:19
Alignment explanation
Indices: 10371619--10371665 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
10371609 GTGACCCCTG
*
10371619 TTTTCAAAATTTTCAAGTT
1 TTTTCAAAATTATCAAGTT
* *
10371638 TTTTCAAAATTATCTATTT
1 TTTTCAAAATTATCAAGTT
10371657 TGTTTCAAA
1 T-TTTCAAA
10371666 TTGATCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTCAAAATTATCAAGTT
Found at i:10375564 original size:34 final size:33
Alignment explanation
Indices: 10375526--10375624 Score: 79
Period size: 34 Copynumber: 3.2 Consensus size: 33
10375516 TGTTGAAATG
10375526 GACTATGCATGATATATGGCTAAATTAATAATTT
1 GACTATG-ATGATATATGGCTAAATTAATAATTT
* * * *
10375560 GAC--T-A-G-TA-ATGG-TACATT-TTGAAATG
1 GACTATGATGATATATGGCTAAATTAAT-AATTT
10375586 GACTATGTATGATATATGGCTAAATTAATAATTT
1 GACTATG-ATGATATATGGCTAAATTAATAATTT
10375620 GACTA
1 GACTA
10375625 GTAATGGTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 20
0.63 0.11 0.27
Matches are distributed among these distances:
25 1 0.02
26 11 0.23
27 4 0.09
28 3 0.06
29 1 0.02
30 2 0.04
31 1 0.02
32 3 0.06
33 4 0.09
34 16 0.34
35 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (33 bp):
GACTATGATGATATATGGCTAAATTAATAATTT
Found at i:10375585 original size:60 final size:60
Alignment explanation
Indices: 10375518--10375639 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
10375508 TATAAATATG
10375518 TTGAAATGGACTATGCATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
1 TTGAAATGGACTATGCATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
*
10375578 TTGAAATGGACTATGTATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
1 TTGAAATGGACTATGCATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
10375638 TT
1 TT
10375640 CGCTGTTAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (60 bp):
TTGAAATGGACTATGCATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
Found at i:10382416 original size:20 final size:20
Alignment explanation
Indices: 10382386--10382423 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10382376 TAAGAATGAC
10382386 ATTTGAATTTGATTATTTGTT
1 ATTTGAATTTGA-TATTTGTT
10382407 ATTT-AATTTGATATTTG
1 ATTTGAATTTGATATTTG
10382424 AATGGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTGAATTTGATATTTGTT
Found at i:10383774 original size:39 final size:38
Alignment explanation
Indices: 10383723--10383798 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 38
10383713 AGGGGTATTG
* *
10383723 TTATTTATATATATAATATATATATGCATGCATGGGTC
1 TTATATATATATATAATATATATATACATGCATGGGTC
* *
10383761 TTATATATAATATATAATATATATTTACGTGCATGGGT
1 TTATATAT-ATATATAATATATATATACATGCATGGGT
10383799 GGTATATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.45
Consensus pattern (38 bp):
TTATATATATATATAATATATATATACATGCATGGGTC
Found at i:10383805 original size:39 final size:39
Alignment explanation
Indices: 10383731--10383815 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
10383721 TGTTATTTAT
* *
10383731 ATATATAATATATATATGCATGCATGGGTCTTATATATA
1 ATATATAATATATATATACATGCATGGGTCGTATATATA
* * * *
10383770 ATATATAATATATATTTACGTGCATGGGTGGTATATGTA
1 ATATATAATATATATATACATGCATGGGTCGTATATATA
*
10383809 AAATATA
1 ATATATA
10383816 TTTGTGTGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (39 bp):
ATATATAATATATATATACATGCATGGGTCGTATATATA
Found at i:10390584 original size:30 final size:32
Alignment explanation
Indices: 10390550--10390628 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 32
10390540 GTTTTGTTAT
*
10390550 TTATATATAATATATA-TGCA-TGCATGGGTG
1 TTATATATAATATATATTGAAGTGCATGGGTG
