Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 224 of 226
Found at i:69909513 original size:21 final size:21
Alignment explanation
Indices: 69909488--69909527 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
69909478 TCATAAAGCC
69909488 TATTTATA-TTTTAATTAATCA
1 TATTT-TAGTTTTAATTAATCA
69909509 TATTTTAGTTTTAATTAAT
1 TATTTTAGTTTTAATTAAT
69909528 TTTAATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTTTAGTTTTAATTAATCA
Found at i:69909536 original size:21 final size:21
Alignment explanation
Indices: 69909496--69909536 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
69909486 CCTATTTATA
*
69909496 TTTTAATTAATCATATTTTAG
1 TTTTAATTAATCATAATTTAG
**
69909517 TTTTAATTAATTTTAATTTA
1 TTTTAATTAATCATAATTTA
69909537 CTTAATTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:69910484 original size:36 final size:36
Alignment explanation
Indices: 69910443--69910524 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
69910433 AATTATAAAC
* * *
69910443 ACTGTCATATGACATGAATAACATACCCACATATTT
1 ACTGTCACATGACATGAAAAACACACCCACATATTT
* * *
69910479 ACTGTCACATGGCATGAAAAACACACCCTCATATTC
1 ACTGTCACATGACATGAAAAACACACCCACATATTT
*
69910515 ACTTTCACAT
1 ACTGTCACAT
69910525 CAGTCATCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.28
Consensus pattern (36 bp):
ACTGTCACATGACATGAAAAACACACCCACATATTT
Found at i:69916411 original size:72 final size:72
Alignment explanation
Indices: 69916309--69916451 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
69916299 ATTGAGAATG
*
69916309 GAATTTGTCCACTCAATTTGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAAT
1 GAATTTGTCCACTCAATTGGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAAT
69916374 GATCTTA
66 GATCTTA
* * *
69916381 GAATTTGTCCACTCAGTTGGTTCCAC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAA
1 GAATTTGTCCACTCAATTGGTTCC-CGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAA
69916445 TGATCTT
65 TGATCTT
69916452 GGAACCGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
72 65 0.98
73 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (72 bp):
GAATTTGTCCACTCAATTGGTTCCCGGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCAAT
GATCTTA
Found at i:69920811 original size:15 final size:15
Alignment explanation
Indices: 69920791--69920836 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
69920781 TTTCCTTTTA
69920791 TATATATAATAATTT
1 TATATATAATAATTT
*
69920806 TATATAATACT-ATTT
1 TATAT-ATAATAATTT
69920821 TATATATATATAATTT
1 TATATATA-ATAATTT
69920837 GTATTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.12
15 15 0.58
16 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATATAATAATTT
Found at i:69921244 original size:23 final size:22
Alignment explanation
Indices: 69921213--69921255 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
69921203 TAAATATGTA
*
69921213 TAAATCTAAAAATATCTTAAAAT
1 TAAAACTAAAAA-ATCTTAAAAT
*
69921236 TAAAACTAAAAAATTTTAAA
1 TAAAACTAAAAAATCTTAAA
69921256 CTAATGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAACTAAAAAATCTTAAAAT
Found at i:69929512 original size:72 final size:72
Alignment explanation
Indices: 69929427--69929788 Score: 609
Period size: 72 Copynumber: 5.0 Consensus size: 72
69929417 TTGACAATGA
69929427 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
69929492 ATCTTGG
66 ATCTTGG
* * * *
69929499 AATTGGTCCACTCAATTGGTTCTGCGACAAGTCTAAATTAGTGAGTTGCGAGAGTTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
69929564 ATCTTGG
66 ATCTTGG
*
69929571 AATTTGTCCACTCAATTGGTTCTGTGACAAGTCTAAATGAGTGAGTTGCAAG-GAGTTCCCCAAT
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAG-GTTCCCCAAT
69929635 GATCTTGG
65 GATCTTGG
* *
69929643 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCCAAATGAGTGAGTTGCAAAAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
69929708 ATCTTGG
66 ATCTTGG
* * * *
69929715 AATTTGTTCACTCAATTGGTTCTGTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCAGTG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
69929780 ATCTTGG
66 ATCTTGG
69929787 AA
1 AA
69929789 CCGGCCCTAA
Statistics
Matches: 270, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
71 1 0.00
72 268 0.99
73 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (72 bp):
AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
ATCTTGG
Found at i:69936310 original size:2 final size:2
Alignment explanation
Indices: 69936303--69936338 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
69936293 CTTTTAACCC
69936303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69936339 CTATGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69938197 original size:77 final size:77
Alignment explanation
Indices: 69938070--69938225 Score: 276
Period size: 77 Copynumber: 2.0 Consensus size: 77
69938060 TTTACGGACC
* * *
69938070 TTCAAGAGTCTCAATTTTTTTAGGAAAACGTTGGTTTGTCACATTTATTGATGATCATACTCGCA
1 TTCAAGAGTCTCAACTTTTTCAAGAAAACGTTGGTTTGTCACATTTATTGATGATCATACTCGCA
*
69938135 TTTGTTGGGTGT
66 TTTGTTGGGCGT
69938147 TTCAAGAGTCTCAACTTTTTCAAGAAAACGTTGGTTTGTCACATTTATTGATGATCATACTCGCA
1 TTCAAGAGTCTCAACTTTTTCAAGAAAACGTTGGTTTGTCACATTTATTGATGATCATACTCGCA
69938212 TTTGTTGGGCGT
66 TTTGTTGGGCGT
69938224 TT
1 TT
69938226 TTATTAAAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (77 bp):
TTCAAGAGTCTCAACTTTTTCAAGAAAACGTTGGTTTGTCACATTTATTGATGATCATACTCGCA
TTTGTTGGGCGT
Found at i:69940092 original size:13 final size:14
Alignment explanation
Indices: 69940074--69940111 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
69940064 TTAAAAATCA
69940074 ATAATAT-TTTTAT
1 ATAATATATTTTAT
69940087 ATAATACTATTTTAT
1 ATAATA-TATTTTAT
69940102 ATATATATAT
1 ATA-ATATAT
69940112 AATTTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 1 0.05
15 12 0.55
16 3 0.14
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAATATATTTTAT
Found at i:69940097 original size:16 final size:17
Alignment explanation
Indices: 69940073--69940106 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
69940063 TTTAAAAATC
69940073 AATAATATTTT-TATAT
1 AATAATATTTTATATAT
*
69940089 AATACTATTTTATATAT
1 AATAATATTTTATATAT
69940106 A
1 A
69940107 TATATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATATTTTATATAT
Found at i:69942734 original size:48 final size:49
Alignment explanation
Indices: 69942673--69942774 Score: 161
Period size: 48 Copynumber: 2.1 Consensus size: 49
69942663 ATAAAGCAAA
69942673 TGAAAAACAAGTAGAATTAAAGTGAATGAGTATTTAA-TAATTTTTTTG
1 TGAAAAACAAGTAGAATTAAAGTGAATGAGTATTTAATTAATTTTTTTG
* * **
69942721 TGAAAAACGAGTAGAATTAAAGTGAATGGGTATTTAATTTTTTTTTTTG
1 TGAAAAACAAGTAGAATTAAAGTGAATGAGTATTTAATTAATTTTTTTG
69942770 TGAAA
1 TGAAA
69942775 GTTCAAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 35 0.71
49 14 0.29
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (49 bp):
TGAAAAACAAGTAGAATTAAAGTGAATGAGTATTTAATTAATTTTTTTG
Found at i:69944651 original size:2 final size:2
Alignment explanation
Indices: 69944606--69944631 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69944596 TATGACTTAG
69944606 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
69944632 GGTCCCTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69951890 original size:72 final size:72
Alignment explanation
Indices: 69951786--69952313 Score: 867
Period size: 72 Copynumber: 7.3 Consensus size: 72
69951776 GAATTGACAA
*
69951786 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69951851 ATGATCT
66 ATGATCT
* * *
69951858 TGGAATTTGTCCACTCAATTGGTTCTGTGAGAAGTCTAAGTGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69951923 ATGATCT
66 ATGATCT
* * * *
69951930 TGGAATTTGTCCACTCAATTGGTTTTGTGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTGCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69951995 ATGATCT
66 ATGATCT
* *
69952002 TGAAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69952067 ATGATCT
66 ATGATCT
* * *
69952074 TAGAATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGTGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69952139 ATGATCT
66 ATGATCT
* **
69952146 TGGAATTTGTCCACTCAATTGATTCCCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69952211 ATGATCT
66 ATGATCT
** * * *
69952218 TGGAATTTGTCCACTCAATTGGTTCCCCGATAAGTCTAAATGAGTGAATTGCAAGAGATTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69952283 ATGATCT
