Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 130 of 290
Found at i:40935600 original size:19 final size:19
Alignment explanation
Indices: 40935576--40935666 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
40935566 AATCATATCT
40935576 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
40935595 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
40935613 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
40935630 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
40935649 TCTAAGATTTCATATCAT
1 TCTAAGATTGCATATCAT
40935667 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:40935632 original size:35 final size:37
Alignment explanation
Indices: 40935569--40935666 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
40935559 ATTACAAAAT
40935569 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
40935605 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
40935640 CATATCATATCTAAGATTTCATATCAT
1 CATATCATATCTAAGA-TTGATATCAT
40935667 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 16 0.29
37 12 0.21
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:40935645 original size:14 final size:15
Alignment explanation
Indices: 40935590--40935664 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 15
40935580 AGATTGCATA
40935590 TCATATCTAAGATTG
1 TCATATCTAAGATTG
40935605 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
40935623 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
40935640 CATATCATATCTAAGATT-
1 ----TCATATCTAAGATTG
40935658 TCATATC
1 TCATATC
40935665 ATTGAAGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
14 7 0.13
17 16 0.30
18 15 0.28
19 16 0.30
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:40935823 original size:21 final size:20
Alignment explanation
Indices: 40935785--40935824 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
40935775 TTGGACTTCG
**
40935785 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
40935805 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
40935825 TCTGGGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:40936865 original size:40 final size:40
Alignment explanation
Indices: 40936735--40936866 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
40936725 AATTTGTAGG
*
40936735 CAAGCCACCAATAATGCA-AGCAAGCTGCCAGTAATGTGGT
1 CAAGCCACCAGTAATGCAGA-CAAGCTGCCAGTAATGTGGT
* * * * * ***
40936775 CAAGTCACCATTAGTGCAGACAGGCTGCCAGTATTGCAAAT
1 CAAGCCACCAGTAATGCAGACAAGCTGCCAGTAATG-TGGT
* * * *
40936816 -AAACTACCAGTAATGCAGACAAGTTGCTAGTAATGTGGT
1 CAAGCCACCAGTAATGCAGACAAGCTGCCAGTAATGTGGT
40936855 CAAGCCACCAGT
1 CAAGCCACCAGT
40936867 GTTGCAGATA
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
39 1 0.01
40 64 0.96
41 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (40 bp):
CAAGCCACCAGTAATGCAGACAAGCTGCCAGTAATGTGGT
Found at i:40946088 original size:46 final size:46
Alignment explanation
Indices: 40945939--40946161 Score: 195
Period size: 46 Copynumber: 4.8 Consensus size: 46
40945929 TCACTTGTGT
* * ** *
40945939 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCA-CGTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGAGACGA
* * **
40945985 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTATTAAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGA
* *
40946033 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-A
* * * *
40946080 -AGCCAGTGTAAGACATGTCTGGGACATTCATTGAC-TACGAGA--T
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACGA
* *
40946123 GTGCCAGTGTAAGACCATGTCTGGTACATAGCATCGGCA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
40946162 CAGATATGCT
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
44 12 0.08
45 14 0.10
46 66 0.46
47 29 0.20
48 21 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA
Found at i:40953503 original size:47 final size:44
Alignment explanation
Indices: 40953390--40953516 Score: 141
Period size: 47 Copynumber: 2.8 Consensus size: 44
40953380 TCACTTGTGT
* *
40953390 GAGCTAGTGTAAGACATATCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-CATTATGA
*
40953436 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATT-ATGA
40953481 CGAGTGCTAGTGTAAGACATGTCTAGGACATGCATC
1 -GA--GCTAGTGTAAGACATGTCTAGGACATGCATC
40953517 AACCTTGAGA
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
45 6 0.08
46 21 0.30
47 26 0.37
48 18 0.25
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATTATGA
Found at i:40953539 original size:46 final size:46
Alignment explanation
Indices: 40953434--40953562 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 46
40953424 GCCACATTAT
**
40953434 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAACATTGAGAC
* * *
40953482 GAGTGCTAGTGTAAGACATGTCTAGGACATGCATCAACCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGAC
* * * *
40953528 GTA-AGCCAGTGTAAGATATGTTTGGGATATGCATC
1 G-AGAGCCAGTGTAAGACATGTCTAGGACATGCATC
40953563 TGCTACGAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 40 0.58