* *
10390580 TTATATATAGTATATATTTAAGTGCATGGGTG
1 TTATATATAATATATATTGAAGTGCATGGGTG
10390612 TTATATGTATAATATAT
1 TTATA--TATAATATAT
10390629 TTGCGTGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.37
31 2 0.05
32 15 0.37
34 9 0.22
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (32 bp):
TTATATATAATATATATTGAAGTGCATGGGTG
Found at i:10390595 original size:32 final size:30
Alignment explanation
Indices: 10390550--10390629 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 30
10390540 GTTTTGTTAT
*
10390550 TTATATATAATATATATGCA-TGCATGGGTG
1 TTATATATAATATAT-TGAAGTGCATGGGTG
*
10390580 TTATATATAGTATATATTTAAGTGCATGGGTG
1 TTATATATA--ATATATTGAAGTGCATGGGTG
10390612 TTATATGTATAATATATT
1 TTATA--TATAATATATT
10390630 TGCGTGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 9 0.21
31 2 0.05
32 28 0.65
34 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (30 bp):
TTATATATAATATATTGAAGTGCATGGGTG
Found at i:10390630 original size:32 final size:32
Alignment explanation
Indices: 10390570--10390630 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
10390560 TATATATGCA
10390570 TGCATGGGTGTTATATATAGTATATATTTAAG
1 TGCATGGGTGTTATATATAGTATATATTTAAG
*
10390602 TGCATGGGTGTTATATGTA-TAATATATTT
1 TGCATGGGTGTTATATATAGT-ATATATTT
10390631 GCGTGGGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (32 bp):
TGCATGGGTGTTATATATAGTATATATTTAAG
Found at i:10393408 original size:25 final size:24
Alignment explanation
Indices: 10393364--10393412 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10393354 TTTCATCTTA
* *
10393364 TTTTTGTTATTATTATTTTTCTTTC
1 TTTTTGTAATTATTACTTTT-TTTC
*
10393389 TTTTTGTAATTATTCCTTTTTTTC
1 TTTTTGTAATTATTACTTTTTTTC
10393413 CGGGAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTTGTAATTATTACTTTTTTTC
Found at i:10400318 original size:21 final size:21
Alignment explanation
Indices: 10400292--10400346 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
10400282 AGAATCTCGT
*
10400292 TGTTTTGCTATTGTTTTTCCA
1 TGTTTTGCTACTGTTTTTCCA
*
10400313 TGTTTTGTTACTGTTTTTCCA
1 TGTTTTGCTACTGTTTTTCCA
*
10400334 CT-TTTTTCTACTG
1 -TGTTTTGCTACTG
10400347 CTATGCTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.09, C:0.16, G:0.13, T:0.62
Consensus pattern (21 bp):
TGTTTTGCTACTGTTTTTCCA
Found at i:10400987 original size:31 final size:30
Alignment explanation
Indices: 10400945--10401044 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 30
10400935 GATGAGTCAG
*
10400945 TTTACACTTTGGTCACTCTTGTATTAGTAAA
1 TTTACAATTTGGTCA-TCTTGTATTAGTAAA
**
10400976 TTTACAATTTGGTCAAT-TAAATATTAGTAAA
1 TTTACAATTTGGTC-ATCT-TGTATTAGTAAA
* * *
10401007 ATTATAATTTGGTCA-CTTGACTATTAGCAAA
1 TTTACAATTTGGTCATCTTG--TATTAGTAAA
10401038 TTTACAA
1 TTTACAA
10401045 GTCATTCTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
30 3 0.06
31 50 0.93
32 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (30 bp):
TTTACAATTTGGTCATCTTGTATTAGTAAA
Found at i:10401559 original size:25 final size:26
Alignment explanation
Indices: 10401509--10401560 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10401499 ATAAATGAGG
* *
10401509 TTTAACCCTACTTTAAAAAAATAAAT
1 TTTAACCATAATTTAAAAAAATAAAT
10401535 TTTAACCATAATTTAAAAAAA-AAAT
1 TTTAACCATAATTTAAAAAAATAAAT
10401560 T
1 T
10401561 CTTTTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTAACCATAATTTAAAAAAATAAAT
Found at i:10405851 original size:243 final size:243
Alignment explanation
Indices: 10405525--10405993 Score: 807
Period size: 243 Copynumber: 1.9 Consensus size: 243
10405515 TGAAGTCGTG