66 ATGATCT
69952290 TGGAATTTGTCCACTCAATTGGTT
1 TGGAATTTGTCCACTCAATTGGTT
69952314 GTCTCCCAAG
Statistics
Matches: 428, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 428 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:69952242 original size:36 final size:36
Alignment explanation
Indices: 69952129--69952313 Score: 94
Period size: 36 Copynumber: 5.1 Consensus size: 36
69952119 GAGTTGCAAG
69952129 TGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
1 TGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
* * * ** * * *
69952165 TGATTCCCCGACAAG-TC-T-AAATGAGT-GAGTTGCAAG
1 TGGTTCCCC-A-ATGATCTTGGAATTTGTCCA-CT-CAAT
*
69952201 AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
1 TGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
* * * ** ** * *
69952237 TGGTTCCCCGATAAGTC-T-AAATGAGTGAATTGCAAG
1 TGGTTCCCCAATGA-TCTTGGAATTTGTCCACT-CAAT
* *
69952273 AGATTCCCCAATGATCTTGGAATTTGTCCACTCAAT
1 TGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
69952309 TGGTT
1 TGGTT
69952314 GTCTCCCAAG
Statistics
Matches: 97, Mismatches: 40, Indels: 24
0.60 0.25 0.15
Matches are distributed among these distances:
34 3 0.03
35 18 0.19
36 55 0.57
37 18 0.19
38 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (36 bp):
TGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
Found at i:69953423 original size:21 final size:21
Alignment explanation
Indices: 69953382--69953424 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
69953372 AATAATGTAG
*
69953382 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
69953403 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
69953424 A
1 A
69953425 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:69953747 original size:16 final size:16
Alignment explanation
Indices: 69953723--69953774 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
69953713 TAAATTATAG
* *
69953723 ATTATAGCTTTATTCC
1 ATTACAGCTCTATTCC
**
69953739 ATTACAGCTCTATTAA
1 ATTACAGCTCTATTCC
*
69953755 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
69953771 ATTA
1 ATTA
69953775 TAGTGAACCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:69956141 original size:24 final size:24
Alignment explanation
Indices: 69956103--69956239 Score: 131
Period size: 23 Copynumber: 5.8 Consensus size: 24
69956093 GAAAAATATG
*
69956103 ATAAA-TTTAAGTAATGAA-ACATA
1 ATAAATTTTAAATAAT-AATACATA
69956126 ATAAATTTTAAATAATAATACATA
1 ATAAATTTTAAATAATAATACATA
*
69956150 ATGAATTTTAAAGTAATAATACATA
1 ATAAATTTTAAA-TAATAATACATA
* * * *
69956175 ATAAATCTAAAAT-GTAATACATG
1 ATAAATTTTAAATAATAATACATA
* * *
69956198 ATAAA-TTTATATAATATTA-ATG
1 ATAAATTTTAAATAATAATACATA
*
69956220 ATAAATTTAAAATAATAATA
1 ATAAATTTTAAATAATAATA
69956240 TCTTGTAAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
22 12 0.13
23 35 0.37
24 26 0.28
25 21 0.22
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (24 bp):
ATAAATTTTAAATAATAATACATA
Found at i:69956174 original size:49 final size:48
Alignment explanation
Indices: 69956103--69956239 Score: 149
Period size: 49 Copynumber: 2.9 Consensus size: 48
69956093 GAAAAATATG
*
69956103 ATAAATTT-AAGTAATGAA-ACATAATAAATTTTAAATAATAATACATA
1 ATAAATTTAAAGTAAT-AATACATAATAAATTTAAAATAATAATACATA
* * * *
69956150 ATGAATTTTAAAGTAATAATACATAATAAATCTAAAAT-GTAATACATG
1 AT-AAATTTAAAGTAATAATACATAATAAATTTAAAATAATAATACATA
* * *
69956198 ATAAATTTATA-TAATATTA-ATGATAAATTTAAAATAATAATA
1 ATAAATTTAAAGTAATAATACATAATAAATTTAAAATAATAATA
69956240 TCTTGTAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
45 14 0.19
46 12 0.16
47 9 0.12
48 17 0.23
49 23 0.31
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (48 bp):
ATAAATTTAAAGTAATAATACATAATAAATTTAAAATAATAATACATA
Found at i:69956343 original size:24 final size:24
Alignment explanation
Indices: 69956135--69956342 Score: 80
Period size: 24 Copynumber: 8.8 Consensus size: 24
69956125 AATAAATTTT
* **
69956135 AAATAATAATACATAATGAATTTTA
1 AAATAATAATACAT-ATAAAACTTA
* *
69956160 AAGTAATAATACATAATAAATC-TA
1 AAATAATAATACAT-ATAAAACTTA
* *
69956184 AAAT-GTAATACATGAT-AAA-TTT
1 AAATAATAATACAT-ATAAAACTTA
* * *
69956206 ATATAATATTA-ATGAT-AAATTTA
1 AAATAATAATACAT-ATAAAACTTA
* * *
69956229 AAATAATAATATCTTGTAAAAAATTA
1 AAATAATAATA-CATAT-AAAACTTA
* * *
69956255 AAA-AAAAATAC--ATGAAACTTG
1 AAATAATAATACATATAAAACTTA
* * *
69956276 AAAT-ATCAATTCATGA-AAGATTTA
1 AAATAAT-AATACAT-ATAAAACTTA
69956300 AAATAATAATACATATAAAACTTA
1 AAATAATAATACATATAAAACTTA
*
69956324 AAATAATAATA-AGATAAAA
1 AAATAATAATACATATAAAA
69956343 ATATTAAACT
Statistics
Matches: 137, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
21 9 0.07
22 19 0.14
23 33 0.24
24 38 0.28
25 29 0.21
26 9 0.07
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
AAATAATAATACATATAAAACTTA
Found at i:69956887 original size:16 final size:16
Alignment explanation
Indices: 69956868--69956916 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
69956858 AGATTATAGT
69956868 TTTATTCCATTACAGC
1 TTTATTCCATTACAGC
*
69956884 TTTATTCAATTACATAGC
1 TTTATTCCATTAC--AGC
* *
69956902 TCTATTTCATTACAG
1 TTTATTCCATTACAG
69956917 TAAATCAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTATTCCATTACAGC
Found at i:69961500 original size:72 final size:72
Alignment explanation
Indices: 69961399--69961619 Score: 320
Period size: 72 Copynumber: 3.1 Consensus size: 72
69961389 GAATTGACAA
* *
69961399 TGGAATTTGTCCATTCAATTGGTTCTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
69961464 ATGATCT
66 ATGATCT
69961471 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
69961536 ATGATCT
66 ATGATCT
* * * * * *
69961543 TGGAATTTGTCCACTCAACTGG--TTCCCGGATAAGTCTAAATGAGTGAGTTGCAAGAGATTCCC
1 TGGAATTTGTCCACTCAATTGGTTTTGCC--ACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCC
* *
69961606 CAGTGATTT
64 CAATGATCT
69961615 TGGAA
1 TGGAA
69961620 CCGGTCCTGA
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
70 4 0.03
72 133 0.97
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTTTGCCACAAGCCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:69963851 original size:21 final size:21
Alignment explanation
Indices: 69963810--69963852 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
69963800 AATAATGTAG
* *
69963810 ATTATATATTATTTTTATAGT
1 ATTATATAATATATTTATAGT
69963831 ATTATATAATATGATTT-TAGT
1 ATTATATAATAT-ATTTATAGT
69963852 A
1 A
69963853 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATAATATATTTATAGT
Found at i:69970686 original size:72 final size:72
Alignment explanation
Indices: 69970610--69970824 Score: 310
Period size: 72 Copynumber: 3.0 Consensus size: 72
69970600 GGTTTAGAAT
* * *
69970610 TGACAATGGAATTTGTCCACTCAGTTGGTTCTGCGAGAAGTCTAAA-GAAGTGAGTTGCAGGAGG
1 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACG-AGTGAGTTGCAAGAGG
69970674 TTCCCCAA
65 TTCCCCAA
*
69970682 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAG-CGTAAATGAGTGAGTTGCAAGAGG
1 TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTC-TAAACGAGTGAGTTGCAAGAGG
*
69970746 TTTCCCAA
65 TTCCCCAA
* **
69970754 TGATC-TTGGAATTTGTCCACTCAATTGGTTCCACGACAAGTCTAAACGAGTGAGTTGCAAGAGG
1 TGA-CAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGG
69970818 TTCCCCA
65 TTCCCCA
69970825 GTGATTTTGG
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
71 1 0.01
72 126 0.97
73 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (72 bp):
TGACAATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGGT
TCCCCAA
Found at i:69973195 original size:57 final size:56
Alignment explanation
Indices: 69973036--69973329 Score: 333
Period size: 57 Copynumber: 5.4 Consensus size: 56
69973026 TACAGATTTA
*
69973036 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACGAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACTAAG
* *
69973092 ACTATCAATTGTCTATTGACTATACTTTTAACTCTAC-----AA-ACAAAGACTAAG
1 ACTATCAATTGTCTATTGACTATAC-TTTAACTCCACAAAAAAAGACTAAGACTAAG
* * * *
69973143 ACTATCACTTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTTAAGACTAGG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGAC-TAAGACTAAG
* * *
69973200 ACTATCCATTGCCTATTGACTATACTTTTTAACTCCACAAACAAAGACTAAGAC----
1 ACTATCAATTGTCTATTGACTATAC--TTTAACTCCACAAAAAAAGACTAAGACTAAG
* * * *
