Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 344 of 427
Found at i:100236818 original size:20 final size:20
Alignment explanation
Indices: 100236761--100236820 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
100236751 AATACTACAT
100236761 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
100236780 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
100236803 AAATATGTACATAATATA
1 AAATATGTACATAATATA
100236821 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:100236859 original size:22 final size:23
Alignment explanation
Indices: 100236798--100236868 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
100236788 ACGTGATAAT
*
100236798 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
100236821 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
100236846 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
100236868 A
1 A
100236869 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 2 0.05
25 19 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:100236887 original size:2 final size:2
Alignment explanation
Indices: 100236882--100236954 Score: 55
Period size: 2 Copynumber: 37.5 Consensus size: 2
100236872 GTAAAAAAAA
* * *
100236882 AT AT AT AT AT AT AT AT AT AT AA AT A- AT AT AGT AT -T AA AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
100236923 AT AT AC AT A- AA AT AGT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A
100236955 CGTGATATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
1 4 0.07
2 49 0.86
3 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (2 bp):
AT
Found at i:100236949 original size:25 final size:25
Alignment explanation
Indices: 100236887--100236952 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
100236877 AAAAAATATA
*
100236887 TATATATATATATATAAATAATATAG
1 TATA-ATATATATATAAATAAAATAG
* *
100236913 TATTAA-AGATATATACATAAAATAG
1 TA-TAATATATATATAAATAAAATAG
100236938 TATAATATATATATA
1 TATAATATATATATA
100236953 TACGTGATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.09
25 26 0.76
26 3 0.09
27 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (25 bp):
TATAATATATATATAAATAAAATAG
Found at i:100237007 original size:24 final size:23
Alignment explanation
Indices: 100236980--100237031 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
100236970 AGAATATACC
*
100236980 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
100237004 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
100237027 TAATA
1 TAATA
100237032 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:100237549 original size:30 final size:30
Alignment explanation
Indices: 100237508--100237606 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
100237498 TAGGTAGAAG
100237508 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
100237538 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
100237568 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
100237598 TGGTGGTGG
1 TGGTGGTGG
100237607 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:100238545 original size:88 final size:88
Alignment explanation
Indices: 100238260--100238554 Score: 329
Period size: 88 Copynumber: 3.4 Consensus size: 88
100238250 GTGATCCTGA
* * **
100238260 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT--AAAAACAGAAATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATA-A-ATTGAAAAAACATTAATT
* *
100238322 GAAAATAGCTCAGCACGTGAGCC-ATG
64 GAAAATACCTCAG-ACGTGACCCGA-G
* * *
100238348 GCTCAACTCACTTCTCGCAATATGAGTTGATT-TTTAAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAA-TTG-AAAAAACATTAATT
* *
100238409 GAAAATACCTCGGTATGTGACCCGAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* *
100238435 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAA-CATAAATTGAAAAAACATTAATTG
*
100238500 AAAATACCTCAG-CGTGCCCCGAG
65 AAAATACCTCAGACGTGACCCGAG
100238523 GCTCAACTCATTTCTCGCAATATGAGTTGATT
1 GCTCAACTCATTTCTCGCAATATGAGTTGATT
100238555 TTTTGATGAA
Statistics
Matches: 175, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 60 0.34
88 84 0.48
89 10 0.06
90 17 0.10
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (88 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTCTTTAAAACATAAATTGAAAAAACATTAATTGA
AAATACCTCAGACGTGACCCGAG
Found at i:100238551 original size:175 final size:174
Alignment explanation
Indices: 100238242--100238557 Score: 426
Period size: 175 Copynumber: 1.8 Consensus size: 174
100238232 TGATTCTTTA
* *
100238242 CTCGGCATGTGATCCTGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAGACA
1 CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
* *
100238307 TTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCATGGCTCAACTCACTTCTCGCAATATG
66 TTAAAAACAGAAATTGAAAATACCTCAG-ACGTGACCCATGGCTCAACTCACTTCTCGCAATATG
100238372 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
130 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
* * * *
100238417 CTCGGTATGTGA-CCCGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATA-
1 CTCGGCATGTGATCCCGA-GCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAA-C-TAG
** * *
100238480 A-ATTGAAAAAACATTAATTGAAAATACCTCAG-CGTGCCCCGA-GGCTCAACTCATTTCTCGCA
63 ACATT--AAAAACAGAAATTGAAAATACCTCAGACGTGACCC-ATGGCTCAACTCACTTCTCGCA
100238542 ATATGAGTTGATTTTT
125 ATATGAGTTGATTTTT
100238558 TGATGAACAG
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
174 4 0.03
175 91 0.74
176 3 0.02
177 25 0.20
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (174 bp):
CTCGGCATGTGATCCCGAGCTCAACTCATTTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
TTAAAAACAGAAATTGAAAATACCTCAGACGTGACCCATGGCTCAACTCACTTCTCGCAATATGA
GTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
Found at i:100238759 original size:78 final size:75
Alignment explanation
Indices: 100238486--100239036 Score: 523
Period size: 71 Copynumber: 7.3 Consensus size: 75
100238476 CATAAATTGA
** * **
100238486 AAAAACATTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
100238551 GA-TTTTTTG
66 GATTTTTTTG
** * * *
100238560 ATGAACAGAAATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGT
1 AAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
100238624 TGATTTTTTTG
65 TGATTTTTTTG
* *
100238635 AAAAACAGAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAG
100238700 TTGATTTTTTTG
64 TTGATTTTTTTG
* * *
100238712 ACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTG-AAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGA
*
100238777 GTTGA-TTTTCTG
63 GTTGATTTTTTTG
* * *
100238789 AAAAACAGAAATTCAAAACACCTCAGCATGT---GAGGCTCAACTCACCTCTCGCAA-ATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
***
100238850 GATTTTTGAAAA
66 GATTTTT--TTG
* * **
100238862 ACATAGATTGAGCAGAAATTGAAAATACCTCAACGAGTCTTGAGGCTCAACTCACCTCTCGCAAT
1 A-A-A-A---A-CAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
100238927 ATGAGTTGA-TTTTTTG
59 ATGAGTTGATTTTTTTG
** * ** * ** * *
100238943 ---ATGATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCATCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
100239005 GA-TTTTTTG
66 GATTTTTTTG
*
100239014 AATTAAAATAGAAATTGAAAATA
1 -A--AAAACAGAAATTGAAAATA
100239037 GAAATGGAAA
Statistics
Matches: 400, Mismatches: 51, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
70 9 0.02
71 88 0.22
73 5 0.01
74 53 0.13
75 30 0.08
76 20 0.05
77 86 0.22
78 51 0.13
79 1 0.00
80 21 0.05
83 27 0.07
84 9 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:100238908 original size:154 final size:146
Alignment explanation
Indices: 100238519--100239011 Score: 464
Period size: 154 Copynumber: 3.3 Consensus size: 146
100238509 CAGCGTGCCC
** ** **
100238519 CGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT-TGATGAACAGAAATT-AAAACTACC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAACAGAAATTGAAAA-TACC
* * *
100238582 TCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTTTGAAAAACAGAAGT
65 TCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTCTGAAAAACAGAAAT
* *
100238647 TGAAAACACCTCAGCGTGT
128 TCAAAACACCTCAGCATGT
***
100238666 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAA
1 ----CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAACAGAAATTG-AAAA
* **
100238731 TACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTGAAAAACA
61 TACCTCAACGTGT---CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTGAAAAACA
100238796 GAAATTCAAAACACCTCAGCATGT
123 GAAATTCAAAACACCTCAGCATGT
100238820 -GAGGCTCAACTCACCTCTCGCAA-ATGAGTTGATTTTTGAAAAACATAGATTGAGCAGAAATTG
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAAC--A-A---A-CAGAAATTG
* * *
100238883 AAAATACCTCAACGAGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---AT
57 AAAATACCTCAACGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTGAAAAA
* * * *
100238945 GATAAATTGAAAATACCTCA--ATGT
121 CAGAAATTCAAAACACCTCAGCATGT
* *
100238969 GACTTGAGGTTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 --C--GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
100239012 TGAATTAAAA
Statistics
Matches: 293, Mismatches: 28, Indels: 38
0.82 0.08 0.11
Matches are distributed among these distances:
148 14 0.05
149 27 0.09
150 2 0.01
151 54 0.18
152 14 0.05
153 14 0.05
154 97 0.33
155 46 0.16
156 16 0.05
157 9 0.03
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (146 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACAAACAGAAATTGAAAATACCT
CAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTGAAAAACAGAAATTCA
AAACACCTCAGCATGT
Found at i:100239036 original size:13 final size:13
Alignment explanation
Indices: 100239014--100239047 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
100239004 TGATTTTTTG