* * * *
10405525 ACACTAAGCATGTTATGTCATGACACCGATCCTCAAAGTCACAACTACAAACCCTTGAGGTCGTA
1 ACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAACCCTCGAGGTAGCA
10405590 AATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGGTTACAACACCAAC
66 AATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGGTTACAACACCAAC
* *
10405655 AAGGTTGTGTCGCGACACCAAGTGCCCCTAAGTCAA-ACTCGTGCCCACTTTCA-AGAGTGTCAC
131 AAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGA-TCGTGCCCACTTTCACA-AATGTCAC
*
10405718 GACACTAAAGCTTGGGTGTTGCGACTTTGAAGTCAGCCGTTGAAGTCACA
194 GACACTAAAGCTTGGGTGTTGCGACTTTAAAGTCAGCCGTTGAAGTCACA
10405768 ACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAACCCTCGAGGTAGCA
1 ACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAACCCTCGAGGTAGCA
* *
10405833 AATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATTGAGGTTACAACACCAGC
66 AATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGGTTACAACACCAAC
*
10405898 AAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGATCGTGCGCACTTTCACAAATGTCACGA
131 AAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGATCGTGCCCACTTTCACAAATGTCACGA
*
10405963 CACTAAAGCTTGGGTGTTGTGACTTTAAAGT
196 CACTAAAGCTTGGGTGTTGCGACTTTAAAGT
10405994 TTGGCAGGTG
Statistics
Matches: 213, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
243 211 0.99
244 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (243 bp):
ACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAACCCTCGAGGTAGCA
AATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGGTTACAACACCAAC
AAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGATCGTGCCCACTTTCACAAATGTCACGA
CACTAAAGCTTGGGTGTTGCGACTTTAAAGTCAGCCGTTGAAGTCACA
Found at i:10407333 original size:3 final size:3
Alignment explanation
Indices: 10407327--10407367 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10407317 TATTATGTGC
10407327 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10407368 GATTTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10407484 original size:13 final size:15
Alignment explanation
Indices: 10407451--10407484 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10407441 TATACCTGAC
10407451 ATATAATTTATTTAAT
1 ATATAATTTATTT-AT
*
10407467 ATATAATTTTTTTAT
1 ATATAATTTATTTAT
10407482 ATA
1 ATA
10407485 CGCATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATAATTTATTTAT
Found at i:10409892 original size:17 final size:17
Alignment explanation
Indices: 10409865--10409910 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
10409855 AAAGTTTAGG
10409865 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
10409883 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
10409898 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
10409911 TAGAGGGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:10409964 original size:17 final size:17
Alignment explanation
Indices: 10409942--10409975 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10409932 GGGAAAATAT
*
10409942 TAAAAAAATTTGGAGGG
1 TAAAAAAAATTGGAGGG
10409959 TAAAAAAAATTGGAGGG
1 TAAAAAAAATTGGAGGG
10409976 GGGAGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (17 bp):
TAAAAAAAATTGGAGGG
Found at i:10410295 original size:9 final size:9
Alignment explanation
Indices: 10410281--10410317 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10410271 TATATTTTGA
10410281 TATTCGAAT
1 TATTCGAAT
10410290 TATTCGAAT
1 TATTCGAAT
*
10410299 TATTCGAGT
1 TATTCGAAT
10410308 TATTCGAAT
1 TATTCGAAT
10410317 T
1 T