69973254 -C-ATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACCAAGACTAAG
1 ACTATCAATTGTCTATTGACTATACTTTAACTCCAC-AAAAAAAGACTAAGACTAAG
69973309 ACTATCAATTGTCTATTGACT
1 ACTATCAATTGTCTATTGACT
69973330 TCACACTTGC
Statistics
Matches: 199, Mismatches: 22, Indels: 33
0.78 0.09 0.13
Matches are distributed among these distances:
50 20 0.10
51 47 0.24
52 20 0.10
53 1 0.01
55 2 0.01
56 28 0.14
57 56 0.28
58 6 0.03
59 19 0.10
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (56 bp):
ACTATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACTAAG
Found at i:69973264 original size:109 final size:107
Alignment explanation
Indices: 69973039--69973329 Score: 456
Period size: 109 Copynumber: 2.7 Consensus size: 107
69973029 AGATTTAACT
* * *
69973039 ATCAATTGTCTATTGACTATACTTTAACTCCACAAAAAAAGACTAAGACGAAGACTATCAATTGT
1 ATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTAAGACTAAGACTATCAATTGT
* *
69973104 CTATTGACTATACTTTTAACTCTACAAACAAAGACTAAGACT
66 CTATTGACTATACTTTTAACTCCACAAACAAAGACTAAGACC
* * *
69973146 ATCACTTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTTAAGACTAGGACTATCCATTG
1 ATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGAC-TAAGACTAAGACTATCAATTG
*
69973211 CCTATTGACTATACTTTTTAACTCCACAAACAAAGACTAAGACC
65 TCTATTGACTATAC-TTTTAACTCCACAAACAAAGACTAAGACC
* *
69973255 ATCAGTTGTCTATTGACTACACTTTAACTCGACAAAAAAAAGACCAAGACTAAGACTATCAATTG
1 ATCAATTGTCTATTGACTACACTTTAACTCGAC-AAAAAAAGACTAAGACTAAGACTATCAATTG
69973320 TCTATTGACT
65 TCTATTGACT
69973330 TCACACTTGC
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
107 40 0.24
108 31 0.19
109 86 0.51
110 10 0.06
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (107 bp):
ATCAATTGTCTATTGACTACACTTTAACTCGACAAAAAAAGACTAAGACTAAGACTATCAATTGT
CTATTGACTATACTTTTAACTCCACAAACAAAGACTAAGACC
Found at i:69980347 original size:13 final size:13
Alignment explanation
Indices: 69980329--69980388 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
69980319 TCTTCATTAT
69980329 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
*
69980342 TTTTGAAAAGT-G
1 TTTTGAAAAGTAC
*
69980354 TTGTGGAAAAGTAC
1 TT-TTGAAAAGTAC
*
69980368 TTTTGAGAAGTAC
1 TTTTGAAAAGTAC
69980381 TTTT-AAAA
1 TTTTGAAAA
69980389 AATGTGAGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 5 0.13
13 32 0.82
14 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:69980968 original size:12 final size:12
Alignment explanation
Indices: 69980951--69980975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69980941 TTCATTAAAT
69980951 TTTACAATAGCA
1 TTTACAATAGCA
69980963 TTTACAATAGCA
1 TTTACAATAGCA
69980975 T
1 T
69980976 CTCTTGTTAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TTTACAATAGCA
Found at i:69984182 original size:17 final size:17
Alignment explanation
Indices: 69984157--69984189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69984147 TGTGTATTGT
*
69984157 ATTGCTTATTTGTATTA
1 ATTGATTATTTGTATTA
69984174 ATTGATTATTTGTATT
1 ATTGATTATTTGTATT
69984190 CATTAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGATTATTTGTATTA
Found at i:69985753 original size:3 final size:3
Alignment explanation
Indices: 69985745--69985789 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
69985735 CTAAATTGCT
69985745 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
69985790 ACACCACTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:69988347 original size:72 final size:72
Alignment explanation
Indices: 69988259--69988767 Score: 785
Period size: 72 Copynumber: 7.1 Consensus size: 72
69988249 GAATTGACGA
* *
69988259 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAACTGAGTGAGTTGC-AGCAGGTTCCCT
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAG-AGGTTCCCC
69988323 AATGATCT
65 AATGATCT
* * * *
69988331 TGGAATTTTTCGACTCAATTGGTTCTCCGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
69988396 ATGATCT
66 ATGATCT
* *
69988403 TGGAATTTGTCCACTCAATTGGTTCAGCGACAAG-CGTAAATGAATGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTC-TAAATGAGTGAGTTGCAAGAGGTTCCCC
69988467 AATGATCT
65 AATGATCT
* *
69988475 TGGAATTTGTCCACTCAATTGGTTCTGC-ACCAAGTATAAATGAGTGAGTTGCAAGAGGTTTCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGCGA-CAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
69988539 AATGATCT
65 AATGATCT
* *
69988547 TGGAATTTGTCCACTCAATTGGTTC-CCTGACAAGTCTAAATGAGTGACTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
69988611 AATGATCT
65 AATGATCT
69988619 TGGAATTTGTCCACTCAATTGGTTCT-CTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-GACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
69988683 AATGATCT
65 AATGATCT
** **
69988691 TGGAATTTGTCCACTCAATTGGTTCCACCTCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
69988756 GTGATCT
66 ATGATCT
69988763 TGGAA
1 TGGAA
69988768 CCGTTCCTGA
Statistics
Matches: 404, Mismatches: 25, Indels: 16
0.91 0.06 0.04
Matches are distributed among these distances:
71 3 0.01
72 397 0.98
73 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:69988643 original size:36 final size:36
Alignment explanation
Indices: 69988531--69988643 Score: 83
Period size: 36 Copynumber: 3.1 Consensus size: 36
69988521 AGTTGCAAGA
*
69988531 GGTTTCCCAATGATCTTGGAATTTGTCCACTCAATT
1 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
* ** * **
69988567 GGTTCCCTGACAA-G-TC-T-AAATGAGT-GACTTGCAAGA
1 GGTTCCC---CAATGATCTTGGAATTTGTCCAC-T-CAATT
69988603 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
1 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
69988639 GGTTC
1 GGTTC
69988644 TCTGACAAGT
Statistics
Matches: 54, Mismatches: 13, Indels: 20
0.62 0.15 0.23
Matches are distributed among these distances:
33 3 0.06
34 3 0.06
35 8 0.15
36 26 0.48
37 8 0.15
38 3 0.06
39 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (36 bp):
GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
Found at i:69994532 original size:7 final size:7
Alignment explanation
Indices: 69994515--69994589 Score: 73
Period size: 7 Copynumber: 10.3 Consensus size: 7
69994505 AAATAAAATG
69994515 AAACAAAT
1 AAAC-AAT
69994523 AAACAAT
1 AAACAAT
69994530 AAACAAT
1 AAACAAT
69994537 AAACAAT
1 AAACAAT
*
69994544 AAATAA-
1 AAACAAT
69994550 AATGA-AAT
1 AA--ACAAT
69994558 GAAACAAAT
1 -AAAC-AAT
69994567 AAACAAT
1 AAACAAT
69994574 AAACAAT
1 AAACAAT
*
69994581 AAAAAAT
1 AAACAAT
69994588 AA
1 AA
69994590 TCATACGGGC
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
6 2 0.03
7 43 0.73
8 9 0.15
9 5 0.08
ACGTcount: A:0.73, C:0.09, G:0.03, T:0.15
Consensus pattern (7 bp):
AAACAAT
Found at i:69994558 original size:44 final size:44
Alignment explanation
Indices: 69994505--69994589 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
69994495 GATACAATGT
*
69994505 AAATAAAATGAAACAAATAAACAATAAACAATAAACAATAAATA
1 AAATAAAATGAAACAAATAAACAATAAACAATAAAAAATAAATA
*
69994549 AAATGAAATGAAACAAATAAACAATAAACAATAAAAAATAA
1 AAATAAAATGAAACAAATAAACAATAAACAATAAAAAATAA
69994590 TCATACGGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (44 bp):
AAATAAAATGAAACAAATAAACAATAAACAATAAAAAATAAATA
Found at i:69995322 original size:3 final size:3
Alignment explanation
Indices: 69995302--69995375 Score: 58
Period size: 3 Copynumber: 24.7 Consensus size: 3
69995292 AAGCGAAAAC
* * * * * * *
69995302 ATA ACA ATA ATA ACA ATA ATA TTA ATA ATA ATA CTA ACA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
69995350 AGG ATA ACA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
69995376 GAAAGTAATG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:69996298 original size:20 final size:20
Alignment explanation
Indices: 69996270--69996320 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
69996260 GGCGGCGCAA
* * *
69996270 GTGGTGGTGGTGACGTGACT
1 GTGGCGGTGGCGACGTGACC
69996290 GTGGCGGTGGCGACGTGACC
1 GTGGCGGTGGCGACGTGACC
*
69996310 ATGGCGGTGGC
1 GTGGCGGTGGC
69996321 AGGGCTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.10, C:0.18, G:0.51, T:0.22
Consensus pattern (20 bp):
GTGGCGGTGGCGACGTGACC
Found at i:69996811 original size:50 final size:50
Alignment explanation
Indices: 69996657--69997231 Score: 332
Period size: 50 Copynumber: 11.5 Consensus size: 50
69996647 TCGAGGAAAT
* ** * * **