47 15 0.22
48 14 0.20
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGAC
Found at i:40955899 original size:132 final size:132
Alignment explanation
Indices: 40955490--40956428 Score: 867
Period size: 132 Copynumber: 7.1 Consensus size: 132
40955480 TTAATTGGAG
* * * * * * *
40955490 TTAGGTTGC-AGTCTTAAATTAGC-AACCTTAACAATATCAACCGCTATCTTAAATTAGAGAGCT
1 TTAGGTTGCGA-TCTTAAATCAACGAACCTTAACAATATCAGCTGCGATCTTAAATCAGTGAGCT
* * * * * * * *
40955553 TTTCGAAATTGCGATCTAAGATCATCTAACTCAAATAAAATTTGTTCATGTTATTAAAACGAATG
65 TTTTGAAGTTGCGATCTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
40955618 AAC
130 AAC
* * * * *
40955621 TTAGGTTGCGATATTAAATCAGC-AACCTTAACAATATTAGCTGTGATAC-TAAATCAGCGAGCT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTGCGAT-CTTAAATCAGTGAGCT
* * ** * * * * *
40955684 GTTTGGAGTTGTTAT-TGAAATGAACTAAGC-CAAATAAATTTTTTTCATGTTCTTAAATCAAAT
65 TTTTGAAGTTGCGATCTGAGATCAACTAA-CTCAAATAAAATTTGTTCATGATCTTAAATCAAAT
*
40955747 AAAC
129 GAAC
* * *
40955751 TTAGGTTGTGATCTTAAATAAACGAACCTTAACAATATCAACTGCGATCTTAAATCAGTGAGCTT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTGCGATCTTAAATCAGTGAGCTT
* * * * **
40955816 TTTGAAGTTGCGATCTGAGATCAGCTAACTAAAATAAAATTTGTTCACGGTCTTAAATTGAATGA
66 TTTGAAGTTGCGATCTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGA
40955881 AC
131 AC
* * * *
40955883 TTAGGTCGCGATCTTAAATCAACGAACTTTAACAATATCAGCTGCGATATTAAATTAGTGAGCTT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTGCGATCTTAAATCAGTGAGCTT
** * * * *
40955948 TTCAAAATTGC-AACTTGAAATCAACTAACTCAAATAAAATTTGTTCTTGATCTTAAATCAAATG
66 TTTGAAGTTGCGATC-TGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
40956012 AAC
130 AAC
* ** * * * **
40956015 TTAGGTTACGATCTTAAATCAGTGAACCTTAACAATATCAAC-GACGATATTAAATTAGAAAGCT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTG-CGATCTTAAATCAGTGAGCT
* * ** ** * * *
40956079 TTTTGGAGTTGCGATATGAGATCAGTTAACTCAAATAAGTTTTTTTCATTATCATAAATCAAATG
65 TTTTGAAGTTGCGATCTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
40956144 AAC
130 AAC
* * * * ** *
40956147 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATTAGTTTCTATCTTAAATCAACGAG-AT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTGCGATCTTAAATCAGTGAGCTT
* * * * * * *
40956211 GTTCAGAGTTGCGATTTGGGATCAACTAACTCAAATAAAATTTGTCCATGATCTT-GATCGAATG
66 TTTGA-AGTTGCGATCTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATG
*
40956275 AAG
130 AAC
* ** * ** * *
40956278 TTAGGTTGTGATCTTAAATCAGTGAACCTTAATC-ATATCAGTTATGATATTAAATCAATGAGCT
1 TTAGGTTGCGATCTTAAATCAACGAACCTTAA-CAATATCAGCTGCGATCTTAAATCAGTGAGCT
* * * **
40956342 TTTTGGAGTTGCGAT-TGGAGATTAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATTTAAT
65 TTTTGAAGTTGCGATCT-GAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAAT
40956406 GAAC
129 GAAC
*
40956410 TTAGGTTGCAATCTTAAAT
1 TTAGGTTGCGATCTTAAAT
40956429 ATGTGATCTT
Statistics
Matches: 649, Mismatches: 143, Indels: 31
0.79 0.17 0.04
Matches are distributed among these distances:
130 61 0.09
131 215 0.33
132 372 0.57
133 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (132 bp):
TTAGGTTGCGATCTTAAATCAACGAACCTTAACAATATCAGCTGCGATCTTAAATCAGTGAGCTT
TTTGAAGTTGCGATCTGAGATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGA
AC
Found at i:40956054 original size:264 final size:263
Alignment explanation
Indices: 40955513--40956764 Score: 1057
Period size: 264 Copynumber: 4.8 Consensus size: 263
40955503 TTAAATTAGC
* * * * * * * *
40955513 AACCTTAACAATATCAACCGCTATCTTAAATTAGAGAGCTTTTCGAAATTGCGATCTAAGATCAT
1 AACCTTAACAATATCAACTGCGATATTAAATCAGAGAGCTTTTTGAAGTTGCGATCTGAGATCAG
* * * * *
40955578 CTAACTCAAATAAAATTTGTTCATGTTATTAAAACGAATGAACTTAGGTTGCGATATTAAATCAG
66 CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
* * * ** *
40955643 C-AACCTTAACAATATTAGCTGTGATACTAAATCAGCGAGCTGTTT-GGAGTTGTTATTGAAATG
131 CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCT-TTTCAGAGTTGCAATTGAAATC
* * * *
40955706 AACTAAGC-CAAATAAATTTTTTTCATGTTCTTAAATCAAATAAACTTAGGTTGTGATCTTAAAT
195 AACTAA-CTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAACTTAGGTTGTGATCTTAAAT
* **
40955770 AAACG
259 CAGTG
* *
40955775 AACCTTAACAATATCAACTGCGATCTTAAATCAGTGAGCTTTTTGAAGTTGCGATCTGAGATCAG
1 AACCTTAACAATATCAACTGCGATATTAAATCAGAGAGCTTTTTGAAGTTGCGATCTGAGATCAG
* * * * *
40955840 CTAACTAAAATAAAATTTGTTCACGGTCTTAAATTGAATGAACTTAGGTCGCGATCTTAAATCAA
66 CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
* * * * * *
40955905 CGAACTTTAACAATATCAGCTGCGATATTAAATTAGTGAGCTTTTCAAAATTGCAACTTGAAATC
131 CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAA-TTGAAATC
* **
40955970 AACTAACTCAAATAAAATTTGTTCTTGATCTTAAATCAAATGAACTTAGGTTACGATCTTAAATC
195 AACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAACTTAGGTTGTGATCTTAAATC
40956035 AGTG
260 AGTG
* * * *
40956039 AACCTTAACAATATCAAC-GACGATATTAAATTAGAAAGCTTTTTGGAGTTGCGATATGAGATCA