10410318 CGAAATCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:10419158 original size:10 final size:10
Alignment explanation
Indices: 10419143--10419174 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
10419133 GCAATATCAT
10419143 ATTAATTTTA
1 ATTAATTTTA
10419153 ATTAATTTT-
1 ATTAATTTTA
10419162 ATTAA-TTTA
1 ATTAATTTTA
10419171 ATTA
1 ATTA
10419175 TACTTGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 9 0.43
10 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTAATTTTA
Found at i:10420084 original size:24 final size:24
Alignment explanation
Indices: 10420052--10420104 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10420042 AATGTATCAT
* *
10420052 TCTACCAATGAATACATTTATGTC
1 TCTACCAATGAATACATCTATATC
10420076 TCTACCAATGAATACATCTATATC
1 TCTACCAATGAATACATCTATATC
10420100 TCTAC
1 TCTAC
10420105 TCGTGGATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (24 bp):
TCTACCAATGAATACATCTATATC
Found at i:10420409 original size:4 final size:4
Alignment explanation
Indices: 10420400--10420425 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10420390 GTGAAATTAA
10420400 ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT
10420426 CGTTCAAATA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:10427719 original size:22 final size:22
Alignment explanation
Indices: 10427687--10427750 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
10427677 TGCACTAATG
10427687 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * *
10427709 TACAGATAGCAC-AAATGTGCTA
1 AACAGAGAGCACTGAA-GTGCTA
*
10427731 AACAGAGAGCACTGACGTGC
1 AACAGAGAGCACTGAAGTGC
10427751 CTGAGCACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:10427792 original size:25 final size:25
Alignment explanation
Indices: 10427753--10427931 Score: 250
Period size: 25 Copynumber: 7.2 Consensus size: 25
10427743 TGACGTGCCT
*
10427753 GAGCACTAACATGCTAATAATCAGA
1 GAGCACTAACGTGCTAATAATCAGA
*
10427778 GAGCACCAACGTGCTAATAATCAGA
1 GAGCACTAACGTGCTAATAATCAGA
*
10427803 GAGCACCAACGTGCTAATAATCAGA
1 GAGCACTAACGTGCTAATAATCAGA
* * *
10427828 GAGCACTGATGTGCTAATAATTAGA
1 GAGCACTAACGTGCTAATAATCAGA
* *
10427853 AAGCACTAATGTGCTAATAATCAGA
1 GAGCACTAACGTGCTAATAATCAGA
* *
10427878 GAGCACTGACGTGCTAATAATCGGA
1 GAGCACTAACGTGCTAATAATCAGA
* *
10427903 GAGCACTGATGTGCTAATAATCAGA
1 GAGCACTAACGTGCTAATAATCAGA
10427928 GAGC
1 GAGC
10427932 GCGCTAAAGT
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 139 1.00
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.21
Consensus pattern (25 bp):
GAGCACTAACGTGCTAATAATCAGA
Found at i:10428943 original size:5 final size:5
Alignment explanation
Indices: 10428935--10428959 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10428925 TTCTTTTATT
10428935 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
10428960 TACTTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:10429793 original size:16 final size:17
Alignment explanation
Indices: 10429752--10429798 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
10429742 TAGAATTATT
10429752 AAATACTAAAT-TAAAAA
1 AAATA-TAAATATAAAAA
*
10429769 TAATATAAATATAAAAA
1 AAATATAAATATAAAAA
*
10429786 AAAT-TAAAAATAA
1 AAATATAAATATAA
10429799 TATGAGTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATATAAATATAAAAA
Found at i:10430336 original size:19 final size:19
Alignment explanation
Indices: 10430278--10430338 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
10430268 AAGTTATAAA
10430278 AAAATTTTAAAAAAATTCT
1 AAAATTTTAAAAAAATTCT
*
10430297 -AAATATATAAAAAAATT-T
1 AAAAT-TTTAAAAAAATTCT