69996657 AAGATTCGTCGTTGCGGCTTCAATCTTTTAG-TTGCAATGTCAGAAAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
* * * * ** * * * *
69996706 AAGATTTGCCATCGTAGCTTCAATCTGTTCCACTG-TATCGTCAGGGAGGT
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAAT-GTCGGGGAAGC
* * * *
69996756 GAGATTCACTGTTGTAGCTTCAATCTATTT-GACTGCAATGTCGGGGAAGG
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTTAGACTGCAATGTCGGGGAAGC
* * * * * *
69996806 AAGATTCGTCGTTGTAGCATAAATCTGTTCT-G-CTGC-ATCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TT-TAGACTGCAAT-GTCGGGGAAGC
* * * * * *
69996856 AAGATTCGTCGTTGTGGCTTCAATATTTTAAATTGCAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
* ** * * * *
69996906 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCG-CTGC-ATCGCCTGGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TTTAGACTGCAAT-GTCGGGGAAGC
* * * * *
69996956 AAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
* * ** * * *
69997006 AAGATTCGTCGTCGTAGCTTCAA-CATGTTCCG-CTGC-ATCGCCTGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATC-T-TTTAGACTGCAAT-GTCGGGGAAGC
* * * *
69997056 AAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
* * * **
69997106 AAGATTCGCCGTCGTAGCTTCAATCTGTTCT-G-CTGC-ATCGCCTGGGAATT
1 AAGATTCGCCGTTGTAGCTTCAATCT-TT-TAGACTGCAAT-GTCGGGGAAGC
* * * *
69997156 AAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGTAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
* *
69997206 AAGATTCACCGTCGTAGCTTCAATCT
1 AAGATTCGCCGTTGTAGCTTCAATCT
69997232 GTTCCGCTGC
Statistics
Matches: 385, Mismatches: 116, Indels: 49
0.70 0.21 0.09
Matches are distributed among these distances:
48 2 0.01
49 41 0.11
50 320 0.83
51 21 0.05
52 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTTTTAGACTGCAATGTCGGGGAAGC
Found at i:69996831 original size:100 final size:100
Alignment explanation
Indices: 69996651--69997296 Score: 857
Period size: 100 Copynumber: 6.5 Consensus size: 100
69996641 GTCTTATCGA
* ** * * ** ** *
69996651 GGAAATAAGATTCGTCGTTGCGGCTTCAATCTTTT-AGTTGCAATGTCAGAAAAGCAAGATTTGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
* * * * *
69996715 CATCGTAGCTTCAATCTGTTCCACTGTATCGTCAG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * * * * * *
69996750 GGAGGTGAGATTCACTGTTGTAGCTTCAATCTATTT-GACTGCAATGTCGGGGAAGGAAGATTCG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTTAAATTGCAATGTTGGGGAAGCAAGATTCG
* * * * *
69996814 TCGTTGTAGCATAAATCTGTTCTGCTGCATCGCCTG
65 CCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
** *
69996850 GGAAGTAAGATTCGTCGTTGTGGCTTCAATATTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
69996915 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* *
69996950 GAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGT
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
69997015 CGTCGTAGCTTCAA-CATGTTCCGCTGCATCGCCTG
66 CGTCGTAGCTTCAATC-TGTTCCGCTGCATCGCCTG
*
69997050 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
*
69997115 CGTCGTAGCTTCAATCTGTTCTGCTGCATCGCCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * * *
69997150 GGAATTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGTAAGCAAGATTCAC
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
*
69997215 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCTTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * *
69997250 AGAAGTAAGATTCACCGTTGTGGCTTTAATTTTTTAAATTGCAATGT
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGT
69997297 ATAGTTTCTT
Statistics
Matches: 481, Mismatches: 62, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
99 28 0.06
100 452 0.94
101 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (100 bp):
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGCAAGATTCGC
CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
Found at i:70017222 original size:40 final size:40
Alignment explanation
Indices: 70017167--70017247 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
70017157 GATACCCAAA
70017167 GTTAGTTCAATATCGGAAGTTGATTCTAGAATTGATTGAG
1 GTTAGTTCAATATCGGAAGTTGATTCTAGAATTGATTGAG
70017207 GTTAGTTCAATATCGGAAGTTGATTCTAGAATTGATTGAG
1 GTTAGTTCAATATCGGAAGTTGATTCTAGAATTGATTGAG
70017247 G
1 G
70017248 AGTTTGATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (40 bp):
GTTAGTTCAATATCGGAAGTTGATTCTAGAATTGATTGAG
Found at i:70035328 original size:35 final size:36
Alignment explanation
Indices: 70035257--70035328 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
70035247 AAAATTATTA
* * * **
70035257 TTTTAGAAAATTTTTAAAATTTTAGATTTTTTATTT
1 TTTTAGAAAATTTTTAAAATTTTAAAATATAAATTT
70035293 TTTTAGAAAA-TTTTAAAATTTTAAAATATAAATTT
1 TTTTAGAAAATTTTTAAAATTTTAAAATATAAATTT
70035328 T
1 T
70035329 GACATTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (36 bp):
TTTTAGAAAATTTTTAAAATTTTAAAATATAAATTT
Found at i:70035381 original size:20 final size:20
Alignment explanation
Indices: 70035353--70035394 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
70035343 TATTTTAAAA
*
70035353 TTTAAAAATTATTGT-AATT
1 TTTAAAAAATATTGTGAATT
*
70035372 TTTAAAAAATATTTTGAATT
1 TTTAAAAAATATTGTGAATT
70035392 TTT
1 TTT
70035395 TTTTGTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAAAAAATATTGTGAATT
Found at i:70036420 original size:2 final size:2
Alignment explanation
Indices: 70036413--70036444 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
70036403 CACGCCATAA
70036413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70036445 GAAAATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70036470 original size:21 final size:21
Alignment explanation
Indices: 70036444--70036489 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
70036434 TATATATATA
70036444 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
70036465 TGAAAATACAACAGAAATGCT
1 TGAAAATACAACAGAAATGCT
70036486 TGAA
1 TGAA
70036490 CATCATTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.20
Consensus pattern (21 bp):
TGAAAATACAACAGAAATGCT
Found at i:70042755 original size:21 final size:21
Alignment explanation
Indices: 70042729--70042770 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
70042719 TAGTCTTGAA
*
70042729 ACATTGCAGATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
70042750 ACATTGCAAATTTTTTCAATT
1 ACATTGCAAATTTTTTCAATT
70042771 TTTGAATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
ACATTGCAAATTTTTTCAATT
Found at i:70046318 original size:7 final size:7
Alignment explanation
Indices: 70046306--70046345 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
70046296 TTCTTCTTCT
70046306 TTTTTTC
1 TTTTTTC
70046313 TTTTTTC
1 TTTTTTC
70046320 TTTTTTC
1 TTTTTTC
70046327 TTTTTTC
1 TTTTTTC
70046334 TTTTTT-
1 TTTTTTC
70046340 TTTTTT
1 TTTTTT
70046346 GTTGTGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:70046320 original size:21 final size:21
Alignment explanation
Indices: 70046296--70046344 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
70046286 TTGATTTGGC
70046296 TTCTTCTTCT-TTTTTTCTTTT
1 TTCTT-TTCTCTTTTTTCTTTT
*
70046317 TTCTTTTTTCTTTTTTCTTTT
1 TTCTTTTCTCTTTTTTCTTTT
*
70046338 TTTTTTT
1 TTCTTTT
70046345 TGTTGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TTCTTTTCTCTTTTTTCTTTT
Found at i:70046803 original size:23 final size:24
Alignment explanation
Indices: 70046765--70046815 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
70046755 ACTTCAATTT
*
70046765 TTTTTCTTTTATTTTCTTTGTTCC
1 TTTTTCTTTTATTTTCTTTATTCC
*
70046789 TTTTTCTTTTA-TTTCTTTATTTC
1 TTTTTCTTTTATTTTCTTTATTCC
70046812 TTTT
1 TTTT
70046816 CTTACCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTTATTTTCTTTATTCC
Found at i:70049635 original size:21 final size:20
Alignment explanation
Indices: 70049609--70049720 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 20
70049599 TATTTTTTAC
70049609 TTTTTAAATTTTAAAATACTT
1 TTTTTAAATTTTAAAATAC-T
**
70049630 TTTTTAAATATTT--TTTAC-
1 TTTTTAAAT-TTTAAAATACT
70049648 TTTTTAAATTTTAAAATACTT
1 TTTTTAAATTTTAAAATAC-T
70049669 TTTTTAAATTTTAAAA-A-T
1 TTTTTAAATTTTAAAATACT
**
70049687 TTTAAAAATTTTTTAAAATACT
1 TTTTTAAA--TTTTAAAATACT
70049709 TTTTTAAATTTT
1 TTTTTAAATTTT
70049721 TTTAATTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.04
18 16 0.22
19 3 0.04
20 16 0.22
21 26 0.35
22 10 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAATTTTAAAATACT
Found at i:70049672 original size:40 final size:40
Alignment explanation
Indices: 70049601--70049777 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
70049591 ATTTTTATTA
* *
70049601 TTTTTTACTTTT-TAAA-TTTTAAAATACTTTTTTTAAAT
1 TTTTTTAATTTTAAAAATTTTTAAAATACTTTTTTTAAAT
* *
70049639 ATTTTTTACTTTT-TAAA-TTTTAAAATACTTTTTTTAAAT
1 -TTTTTTAATTTTAAAAATTTTTAAAATACTTTTTTTAAAT
***
70049678 TTTAAAAATTTTAAAAATTTTTTAAAATAC-TTTTTTAAAT
1 TTTTTTAATTTTAAAAA-TTTTTAAAATACTTTTTTTAAAT
*
70049718 TTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAATTT
1 TTTTTTAATTTTAAAA-ATTTTTAAAATACTTTTTTTAA-AT
*
70049759 TTATTTTAATTTTTAAAAT
1 TT-TTTTAATTTTAAAAAT
70049778 AAATTTTTGG
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.07
39 41 0.34
40 43 0.35
41 17 0.14
42 13 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTTAATTTTAAAAATTTTTAAAATACTTTTTTTAAAT
Found at i:70049693 original size:8 final size:9
Alignment explanation
Indices: 70049674--70049698 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
70049664 TACTTTTTTT
70049674 AAATTTTAA
1 AAATTTTAA
70049683 AAATTTTAA
1 AAATTTTAA
70049692 AAATTTT
1 AAATTTT
70049699 TTAAAATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AAATTTTAA
Found at i:70049705 original size:10 final size:10
Alignment explanation
Indices: 70049677--70049745 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
70049667 TTTTTTTAAA
*
70049677 TTTTAAAAAT
1 TTTTAAAATT
*
70049687 TTTAAAAATT
1 TTTTAAAATT
70049697 TTTTAAAATACT
1 TTTTAAAAT--T
*
70049709 TTTTTAAATT
1 TTTTAAAATT
*
70049719 TTTT-TAA--
1 TTTTAAAATT
70049726 TTTTAAAATAT
1 TTTTAAAAT-T
70049737 TTTTAAAAT
1 TTTTAAAAT
70049746 ACTTTTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 21 0.45
11 9 0.19
12 9 0.19
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:70049734 original size:17 final size:17
Alignment explanation
Indices: 70049709--70049742 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
70049699 TTAAAATACT
* *
70049709 TTTTTAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
70049726 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
70049743 AATACTTTTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:70049794 original size:32 final size:32
Alignment explanation
Indices: 70049735--70049796 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
70049725 ATTTTAAAAT
** *
70049735 ATTTTTAAAATACTTTTTTAATTTTTATTTTA
1 ATTTTTAAAATAAATTTTTAATATTTATTTTA
**
70049767 ATTTTTAAAATAAATTTTTGGTATTTATTT
1 ATTTTTAAAATAAATTTTTAATATTTATTT
70049797 AAAAAACGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (32 bp):
ATTTTTAAAATAAATTTTTAATATTTATTTTA
Found at i:70053267 original size:20 final size:19
Alignment explanation
Indices: 70053244--70053337 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
70053234 TTTTTTATAT
70053244 ATTTTTTAGAAAATTTTGAA
1 ATTTTTTA-AAAATTTTGAA
70053264 ATTTTTTAAATATAAATTTTGAA
1 ATTTTTT--A-A-AAATTTTGAA
*
70053287 ATTTTTATAAATATTTTG-A
1 ATTTTT-TAAAAATTTTGAA
**
70053306 A--TTTTAAAAATTATTGTG
1 ATTTTTTAAAAATT-TTGAA
70053324 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
70053338 ATTTTGATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
16 7 0.11
17 6 0.10
18 1 0.02
19 2 0.03
20 25 0.40
21 1 0.02
22 3 0.05
23 16 0.26
24 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
ATTTTTTAAAAATTTTGAA
Found at i:70053280 original size:23 final size:24
Alignment explanation
Indices: 70053254--70053300 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
70053244 ATTTTTTAGA
70053254 AAATTTTGAAATTTTT-TAAATAT
1 AAATTTTGAAATTTTTATAAATAT
70053277 AAATTTTGAAATTTTTATAAATAT
1 AAATTTTGAAATTTTTATAAATAT
70053301 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
AAATTTTGAAATTTTTATAAATAT
Found at i:70053320 original size:19 final size:19
Alignment explanation
Indices: 70053279--70053348 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
70053269 TTAAATATAA
*
70053279 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTAAAAATT
70053299 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
* *
70053318 ATTGTGATTTTTTAAAAATT
1 ATTTTGA-ATTTTAAAAATT
70053338 ATTTTG-ATTTT
1 ATTTTGAATTTT
70053349 TTTTGTTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.28
19 9 0.21
20 22 0.51
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:70053349 original size:19 final size:19
Alignment explanation
Indices: 70053287--70053349 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
70053277 AAATTTTGAA
*
70053287 ATTTTTATAAA-TATTTTG
1 ATTTTTAAAAATTATTTTG
* *
70053305 AATTTTAAAAATTATTGTG
1 ATTTTTAAAAATTATTTTG
70053324 ATTTTTTAAAAATTATTTTG
1 A-TTTTTAAAAATTATTTTG
70053344 ATTTTT
1 ATTTTT
70053350 TTTGTTGAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
20 17 0.45
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
ATTTTTAAAAATTATTTTG
Found at i:70053455 original size:17 final size:18
Alignment explanation
Indices: 70053418--70053457 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
70053408 TGAATTTCAA
*
70053418 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCAAAT
*
70053436 AATTTGAATAACT-AAAT
1 AATTCGAATAACTCAAAT
70053453 AATTC
1 AATTC
70053458 AATTCAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:70054748 original size:2 final size:2
Alignment explanation
Indices: 70054741--70054783 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
70054731 TTAATATAGT
70054741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70054783 T
1 T
70054784 TCTTAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:70055698 original size:7 final size:7
Alignment explanation
Indices: 70055686--70055723 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
70055676 GTCCGACTCG
70055686 ACCCTAA
1 ACCCTAA
70055693 ACCCTAA
1 ACCCTAA
70055700 ACCCTAA
1 ACCCTAA
70055707 ACCCTAA
1 ACCCTAA
70055714 ACCCTAA
1 ACCCTAA
70055721 ACC
1 ACC
70055724 ACAACTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (7 bp):
ACCCTAA
Found at i:70058612 original size:2 final size:2
Alignment explanation
Indices: 70058605--70058636 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
70058595 ACCTTATCTC
70058605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70058637 TATTAAGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70059956 original size:48 final size:48
Alignment explanation
Indices: 70059904--70059996 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
70059894 ACCTTTTGTT
**
70059904 GAAGACAACGAAGAAAGTGAAGCCTATGAACCAGAAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
* **
70059952 GAAGATATTGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAA
1 GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAA
70059997 TTAATGGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.55, C:0.10, G:0.26, T:0.10
Consensus pattern (48 bp):
GAAGACAACGAAGAAAGTGAAAACTATGAACCAGAAGAAGAAGAAGAA
Found at i:70061946 original size:18 final size:19
Alignment explanation
Indices: 70061909--70061947 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70061899 TTAAAATTTA
*
70061909 TTTTAAAGGAAAATACTAT
1 TTTTAAAGGAAAATAATAT
*
70061928 TTTTTAAGGAAAA-AATAT
1 TTTTAAAGGAAAATAATAT
70061946 TT
1 TT
70061948 AAAAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTTAAAGGAAAATAATAT
Found at i:70063624 original size:16 final size:16
Alignment explanation
Indices: 70063589--70063623 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
70063579 ATAAATAATC
*
70063589 AAAATGATTCAAACCT
1 AAAATGATCCAAACCT
70063605 AAAATGATCCAAA-CT
1 AAAATGATCCAAACCT
70063620 AAAA
1 AAAA
70063624 AAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATGATCCAAACCT
Found at i:70064667 original size:11 final size:11
Alignment explanation
Indices: 70064651--70064676 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
70064641 ATGAATCTGA
70064651 TTTTTTTAGTT
1 TTTTTTTAGTT
70064662 TTTTTTTAGTT
1 TTTTTTTAGTT
70064673 TTTT
1 TTTT
70064677 CTAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTTTAGTT
Found at i:70065064 original size:3 final size:3
Alignment explanation
Indices: 70065056--70065145 Score: 171
Period size: 3 Copynumber: 30.0 Consensus size: 3
70065046 TTTAGCAACT
70065056 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