1 AACCTTAACAATATCAACTG-CGATATTAAATCAGAGAGCTTTTTGAAGTTGCGATCTGAGATCA
* ** * * * *
40956103 GTTAACTCAAATAAGTTTTTTTCATTATCATAAATCAAATGAACTTAGGTTGCGATCTTAAATCA
65 GCTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCA
* * * * * * * * **
40956168 ACGAACCTTAACAATATTAGTTTCTATCTTAAATCAACGAGATGTTCAGAGTTGCGATTTGGGAT
130 ACGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGC-AATTGAAAT
* * * *
40956233 CAACTAACTCAAATAAAATTTGTCCATGATCTT-GATCGAATGAAGTTAGGTTGTGATCTTAAAT
194 CAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAACTTAGGTTGTGATCTTAAAT
40956297 CAGTG
259 CAGTG
** ** *
40956302 AACCTTAATC-ATATCAGTTATGATATTAAATCA-ATGAGCTTTTTGGAGTTGCGAT-TGGAGAT
1 AACCTTAA-CAATATCAACTGCGATATTAAATCAGA-GAGCTTTTTGAAGTTGCGATCT-GAGAT
* **
40956364 TAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATTTAATGAACTTAGGTT--G--C---AAT
63 CAGCTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAAT
* * * * * * * *
40956422 --------CTT-A-AATA-T-G-T--GATCTTGATTTAGCGAGCTTTTTAGAGTTTCGATCTGAG
128 CAACGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAAT-TGAA
* *** * * * **
40956472 ATCAACTAATTCAAATATTTTTTTTTCATGATCTAAAATCGAATGAACTTAGGTTGCAAT-TCTA
192 ATCAACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAACTTAGGTTGTGATCT-TA
*
40956536 AATGAGCT-
256 AATCAG-TG
* ** * * * * *
40956544 AACCTTAACAATAACAACTATGATCTTAAATCAAAAAGATGTTT-AGAGTTGCGATCTGAGAT-A
1 AACCTTAACAATATCAACTGCGATATTAAATCAGAGAGCTTTTTGA-AGTTGCGATCTGAGATCA
* * *
40956607 TACTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTT-CTAATATTAAAT
65 -GCTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGC-GATCTTAAAT
** * * * ** * **
40956671 CAGTGAATCTTGAA-AATATTAGCTACGATCTTAAATCAATGAGCTGTTC-GAAGTTGTGATCTG
128 CAACGAACCTT-AACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAG-AGTTGCAAT-TG
*
40956734 AAATCAGCTAACTCAAATAAAATTTGTTCAT
190 AAATCAACTAACTCAAATAAAATTTGTTCAT
40956765 AAAATAAAGT
Statistics
Matches: 800, Mismatches: 148, Indels: 82
0.78 0.14 0.08
Matches are distributed among these distances:
240 1 0.00
241 56 0.07
242 122 0.15
243 4 0.00
244 1 0.00
245 1 0.00
246 4 0.00
247 1 0.00
248 3 0.00
249 3 0.00
256 3 0.00
257 3 0.00
259 6 0.01
260 1 0.00
261 2 0.00
262 120 0.15
263 166 0.21
264 302 0.38
265 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (263 bp):
AACCTTAACAATATCAACTGCGATATTAAATCAGAGAGCTTTTTGAAGTTGCGATCTGAGATCAG
CTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGAACTTAGGTTGCGATCTTAAATCAA
CGAACCTTAACAATATTAGCTGCGATATTAAATCAGCGAGCTTTTCAGAGTTGCAATTGAAATCA
ACTAACTCAAATAAAATTTGTTCATGATCTTAAATCAAATGAACTTAGGTTGTGATCTTAAATCA
GTG
Found at i:40956670 original size:132 final size:132
Alignment explanation
Indices: 40956453--40956764 Score: 334
Period size: 132 Copynumber: 2.4 Consensus size: 132
40956443 TAGCGAGCTT
* * *** *
40956453 TTTAGAGTTTCGATCTGAGATCA-ACTAATTCAAATATTTTTTTTTCATGATCTAAAATCGAATG
1 TTTAGAGTTGCGATCTGAGAT-ATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATG
* *
40956517 AACTTAGGTTGCAATTCTAAATGAGCT-AACCTT-AACAATAACAACTATGATCTTAAATCAAAA
65 AACTTAGGTTGCAATTCTAAATCAG-TGAACCTTGAA-AATAACAACTACGATCTTAAATCAAAA
40956580 AGATG
128 AGATG
*
40956585 TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTTAAATCGAATGA
1 TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATGA
* ** * **
40956650 ACTTAGGTT-CTAATAT-TAAATCAGTGAATCTTGAAAATATTAGCTACGATCTTAAATCAATGA
66 ACTTAGGTTGC-AAT-TCTAAATCAGTGAACCTTGAAAATAACAACTACGATCTTAAATCAAAAA
*
40956713 GCTG
129 GATG
* *
40956717 -TTCGAAGTTGTGATCTGA-A-ATCAGCTAACTCAAATAAAATTTGTTCAT
1 TTTAG-AGTTGCGATCTGAGATAT-A-CTAACTCAAATAAAATTTGTTCAT
40956765 AAAATAAAGT
Statistics
Matches: 154, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
130 2 0.01
131 8 0.05
132 141 0.92
133 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (132 bp):
TTTAGAGTTGCGATCTGAGATATACTAACTCAAATAAAATTTGTTCATGATCTAAAATCGAATGA
ACTTAGGTTGCAATTCTAAATCAGTGAACCTTGAAAATAACAACTACGATCTTAAATCAAAAAGA
TG
Found at i:40962095 original size:22 final size:22
Alignment explanation
Indices: 40962067--40962112 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
40962057 ATGATATGAT
*
40962067 TACTGTTCATTGATGTGATATC
1 TACTGTTCATTGATGTAATATC
40962089 TACTGTTCATTGATGTAATATC
1 TACTGTTCATTGATGTAATATC
40962111 TA
1 TA
40962113 GGTAGGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (22 bp):
TACTGTTCATTGATGTAATATC
Found at i:40962370 original size:24 final size:24
Alignment explanation
Indices: 40962343--40962397 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
40962333 TAATAATAAG
* * *
40962343 TAGATTTCAAATTTTAAGTTTAAC
1 TAGATTTCAAATATTAAATTCAAC
* *
40962367 TAGATTTTAAATATTAAATTCAAT
1 TAGATTTCAAATATTAAATTCAAC
40962391 TAGATTT
1 TAGATTT
40962398 AGTTTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (24 bp):
TAGATTTCAAATATTAAATTCAAC
Found at i:40962595 original size:17 final size:17
Alignment explanation
Indices: 40962566--40962598 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40962556 AGATTTTGGA