100239014 AATT-AAAATAGA
1 AATTGAAAATAGA
100239026 AATTGAAAATAGA
1 AATTGAAAATAGA
*
100239039 AATGGAAAA
1 AATTGAAAA
100239048 CACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (13 bp):
AATTGAAAATAGA
Found at i:100239333 original size:77 final size:77
Alignment explanation
Indices: 100239131--100239514 Score: 392
Period size: 77 Copynumber: 4.9 Consensus size: 77
100239121 AAAAAGAAAT
* ** * * *
100239131 TAAAAATAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTATCGCAATATG
1 TAAAAATAGAAATTGAAAATACCTCAG-CGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATG
*
100239195 AGTTGATTCTTTTG-
63 AGTTGATTTTTTTGA
** *
100239209 -AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
100239273 TGATTTTTTTGA
66 TGATTTTTTTGA
* * *
100239285 TAAAAATAGAATTTGAAAAAATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT-TGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
100239349 TGA--TTTTTGA
66 TGATTTTTTTGA
* * * * *
100239359 CAAACA-A-AAATTGAAATTACCTCA--GTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGT
1 TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
100239420 TGATTTTTTTTGAAACATAAA
66 TGA-TTTTTTTG--------A
*
100239441 TTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 -TAAAAATA-G-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
100239506 AGTTGATTT
63 AGTTGATTT
100239515 GAAAAGTAGA
Statistics
Matches: 257, Mismatches: 27, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
70 29 0.11
71 8 0.03
72 13 0.05
73 1 0.00
74 17 0.07
75 41 0.16
76 8 0.03
77 76 0.30
78 1 0.00
82 1 0.00
83 4 0.02
84 1 0.00
87 16 0.06
88 3 0.01
89 38 0.15
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (77 bp):
TAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGA
Found at i:100239585 original size:335 final size:334
Alignment explanation
Indices: 100239206--100239849 Score: 1000
Period size: 335 Copynumber: 1.9 Consensus size: 334
100239196 GTTGATTCTT
*
100239206 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
100239271 GTTGATTTTTTTGATAAAAATAGAATTTGAAAAA-ATCTCAGCGTGTCCTGAGGCTCAACTCACC
66 GTTGA--TTTTTG--AAAAACAGAAATT-AAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACC
*
100239335 TCTCGCAAT-TGAGTTGATTTTTGACAAA-CAAAAATTGAAATTACCTCA-GTGTCTTGAGGCTC
126 TCTCGCAATATGAGTTGATTTTTGA-AAAGCAAAAATTGAAATTACCTCACGTGTCCTGAGGCTC
*
100239397 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTG-AAA-CATAAATTAAAAAAAC-GAAAATTG
190 AACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAGCATAAATTAAAAAAACAG-AAATTG
* *
100239459 AAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGTA
252 AAAATACCTCAGCGTGTGACTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGTA
100239523 GAATTTGTAAGGCAAAAA
317 GAATTTGTAAGGCAAAAA
100239541 TTGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCTCGCAATATG
* *
100239605 AGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTC
65 AGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTC
*
100239670 GCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
130 GCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAATTACCTCA-CGTGTCCTGAGGCTCAACT
*
100239735 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAACAGAAATTGAAAATAC
194 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTAAAAAAACAGAAATTGAAAATAC
100239800 CTCAGCGTGTGACTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTT
259 CTCAGCGTGTGACTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTT
100239850 TTTTGAAAGA
Statistics
Matches: 285, Mismatches: 14, Indels: 20
0.89 0.04 0.06
Matches are distributed among these distances:
330 5 0.02
331 48 0.17
332 41 0.14
333 9 0.03
334 79 0.28
335 103 0.36
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (334 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAATTACCTCACGTGTCCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTAAAAAAACAGAAATTGAAAATACCT
CAGCGTGTGACTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGTAGAATTTGTA
AGGCAAAAA
Found at i:100239664 original size:73 final size:73
Alignment explanation
Indices: 100239541--100239782 Score: 367
Period size: 73 Copynumber: 3.3 Consensus size: 73
100239531 AAGGCAAAAA
*
100239541 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
100239606 GTTGATTT
66 GTTGATTT
* * *
100239614 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
100239679 GTTGATTT
66 GTTGATTT
* * * * *
100239687 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
100239752 GTTGATTTT
66 GTTGA-TTT
* *
100239761 TTGAAAAGCATAAATTGAAAAA
1 TTGAAAAACAGAAATT-AAAAA
100239783 ACAGAAATTG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
73 131 0.86
74 19 0.12
75 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:100240719 original size:44 final size:44
Alignment explanation
Indices: 100240647--100240761 Score: 171
Period size: 44 Copynumber: 2.6 Consensus size: 44
100240637 CTTCATTAGA
* *
100240647 ACGCCC-TTTCAGGTTTTCATCC-TAATCTTTTATCTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCA-CCTTGATCTTTTATCTTAATCAAG
* *
100240690 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTATCTTAATCAAG
100240734 ACGCCCTTTTCGGGTTTTCACCTTGATC
1 ACGCCCTTTTCGGGTTTTCACCTTGATC
100240762 ACCCTTTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
43 8 0.12
44 58 0.88
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.43
Consensus pattern (44 bp):
ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTATCTTAATCAAG
Found at i:100246829 original size:16 final size:15
Alignment explanation
Indices: 100246803--100246837 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
100246793 TGATGTGAAT
100246803 AATATAAAATATTAA
1 AATATAAAATATTAA
*
100246818 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
100246834 AATA
1 AATA
100246838 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:100247048 original size:22 final size:23
Alignment explanation
Indices: 100246987--100247057 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
100246977 ACGTGATAAT
*
100246987 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
100247010 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
100247035 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
100247057 A
1 A
100247058 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 2 0.05
25 19 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:100247050 original size:47 final size:50
Alignment explanation
Indices: 100246965--100247088 Score: 121
Period size: 48 Copynumber: 2.5 Consensus size: 50
100246955 TGTACATATA
* * * * *
100246965 TAAAAAATAAATACGTGATAATATTAAAAATATGTACATAATAT-A-GTG
1 TAAAAAATAAATACATAATAATATTAAAAATATATACATAAGATAACATG
*
100247013 TAAAAAATACATACATAAT-ATAATT-AAAATATATACATAAGATAACATG
1 TAAAAAATAAATACATAATAAT-ATTAAAAATATATACATAAGATAACATG
*
100247062 TAAAAAATATATATATATAAATAATAT
1 TAAAAAATA-A-ATACAT-AATAATAT
100247089 AGTATTAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
47 18 0.30
48 20 0.33
49 11 0.18
51 5 0.08
52 5 0.08
53 2 0.03
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (50 bp):
TAAAAAATAAATACATAATAATATTAAAAATATATACATAAGATAACATG
Found at i:100247097 original size:15 final size:14
Alignment explanation
Indices: 100247066--100247130 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
100247056 AACATGTAAA
100247066 AAATATATATATAT
1 AAATATATATATAT
100247080 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
100247095 AAAGATATATACAT
1 AAATATATATATAT
100247109 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
100247122 ATATATATA
1 AAATATATA
100247131 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:100247102 original size:25 final size:25
Alignment explanation
Indices: 100247074--100247162 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
100247064 AAAAATATAT
*
100247074 ATATATAAATAATATAGTATTAA-AG
1 ATATATACATAATATAGTA-TAATAG
* *
100247099 ATATATACATAAAATAGTATAATAT
1 ATATATACATAATATAGTATAATAG
* * *
100247124 ATATATACGTAATATAGAAT-TTAG
1 ATATATACATAATATAGTATAATAG
*
100247148 A-ATATACCTAATATA
1 ATATATACATAATATA
100247163 TTAAAAGAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.24
24 6 0.11
25 35 0.65
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATAATAG
Found at i:100247102 original size:29 final size:28
Alignment explanation
Indices: 100247002--100247111 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
100246992 AAATATGTAC
* *
100247002 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
100247027 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* ** *
100247053 GATAACAT-GTAAAAAATATATATATATAA
1 -ATAATATAGTATTAAA-ATATATACATAA
100247082 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
100247111 A
1 A
100247112 ATAGTATAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
24 5 0.08
25 9 0.14
26 7 0.11
27 6 0.09
28 10 0.15
29 29 0.44
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:100247510 original size:16 final size:15
Alignment explanation
Indices: 100247485--100247514 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
100247475 CTTTGGTTAA
100247485 TCTCCCAAAAACTAC
1 TCTCCCAAAAACTAC
100247500 TCTCTCCAAAAACTA
1 TCTC-CCAAAAACTA
100247515 GCCTTTACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
TCTCCCAAAAACTAC
Found at i:100252706 original size:8 final size:7
Alignment explanation
Indices: 100252673--100252707 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
100252663 TTACACATAA
100252673 CCAAAAT
1 CCAAAAT
100252680 CCAAAAT
1 CCAAAAT
100252687 CCAAAAT
1 CCAAAAT
100252694 CCAAAATT
1 CCAAAA-T
100252702 CCAAAA
1 CCAAAA
100252708 GTATGTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (7 bp):
CCAAAAT