**
10430315 AAAATTTTAAAAATGTTCT
1 AAAATTTTAAAAAAATTCT
10430334 AAAAT
1 AAAAT
10430339 AATATTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATTTTAAAAAAATTCT
Found at i:10431296 original size:3 final size:3
Alignment explanation
Indices: 10431288--10431319 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10431278 ATTTTAAATA
10431288 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10431320 AAGCAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10452402 original size:71 final size:71
Alignment explanation
Indices: 10452325--10452540 Score: 184
Period size: 71 Copynumber: 3.1 Consensus size: 71
10452315 TATACAATTA
*
10452325 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTACATG
1 ATATTTTGTATGAATCAAATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTACATG
10452390 TCTATT
66 TCTATT
** * * * * * * *
10452396 ATATTTTG-A-CCA--AAATTAAT-TAATATAACTGT-TTATATT--AATA-AAT-TTGA-TAAA
1 ATATTTTGTATGAATCAAATTAATAT-AT-TAATTATATTCT-TTCCAAAAGAATATTAATTTAC
* *
10452450 ATATATAAAATT
63 ATGTCT---ATT
*
10452462 ATATTTTGTATGAATCAAATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTACATG
1 ATATTTTGTATGAATCAAATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTACATG
10452527 TCTATT
66 TCTATT
10452533 ATATTTTG
1 ATATTTTG
10452541 ACCAAAATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 34
0.64 0.15 0.21
Matches are distributed among these distances:
63 6 0.06
64 3 0.03
65 3 0.03
66 15 0.14
67 13 0.12
68 8 0.08
69 8 0.08
70 13 0.12
71 23 0.22
72 3 0.03
73 3 0.03
74 6 0.06
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (71 bp):
ATATTTTGTATGAATCAAATTAATATATTAATTATATTCTTTCCAAAAGAATATTAATTTACATG
TCTATT
Found at i:10452528 original size:137 final size:137
Alignment explanation
Indices: 10452216--10452632 Score: 719
Period size: 137 Copynumber: 3.0 Consensus size: 137
10452206 TAGAAAAAAG
* * * *
10452216 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTAT-TGTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTAT-TATATTTTGACCAAAATTAATTA
*
10452280 ATATAACGGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATT-ATATTTTGTATGAATCAAAT
10452345 TCATATATT
129 TCATATATT
10452354 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTATTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTATTATATTTTGACCAAAATTAATTAA
* * *
10452419 TATAACTGTTTATATTAATAAATTTGATAAAATATATAAAATTATATTTTGTATGAATCAAATTT
66 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTATATTTTGTATGAATCAAATTC
10452484 ATATATT
131 ATATATT
10452491 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTATTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTATTATATTTTGACCAAAATTAATTAA
*
10452556 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAGTATTTTGTATGAATCAAATA
66 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTA-TATTTTGTATGAATCAAATT
10452621 CATATATT
130 CATATATT
10452629 AATT
1 AATT
10452633 TTATCTATGT
Statistics
Matches: 265, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
137 135 0.51
138 129 0.49
139 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTATTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTATATTTTGTATGAATCAAATTC
ATATATT
Found at i:10455105 original size:3 final size:3
Alignment explanation
Indices: 10455097--10455145 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
10455087 ATGAATTAAA
* *
10455097 TAT TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
10455141 TAT TA
1 TAT TA
10455146 ACTAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:10455116 original size:13 final size:13