40962566 TTTTTGAATTAGATTTC
1 TTTTTGAATTAGATTTC
40962583 TTTTT-AATCTAGATTT
1 TTTTTGAAT-TAGATTT
40962599 GAGTTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (17 bp):
TTTTTGAATTAGATTTC
Found at i:40967800 original size:43 final size:43
Alignment explanation
Indices: 40967741--40967822 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
40967731 CACGGCATGG
*
40967741 CACACGGGCATTTGTGGCCATAGCCTAGGGCACACGGGCTAGC
1 CACACGGGCATGTGTGGCCATAGCCTAGGGCACACGGGCTAGC
*
40967784 CACATGGGCATGTGTGGCCATAGCCTAGGGCACACGGGC
1 CACACGGGCATGTGTGGCCATAGCCTAGGGCACACGGGC
40967823 ATGTGTGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (43 bp):
CACACGGGCATGTGTGGCCATAGCCTAGGGCACACGGGCTAGC
Found at i:40967815 original size:22 final size:22
Alignment explanation
Indices: 40967746--40967815 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
40967736 CATGGCACAC
*
40967746 GGGCATTTGTGGCCATAGCCTA
1 GGGCATATGTGGCCATAGCCTA
* * *
40967768 GGGCACACG-GG-C-TAGCCACA
1 GGGCATATGTGGCCATAGCC-TA
*
40967788 TGGGCATGTGTGGCCATAGCCTA
1 -GGGCATATGTGGCCATAGCCTA
40967811 GGGCA
1 GGGCA
40967816 CACGGGCATG
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 8 0.23
22 13 0.37
23 2 0.06
24 5 0.14
ACGTcount: A:0.20, C:0.26, G:0.36, T:0.19
Consensus pattern (22 bp):
GGGCATATGTGGCCATAGCCTA
Found at i:40969502 original size:39 final size:40
Alignment explanation
Indices: 40969386--40969610 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
40969376 TTGAATGATG
* * * *
40969386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
40969426 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
40969466 TCCGGGCTAAG-CCCAAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40969505 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40969545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40969586 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40969611 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.20
40 117 0.75
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40969628 original size:80 final size:80
Alignment explanation
Indices: 40969386--40969643 Score: 226
Period size: 80 Copynumber: 3.2 Consensus size: 80
40969376 TTGAATGATG
* * * * * * *
40969386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* *
40969449 TT-ATGCGAGAT-ACTAAT
64 TTGA-ACGAG-TGACTAAA
* * * *
40969466 TCCGGGCTAAG-CCCAAAGGCATTGGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
40969530 GTACGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
40969545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
40969609 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
40969625 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40969644 TACGTGATTT
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.01
79 70 0.47
80 74 0.50
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:40980909 original size:15 final size:15
Alignment explanation
Indices: 40980889--40980922 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
40980879 ATTGTGTGAC
40980889 TTGAAATGGT-TGATA
1 TTGAAATGGTATGA-A
40980904 TTGAAATGGTATGAA
1 TTGAAATGGTATGAA
40980919 TTGA
1 TTGA
40980923 GTTTAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (15 bp):
TTGAAATGGTATGAA
Found at i:40982445 original size:28 final size:28
Alignment explanation
Indices: 40982412--40982512 Score: 139
Period size: 28 Copynumber: 3.6 Consensus size: 28
40982402 GCCCCTTTAA
* * *
40982412 GCCCAATCTCATTCATATGGCCCATCGG
1 GCCCAATCACATTCATATGGTCCATCAG
*
40982440 GCCCAATCACATTCATATGGTCCATTAG
1 GCCCAATCACATTCATATGGTCCATCAG
* * *
40982468 CCCCAATCACTTTCATATGGTCCGTCAG
1 GCCCAATCACATTCATATGGTCCATCAG
40982496 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
40982513 GTCATGCAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.27
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGTCCATCAG
Found at i:40982750 original size:16 final size:16
Alignment explanation
Indices: 40982729--40982762 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
40982719 CTAAACTTCC
40982729 GGCTTTTCGGCATTTT
1 GGCTTTTCGGCATTTT
40982745 GGCTTTTCGGCATTTT
1 GGCTTTTCGGCATTTT
40982761 GG
1 GG
40982763 GATTTGTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.18, G:0.29, T:0.47
Consensus pattern (16 bp):
GGCTTTTCGGCATTTT
Found at i:40985027 original size:40 final size:40
Alignment explanation
Indices: 40984885--40985067 Score: 239
Period size: 39 Copynumber: 4.5 Consensus size: 40
40984875 TATTCGGATG
40984885 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
40984928 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
40984968 ATAT-CGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
40985007 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
40985047 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
40985068 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 52 0.41
40 42 0.33
41 2 0.02