Found at i:100257884 original size:23 final size:23
Alignment explanation
Indices: 100257857--100257971 Score: 117
Period size: 23 Copynumber: 4.9 Consensus size: 23
100257847 ATAGCTCGTA
*
100257857 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * *
100257880 GGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
*
100257903 AGAGCTTATTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
100257925 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAT
*
100257949 AGAGCTTATTGTTTATCAGCTCA
1 AGAGCTTACTG-TT-TCAGCTCA
100257972 GGAGGAGTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.03
22 17 0.22
23 25 0.33
24 24 0.32
25 8 0.11
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:100257942 original size:46 final size:45
Alignment explanation
Indices: 100257849--100257961 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 45
100257839 GACTCACCAT
* * * *
100257849 AGCTCGTAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATTC
1 AGCTCGAAAGAGCTTATTG-TTCAGCTCAATAGAGCTTACCGATTC
*
100257895 AGCTCGAAAGAGCTTATTGTTCAGCTCAATAGAGCTTACCGTTTTC
1 AGCTCGAAAGAGCTTATTGTTCAGCTCAATAGAGCTTACCG-ATTC
100257941 AGCTC-AATAGAGCTTATTGTT
1 AGCTCGAA-AGAGCTTATTGTT
100257962 TATCAGCTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 22 0.37
46 38 0.63
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (45 bp):
AGCTCGAAAGAGCTTATTGTTCAGCTCAATAGAGCTTACCGATTC
Found at i:100259639 original size:11 final size:11
Alignment explanation
Indices: 100259613--100259658 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 11
100259603 TACTACTGTT
100259613 TTATTATTCATCA
1 TTATTATT--TCA
100259626 TTATTATTTCA
1 TTATTATTTCA
100259637 TTATTATTTCA
1 TTATTATTTCA
100259648 CTTAGTTATTT
1 -TTA-TTATTT
100259659 GTTACCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 14 0.45
12 3 0.10
13 14 0.45
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATTATTTCA
Found at i:100259732 original size:15 final size:15
Alignment explanation
Indices: 100259712--100259755 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
100259702 CTACTACATA
*
100259712 TATTATTCTCATTAT
1 TATTATTATCATTAT
100259727 TATTATTATCATTAT
1 TATTATTATCATTAT
*
100259742 TA-TACTATCATTAT
1 TATTATTATCATTAT
100259756 AATTTAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTATCATTAT
Found at i:100261155 original size:22 final size:24
Alignment explanation
Indices: 100261096--100261156 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
100261086 GTATGTACAC
100261096 CAAATAAT-AATAATATATAAGTGA
1 CAAA-AATGAATAATATATAAGTGA
*
100261120 CAATAATGAA-AATA-ATAAGT-A
1 CAAAAATGAATAATATATAAGTGA
*
100261141 TAAAAATGAATAATAT
1 CAAAAATGAATAATAT
100261157 GATATACGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 9 0.29
22 10 0.32
23 7 0.23
24 5 0.16
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (24 bp):
CAAAAATGAATAATATATAAGTGA
Found at i:100261520 original size:21 final size:21
Alignment explanation
Indices: 100261496--100261535 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100261486 AAGATATACT
*
100261496 TATATAAATATATATTAAAGA
1 TATATAAATATATAATAAAGA
*
100261517 TATATACATATATAATAAA
1 TATATAAATATATAATAAA
100261536 ATACATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAATATATAATAAAGA
Found at i:100264320 original size:25 final size:23
Alignment explanation
Indices: 100264278--100264324 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
100264268 TCTTATTTTT
*
100264278 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
100264301 TATTTGATTTATTATATTTTAAAT
1 TATTTG-TTT-TTATATTTTAAAT
100264325 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 3 0.14
25 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:100264372 original size:5 final size:5
Alignment explanation
Indices: 100264363--100264397 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
100264353 AAATTAATAT
*
100264363 GGCCG AGCCG GGCCG GGCCG GGCCG GGCTCG GGCC
1 GGCCG GGCCG GGCCG GGCCG GGCCG GGC-CG GGCC
100264398 TACCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.03, C:0.40, G:0.54, T:0.03
Consensus pattern (5 bp):
GGCCG
Found at i:100267643 original size:40 final size:40
Alignment explanation
Indices: 100267583--100267804 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
100267573 TATTCGAATG
*
100267583 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
100267623 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
100267663 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
100267703 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
100267743 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
100267783 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
100267805 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:100275668 original size:23 final size:22
Alignment explanation
Indices: 100275638--100275761 Score: 101
Period size: 23 Copynumber: 5.3 Consensus size: 22
100275628 GGACTCACCA
100275638 CAGCTCATAAGAGCTTACTGTTT
1 CAGCTCA-AAGAGCTTACTGTTT
** *
100275661 CAGCTCATTGGAGCTTACCGATTT
1 CAGCTCA-AAGAGCTTACTG-TTT
100275685 -AGCTCGAAAGAGCTTACTGTTT
1 CAGCTC-AAAGAGCTTACTGTTT
*
100275707 -AGCTCAATGGAGCTTACCAT-TTT
1 CAGCTCAA-AGAGCTTA-C-TGTTT
100275730 CAGCTCAATAGAGCTTACTGTTTAT
1 CAGCTCAA-AGAGCTTACTG-TT-T
100275755 CAGCTCA
1 CAGCTCA
100275762 GGAGGAGCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 36 0.43
24 22 0.26
25 8 0.10
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (22 bp):
CAGCTCAAAGAGCTTACTGTTT
Found at i:100275706 original size:46 final size:46
Alignment explanation
Indices: 100275638--100275761 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 46
100275628 GGACTCACCA
*
100275638 CAGCTCATAAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGA-TTT
1 CAGCTCA-AAGAGCTTACTGTTTCAGCTCAATGGAGCTTACC-ATTTT
100275685 -AGCTCGAAAGAGCTTACTGTTT-AGCTCAATGGAGCTTACCATTTT
1 CAGCTC-AAAGAGCTTACTGTTTCAGCTCAATGGAGCTTACCATTTT
100275730 CAGCTCAATAGAGCTTACTGTTTATCAGCTCA
1 CAGCTCAA-AGAGCTTACTG-TT-TCAGCTCA
100275762 GGAGGAGCTT
Statistics
Matches: 69, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
44 1 0.01
45 22 0.32
46 36 0.52
47 3 0.04
48 1 0.01
49 6 0.09
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (46 bp):
CAGCTCAAAGAGCTTACTGTTTCAGCTCAATGGAGCTTACCATTTT
Found at i:100286412 original size:38 final size:38
Alignment explanation
Indices: 100286370--100286445 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
100286360 ACATGGATGT
100286370 ACATAATCACTAGGTAAGATTCACATACATGTATCATC
1 ACATAATCACTAGGTAAGATTCACATACATGTATCATC
100286408 ACATAATCACTAGGTAAGATTCACATACATGTATCATC
1 ACATAATCACTAGGTAAGATTCACATACATGTATCATC
100286446 CATCTCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (38 bp):
ACATAATCACTAGGTAAGATTCACATACATGTATCATC
Found at i:100286431 original size:22 final size:22
Alignment explanation
Indices: 100286370--100286434 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
100286360 ACATGGATGT
100286370 ACATAATCACTAGGTAAGATTC
1 ACATAATCACTAGGTAAGATTC
**
100286392 ACAT-A-CA-T--GTATCA-TC
1 ACATAATCACTAGGTAAGATTC
100286408 ACATAATCACTAGGTAAGATTC
1 ACATAATCACTAGGTAAGATTC
100286430 ACATA
1 ACATA
100286435 CATGTATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 2 0.06
19 2 0.06
20 2 0.06
21 5 0.15
22 11 0.33
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (22 bp):
ACATAATCACTAGGTAAGATTC
Found at i:100291539 original size:51 final size:53
Alignment explanation
Indices: 100291484--100291603 Score: 132
Period size: 62 Copynumber: 2.1 Consensus size: 53
100291474 ATATATTAAC
*
100291484 ACTTTAATAACTTTTTAATCAGTCTTTTCAATATTATATCCATTTAGTATAACTTTTCAATA
1 ACTTTAATAACTTTTTAATCAGTCTTTTCAATATTAAATCCATTTAG--------TT-AATA
*
100291546 ACTTTAATAACTTTTTAATCAGTCTTTTCAATATTAAATCCATTTAGTATAAAA
1 ACTTTAATAACTTTTTAATCAGTCTTTTCAATATTAAATCCATTTAGT-TAATA
100291600 ACTT
1 ACTT
100291604 AAGCATTTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
54 8 0.15
55 1 0.02
62 46 0.84
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (53 bp):
ACTTTAATAACTTTTTAATCAGTCTTTTCAATATTAAATCCATTTAGTTAATA
Found at i:100293710 original size:14 final size:14
Alignment explanation
Indices: 100293691--100293718 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100293681 TGACACAATC
100293691 AGAACAAATTTCCA
1 AGAACAAATTTCCA
100293705 AGAACAAATTTCCA
1 AGAACAAATTTCCA
100293719 TAAATAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AGAACAAATTTCCA
Found at i:100303323 original size:23 final size:22
Alignment explanation
Indices: 100303292--100303334 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
100303282 GAGGTCAAAA
* *
100303292 TATATTTTTATCATTTATTAATT
1 TATAATTTTAACATTT-TTAATT
100303315 TATAATTTTAACATTTTTAA
1 TATAATTTTAACATTTTTAA
100303335 AAGGCTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAATTTTAACATTTTTAATT
Found at i:100309121 original size:26 final size:25
Alignment explanation
Indices: 100309080--100309130 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
100309070 TGTACAATTG
*
100309080 AAATATAAACACTTAT-TAATATTT
1 AAATATAAACAATTATATAATATTT
*
100309104 AAATATTACAACAATTATATCATATTT
1 AAATA-TA-AACAATTATATAATATTT
100309131 CACTTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 8 0.36
27 7 0.32
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATATAAACAATTATATAATATTT
Found at i:100309498 original size:40 final size:40
Alignment explanation
Indices: 100309426--100309522 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
100309416 AATACACCAG
* ** *
100309426 TTTGGCACCCAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATAAGATAAATCGAAGTAATAA
* *