70065104 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70065146 CTACTACTAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:70074494 original size:56 final size:56
Alignment explanation
Indices: 70074420--70074532 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
70074410 TGCATATACT
70074420 ACTTATGAGTTAGTTCTTCATTTTACTTATATGAAGCGGTGATTAAAATTTTTATC
1 ACTTATGAGTTAGTTCTTCATTTTACTTATATGAAGCGGTGATTAAAATTTTTATC
70074476 ACTTATGAGTTAGTTCTTCATTTTACTTATATGAAGCGGTGATTAAAATTTTTATC
1 ACTTATGAGTTAGTTCTTCATTTTACTTATATGAAGCGGTGATTAAAATTTTTATC
70074532 A
1 A
70074533 AACACCCGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (56 bp):
ACTTATGAGTTAGTTCTTCATTTTACTTATATGAAGCGGTGATTAAAATTTTTATC
Found at i:70074996 original size:15 final size:16
Alignment explanation
Indices: 70074976--70075005 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70074966 CACTGATGAG
70074976 TCAGTT-CATAGAAAC
1 TCAGTTCCATAGAAAC
70074991 TCAGTTCCATAGAAA
1 TCAGTTCCATAGAAA
70075006 TCTGACTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (16 bp):
TCAGTTCCATAGAAAC
Found at i:70075443 original size:3 final size:3
Alignment explanation
Indices: 70075435--70075469 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
70075425 CCTATGAACC
70075435 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
70075470 CAGATATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:70080646 original size:28 final size:28
Alignment explanation
Indices: 70080611--70080669 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
70080601 TAAATTTAAC
70080611 TGTTAATATTGTTTATTAAATTTGCTGG
1 TGTTAATATTGTTTATTAAATTTGCTGG
*
70080639 TGTTAATATTGTTTATTAAATTTGTTGG
1 TGTTAATATTGTTTATTAAATTTGCTGG
70080667 TGT
1 TGT
70080670 GATATTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.56
Consensus pattern (28 bp):
TGTTAATATTGTTTATTAAATTTGCTGG
Found at i:70082638 original size:12 final size:12
Alignment explanation
Indices: 70082601--70082644 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
70082591 GGGTTGCAAC
*
70082601 GGCGGTGGAGGT
1 GGCGGTGGCGGT
* * *
70082613 GGAGGGGGCAGT
1 GGCGGTGGCGGT
70082625 GGCGGTGGCGGT
1 GGCGGTGGCGGT
70082637 GGCGGTGG
1 GGCGGTGG
70082645 TGGAAAAGGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.07, C:0.11, G:0.68, T:0.14
Consensus pattern (12 bp):
GGCGGTGGCGGT
Found at i:70082644 original size:18 final size:18
Alignment explanation
Indices: 70082601--70082644 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
70082591 GGGTTGCAAC
70082601 GGCGGTGGAGGTGGAGGG
1 GGCGGTGGAGGTGGAGGG
* * * *
70082619 GGCAGTGGCGGTGGCGGT
1 GGCGGTGGAGGTGGAGGG
70082637 GGCGGTGG
1 GGCGGTGG
70082645 TGGAAAAGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.11, G:0.68, T:0.14
Consensus pattern (18 bp):
GGCGGTGGAGGTGGAGGG
Found at i:70090694 original size:2 final size:2
Alignment explanation
Indices: 70090687--70090723 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
70090677 TTGGAACCTT
70090687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
70090724 TATGAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:70091638 original size:15 final size:14
Alignment explanation
Indices: 70091618--70091678 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
70091608 TTGTTAATTG
70091618 TAATTAACTTTTAAT
1 TAATTAA-TTTTAAT
*
70091633 TAATTAAAGTTTAAT
1 TAATT-AATTTTAAT
* *
70091648 TCAA-TAATTGTGAT
1 T-AATTAATTTTAAT
70091662 TAATTATATTTTAAT
1 TAATTA-ATTTTAAT
70091677 TA
1 TA
70091679 CAAGTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.25
15 21 0.58
16 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (14 bp):
TAATTAATTTTAAT
Found at i:70094308 original size:72 final size:71
Alignment explanation
Indices: 70094138--70094316 Score: 189
Period size: 72 Copynumber: 2.5 Consensus size: 71
70094128 ATTTTGAGCG
* *
70094138 TCCCGTTATATGGCTCTTTGTGAGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCGATATAGCTC
1 TCCCGATATATGGCTC-TT-TGAGCTTCCTG-TTAATGGCTCTCCGGAGCTACCCGATATAGCTC
**
70094203 GCTTGAACT
63 GCACGAACT
* * * * * *
70094212 TCCCGATATATGGCTATCTGGAGCTTCCTGTTAATGTCTCTTCGGAGCTACCCGTTATTGGCTCG
1 TCCCGATATATGGCTCT-TTGAGCTTCCTGTTAATGGCTCTCCGGAGCTACCCGATA-TAGCTCG
70094277 CACGAACT
64 CACGAACT
* *
70094285 TCCTGAT-TATGGCTCTTATGAGCTTCCCGTTA
1 TCCCGATATATGGCTCTT-TGAGCTTCCTGTTA
70094317 TATAGCCCGG
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
71 1 0.01
72 43 0.49
73 29 0.33
74 15 0.17
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (71 bp):
TCCCGATATATGGCTCTTTGAGCTTCCTGTTAATGGCTCTCCGGAGCTACCCGATATAGCTCGCA
CGAACT
Found at i:70101810 original size:8 final size:8
Alignment explanation
Indices: 70101776--70101835 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
70101766 CCAATAATAT
70101776 AATTTAAA
1 AATTTAAA
*
70101784 AATTACAAAA
1 AATT--TAAA
* *
70101794 AAATAAAA
1 AATTTAAA
70101802 AATTTAAA
1 AATTTAAA
*
70101810 ATTTTAAA
1 AATTTAAA
70101818 AATTTAAA
1 AATTTAAA
*
70101826 AATTCAAA
1 AATTTAAA
70101834 AA
1 AA
70101836 AATCAACATA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 37 0.86
10 6 0.14
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (8 bp):
AATTTAAA
Found at i:70102298 original size:6 final size:6
Alignment explanation
Indices: 70102289--70102324 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
70102279 CACCGATCTT
* *
70102289 CCCTTT CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
70102325 GCTTGACACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
CCCTTC
Found at i:70102308 original size:17 final size:17
Alignment explanation
Indices: 70102286--70102320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70102276 AGACACCGAT
* *
70102286 CTTCCCTTTCCCTTTCC
1 CTTCCCCTTCCCCTTCC
70102303 CTTCCCCTTCCCCTTCC
1 CTTCCCCTTCCCCTTCC
70102320 C
1 C
70102321 CTTCGCTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (17 bp):
CTTCCCCTTCCCCTTCC
Found at i:70105353 original size:22 final size:24
Alignment explanation
Indices: 70105303--70105353 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
70105293 TTGCAATGCT
70105303 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
70105328 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
70105349 TTTAT
1 TTTAT
70105354 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:70107537 original size:24 final size:25
Alignment explanation
Indices: 70107451--70107537 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 25
70107441 GATGAGTTGA
*
70107451 AAGAAGAA-GATGAAGAAGAGCAGG
1 AAGAAGAAGGATGAAGAAGAGCACG
*
70107475 AAG-AGAAGGCTGAAGAAGAGC-CG
1 AAGAAGAAGGATGAAGAAGAGCACG
* *
70107498 AAAGAAGAAGAAGATGAAGAGGAGCATG
1 -AAGAAGAAG--GATGAAGAAGAGCACG
70107526 AAGAA-AAGGATG
1 AAGAAGAAGGATG
70107538 GAGATGATGA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
23 5 0.10
24 22 0.42
25 5 0.10
26 3 0.06
27 16 0.31
28 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.37, T:0.06
Consensus pattern (25 bp):
AAGAAGAAGGATGAAGAAGAGCACG
Found at i:70107572 original size:21 final size:21
Alignment explanation
Indices: 70107523--70107572 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
70107513 GAAGAGGAGC
*
70107523 ATGAAGAAAAGGATGGAGATG
1 ATGAAGAGAAGGATGGAGATG
*
70107544 ATGAAGAGAAGGATGGGGATG
1 ATGAAGAGAAGGATGGAGATG
70107565 ATGAAGAG
1 ATGAAGAG
70107573 GAACAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (21 bp):
ATGAAGAGAAGGATGGAGATG
Found at i:70110146 original size:15 final size:15
Alignment explanation
Indices: 70110126--70110193 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
70110116 GGATGAGTCT
* *
70110126 GAAGAAGAGGAGGAG
1 GAAGAAGAAGAGAAG
*
70110141 GAAGAAGAAGAAAAG
1 GAAGAAGAAGAGAAG
70110156 GAAGAAGAAGAGAAG
1 GAAGAAGAAGAGAAG
* * *
70110171 GAAGAGGAACAGAAT
1 GAAGAAGAAGAGAAG
70110186 GAAGAAGA
1 GAAGAAGA
70110194 GAAAAATGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.57, C:0.01, G:0.40, T:0.01
Consensus pattern (15 bp):
GAAGAAGAAGAGAAG
Found at i:70110174 original size:27 final size:27
Alignment explanation
Indices: 70110144--70110196 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
70110134 GGAGGAGGAA
70110144 GAAGAAGAAAAGGAA-GAAGAAGAGAAG
1 GAAGAAGAAAA-GAATGAAGAAGAGAAG
* *
70110171 GAAGAGGAACAGAATGAAGAAGAGAA
1 GAAGAAGAAAAGAATGAAGAAGAGAA