43 31 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:40985028 original size:79 final size:80
Alignment explanation
Indices: 40984885--40985067 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 80
40984875 TATTCGGATG
** *
40984885 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATAT-CGGGCTAAGTCCCGAAGGCATTCATGC--GTAGTTGCTATACCCGGGCTAAGACCCGAAG
*
40984950 GCATTTGTGCTAG-TGACT
63 GCATTTGTGCGAGTTG-CT
*
40984968 ATATCGGGCTAAGTCCCGAAGGCATTCATGC-TAG-TGACTATATCCGGGCTAAGACCCGAAGGC
1 ATATCGGGCTAAGTCCCGAAGGCATTCATGCGTAGTTG-CTATACCCGGGCTAAGACCCGAAGGC
40985031 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
40985047 ATATCCGGCTAAATCCCGAAG
1 ATATCGGGCTAAGTCCCGAAG
40985068 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
78 2 0.02
79 58 0.64
80 2 0.02
82 25 0.27
83 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCGGGCTAAGTCCCGAAGGCATTCATGCGTAGTTGCTATACCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:40988040 original size:8 final size:8
Alignment explanation
Indices: 40988024--40988149 Score: 54
Period size: 8 Copynumber: 14.4 Consensus size: 8
40988014 AATGGATTTT
*
40988024 AATAAAAA
1 AATATAAA
40988032 AATATAAA
1 AATATAAA
* *
40988040 ATCTTTCAAA
1 A-ATAT-AAA
40988050 AATTATAGAA
1 AA-TATA-AA
40988060 AATATATAAA
1 AAT--ATAAA
*
40988070 AATTTAAAA
1 AATAT-AAA
40988079 ATATATTATAA
1 A-ATA-TA-AA
40988090 AATATAAA
1 AATATAAA
40988098 AATATAAA
1 AATATAAA
*
40988106 AATATATA
1 AATATAAA
*
40988114 TATATAAA
1 AATATAAA
* * *
40988122 GAGAGAAA
1 AATATAAA
40988130 AATAGTAAA
1 AATA-TAAA
* *
40988139 ATTTTAAA
1 AATATAAA
40988147 AAT
1 AAT
40988150 TTTAAACTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
8 45 0.51
9 15 0.17
10 21 0.24
11 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (8 bp):
AATATAAA
Found at i:40988061 original size:28 final size:29
Alignment explanation
Indices: 40988030--40988112 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
40988020 TTTTAATAAA
**
40988030 AAAATATAAAATCTTTCAAAAAT-TA-TAG
1 AAAATATAAAAAATTT-AAAAATATATTAG
*
40988058 AAAATATATAAAAATTTAAAAATATATTAT
1 AAAATATA-AAAAATTTAAAAATATATTAG
*
40988088 AAAATAT-AAAAATATAAAAATATAT
1 AAAATATAAAAAATTTAAAAATATAT
40988113 ATATATAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 31 0.65
29 8 0.17
30 9 0.19
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAATATAAAAAATTTAAAAATATATTAG
Found at i:40988069 original size:30 final size:31
Alignment explanation
Indices: 40988028--40988112 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
40988018 GATTTTAATA
* *
40988028 AAAAAATATAAAATCTTTCAAAAAT-TA-TAG
1 AAAATATATAAAATATTT-AAAAATATATTAG
*
40988058 AAAATATATAAAA-ATTTAAAAATATATTAT
1 AAAATATATAAAATATTTAAAAATATATTAG
40988088 AAAATATA-AAAATA--TAAAAATATAT
1 AAAATATATAAAATATTTAAAAATATAT
40988113 ATATATAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
28 17 0.35
29 9 0.18
30 23 0.47
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAATATATAAAATATTTAAAAATATATTAG
Found at i:40988113 original size:30 final size:31
Alignment explanation
Indices: 40988047--40988139 Score: 88
Period size: 28 Copynumber: 3.1 Consensus size: 31
40988037 AAAATCTTTC
* * *
40988047 AAAAAT-TATAGA-AAATATATAAAAATTTA
1 AAAAATATATATATAAAGATATAAAAATATA
40988076 AAA-ATATAT-TATAAA-ATATAAAAATATA
1 AAAAATATATATATAAAGATATAAAAATATA
* *
40988104 AAAATATATATATATAAAGAGAGAAAAATAGTA
1 AAAA-ATATATATATAAAGATATAAAAATA-TA
40988137 AAA
1 AAA
40988140 TTTTAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
28 18 0.34
29 9 0.17
30 6 0.11
31 6 0.11
32 9 0.17
33 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAAATATATATATAAAGATATAAAAATATA
Found at i:40988115 original size:20 final size:19
Alignment explanation
Indices: 40988029--40988103 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
40988019 ATTTTAATAA
*
40988029 AAAAATAT-AAAATCT-TT
1 AAAAATATAAAAATATATT
40988046 CAAAAATTATAGAAAATATA-T
1 -AAAAA-TATA-AAAATATATT
*
40988067 AAAAATTTAAAAATATATT
1 AAAAATATAAAAATATATT
40988086 ATAAAATATAAAAATATA
1 A-AAAATATAAAAATATA
40988104 AAAATATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 13 0.27
19 8 0.17
20 20 0.42
21 7 0.15
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATATAAAAATATATT
Found at i:40988140 original size:32 final size:29
Alignment explanation
Indices: 40988067--40988140 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 29
40988057 GAAAATATAT
* * *
40988067 AAAAATTTAAAA-ATATATTATAAAATAT
1 AAAAATATAAAATATATATTATAAAAGAG
40988095 AAAAATATAAAAATATATATATATAAAGAGAG
1 AAAAATAT-AAAATATATAT-TATAAA-AGAG
40988127 AAAAATAGTAAAAT
1 AAAAATA-TAAAAT
40988141 TTTAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 7 0.18
29 4 0.11
30 6 0.16
31 6 0.16
32 14 0.37
33 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAATATAAAATATATATTATAAAAGAG
Found at i:40995556 original size:5 final size:5
Alignment explanation