100309466 TTTGACACCCAGTGTCTCATAAGCTAAATCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATAAGATAAATCGAAGTAATAA
* *
100309504 -TTGGCACCCAGTGCTTCAT
1 TTTGACACCCAGTGCCTCAT
100309523 CGAATTAATC
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 16 0.33
38 2 0.04
39 1 0.02
40 29 0.60
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATAAGATAAATCGAAGTAATAA
Found at i:100310555 original size:38 final size:37
Alignment explanation
Indices: 100310475--100310555 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 37
100310465 TTCTTTCCTT
*
100310475 TTTTATTATATTATAATATATATACTTAAACATTAAGA
1 TTTT-TTATATTATAATATATATACTTAAACATTAACA
100310513 -TTTTTATATTATAATATATATA-TAATAAAC-TTACACA
1 TTTTTTATATTATAATATATATACT--TAAACATTA-ACA
100310550 TTTTTT
1 TTTTTT
100310556 TAATCTTATG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
35 1 0.03
36 22 0.58
37 10 0.26
38 5 0.13
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (37 bp):
TTTTTTATATTATAATATATATACTTAAACATTAACA
Found at i:100314487 original size:18 final size:18
Alignment explanation
Indices: 100314464--100314524 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
100314454 ATTCCCCCTA
*
100314464 TTTACTTTCCCTTAAACT
1 TTTACTTTCCCCTAAACT
*
100314482 TTTAC--TCCCCAAAACTT
1 TTTACTTTCCCCTAAAC-T
*
100314499 TTTAATTTTCCCCTAAACT
1 TTT-ACTTTCCCCTAAACT
100314518 TTTACTT
1 TTTACTT
100314525 CTCACCATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 8 0.24
17 4 0.12
18 9 0.26
19 4 0.12
20 9 0.26
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTACTTTCCCCTAAACT
Found at i:100315006 original size:5 final size:5
Alignment explanation
Indices: 100314996--100315021 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
100314986 GAACAAATAT
100314996 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
100315022 ATTCCATCTC
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:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:100315136 original size:15 final size:16
Alignment explanation
Indices: 100315111--100315143 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
100315101 CTCGAAATTT
100315111 TTTTCATTCGATTTGA
1 TTTTCATTCGATTTGA
100315127 TTTT-ATTCGATTTGA
1 TTTTCATTCGATTTGA
100315142 TT
1 TT
100315144 GAACACTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.61
Consensus pattern (16 bp):
TTTTCATTCGATTTGA
Found at i:100317987 original size:44 final size:44
Alignment explanation
Indices: 100317932--100318027 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
100317922 AGTTAAATTA
* *
100317932 TAATTTTAATTTCCCACTTAAACT-TCGATTAGTGTAAGTTATTT
1 TAATATTAATTTCCCACTTAAACTCT-GACTAGTGTAAGTTATTT
* *
100317976 TAATATTAATTTCTCACTTAAACTCTGACTAGTGTAGGTTATTT
1 TAATATTAATTTCCCACTTAAACTCTGACTAGTGTAAGTTATTT
100318020 TAATATTA
1 TAATATTA
100318028 TTTGACCTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (44 bp):
TAATATTAATTTCCCACTTAAACTCTGACTAGTGTAAGTTATTT
Found at i:100320412 original size:5 final size:5
Alignment explanation
Indices: 100320402--100320439 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
100320392 TTATGTTTTA
100320402 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATATAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT
100320440 ATAAACTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:100321716 original size:15 final size:15
Alignment explanation
Indices: 100321696--100321752 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
100321686 CGATGAATTT
100321696 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
100321711 ATTGAAATGATTTTG
1 ATTGAATTTATATTG
100321726 ATTGAATTTATATTG
1 ATTGAATTTATATTG
100321741 ATTGAA-TTATAT
1 ATTGAATTTATAT
100321753 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:100321730 original size:30 final size:29
Alignment explanation
Indices: 100321688--100321746 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
100321678 TTGGTATGCG
100321688 ATGAATTTATTGAATTTATATTGATTGAA
1 ATGAATTTATTGAATTTATATTGATTGAA
*
100321717 ATGATTTTGATTGAATTTATATTGATTGAA
1 ATGAATTT-ATTGAATTTATATTGATTGAA
100321747 TTATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (29 bp):
ATGAATTTATTGAATTTATATTGATTGAA
Found at i:100322170 original size:21 final size:21
Alignment explanation
Indices: 100322135--100322216 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
100322125 AGGCACTTTA
100322135 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
100322158 TGTGTCGTATCAGACACCTCG
1 TGTGTCGTATCAGGCACCTCG
100322179 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
100322200 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
100322217 TTTATGTGTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 46 0.84
23 9 0.16
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:100322225 original size:42 final size:43
Alignment explanation
Indices: 100322122--100322227 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
100322112 GGTTTTATCG
100322122 ATTAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATTAGGCACTTTATGTGTCGTA-TTCAGGCACCTCGTGTGTCGT
* * * **
100322166 ATCAGACACCTCGTGTGTCGTA-TCAGGCACCTCGTGTGTCGT
1 ATTAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
*
100322208 TTTAGGCACTTTATGTGTCG
1 ATTAGGCACTTTATGTGTCG
100322228 CATATTGATC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 34 0.67
44 17 0.33
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (43 bp):
ATTAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
Found at i:100323565 original size:22 final size:22
Alignment explanation
Indices: 100323540--100323583 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
100323530 GCGCCTCCAT
100323540 ATGC-CAACGCACAGCCCCGTAC
1 ATGCGCAACGCACA-CCCCGTAC
*
100323562 ATGCGCCACGCACACCCCGTAC
1 ATGCGCAACGCACACCCCGTAC
100323584 CTGCAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.25, C:0.48, G:0.18, T:0.09
Consensus pattern (22 bp):
ATGCGCAACGCACACCCCGTAC
Found at i:100323995 original size:14 final size:14
Alignment explanation
Indices: 100323976--100324003 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100323966 TTGGTTAAAT
100323976 AAATCATTATTTTG
1 AAATCATTATTTTG
100323990 AAATCATTATTTTG
1 AAATCATTATTTTG
100324004 TTTTACATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
AAATCATTATTTTG
Found at i:100325531 original size:50 final size:50
Alignment explanation
Indices: 100325444--100325559 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
100325434 GGACACACCA
* *
100325444 CAGCTCTTATGAGCTTCCCGATACTCAGCTCGTATGAGCTTCCC-GATACT
1 CAGCTCGTATGAGCTTCCCGATACTCAGCTCGCATGAGC-TCCCTGATACT
* * * * *
100325494 CAGCTCGTATGAGCTTCCCGATACTTAGTTTGCATGAGCTCCCTGTTATT
1 CAGCTCGTATGAGCTTCCCGATACTCAGCTCGCATGAGCTCCCTGATACT
* *
100325544 CAGCTCGCACGAGCTT
1 CAGCTCGTATGAGCTT
100325560 TCCGTTATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 4 0.07
50 52 0.93
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.31
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTCCCGATACTCAGCTCGCATGAGCTCCCTGATACT
Found at i:100325533 original size:25 final size:25
Alignment explanation
Indices: 100325444--100325518 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
100325434 GGACACACCA
*
100325444 CAGCTCTTATGAGCTTCCCGATACT
1 CAGCTCGTATGAGCTTCCCGATACT
100325469 CAGCTCGTATGAGCTTCCCGATACT
1 CAGCTCGTATGAGCTTCCCGATACT
100325494 CAGCTCGTATGAGCTTCCCGATACT
1 CAGCTCGTATGAGCTTCCCGATACT
100325519 TAGTTTGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.20, C:0.32, G:0.19, T:0.29
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCGATACT
Found at i:100325582 original size:25 final size:25
Alignment explanation
Indices: 100325454--100325599 Score: 100
Period size: 25 Copynumber: 5.9 Consensus size: 25
100325444 CAGCTCTTAT
* * * *
100325454 GAGCTTCCCGATACTCAGCTCGTAT
1 GAGCTTCCCGTTATTCAGCTCGCAA
* * * *
100325479 GAGCTTCCCGATACTCAGCTCGTAT
1 GAGCTTCCCGTTATTCAGCTCGCAA
* * * *
100325504 GAGCTTCCCGATACTT-AGTTTGCAT
1 GAGCTTCCCGTTA-TTCAGCTCGCAA
*
100325529 GAGC-TCCCTGTTATTCAGCTCGCAC
1 GAGCTTCCC-GTTATTCAGCTCGCAA
* * *
100325554 GAGCTTTCCGTTATTTAGCTCGGAA
1 GAGCTTCCCGTTATTCAGCTCGCAA
*
100325579 GAGCTTCCCGTT-TACAGCTCG
1 GAGCTTCCCGTTATTCAGCTCG
100325600 TATAAGCATA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
24 13 0.13
25 85 0.83
26 4 0.04
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATTCAGCTCGCAA
Found at i:100327229 original size:58 final size:57
Alignment explanation
Indices: 100327101--100327231 Score: 147
Period size: 57 Copynumber: 2.3 Consensus size: 57
100327091 GGATTATCAG
** * * * * **
100327101 TCCAGGCTAAATCCTTTTTGTAACGTATGCTCAGAAGAGCTCAATTAGGATTACCTG
1 TCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGATCAATCAGAATTACCCC
*
100327158 TCCAGGCTAAATCCTAATTGTAACATATGCTCA-AGAGAGATTATATCAGAATTACCCC
1 TCCAGGCTAAATCCTAATTGTAACATATGCTCAGA-AGAGATCA-ATCAGAATTACCCC
*
100327216 TCCGGGCTAAATCCTA
1 TCCAGGCTAAATCCTA
100327232 TCTGTAATGA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.02
57 36 0.58
58 25 0.40
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (57 bp):
TCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGATCAATCAGAATTACCCC
Found at i:100334103 original size:27 final size:27
Alignment explanation
Indices: 100334045--100334109 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
100334035 TACACAAAGT
* * *
100334045 GTGCCGCCTATGAGATAAGCACCACTA
1 GTGCCACCTATCAGATAAGCACAACTA
* * * *
100334072 ATGCCTCCTATCAGATAAGCACAATTG
1 GTGCCACCTATCAGATAAGCACAACTA
100334099 GTGCCACCTAT
1 GTGCCACCTAT
100334110 TTGACACTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
GTGCCACCTATCAGATAAGCACAACTA
Found at i:100339587 original size:25 final size:25