Alignment explanation
Indices: 10455100--10455145 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
10455090 AATTAAATAT
10455100 TATTATTATATTA
1 TATTATTATATTA
* *
10455113 TATTATTATAATG
1 TATTATTATATTA
*
10455126 TATTATTAT-TAA
1 TATTATTATATTA
10455138 TATTATTA
1 TATTATTA
10455146 ACTAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:10455117 original size:16 final size:16
Alignment explanation
Indices: 10455096--10455143 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
10455086 TATGAATTAA
10455096 ATATTATTATTATATT
1 ATATTATTATTATATT
10455112 ATATTATTA-TA-A-T
1 ATATTATTATTATATT
*
10455125 GTATTATTATTAATATT
1 ATATTATTATT-ATATT
10455142 AT
1 AT
10455144 TAACTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 3 0.12
16 10 0.38
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTATTATTATATT
Found at i:10455618 original size:17 final size:18
Alignment explanation
Indices: 10455596--10455629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10455586 TAAATGAGTT
10455596 AATTA-GGATTAAATTGG
1 AATTAGGGATTAAATTGG
*
10455613 AATTAGGGTTTAAATTG
1 AATTAGGGATTAAATTG
10455630 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
AATTAGGGATTAAATTGG
Found at i:10458890 original size:7 final size:7
Alignment explanation
Indices: 10458878--10458912 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
10458868 TGAGGACCAA
10458878 TTGAAGC
1 TTGAAGC
10458885 TTGAAGC
1 TTGAAGC
10458892 TTGAAGC
1 TTGAAGC
*
10458899 TTGAAGG
1 TTGAAGC
10458906 TTGAAGC
1 TTGAAGC
10458913 GATAAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (7 bp):
TTGAAGC
Found at i:10470559 original size:2 final size:2
Alignment explanation
Indices: 10470552--10470576 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10470542 ATTGTAGAAT
10470552 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10470577 TAAAANNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10472406 original size:22 final size:22
Alignment explanation
Indices: 10472368--10472409 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10472358 GGAAGAATAA
*
10472368 AAAAATAGTAATAAAGAAATCG
1 AAAAATAGTAAAAAAGAAATCG
10472390 AAAAA-AGTAAAAGAAGAAAT
1 AAAAATAGTAAAA-AAGAAAT
10472410 TTGAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATAGTAAAAAAGAAATCG
Found at i:10486445 original size:45 final size:44
Alignment explanation
Indices: 10486382--10486608 Score: 201
Period size: 45 Copynumber: 5.1 Consensus size: 44
10486372 GGGACAGACT
*
10486382 GAAGATAG-AGATCTTGTCTTCCTGTATTGGCAGAAAAGTAGATC
1 GAAGATAGCAG-TATTGTCTTCCTGTATTGGCAGAAAAGTAGATC
* * *
10486426 GAAGATGGCAAGTATTGTCTTTCTGTATTGGCAGTGAAA-TAGATC
1 GAAGATAGC-AGTATTGTCTTCCTGTATTGGCAG-AAAAGTAGATC
* * *
10486471 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCA-ACGAAGTAGATC
1 GAAGATAGCAG-TATTGTCTTCCTGTATTGGCAGA-AAAGTAGATC
* * *
10486516 GAAGATAGCAG-ACCTTGTATTCCTGTATTGGCAGCAAAGTACATC
1 GAAGATAGCAGTA--TTGTCTTCCTGTATTGGCAGAAAAGTAGATC
* * * * ** *
10486561 GAAGATAGCAGATCTTATCTTTCTGTACTGGCAGTGAAGAAGATC
1 GAAGATAGCAG-TATTGTCTTCCTGTATTGGCAGAAAAGTAGATC
10486606 GAA
1 GAA
10486609 AACACCAGTC
Statistics
Matches: 147, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.07
45 131 0.89
46 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
GAAGATAGCAGTATTGTCTTCCTGTATTGGCAGAAAAGTAGATC
Found at i:10486502 original size:90 final size:88
Alignment explanation
Indices: 10486382--10486608 Score: 271
Period size: 90 Copynumber: 2.5 Consensus size: 88
10486372 GGGACAGACT
* * *