Indices: 40995546--40995570 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
40995536 TATACTGACA
40995546 TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT
40995571 ATGATTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:41000732 original size:80 final size:81
Alignment explanation
Indices: 41000616--41000772 Score: 208
Period size: 80 Copynumber: 2.0 Consensus size: 81
41000606 TGAAGAAGCC
** * * *
41000616 ACAAACCCTATACCCCTGAGTTGCAGTGGGATGGATTGAAGACGATACAGATCATATGCCCCTGA
1 ACAAACCCTATACCCCTGAACTGCAGTGGGATGGATTGAAGACGATACAAATCATATACCCCCGA
41000681 ATTGCAGTAGGAAGAT
66 ATTGCAGTAGGAAGAT
* * * * *
41000697 ACAAATCCTATA-CCCTGAACTGTAGTGGGATGGATTGAAGATGGTACAAATCTTATACCCCCGA
1 ACAAACCCTATACCCCTGAACTGCAGTGGGATGGATTGAAGACGATACAAATCATATACCCCCGA
*
41000761 GTTGCAGTAGGA
66 ATTGCAGTAGGA
41000773 TGGATGGAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 54 0.83
81 11 0.17
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (81 bp):
ACAAACCCTATACCCCTGAACTGCAGTGGGATGGATTGAAGACGATACAAATCATATACCCCCGA
ATTGCAGTAGGAAGAT
Found at i:41001469 original size:143 final size:140
Alignment explanation
Indices: 41001211--41001527 Score: 397
Period size: 143 Copynumber: 2.2 Consensus size: 140
41001201 CAAATGGCAG
* * *
41001211 ATCTTATCTTCCTGAAGTTGCAGTCAAGTAGATTGAAGCCACCAGCCTTATCTCGTTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCGCTGAAGTTGC
* * * *
41001276 AGTGGAGCAGACTGAAGACATCGAATCTTATTTCCTTGACGTTGCAGTGGAACAGATTAAAGCTA
66 AGCGGAACAGACTGAAGACATCAAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTA
*
41001341 TAAATTATGTA-AA
131 -AAA--AT-CACAA
* * * *
41001354 ATCTTATCTTCCTAAAGTTGCAGTGGAGCATATTGAAGCCACTAGCCTTATCTTC-CTGAAGTTG
1 ATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATC-TCGCTGAAGTTG
* * **
41001418 CAGCGGAATAGACTGACGACAGT-AAATCTTATTTCCCTGACGTTTTAGTGGAACAGATTAAAGC
65 CAGCGGAACAGACTGAAGACA-TCAAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGC
41001482 TAAAAATCACAA
129 TAAAAATCACAA
* *
41001494 ATCTTATCTTCGTGAAGTTGCAGTGAAGAAGATT
1 ATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATT
41001528 CAATATACGA
Statistics
Matches: 150, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
139 1 0.01
140 33 0.22
142 3 0.02
143 110 0.73
144 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (140 bp):
ATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCGCTGAAGTTGC
AGCGGAACAGACTGAAGACATCAAATCTTATTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTA
AAAATCACAA
Found at i:41001729 original size:45 final size:46
Alignment explanation
Indices: 41001622--41001733 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
41001612 AATCGAAGCC
* * *
41001622 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGTAGCATAAAAATAT
1 ACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATAT
* * * **
41001668 ACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAG-GTTGAAAT-T
1 ACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATAT
41001712 ACCAATTCTTATCTCTTTGAAG
1 A-CAATTCTTATCTCTTTGAAG
41001734 ATTTAGCGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 2 0.04
45 24 0.43
46 30 0.54
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (46 bp):
ACAATTCTTATCTCTTTGAAGTTGCAGTAGAGCAGCATAAAAATAT
Found at i:41007197 original size:22 final size:22
Alignment explanation
Indices: 41007171--41007213 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
41007161 AATGTTTTAG
41007171 GGTAATACTGTAACTTATCTTA
1 GGTAATACTGTAACTTATCTTA
41007193 GGTAATACTGTAACTTATCTT
1 GGTAATACTGTAACTTATCTT
41007214 TTTTTAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (22 bp):
GGTAATACTGTAACTTATCTTA
Found at i:41008190 original size:15 final size:15
Alignment explanation
Indices: 41008170--41008199 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41008160 TAATGTATTT
41008170 AATTTATATAACAAA
1 AATTTATATAACAAA
*
41008185 AATTTATATTACAAA
1 AATTTATATAACAAA
41008200 GTTTGTTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTATATAACAAA
Found at i:41008201 original size:63 final size:63
Alignment explanation
Indices: 41008122--41008247 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
41008112 CAATGTACCT
*
41008122 AATTTATATTAGAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAA
* * *
41008185 AATTTATATTACAAAGTTTGTTCCAATTTTTTATGTTGTAATGTATTTAATTTATATTACAAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAA
41008248 GTTTGATCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (63 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGATGTAATGTATTTAATTTATATAACAAA
Found at i:41008252 original size:48 final size:48
Alignment explanation
Indices: 41008185--41008276 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
41008175 ATATAACAAA
* *
41008185 AATTTATATTACAAAGTTTGTTCCAATTTTTTA-TGTTGTAATGTATTT
1 AATTTATATTACAAAGTTTGATCCAA-GTTTTAGTGTTGTAATGTATTT
*
41008233 AATTTATATTACAAAGTTTGATCCAAGTTTTAGTGTTTTAATGT
1 AATTTATATTACAAAGTTTGATCCAAGTTTTAGTGTTGTAATGT