Alignment explanation
Indices: 100339557--100339606 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100339547 TGCATGTATG
100339557 TTTGAAAATTAATATTTAATTAAAT
1 TTTGAAAATTAATATTTAATTAAAT
100339582 TTTGAAAATTAATATTTAATTAAAT
1 TTTGAAAATTAATATTTAATTAAAT
100339607 AAACAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTGAAAATTAATATTTAATTAAAT
Found at i:100339614 original size:25 final size:25
Alignment explanation
Indices: 100339561--100339617 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
100339551 TGTATGTTTG
****
100339561 AAAATTAATATTTAATTAAATTTTG
1 AAAATTAATATTTAATTAAATAAAC
100339586 AAAATTAATATTTAATTAAATAAAC
1 AAAATTAATATTTAATTAAATAAAC
100339611 AAAATTA
1 AAAATTA
100339618 TCTTCTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAATTAATATTTAATTAAATAAAC
Found at i:100346745 original size:25 final size:25
Alignment explanation
Indices: 100346705--100346778 Score: 96
Period size: 24 Copynumber: 2.9 Consensus size: 25
100346695 TCTCGACCCT
100346705 ATTTTATCCCTAGTAAAATTTTGACG
1 ATTTTA-CCCTAGTAAAATTTTGACG
* *
100346731 ATTTTACCCTGGT-AAATTTTAACG
1 ATTTTACCCTAGTAAAATTTTGACG
*
100346755 ATTTTACCCTTAATAAAATTTTGA
1 ATTTTACCC-TAGTAAAATTTTGA
100346779 GAAAATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 19 0.46
25 8 0.20
26 14 0.34
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGACG
Found at i:100349345 original size:20 final size:19
Alignment explanation
Indices: 100349293--100349347 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
100349283 TCAAAATGAA
* *
100349293 TAAAATATAAAAAAACTATT
1 TAAAA-ATAAATAAACAATT
*
100349313 TAAAAAGATAATAAACAATTT
1 TAAAAATA-AATAAACAA-TT
100349334 TAAAAATAAATAAA
1 TAAAAATAAATAAA
100349348 GTAAAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 18 0.62
21 9 0.31
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAATAAATAAACAATT
Found at i:100351541 original size:44 final size:44
Alignment explanation
Indices: 100351464--100351805 Score: 205
Period size: 44 Copynumber: 7.6 Consensus size: 44
100351454 ACTCCAATCC
* *
100351464 GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAATTTTAACCT
1 GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAATTTCAACCA
* * *
100351508 GCTCTACTGCAACTTC-GGGAAGATGAGGTTTGTAATTTCGACCA
1 GCTCTACTGCAACTTCAGGG-AGATAAGGCTTGTAATTTCAACCA
** * ** * *
100351552 GCT-TCACTGCAACTTCAGAAAGATAAGATCTGCGATTCATAGCTTCAATCT
1 GCTCT-ACTGCAACTTCAGGGAGATAAG----GC--TT-GTAATTTCAACCA
* * * * ** * *
100351603 GTTCCACTGCAACTTCAGGAAAATAAGATTTGCT-ATCTTCAGCCC
1 GCTCTACTGCAACTTCAGGGAGATAAGGCTTG-TAAT-TTCAACCA
* * *
100351648 GCTCCACTGCAACTTCAGGGAGATAAGGCTTGT--TTT-GACCT
1 GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAATTTCAACCA
* * * ** *
100351689 GTTCTACTGCAACTTCAGAGAGAT-AGGATCTGTAATTTTCAGTCT
1 GCTCTACTGCAACTTCAGGGAGATAAGGCT-TGTAA-TTTCAACCA
*
100351734 GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTA
1 GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAATTTCAACC-A
* * *
100351779 -TTCCACTACAACTTCAGGGAGATAAGG
1 GCTCTACTGCAACTTCAGGGAGATAAGG
100351806 TTAGTGGTTG
Statistics
Matches: 226, Mismatches: 52, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
40 4 0.02
41 26 0.12
42 2 0.01
43 5 0.02
44 88 0.39
45 65 0.29
46 4 0.02
48 1 0.00
50 2 0.01
51 29 0.13
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTCTACTGCAACTTCAGGGAGATAAGGCTTGTAATTTCAACCA
Found at i:100351674 original size:45 final size:44
Alignment explanation
Indices: 100351605--100351804 Score: 174
Period size: 45 Copynumber: 4.6 Consensus size: 44
100351595 TTCAATCTGT
* * * *
100351605 TCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAGCCCGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTG-TATCTTCAGCCTGC
* * *
100351650 TCCACTGCAACTTCAGGGAGATAAGGCTTGT-T-TTGA-CCTGT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGCCTGC
* * * * *
100351691 TCTACTGCAACTTCAGAGAGATAGGA-TCTGTAATTTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-TGT-ATCTTCAGCCTGC
* * * * **
100351736 TCTACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTAT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGCCTGC
*
100351780 TCCACTACAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
100351805 GTTAGTGGTT
Statistics
Matches: 124, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 28 0.23
42 3 0.02
43 2 0.02
44 34 0.27
45 55 0.44
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAGCCTGC
Found at i:100355719 original size:50 final size:48
Alignment explanation
Indices: 100355598--100355784 Score: 214
Period size: 48 Copynumber: 3.8 Consensus size: 48
100355588 TGAGGTCGCA
* * * *
100355598 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGA-TGTAGGTCACG
**
100355649 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GT-AGGTCACG
* * *
100355699 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTAGGTCACG
* *
100355747 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
100355785 AGCTTCGGCT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 45 0.38
49 2 0.02
50 42 0.35
51 30 0.25
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTAGGTCACG
Found at i:100358788 original size:15 final size:15
Alignment explanation
Indices: 100358768--100358832 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
100358758 GTATCTTGGG
100358768 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
100358783 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
100358798 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
100358813 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
100358827 TTTCTT
1 TTTCTT
100358833 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:100358800 original size:30 final size:31
Alignment explanation
Indices: 100358764--100358832 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
100358754 TATCGTATCT
100358764 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
100358794 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
100358824 -GGTTTTCTT
1 TGGGTTTCTT
100358833 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:100360621 original size:50 final size:49
Alignment explanation
Indices: 100360501--100360685 Score: 176
Period size: 50 Copynumber: 3.7 Consensus size: 49
100360491 AGGTTGCATG
* * * * * *
100360501 TGTAGTACTAAGTGCAGACTACTATGCGTACCTGAAAACTGT-GATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACC---AGACTGTAGGTCACGTA
* **
100360552 TGTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGAGGTCACGTA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACGTA
* * *
100360602 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTA
* * *
100360651 TATAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
100360686 TAGCTTCGGC
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 39 0.35
50 41 0.37
51 27 0.24
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTA
Found at i:100360667 original size:49 final size:50
Alignment explanation
Indices: 100360554--100360686 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
100360544 ATCACGTGTG
* ** * *
100360554 TAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTGAGGTCACGTATG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGGTCACATATA
* *
100360604 TAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-TGGTCGCATATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTGAGGTCACATATA
* *
100360653 TAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
100360687 AGCTTCGGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.53
50 32 0.44
51 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGGTCACATATA
Found at i:100372244 original size:46 final size:44
Alignment explanation
Indices: 100372156--100372244 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
100372146 CATGAATTAT
*
100372156 TCCTGTCTCCAATGCCATATATAATATGGACATACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACATACATGGCTCAA
* * *
100372200 TCCTGTCTCCAAAGCCATATTTCTAATATGGGCTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACATACATGGCTCA
100372245 TTTCTATTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
46 21 0.54
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACATACATGGCTCAA
Found at i:100376849 original size:41 final size:42
Alignment explanation
Indices: 100376767--100376853 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
100376757 CAAATCAGGT
100376767 ATGATTTTTGTCTTCGAATTTAGTAAAAAAAAGAACCTTATA
1 ATGATTTTTGTCTTCGAATTTAGTAAAAAAAAGAACCTTATA
*
100376809 ATGATTTTTGTCTTCGAATTTAGT-AAAAAAATAACCTTATA
1 ATGATTTTTGTCTTCGAATTTAGTAAAAAAAAGAACCTTATA
100376850 ATGA
1 ATGA
100376854 CAATTAAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (42 bp):
ATGATTTTTGTCTTCGAATTTAGTAAAAAAAAGAACCTTATA
Found at i:100377211 original size:16 final size:16
Alignment explanation
Indices: 100377187--100377223 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
100377177 CAAAAACTAT
* *
100377187 AAACACAATAGCAGAA
1 AAACCCAATAGAAGAA
100377203 AAACCCAATAGAAGAA
1 AAACCCAATAGAAGAA
100377219 AAACC
1 AAACC
100377224 AGAATAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.22, G:0.11, T:0.05
Consensus pattern (16 bp):
AAACCCAATAGAAGAA
Found at i:100377232 original size:15 final size:15
Alignment explanation
Indices: 100377214--100377286 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
100377204 AACCCAATAG
100377214 AAGAAAAACCAGAAT
1 AAGAAAAACCAGAAT
* *
100377229 AAGAAAAACCACAAA
1 AAGAAAAACCAGAAT
* * * *
100377244 AACTATAAACACAGTAG
1 AA-GAAAAAC-CAGAAT
*
100377261 CAGAAAAACCAGAAT
1 AAGAAAAACCAGAAT
100377276 AAGAAAAACCA
1 AAGAAAAACCA
100377287 CAAAACCTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