70110197 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.36, T:0.02
Consensus pattern (27 bp):
GAAGAAGAAAAGAATGAAGAAGAGAAG
Found at i:70112491 original size:42 final size:43
Alignment explanation
Indices: 70112414--70112498 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
70112404 TGTACATTAC
70112414 ATCAATGAGTAAATTAATTTTTTATTAAGTTTTTTTATCTATT
1 ATCAATGAGTAAATTAATTTTTTATTAAGTTTTTTTATCTATT
70112457 ATCAATGAGTAAATTAATTTTTTATTAAG-TTTTTTATCTATT
1 ATCAATGAGTAAATTAATTTTTTATTAAGTTTTTTTATCTATT
70112499 TTTTTGTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 13 0.31
43 29 0.69
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (43 bp):
ATCAATGAGTAAATTAATTTTTTATTAAGTTTTTTTATCTATT
Found at i:70115994 original size:17 final size:19
Alignment explanation
Indices: 70115974--70116016 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
70115964 CAAATCCGAT
70115974 TCATTTCT-TTAA-TTTGA
1 TCATTTCTATTAATTTTGA
70115991 TCATTTCTATTAATTTTTGA
1 TCATTTCTATTAA-TTTTGA
70116011 TCATTT
1 TCATTT
70116017 TGTTCTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 4 0.17
20 11 0.48
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (19 bp):
TCATTTCTATTAATTTTGA
Found at i:70127246 original size:2 final size:2
Alignment explanation
Indices: 70127239--70127284 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
70127229 NNNNNNNNNG
70127239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70127281 TA TA
1 TA TA
70127285 AATTCAAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70128777 original size:23 final size:23
Alignment explanation
Indices: 70128714--70128778 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
70128704 TTTTAATGTA
* *
70128714 TGAAATATAAATTTTAAATATTTG
1 TGAAAT-TTAATTTTAATTATTTG
* *
70128738 T-AAGTAATTAATATTAATTATTTG
1 TGAA--ATTTAATTTTAATTATTTG
70128762 TGAAATTTAATTTTAAT
1 TGAAATTTAATTTTAAT
70128779 ATATAATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 13 0.41
24 16 0.50
25 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TGAAATTTAATTTTAATTATTTG
Found at i:70132269 original size:16 final size:16
Alignment explanation
Indices: 70132237--70132273 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
70132227 ATGCATATAC
70132237 ATATACATATATATGT
1 ATATACATATATATGT
* *
70132253 ATATGCATATATGTGT
1 ATATACATATATATGT
70132269 ATATA
1 ATATA
70132274 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:70134125 original size:16 final size:16
Alignment explanation
Indices: 70134104--70134159 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
70134094 CTTTTGATTC
70134104 ACTGTAATAGAATAGG
1 ACTGTAATAGAATAGG
*
70134120 ACTGTAATTGAATAGG
1 ACTGTAATAGAATAGG
* * * *
70134136 GCTCTAATGGAATAGA
1 ACTGTAATAGAATAGG
70134152 ACTGTAAT
1 ACTGTAAT
70134160 CAATAATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (16 bp):
ACTGTAATAGAATAGG
Found at i:70134198 original size:46 final size:44
Alignment explanation
Indices: 70134145--70134230 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
70134135 GGCTCTAATG
*
70134145 GAATAGAACTGTAATCAATAATTCAATTGTTTGGTTGAATGGAATA
1 GAATAGAACTGTAAT-AAT-ATTCAATTGCTTGGTTGAATGGAATA
* **
70134191 GAATAGAACTGTAATAGTATTCGTTTGCTTGGTTGAATGG
1 GAATAGAACTGTAATAATATTCAATTGCTTGGTTGAATGG
70134231 GATGATGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 19 0.53
45 2 0.06
46 15 0.42
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (44 bp):
GAATAGAACTGTAATAATATTCAATTGCTTGGTTGAATGGAATA
Found at i:70134361 original size:20 final size:20
Alignment explanation
Indices: 70134331--70134428 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 20
70134321 AATTAAATTT
70134331 TAATAAGATAATTTAATAAAA
1 TAATAA-ATAATTTAATAAAA
** *
70134352 TAATAAATAATTTAACCATA
1 TAATAAATAATTTAATAAAA
** *
70134372 TTTTAACATAA-TT-AT--TA
1 TAATAA-ATAATTTAATAAAA
*
70134389 TTA-AAATAATTTAATAAAA
1 TAATAAATAATTTAATAAAA
*
70134408 TAATATATAATTTAATAAAA
1 TAATAAATAATTTAATAAAA
70134428 T
1 T
70134429 TCTTAATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
15 4 0.07
16 4 0.07
17 6 0.10
19 4 0.07
20 33 0.54
21 10 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (20 bp):
TAATAAATAATTTAATAAAA
Found at i:70134399 original size:56 final size:57
Alignment explanation
Indices: 70134338--70134448 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 57
70134328 TTTTAATAAG
* *
70134338 ATAATTTAATAAAATAATAAATAATTTAACCATATT-TTAACATAATTATTATTAAA
1 ATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATAATTATTATTAAA
* * *
70134394 ATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTA
1 ATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATAATTATTATTA
70134449 TATGAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 32 0.65
57 17 0.35
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (57 bp):
ATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATAATTATTATTAAA
Found at i:70139882 original size:20 final size:20
Alignment explanation
Indices: 70139837--70139882 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
70139827 ACGTGAATTT
70139837 TTTTTTACTTTTTTTGAAAA
1 TTTTTTACTTTTTTTGAAAA
*
70139857 TGTTTTA-TTTTTTAT-AATAA
1 TTTTTTACTTTTTT-TGAA-AA
70139877 TTTTTT
1 TTTTTT
70139883 TACTCATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTTACTTTTTTTGAAAA
Found at i:70140082 original size:13 final size:13
Alignment explanation
Indices: 70140064--70140088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70140054 TTATAGTTAA
70140064 ATTTTTTTAAATT
1 ATTTTTTTAAATT
70140077 ATTTTTTTAAAT
1 ATTTTTTTAAAT
70140089 AATAATACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTTTAAATT
Found at i:70150119 original size:6 final size:6
Alignment explanation
Indices: 70150108--70150149 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
70150098 TGCATACATG
70150108 CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA
70150150 TATGTATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:70150158 original size:16 final size:16
Alignment explanation
Indices: 70150139--70150175 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
70150129 ATACATATAC
70150139 ATATACATATATATGT
1 ATATACATATATATGT
* *
70150155 ATATGCATATATGTGT
1 ATATACATATATATGT
70150171 ATATA
1 ATATA
70150176 TATGATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATACATATATATGT
Found at i:70155594 original size:30 final size:30
Alignment explanation
Indices: 70155554--70155627 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
70155544 TGAGGAGTGG
*
70155554 ATTCCTCCACCACCTCCTGATACTGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
70155584 ATTCCACCACCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
70155614 GTTCCTCCCCCACC
1 ATTCCTCCACCACC
70155628 ACCTAATGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (30 bp):
ATTCCTCCACCACCTCCTGATAATGAACAA
Found at i:70159232 original size:5 final size:5
Alignment explanation
Indices: 70159224--70159249 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70159214 GAGATGGAAT
70159224 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
70159250 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:70159249 original size:26 final size:26
Alignment explanation
Indices: 70159198--70159249 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
70159188 TGAAATTTTC
* * *
70159198 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
70159224 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
70159250 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:70160124 original size:30 final size:30
Alignment explanation
Indices: 70160063--70160124 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
70160053 GGAGGGGAGG
* * **
70160063 GGAGTAAAAGTTTTGGGGGGAAAGTGGAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
70160093 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
70160123 GG
1 GG
70160125 TTTAGGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
Found at i:70160180 original size:9 final size:9
Alignment explanation
Indices: 70160166--70160202 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
70160156 TATAGTTTGA
70160166 TATTCGAAT
1 TATTCGAAT
70160175 TATTCGAAT
1 TATTCGAAT
70160184 TATTCGAAT
1 TATTCGAAT
70160193 TATTCGAAT
1 TATTCGAAT
70160202 T
1 T