41008277 TGTAATGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (48 bp):
AATTTATATTACAAAGTTTGATCCAAGTTTTAGTGTTGTAATGTATTT
Found at i:41009720 original size:21 final size:21
Alignment explanation
Indices: 41009694--41009733 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41009684 GACAATGCGA
*
41009694 GATTAAAATTATTTTTTAAGG
1 GATTAAAATTAATTTTTAAGG
41009715 GATTAAAATTAATTTTTAA
1 GATTAAAATTAATTTTTAA
41009734 TGAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (21 bp):
GATTAAAATTAATTTTTAAGG
Found at i:41009813 original size:68 final size:68
Alignment explanation
Indices: 41009716--41009886 Score: 218
Period size: 68 Copynumber: 2.5 Consensus size: 68
41009706 TTTTTAAGGG
* * *
41009716 ATTAAAATTAATTTTTAATGAAAACAGTGAAGAAGTGAGCTATTGGAGTATCCTCTAGTTAATAT
1 ATTAAAATTAATTTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATAT
41009781 GAA
66 GAA
* * * * *
41009784 ATTAAAATTAATCTTTTAATG-AAATAGTGATGAAGTGAGTTATGGGAGTATTCTCTGGTCAATG
1 ATTAAAATTAAT-TTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATA
**
41009848 TGGG
65 TGAA
*
41009852 ATTAAAATTAAAATTTTAATGAAAATAGTGAAGAA
1 ATTAAAATT-AATTTTTAATGAAAATAGTGAAGAA
41009887 ATTGTCACTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 66 0.75
69 22 0.25
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (68 bp):
ATTAAAATTAATTTTTAATGAAAATAGTGAAGAAGTGAGCTATGGGAGTATCCTCTAGTCAATAT
GAA
Found at i:41010019 original size:84 final size:84
Alignment explanation
Indices: 41009867--41010020 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
41009857 AATTAAAATT
* * * * * *
41009867 TTAATGAAAATAGTGAAGAAATTGTCACTTATTTATAATGTAAATTTGAGATATGAGTGCGTTTT
1 TTAACGAAAATAGTAAAGAAATTGTCACTTATTTATAAGGTAAATTTAAGATATGAGAGCGTTCT
41009932 CTAGTCCAAAATTAACTTA
66 CTAGTCCAAAATTAACTTA
* * *
41009951 TTAACGAAAATAGTAAAGAAATT-TACACTTATTTGTAAGGTAAATTTAAGATATGGGAGTGTTC
1 TTAACGAAAATAGTAAAGAAATTGT-CACTTATTTATAAGGTAAATTTAAGATATGAGAGCGTTC
41010015 TCTAGT
65 TCTAGT
41010021 TAATATGGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
83 1 0.02
84 59 0.98
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (84 bp):
TTAACGAAAATAGTAAAGAAATTGTCACTTATTTATAAGGTAAATTTAAGATATGAGAGCGTTCT
CTAGTCCAAAATTAACTTA
Found at i:41010255 original size:68 final size:69
Alignment explanation
Indices: 41010152--41010313 Score: 186
Period size: 68 Copynumber: 2.4 Consensus size: 69
41010142 TTTAAGGGAT
* * * * * * ** *
41010152 TAAAATTAA-TTTTTAATGAGAATATTGATCGAAGTGAGCTATGTGAGTATTCTCTAATGAATGT
1 TAAAATTAACTTTTTAATAAAAATAGTGA-AGAAGTGAGCTATGAGAATATTCTCTAACCAATAT
41010216 GAGAC
65 GAGAC
*
41010221 T-AAATTAACTTTGTT-ATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAGCCAATAT
1 TAAAATTAACTTT-TTAATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAACCAATAT
*
41010284 GAGAT
65 GAGAC
41010289 TAAAATTAACTTTTTAATAAAAATA
1 TAAAATTAACTTTTTAATAAAAATA
41010314 ATTAAGAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
68 42 0.54
69 34 0.44
70 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (69 bp):
TAAAATTAACTTTTTAATAAAAATAGTGAAGAAGTGAGCTATGAGAATATTCTCTAACCAATATG
AGAC
Found at i:41011816 original size:18 final size:18
Alignment explanation
Indices: 41011793--41011835 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
41011783 TTCGTCAATC
41011793 ACACGGCTGTGTCGTCGT
1 ACACGGCTGTGTCGTCGT
41011811 ACACGGCTGTGTCGTCGT
1 ACACGGCTGTGTCGTCGT
41011829 ACACGGC
1 ACACGGC
41011836 CTACCACACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (18 bp):
ACACGGCTGTGTCGTCGT
Found at i:41015647 original size:48 final size:46
Alignment explanation
Indices: 41015573--41015747 Score: 172
Period size: 48 Copynumber: 3.7 Consensus size: 46
41015563 CATTAGGGAA
* * * *
41015573 TTCATTGATTTAGCTTCGGGCTATGATATTGGCACATTGAGTGTGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATT-GCAC-TTGGGTGCGAGC
*
41015621 TTCATTGATTTGGCTTCGGGCCATGATATCTGCACTTCGGGTGCGAAC
1 TTCATTGATTTGGCTTCGGGCCATGATAT-TGCACTT-GGGTGCGAGC
* * * *
41015669 TTTATTGATTTGGTTTTGGGCCATGATATTAGCACTTTGGGTGCGAGA
1 TTCATTGATTTGGCTTCGGGCCATGATATT-GCAC-TTGGGTGCGAGC
* ** *
41015717 TACATTGAGCTGGCTTCAGGCCATGAT-TTGC
1 TTCATTGATTTGGCTTCGGGCCATGATATTGC
41015748 GAACTTAGTG
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 2 0.02
47 5 0.05
48 96 0.91
49 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (46 bp):
TTCATTGATTTGGCTTCGGGCCATGATATTGCACTTGGGTGCGAGC
Found at i:41021865 original size:29 final size:29
Alignment explanation
Indices: 41021803--41021922 Score: 138
Period size: 29 Copynumber: 4.2 Consensus size: 29
41021793 TCACATACCG
* * *
41021803 GTATTTGGCCCATTAAGCCC-AATCATAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
*
41021831 -TCATATGGCCCATTAGGCCCAAATCACCT
1 GT-ATATGGCCCATTAGGCCCAAATCACAT
41021860 GTATATGGCCCATTAGGCCCAAATCACAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
* * *
41021889 TTATATGGCCCGTTAGGCCC-AGTCACAT
1 GTATATGGCCCATTAGGCCCAAATCACAT
*
41021917 TTATAT
1 GTATAT