15 29 0.67
16 10 0.23
17 4 0.09
ACGTcount: A:0.64, C:0.18, G:0.11, T:0.07
Consensus pattern (15 bp):
AAGAAAAACCAGAAT
Found at i:100377244 original size:63 final size:62
Alignment explanation
Indices: 100377145--100377286 Score: 207
Period size: 63 Copynumber: 2.3 Consensus size: 62
100377135 CTAGAGACAG
* *
100377145 CAATAGCAGAAAAACCAGAATAAGAAGACCTACAAAAACTATAAACACAATAGCAGAAAAACC
1 CAATAGAAGAAAAACCAGAATAAGAAAACCTACAAAAACTATAAACACAATAGCAGAAAAA-C
*
100377208 CAATAGAAGAAAAACCAGAATAAGAAAAACC-ACAAAAACTATAAACACAGTAGCAGAAAAAC
1 CAATAGAAGAAAAACCAGAATAAG-AAAACCTACAAAAACTATAAACACAATAGCAGAAAAAC
*
100377270 CAGA-ATAAGAAAAACCA
1 CA-ATAGAAGAAAAACCA
100377287 CAAAACCTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
62 15 0.21
63 53 0.73
64 5 0.07
ACGTcount: A:0.61, C:0.19, G:0.11, T:0.08
Consensus pattern (62 bp):
CAATAGAAGAAAAACCAGAATAAGAAAACCTACAAAAACTATAAACACAATAGCAGAAAAAC
Found at i:100377269 original size:47 final size:47
Alignment explanation
Indices: 100377209--100377327 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 47
100377199 AGAAAAACCC
* *
100377209 AATAGAAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACAC
1 AATAGCAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACAA
* *
100377256 AGTAGCAGAAAAACCAGAATAAGAAAAACCACAAAACCTATAAACAA
1 AATAGCAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACAA
* *
100377303 AATAGCAGAAAAACCAAAATCAGAA
1 AATAGCAGAAAAACCAGAATAAGAA
100377328 TAAGGTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.64, C:0.18, G:0.10, T:0.08
Consensus pattern (47 bp):
AATAGCAGAAAAACCAGAATAAGAAAAACCACAAAAACTATAAACAA
Found at i:100378344 original size:17 final size:17
Alignment explanation
Indices: 100378322--100378374 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
100378312 TGAATTCTAG
100378322 TAGCTAGAAGGATCAAA
1 TAGCTAGAAGGATCAAA
* *
100378339 TAGCT--ATGGAT--AG
1 TAGCTAGAAGGATCAAA
100378352 TAGCTAGAAGGATCAAA
1 TAGCTAGAAGGATCAAA
100378369 TAGCTA
1 TAGCTA
100378375 TGGAATTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 6 0.21
15 10 0.36
17 12 0.43
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (17 bp):
TAGCTAGAAGGATCAAA
Found at i:100378355 original size:30 final size:30
Alignment explanation
Indices: 100378319--100378378 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
100378309 AGTTGAATTC
100378319 TAGTAGCTAGAAGGATCAAATAGCTATGGA
1 TAGTAGCTAGAAGGATCAAATAGCTATGGA
100378349 TAGTAGCTAGAAGGATCAAATAGCTATGGA
1 TAGTAGCTAGAAGGATCAAATAGCTATGGA
100378379 ATTCAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (30 bp):
TAGTAGCTAGAAGGATCAAATAGCTATGGA
Found at i:100378708 original size:34 final size:35
Alignment explanation
Indices: 100378665--100378733 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
100378655 CTAATCAATC
100378665 TATTTTGGGGATTAATTTG-AAAGTTATCATAGTA
1 TATTTTGGGGATTAATTTGAAAAGTTATCATAGTA
*
100378699 TATTTTGGGGATTAATTTGAAAAGTTATTATAGTA
1 TATTTTGGGGATTAATTTGAAAAGTTATCATAGTA
100378734 AAAAAGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.45
Consensus pattern (35 bp):
TATTTTGGGGATTAATTTGAAAAGTTATCATAGTA
Found at i:100380502 original size:3 final size:3
Alignment explanation
Indices: 100380496--100380559 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
100380486 TTAAAAAAAG
*
100380496 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
100380544 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
100380560 GTGCCGATCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:100384532 original size:35 final size:34
Alignment explanation
Indices: 100384491--100384589 Score: 83
Period size: 35 Copynumber: 2.8 Consensus size: 34
100384481 CATAGGTAAG
*
100384491 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTAAGCTTATATTGAA-TTGTATATTCGAC
* * * * * *
100384526 TGCATGTGAGGTTAGATTGAATTTTAGTATTCGAT
1 TACATGTAAGCTTATATTGAATTGTA-TATTCGAC
*
100384561 TACATGTGAA-CTTCTATTGAAATTGTATA
1 TACATGT-AAGCTTATATTG-AATTGTATA
100384590 CTCAGATATA
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
34 4 0.08
35 37 0.77
36 7 0.15
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (34 bp):
TACATGTAAGCTTATATTGAATTGTATATTCGAC
Found at i:100388429 original size:2 final size:2
Alignment explanation
Indices: 100388422--100388446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100388412 TAAAATTAAA
100388422 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 A
100388447 ATAAAAACAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100392070 original size:3 final size:3
Alignment explanation
Indices: 100392062--100392096 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
100392052 TATTAGGAAG
100392062 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
100392097 CTCTCTTCTT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:100393852 original size:35 final size:35
Alignment explanation
Indices: 100393729--100393853 Score: 162
Period size: 35 Copynumber: 3.6 Consensus size: 35
100393719 TCCTCATTGA
* * * *
100393729 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCAAAACTCAGTAT-GGAT
* **
100393764 AATGCCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCAAAACTCAGTATGGAT
100393799 AATACCATACCTACGTTTCAAAACTCAGTATGGAT
1 AATACCATACCTACGTTTCAAAACTCAGTATGGAT
*
100393834 GATACCATACCTACGTTTCA
1 AATACCATACCTACGTTTCA
100393854 CAAATTTGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 3 0.04
35 76 0.96
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCAAAACTCAGTATGGAT
Found at i:100401221 original size:35 final size:36
Alignment explanation
Indices: 100401155--100401279 Score: 139
Period size: 35 Copynumber: 3.6 Consensus size: 36
100401145 TCCTCATTGA
* * ** *
100401155 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCAAAACTTAGTATGGAAT
* * **
100401190 AATGCCATACCTACGTTTCTTAACTTAGTAT-GAAT
1 AATACCATACCTACATTTCAAAACTTAGTATGGAAT
100401225 AATACCATACCTACATTTCAAAACTTAGTATGG-AT
1 AATACCATACCTACATTTCAAAACTTAGTATGGAAT
*
100401260 GATACCATACCTACATTTCA
1 AATACCATACCTACATTTCA
100401280 CAAATTTTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
34 2 0.03
35 72 0.96
36 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCAAAACTTAGTATGGAAT
Found at i:100401302 original size:35 final size:35
Alignment explanation
Indices: 100401226--100401302 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
100401216 AGTATGAATA
** * *
100401226 ATACCATACCTACATTTCAAAACTTAGTATGGATG
1 ATACCATACCTACATTTCAAAACTTACCATAGATC
* *
100401261 ATACCATACCTACATTTCACAAATTTTCCATAGATC
1 ATACCATACCTACATTTCA-AAACTTACCATAGATC
100401297 A-ACCAT
1 ATACCAT
100401303 GGTCTTATCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 24 0.69
36 11 0.31
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCAAAACTTACCATAGATC
Found at i:100405487 original size:27 final size:27
Alignment explanation
Indices: 100405452--100405508 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
100405442 AATTAAAAAA
*
100405452 TAAAAATAAAAA-TGTTAGTAATTAAAT
1 TAAAAATAAAAATTATTAGTAATT-AAT
*
100405479 TAAAGATAAAAATTATTAGTAATTAAT
1 TAAAAATAAAAATTATTAGTAATTAAT
100405506 TAA
1 TAA
100405509 GTAGGATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (27 bp):
TAAAAATAAAAATTATTAGTAATTAAT
Found at i:100407151 original size:18 final size:17
Alignment explanation
Indices: 100407124--100407178 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
100407114 TAAAAGAATT
100407124 TATAAAATAACACATAA
1 TATAAAATAACACATAA
**
100407141 TATATAAATAACATTTTAA
1 TATA-AAATAACA-CATAA
* *
100407160 AATAAAATAATACATAA
1 TATAAAATAACACATAA
100407177 TA
1 TA
100407179 AATAAATAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 8 0.28
18 15 0.52
19 6 0.21
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAAAATAACACATAA
Found at i:100407185 original size:18 final size:18
Alignment explanation
Indices: 100407128--100407188 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
100407118 AGAATTTATA
* *
100407128 AAATAACACATAATATAT
1 AAATAATACATAATAAAT
**
100407146 AAAT-A-ACATTTTAAAAT
1 AAATAATACATAAT-AAAT
100407163 AAAATAATACATAATAAAT
1 -AAATAATACATAATAAAT
100407182 AAATAAT
1 AAATAAT
100407189 TAATAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 4 0.12
18 15 0.44
19 5 0.15
20 5 0.15
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAATACATAATAAAT
Found at i:100407297 original size:19 final size:19
Alignment explanation
Indices: 100407257--100407301 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100407247 AAATTGTAAG
*
100407257 TAATATAATGAATAGTAAA
1 TAATATAATGAATAATAAA
*
100407276 TAATATAAT-AGATAATATA
1 TAATATAATGA-ATAATAAA
100407295 TAATATA
1 TAATATA
100407302 CATAACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAATATAATGAATAATAAA
Found at i:100407363 original size:22 final size:20
Alignment explanation
Indices: 100407290--100407365 Score: 57
Period size: 22 Copynumber: 3.6 Consensus size: 20
100407280 ATAATAGATA
* *
100407290 ATAT-ATAATATACATAACTT
1 ATATAATAAAATA-ATAAGTT
*
100407310 ATATAA-AAAATAATAAGTA
1 ATATAATAAAATAATAAGTT
*
100407329 ATTAGAATAAAAATAATAAACGTT
1 A-TATAAT-AAAATAAT-AA-GTT
100407353 ATATAATAAAATA
1 ATATAATAAAATA
100407366 TAATTTGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 6 0.14
20 13 0.30
21 1 0.02
22 14 0.32
23 7 0.16
24 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (20 bp):
ATATAATAAAATAATAAGTT
Found at i:100407481 original size:19 final size:19
Alignment explanation
Indices: 100407437--100407474 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
100407427 TATGTAAGGA
*
100407437 TAATATATATATAAATAAT
1 TAATAAATATATAAATAAT
*