10486382 GAAGATAGAGATCTTGTCTTCCTGTATTGGCAGAAAAGTAGATCGAAGATGGCAAGTA-TTGTCT
1 GAAGATAGAGATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCGAAGATAGC-AG-ACTTGTAT
* * *
10486446 TTCTGTATTGGCAGTGAAA-TAGATC
64 TCCTGTATTGGCAG-CAAAGTACATC
10486471 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCA-ACGAAGTAGATCGAAGATAGCAGACCTTGTA
1 GAAGATAG-AGATCTTGTCTTCCTGTATTGGCAGA-GAAGTAGATCGAAGATAGCAGA-CTTGTA
10486535 TTCCTGTATTGGCAGCAAAGTACATC
63 TTCCTGTATTGGCAGCAAAGTACATC
* * * * *
10486561 GAAGATAGCAGATCTTATCTTTCTGTACTGGCAGTGAAGAAGATCGAA
1 GAAGATAG-AGATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCGAA
10486609 AACACCAGTC
Statistics
Matches: 120, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
88 1 0.01
89 14 0.12
90 105 0.88
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (88 bp):
GAAGATAGAGATCTTGTCTTCCTGTATTGGCAGAGAAGTAGATCGAAGATAGCAGACTTGTATTC
CTGTATTGGCAGCAAAGTACATC
Found at i:10487291 original size:21 final size:21
Alignment explanation
Indices: 10487265--10487326 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
10487255 CAGCGCCGCA
10487265 TCACCACGCGTCCCCTCCACG
1 TCACCACGCGTCCCCTCCACG
*
10487286 TCACCACGCG---CC-GCA--
1 TCACCACGCGTCCCCTCCACG
*
10487301 TCACCAAGCGTCCCCTCCACG
1 TCACCACGCGTCCCCTCCACG
10487322 TCACC
1 TCACC
10487327 GTGCCTCCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
15 9 0.28
17 2 0.06
18 4 0.12
19 2 0.06
21 15 0.47
ACGTcount: A:0.18, C:0.55, G:0.15, T:0.13
Consensus pattern (21 bp):
TCACCACGCGTCCCCTCCACG
Found at i:10487304 original size:36 final size:36
Alignment explanation
Indices: 10487257--10487326 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
10487247 ACAACCTTCA
*
10487257 GCGCCGCATCACCACGCGTCCCCTCCACGTCACCAC
1 GCGCCGCATCACCAAGCGTCCCCTCCACGTCACCAC
10487293 GCGCCGCATCACCAAGCGTCCCCTCCACGTCACC
1 GCGCCGCATCACCAAGCGTCCCCTCCACGTCACC
10487327 GTGCCTCCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.17, C:0.54, G:0.17, T:0.11
Consensus pattern (36 bp):
GCGCCGCATCACCAAGCGTCCCCTCCACGTCACCAC
Found at i:10487421 original size:15 final size:16
Alignment explanation
Indices: 10487401--10487433 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10487391 ACAGATTGTA
10487401 TTATTTTA-TTTTATT
1 TTATTTTATTTTTATT
10487416 TTATTTTATTTTTATT
1 TTATTTTATTTTTATT
10487432 TT
1 TT
10487434 GAATAGGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTATTTTATTTTTATT
Found at i:10487430 original size:6 final size:5
Alignment explanation
Indices: 10487401--10487433 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
10487391 ACAGATTGTA
10487401 TTATT TTATT TTATT TTATT TTATTT TTATT TT
1 TTATT TTATT TTATT TTATT TTA-TT TTATT TT
10487434 GAATAGGCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:10487576 original size:9 final size:10
Alignment explanation
Indices: 10487557--10487585 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
10487547 TTATAGTTTC
10487557 CTTTTTCTTT
1 CTTTTTCTTT
10487567 CTTTTT-TTT
1 CTTTTTCTTT
10487576 CTTTTTCTTT
1 CTTTTTCTTT
10487586 TTGATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:10490620 original size:25 final size:25
Alignment explanation
Indices: 10490555--10490623 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
10490545 TTTAGCTCTT
* *
10490555 ATGAGCTTCCCGA-TACTCAGCTCGC
1 ATGAGCTTCCC-ATTATTCAGCTCAC
*
10490580 ATGAGCTTCCCCTTATTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
10490605 ATGAGCTTCCCATTATTCA
1 ATGAGCTTCCCATTATTCA
10490624 ACTCGGAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Done.