70160203 CAAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:70161488 original size:35 final size:36
Alignment explanation
Indices: 70161419--70161523 Score: 101
Period size: 35 Copynumber: 3.0 Consensus size: 36
70161409 TTAAAAAAAA
* *
70161419 AATAAAA-CTATAAAAA-TTCCAAAAA-TGAATAAACT
1 AATAAAATCT-TAAAAAGTTTCAAAAAGTTAA-AAACT
* *
70161454 TATAAAATCTTAAAAAGTTTTAAAAAG-TAAAAACT
1 AATAAAATCTTAAAAAGTTTCAAAAAGTTAAAAACT
* **
70161489 AATAAAATTTTCCAAAGTTTCAAAAAGTTAAAAAC
1 AATAAAATCTTAAAAAGTTTCAAAAAGTTAAAAAC
70161524 ATTCAAATTA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
35 39 0.68
36 18 0.32
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.28
Consensus pattern (36 bp):
AATAAAATCTTAAAAAGTTTCAAAAAGTTAAAAACT
Found at i:70164907 original size:16 final size:15
Alignment explanation
Indices: 70164860--70164915 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
70164850 TTATTTCGTC
70164860 ATTTTAAGTTTA-AT
1 ATTTTAAGTTTAGAT
* *
70164874 A-TTTGAGTTTGGATT
1 ATTTTAAGTTTAGA-T
70164889 ATTTTAAGTTTAGAGT
1 ATTTTAAGTTTAGA-T
*
70164905 ATTTTAGGTTT
1 ATTTTAAGTTT
70164916 TGATTAAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 8 0.24
14 2 0.06
15 2 0.06
16 21 0.64
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (15 bp):
ATTTTAAGTTTAGAT
Found at i:70168130 original size:32 final size:32
Alignment explanation
Indices: 70168094--70168155 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
70168084 ATCTGAATCT
* *
70168094 AAAGTTATCA-AAGCCTAAAATGATCTAAACGC
1 AAAGTGATCAGAA-CCTAAAATGACCTAAACGC
*
70168126 AAAGTGATTAGAACCTAAAATGACCTAAAC
1 AAAGTGATCAGAACCTAAAATGACCTAAAC
70168156 CCATAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (32 bp):
AAAGTGATCAGAACCTAAAATGACCTAAACGC
Found at i:70170189 original size:11 final size:10
Alignment explanation
Indices: 70170160--70170188 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
70170150 CTTATAATAT
70170160 AATTTTTTTA
1 AATTTTTTTA
70170170 AATTTTTTTA
1 AATTTTTTTA
70170180 AATTTTTTT
1 AATTTTTTT
70170189 TGGGACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:70170501 original size:22 final size:21
Alignment explanation
Indices: 70170475--70170532 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
70170465 CAAATTCAAA
*
70170475 TTAATTTTGAATTCGGATAAAT
1 TTAATTTTGAATT-AGATAAAT
* *
70170497 TTAATTTTAAATTAGATAAGT
1 TTAATTTTGAATTAGATAAAT
70170518 TTAGATTATTGAATT
1 TTA-ATT-TTGAATT
70170533 TTATAGTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.30
22 15 0.50
23 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (21 bp):
TTAATTTTGAATTAGATAAAT
Found at i:70170975 original size:3 final size:3
Alignment explanation
Indices: 70170962--70170999 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
70170952 GAAAGATACC
70170962 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
70171000 GAGCAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:70192681 original size:3 final size:3
Alignment explanation
Indices: 70192673--70192718 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
70192663 CTTCTTTGGT
70192673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
70192719 GATGATTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:70194122 original size:2 final size:2
Alignment explanation
Indices: 70194111--70194150 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
70194101 GCTGTAAGTA
70194111 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70194151 AAAGGACTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70197560 original size:23 final size:23
Alignment explanation
Indices: 70197500--70197562 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
70197490 TGGGGGTAGG
* *
70197500 ATCTAAATCTGTATCTGTTATGC
1 ATCTGAATCTGTATTTGTTATGC
*
70197523 ATCTGAATCTATATTTGTTATGC
1 ATCTGAATCTGTATTTGTTATGC
* **
70197546 ATTTGTGTCTGTATTTG
1 ATCTGAATCTGTATTTG
70197563 CTTCCTAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (23 bp):
ATCTGAATCTGTATTTGTTATGC
Found at i:70204123 original size:27 final size:27
Alignment explanation
Indices: 70204086--70204145 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
70204076 CTTTAAATAT
**
70204086 TTTTTTATAAATATATTTGTTATTTAA
1 TTTTTTATAAATATATTTGTTACATAA
70204113 TTTTTTATAAATATATTTGTTACATAA
1 TTTTTTATAAATATATTTGTTACATAA
70204140 TTTTTT
1 TTTTTT
70204146 CACTCATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTTTATAAATATATTTGTTACATAA
Found at i:70231799 original size:6 final size:6
Alignment explanation
Indices: 70231790--70231821 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
70231780 AATAAGAATA
70231790 TATATG TATATG TATATG TATATG TATATG TA
1 TATATG TATATG TATATG TATATG TATATG TA
70231822 AGAAGAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:70233680 original size:17 final size:18
Alignment explanation
Indices: 70233658--70233694 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
70233648 TTAAAATAAG
70233658 AAAAAATTA-AAATTTTT
1 AAAAAATTATAAATTTTT
*
70233675 AAAAAATTATATATTTTT
1 AAAAAATTATAAATTTTT
70233693 AA
1 AA
70233695 TGTGTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAAATTATAAATTTTT
Found at i:70234122 original size:20 final size:21
Alignment explanation
Indices: 70234081--70234123 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
70234071 ATATTGAACA
70234081 TTAAAATTTTTGTTTATATTT
1 TTAAAATTTTTGTTTATATTT
70234102 TTAAATATTTTT-TTTAT-TTT
1 TTAAA-ATTTTTGTTTATATTT
70234122 TT
1 TT
70234124 GAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTAAAATTTTTGTTTATATTT
Found at i:70242954 original size:20 final size:19
Alignment explanation
Indices: 70242919--70242959 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
70242909 AAAAATAACA
70242919 TTAATAATAATTTTAATAT
1 TTAATAATAATTTTAATAT
70242938 TTAAGTAAT-ATTCTTAATAT
1 TTAA-TAATAATT-TTAATAT
70242958 TT
1 TT
70242960 TATTTAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAATAATAATTTTAATAT
Found at i:70243930 original size:31 final size:32
Alignment explanation
Indices: 70243871--70243932 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
70243861 CCCTATACAT
*
70243871 TAATTCGATCAATTTTAAACCATGTACTTTTC
1 TAATTCGATCAATTTTAAACCATCTACTTTTC
* **
70243903 TAATT-GATTAATTTTAATTCATCTACTTTT
1 TAATTCGATCAATTTTAAACCATCTACTTTT
70243933 GACCCAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.50
Consensus pattern (32 bp):
TAATTCGATCAATTTTAAACCATCTACTTTTC
Found at i:70248642 original size:16 final size:16
Alignment explanation
Indices: 70248621--70248652 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70248611 CTTTTGCAAA
*
70248621 ATTTTATATATTTTTT
1 ATTTTAGATATTTTTT
70248637 ATTTTAGATATTTTTT
1 ATTTTAGATATTTTTT
70248653 TGTTTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTTAGATATTTTTT
Found at i:70249012 original size:29 final size:32
Alignment explanation
Indices: 70248957--70249035 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 32
70248947 ATATCAAAAT
*
70248957 TATACAT-AAATTTTAATTTAATGTGCAATTG
1 TATACATGAAACTTTAATTTAATGTGCAATTG
*
70248988 TATATATG-AACTTTAATTT-A-GTGCAATTG
1 TATACATGAAACTTTAATTTAATGTGCAATTG
*
70249017 TATACATGAAACTCTAATT
1 TATACATGAAACTTTAATT
70249036 GTGGTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 16 0.38
30 10 0.24
31 16 0.38
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (32 bp):
TATACATGAAACTTTAATTTAATGTGCAATTG
Found at i:70249248 original size:29 final size:30
Alignment explanation
Indices: 70249211--70249269 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
70249201 GAATTAGATC
* *
70249211 AAATCCAAATTTTACGTATAAAATTGCACA
1 AAATCCAAAGTTTACATATAAAATTGCACA
* *
70249241 AAAT-CAAAGTTTATATATACAATTGCACA
1 AAATCCAAAGTTTACATATAAAATTGCACA
70249270 TGAAAACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCCAAAGTTTACATATAAAATTGCACA
Found at i:70251070 original size:34 final size:34
Alignment explanation
Indices: 70251032--70251100 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
70251022 CCAAAAGAAC
*
70251032 ATAAACATATCAATGTCGGACACATACATAGCTA
1 ATAAACATATCAATGTCAGACACATACATAGCTA
*
70251066 ATAAACATATCAATGTCAGACACATACATATCTA
1 ATAAACATATCAATGTCAGACACATACATAGCTA
70251100 A
1 A
70251101 CAAGTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (34 bp):
ATAAACATATCAATGTCAGACACATACATAGCTA
Done.