100407456 TAATAAATATATTAATAAT
1 TAATAAATATATAAATAAT
100407475 ATATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATAAATATATAAATAAT
Found at i:100407484 original size:12 final size:14
Alignment explanation
Indices: 100407436--100407502 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 14
100407426 ATATGTAAGG
100407436 ATAAT-ATATATATAA
1 ATAATAATA-ATAT-A
100407451 ATAATTAATAA-AT-
1 ATAA-TAATAATATA
*
100407464 ATATTAATAATAT-
1 ATAATAATAATATA
100407477 ATAA-AATAATGATA
1 ATAATAATAAT-ATA
100407491 ATAATAATAATA
1 ATAATAATAATA
100407503 ATTTGTGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 12 0.27
13 10 0.23
14 5 0.11
15 12 0.27
16 2 0.05
17 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:100407486 original size:15 final size:15
Alignment explanation
Indices: 100407436--100407504 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
100407426 ATATGTAAGG
100407436 ATAAT-ATATATATAA
1 ATAATAATATATA-AA
* *
100407451 ATAATTAATAAATATA
1 ATAA-TAATATATAAA
*
100407467 TTAATAATATATAAA
1 ATAATAATATATAAA
*
100407482 ATAATGATA-ATAATA
1 ATAATAATATATAA-A
100407497 ATAATAAT
1 ATAATAAT
100407505 TTGTGAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.09
15 28 0.65
16 5 0.12
17 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (15 bp):
ATAATAATATATAAA
Found at i:100407493 original size:9 final size:9
Alignment explanation
Indices: 100407436--100407504 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
100407426 ATATGTAAGG
100407436 ATAATATATA
1 ATAATA-ATA
100407446 TATAAATAATTA
1 -AT-AATAA-TA
100407458 ATAA-ATATA
1 ATAATA-ATA
*
100407467 TTAATAATA
1 ATAATAATA
100407476 TATAA-AATA
1 -ATAATAATA
*
100407485 ATGATAATA
1 ATAATAATA
100407494 ATAATAATA
1 ATAATAATA
100407503 AT
1 AT
100407505 TTGTGAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
8 3 0.06
9 27 0.56
10 7 0.15
11 5 0.10
12 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAATAATA
Found at i:100409602 original size:210 final size:210
Alignment explanation
Indices: 100409155--100410120 Score: 1337
Period size: 210 Copynumber: 4.6 Consensus size: 210
100409145 CTTAGATTGA
* * * * * *
100409155 TTCTCTGACAATACAGAGATGCCAAATTATCTTAAATTTGTTTCATCGTAAGCACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* * * * ** ** * **
100409220 AATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCATA-AG-GATGCCAA-A----TCATCTTGGA
66 AATCAGCTATATCTTCGATCTGCTCCCCG-CCGAATACAGAGA-GATAAGATCTGTCATCTTGGA
* * * * * * * * *
100409278 TCTTGCTTCAGTCTAATCGTCTGAAGATCAGATCTGCCATGTATCTG--TTCCCCATTGAATGTG
129 TC-TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTT--CCA-TCAAAGTG
* *
100409341 GAGATGCTAGACTTCGATTTG
190 GAAATGCCAGACTTCGATTTG
* * *
100409362 TTCTCTGACAATATAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACATGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* *
100409427 AATCAGCTATATCTTCGATCTGCTCCCCGCTGAATACAGAGAGATAAGACCTGTCATCTTGGATC
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
*
100409492 TGCTTCAGTGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
131 TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
*
100409557 CCAGACTTTGATTTG
196 CCAGACTTCGATTTG
* *
100409572 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATTGTAAACATGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
*
100409637 AATCAACTATATCTTCGATCTGCT---C-CCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
100409698 TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
131 TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
*
100409763 CCAGACTTTGATTTG
196 CCAGACTTCGATTTG
*
100409778 TTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* * *
100409843 AATCAGCTATAACTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATTTGTCATCTTGGATC
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
* *
100409908 TGCTTCAGTGTAAACATCTGAAGGTGAGATTTACTATGTGTCTGCCTTCCATCAAAGTGGAAATG
131 TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
100409973 CCAGACTTCGATTTG
196 CCAGACTTCGATTTG
* * *
100409988 TTCTCTGACAATATAGAGACGACAAATCATCTTGGATTTGCTTCATCATAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
* *
100410053 AATCAGTTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATC
66 AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
100410118 TGC
131 TGC
100410121 CCTGATAATG
Statistics
Matches: 690, Mismatches: 56, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
206 201 0.29
207 87 0.13
208 3 0.00
210 345 0.50
211 40 0.06
212 12 0.02
213 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (210 bp):
TTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
AATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATC
TGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATG
CCAGACTTCGATTTG
Found at i:100409927 original size:416 final size:418
Alignment explanation
Indices: 100409268--100410120 Score: 1327
Period size: 416 Copynumber: 2.0 Consensus size: 418
100409258 GGATGCCAAA
* *
100409268 TCATCTTGGATCTTGCTTCAGTCTAATCGTCTGAAGATCAGATCTGCCATGTATCTGTTCCCCAT
1 TCATCTTGGATC-TGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTGTT-CCCAT
* * * * * **
100409333 TGAATGTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATATAGAGATGACAAATCATCTTAGA
64 TCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACAACAAATCATCTTAGA
* * *
100409398 TTTGCTTCATCGTAAACATGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCTGAATA
129 TTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAACTTCGATCTGCTCCCCGCCGAATA
*
100409463 CAGAGAGATAAGACCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTGCTA
194 CAGAGAGATAAGACCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTACTA
*
100409528 TGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTTGATTTGTTCTCTGACAATACAGAGACG
259 TGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACG
** *
100409593 ACAAATCATCTTAGATTTGCTTCATTGTAAACATGTGAAAGCCAAATCAACTATATCTTCGATCT
324 ACAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAAGCCAAATCAACTATATCTTCGATCT
100409658 GCT-C-CCGAATACAGAGAGATAAGATCTG
389 GCTCCGCCGAATACAGAGAGATAAGATCTG
* * * * *
100409686 TCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTT-CCA-
1 TCATCTTGGATCTGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTG--TTCCCAT
*
100409749 TCAAAGTGGAAATGCCAGACTTTGATTTGTTCTCTGACAATACAGAGACAACAAATCATCTTAGA
64 TCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACAACAAATCATCTTAGA
*
100409814 TTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAACTTCGATCTGCTCCCTGCCGAATA
129 TTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAACTTCGATCTGCTCCCCGCCGAATA
** * *
100409879 CAGAGAGATAAGATTTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATTTACTA
194 CAGAGAGATAAGACCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTACTA
*
100409944 TGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATATAGAGACG
259 TGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACG
* **
100410009 ACAAATCATCTTGGATTTGCTTCATCATAAACACGTGAAAGCCAAATCAGTTATATCTTCGATCT
324 ACAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAAGCCAAATCAACTATATCTTCGATCT
100410074 GCTCCCCGCCGAATACAGAGAGATAAGATCTG
389 GCT--CCGCCGAATACAGAGAGATAAGATCTG
*
100410106 CCATCTTGGATCTGC
1 TCATCTTGGATCTGC
100410121 CCTGATAATG
Statistics
Matches: 396, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
416 303 0.77
417 40 0.10
418 12 0.03
419 3 0.01
420 38 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (418 bp):
TCATCTTGGATCTGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTGTTCCCATTC
AAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATT
TGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATAACTTCGATCTGCTCCCCGCCGAATACA
GAGAGATAAGACCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTACTATG
TGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGAC
AAATCATCTTAGATTTGCTTCATCATAAACACGTGAAAGCCAAATCAACTATATCTTCGATCTGC
TCCGCCGAATACAGAGAGATAAGATCTG
Found at i:100416180 original size:43 final size:43
Alignment explanation
Indices: 100416119--100416204 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
100416109 TCCCCCTCAG
100416119 GTATTGTTATATTGCAGTCATAGCTCCATGGCACGCTCCTATC
1 GTATTGTTATATTGCAGTCATAGCTCCATGGCACGCTCCTATC
100416162 GTATTGTTATATTGCAGTCATAGCTCCATGGCACGCTCCTATC
1 GTATTGTTATATTGCAGTCATAGCTCCATGGCACGCTCCTATC
100416205 ATCATTGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (43 bp):
GTATTGTTATATTGCAGTCATAGCTCCATGGCACGCTCCTATC
Found at i:100418732 original size:47 final size:46
Alignment explanation
Indices: 100418678--100418854 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 46
100418668 TGGTTGAGCA
100418678 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAATG
* *
100418725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
100418770 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* **
100418818 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100418855 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 19
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 35 0.32
47 57 0.52
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:100421487 original size:15 final size:14
Alignment explanation
Indices: 100421445--100421494 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
100421435 ATAACTTTGA
*
100421445 ATGCAAATGATGTG
1 ATGCAAATGATGAG
100421459 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
100421474 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
100421488 ATGCAAA
1 ATGCAAA
100421495 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:100425223 original size:18 final size:17
Alignment explanation
Indices: 100425196--100425250 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
100425186 TAAAAGAATT
100425196 TATAAAATAACACATAA
1 TATAAAATAACACATAA
**
100425213 TATATAAATAACATTTTAA
1 TATA-AAATAACA-CATAA
* *
100425232 AATAAAATAATACATAA
1 TATAAAATAACACATAA
100425249 TA
1 TA
100425251 AATAAATAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 8 0.28
18 15 0.52
19 6 0.21
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAAAATAACACATAA
Found at i:100425257 original size:18 final size:18
Alignment explanation
Indices: 100425200--100425260 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
100425190 AGAATTTATA
* *
100425200 AAATAACACATAATATAT
1 AAATAATACATAATAAAT
**
100425218 AAAT-A-ACATTTTAAAAT
1 AAATAATACATAAT-AAAT
100425235 AAAATAATACATAATAAAT
1 -AAATAATACATAATAAAT
100425254 AAATAAT
1 AAATAAT
100425261 TAATAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 5 0.15
17 4 0.12
18 15 0.44
19 5 0.15
20 5 0.15
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAATACATAATAAAT
Found at i:100425369 original size:19 final size:19
Alignment explanation
Indices: 100425329--100425373 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
100425319 AAATTTTAAG
*
100425329 TAATATAATGAATAGTAAA
1 TAATATAATGAATAATAAA
*
100425348 TAATATAAT-AGATAATATA
1 TAATATAATGA-ATAATAAA
100425367 TAATATA
1 TAATATA
100425374 CATAACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAATATAATGAATAATAAA
Found at i:100425427 original size:23 final size:22
Alignment explanation
Indices: 100425384--100425441 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
100425374 CATAACTTAT
100425384 ATAAAAATAATAAGTAATATAGA
1 ATAAAAATAATAAGT-ATATAGA
*
100425407 ATAAAAATAATAAACGT-TATATA
1 ATAAAAATAAT-AA-GTATATAGA
100425430 ATAAAATATAAT
1 ATAAAA-ATAAT
100425442 TTGAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 22 0.71
24 7 0.23
25 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (22 bp):
ATAAAAATAATAAGTATATAGA
Found at i:100425717 original size:17 final size:18
Alignment explanation
Indices: 100425681--100425718 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
100425671 AGGGTTAAAA
*
100425681 ATAAAACAATATTTACAT
1 ATAAAACAATATATACAT
*
100425699 ATAAAA-AATATATATAT
1 ATAAAACAATATATACAT
100425716 ATA
1 ATA
100425719 GAATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAACAATATATACAT
Found at i:100425737 original size:24 final size:23
Alignment explanation
Indices: 100425676--100425738 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
100425666 AAAGTAGGGT
* * *
100425676 TAAAAATAAAACA-ATATTTACA
1 TAAAAAAAAAACATATATATAAA
* * *
100425698 TATAAAAAATATATATATATAGAA
1 TAAAAAAAAAACATATATATA-AA
100425722 TAAAAAAAAAACATATA
1 TAAAAAAAAAACATATA
100425739 GGGCTAAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 9 0.30
23 6 0.20
24 15 0.50
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAAAAAAAACATATATATAAA
Found at i:100430209 original size:18 final size:18
Alignment explanation
Indices: 100430183--100430221 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
100430173 AACAGATACA
*
100430183 GATGTAGATACAAATATT
1 GATGCAGATACAAATATT
**
100430201 GATGCAGATACTGATATT
1 GATGCAGATACAAATATT
100430219 GAT
1 GAT
100430222 ACGAATACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (18 bp):
GATGCAGATACAAATATT
Found at i:100433374 original size:14 final size:14
Alignment explanation
Indices: 100433355--100433390 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
100433345 GATCGAATTG
100433355 TTGGAAAATTGGGT
1 TTGGAAAATTGGGT
100433369 TTGGAAAATTGGGT
1 TTGGAAAATTGGGT
*
100433383 TTAGAAAA
1 TTGGAAAA
100433391 CATAGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (14 bp):
TTGGAAAATTGGGT
Found at i:100433792 original size:61 final size:61
Alignment explanation
Indices: 100433697--100433815 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 61
100433687 AGAATTAATT
* * *
100433697 ATATTAATATTAAATTAATAAAATATTATATAGATAAATATTT-AATTTAATTTAATATCTC
1 ATATTAATACTAAATTAATAAAATACTATATAGATAAAT-TTTAAATTAAATTTAATATCTC
*
100433758 ATATTAATACTAAATTAATAAAATACTATCTAGATAAATTTTAAATTAAATTTAATAT
1 ATATTAATACTAAATTAATAAAATACTATATAGATAAATTTTAAATTAAATTTAATAT
100433816 TAAATTCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 3 0.06
61 50 0.94
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (61 bp):
ATATTAATACTAAATTAATAAAATACTATATAGATAAATTTTAAATTAAATTTAATATCTC
Found at i:100435780 original size:31 final size:31
Alignment explanation
Indices: 100435726--100435785 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
100435716 CTTTATTTGA
** *
100435726 TCAATTTTAGTCCCTCTACTTTTCGAATTGG
1 TCAATTTTAGTCCCAATACTTTTCAAATTGG
*
100435757 TCAATTTTAGTCCCAATAGTTTTCAAATT
1 TCAATTTTAGTCCCAATACTTTTCAAATT
100435786 TTGAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (31 bp):
TCAATTTTAGTCCCAATACTTTTCAAATTGG
Found at i:100436765 original size:20 final size:20
Alignment explanation
Indices: 100436718--100436765 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
100436708 GCCACATCAA
100436718 TATTCTTATCCTAAATTTCAG
1 TATT-TTATCCTAAATTTCAG
* * *
100436739 GAGTTTATCCTTAATTTCAG
1 TATTTTATCCTAAATTTCAG
100436759 TATTTTA
1 TATTTTA
100436766 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (20 bp):
TATTTTATCCTAAATTTCAG
Found at i:100443330 original size:19 final size:21
Alignment explanation
Indices: 100443308--100443351 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
100443298 TTTTTCTCAC
100443308 TTTATCTA-TTTT-TTTAAAT
1 TTTATCTACTTTTATTTAAAT
*
100443327 TTTATCTACTTTTATTTAATT
1 TTTATCTACTTTTATTTAAAT
100443348 TTTA
1 TTTA
100443352 GAATTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATCTACTTTTATTTAAAT
Found at i:100453811 original size:6 final size:6
Alignment explanation
Indices: 100453800--100453825 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
100453790 TTGCATCACC
100453800 CTGTCT CTGTCT CTGTCT CTGTCT CT
1 CTGTCT CTGTCT CTGTCT CTGTCT CT
100453826 CGCTTGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
CTGTCT
Found at i:100459848 original size:26 final size:26
Alignment explanation
Indices: 100459819--100459871 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
100459809 TATAATTTAA
100459819 TTAATAAATTTATATA-A-AAATTATTT
1 TTAA-AAA-TTATATACATAAATTATTT
*
100459845 TTAAATATTATATACATAAATTATTT
1 TTAAAAATTATATACATAAATTATTT
100459871 T
1 T
100459872 AATTTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 14 0.58
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAAAAATTATATACATAAATTATTT
Found at i:100460362 original size:2 final size:2
Alignment explanation
Indices: 100460357--100460388 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
100460347 GATAAAAATA
100460357 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
100460389 TAATCTAGCA
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:100461390 original size:31 final size:31
Alignment explanation
Indices: 100461345--100461405 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
100461335 CTATAAAATG
100461345 TTAACATATAACTTTAGGAAAATGATTTATC
1 TTAACATATAACTTTAGGAAAATGATTTATC
* *
100461376 TTAACCTATCACTTTAGGAAAATGATTTAT
1 TTAACATATAACTTTAGGAAAATGATTTAT
100461406 GTTTTTGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (31 bp):
TTAACATATAACTTTAGGAAAATGATTTATC
Found at i:100464080 original size:47 final size:47
Alignment explanation
Indices: 100463996--100464125 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
100463986 CACAATCGAT
* *
100463996 AAGTACCTATACCATGGCCC-TAGCCAAATCAAGGTAACT-TATCCCG
1 AAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCT-TCCCA
* *
100464042 GAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCTTCTCA
1 AAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCTTCCCA
*
100464089 AAATACCTATA-TCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACT-ATGGCCCGTAGCCAAATCAAGGTA
100464126 TTATTCGCAC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
46 19 0.25
47 55 0.73
48 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCTTCCCA
Found at i:100468525 original size:11 final size:10
Alignment explanation
Indices: 100468491--100468533 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 10
100468481 CAAAGCAACG
100468491 ATCA-CAAAA
1 ATCATCAAAA
100468500 A-CAT-AAAA
1 ATCATCAAAA
100468508 ATCATCAAAA
1 ATCATCAAAA
100468518 ATCGATCAAAA
1 ATC-ATCAAAA
100468529 ATCAT
1 ATCAT
100468534 ACCTTAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.23
9 4 0.13
10 9 0.30
11 10 0.33
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (10 bp):
ATCATCAAAA
Found at i:100471403 original size:17 final size:16
Alignment explanation
Indices: 100471377--100471410 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
100471367 CAAAGTAGTT
100471377 TAAAATTATAGAAATA
1 TAAAATTATAGAAATA
*
100471393 TAAATATTATATAAATA
1 TAAA-ATTATAGAAATA
100471410 T
1 T
100471411 TTAAAGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAAATTATAGAAATA
Found at i:100472711 original size:16 final size:15
Alignment explanation
Indices: 100472681--100472709 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100472671 AGAAATAGTA
100472681 AAATATTTTAAAAAT
1 AAATATTTTAAAAAT
100472696 AAATATTTTAAAAA
1 AAATATTTTAAAAA
100472710 ATGATACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTTTAAAAAT
Found at i:100476614 original size:2 final size:2
Alignment explanation
Indices: 100476607--100476644 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
100476597 CTATTAAGAA
100476607 AT 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 AT
100476645 GAAATAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.