41021923 TCATGCTCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
27 1 0.01
28 29 0.36
29 50 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
GTATATGGCCCATTAGGCCCAAATCACAT
Found at i:41022158 original size:16 final size:16
Alignment explanation
Indices: 41022137--41022175 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
41022127 CCAAACTTTT
41022137 GACTTTTCGGCATTTC
1 GACTTTTCGGCATTTC
*
41022153 GACTTTTTGGCATTTC
1 GACTTTTCGGCATTTC
*
41022169 GGCTTTT
1 GACTTTT
41022176 GCCGATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.49
Consensus pattern (16 bp):
GACTTTTCGGCATTTC
Found at i:41028656 original size:48 final size:48
Alignment explanation
Indices: 41028505--41028664 Score: 212
Period size: 48 Copynumber: 3.3 Consensus size: 48
41028495 CATTAAGGAA
* *
41028505 TTCATTGATTTGGCTTCGGGACATGATATTGGCACTTCGGGTGCAAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
* * * *
41028553 TTTATTGATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGTGAGC
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
* * * *
41028601 TTTATTGATTTGGCTTCGGGCCATGATATTAGCAGTTCGGGTGCGAGA
1 TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
* *
41028649 TACATTGAGTTGGCTT
1 TTCATTGATTTGGCTT
41028665 TGGGTCATTA
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.36
Consensus pattern (48 bp):
TTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGC
Found at i:41030873 original size:8 final size:8
Alignment explanation
Indices: 41030860--41030889 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
41030850 ACGTTTGACT
41030860 TTTCGGCA
1 TTTCGGCA
*
41030868 TTTCGGCT
1 TTTCGGCA
41030876 TTTCGGCA
1 TTTCGGCA
41030884 TTTCGG
1 TTTCGG
41030890 GTTTTACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.07, C:0.23, G:0.27, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:41030879 original size:16 final size:16
Alignment explanation
Indices: 41030858--41030894 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
41030848 AAACGTTTGA
41030858 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
41030874 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
*
41030890 GTTTT
1 CTTTT
41030895 ACCGATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.24, T:0.49
Consensus pattern (16 bp):
CTTTTCGGCATTTCGG
Found at i:41034118 original size:16 final size:19
Alignment explanation
Indices: 41034093--41034129 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
41034083 AGCCTTGTTT
41034093 AAAACATTTA-C-TTTAAA
1 AAAACATTTATCATTTAAA
41034110 AAAAC-TTTATCATTTAAA
1 AAAACATTTATCATTTAAA
41034128 AA
1 AA
41034130 TTAAGTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAACATTTATCATTTAAA
Found at i:41035160 original size:29 final size:28
Alignment explanation
Indices: 41035103--41035187 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
41035093 TACCTGTATT
*
41035103 TGGCCCATTAGGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
41035131 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
41035160 TGGCCCGTTACGCCCATTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
41035188 ATCATACTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.52
29 24 0.48
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:41037950 original size:160 final size:162
Alignment explanation
Indices: 41037746--41038048 Score: 432
Period size: 160 Copynumber: 1.9 Consensus size: 162
41037736 TGAGTTATAG
* *
41037746 GAGTCTTTTCTAGTCAATATGGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAACTAAGCT
1 GAGTCTTTTCTAGTCAATATAGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAAATAAGCT
* * * *
41037811 ATGAGAGTATTCTCTAGTCATTGTGGGATTAAAATAAACTTTTTAATAAAAATAGTGAA-AAATT
66 ATGAGAATATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAATT
*
41037875 GTCATTTATTTATTAGAAAAAGTGAGATATTA
131 GTCACTTATTTATTAGAAAAAGTGAGATATTA
* * * * **
41037907 GAGTGTTTTCTAGTCAATATAG-ATTCGAA-TTAACTTTTTAATGAAAATTATGAAAAAATGATT
1 GAGTCTTTTCTAGTCAATATAGAATT-AAATTTAACTTTTTAATGAAAATAATGAAAAAATAAGC
* * *
41037970 TATGAGAATATTCTCTAGTCAATGCGGGATTAAAATTATCATTTTAATGAAAATAGTGAAGAAAT
65 TATGAGAATATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAAT
41038035 TGTCACTTATTTAT
130 TGTCACTTATTTAT
41038049 AACTTAAATG
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
160 85 0.69
161 39 0.31
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (162 bp):
GAGTCTTTTCTAGTCAATATAGAATTAAATTTAACTTTTTAATGAAAATAATGAAAAAATAAGCT
ATGAGAATATTCTCTAGTCAATGCGGGATTAAAATAAACATTTTAATAAAAATAGTGAAGAAATT
GTCACTTATTTATTAGAAAAAGTGAGATATTA
Found at i:41039461 original size:24 final size:24
Alignment explanation
Indices: 41039390--41039464 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
41039380 CTTGGGTGGC
* *
41039390 GGCGGTGGTGCTGGTGGTGGAGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
* * * *
41039414 GGAGGTGGAG-TCGGAGCTGCTGTT
1 GGCGGTGGAGCT-GGTGGTGGTGTT
41039438 GGCGGTGGAGCTGGTGGTGGTGTT
1 GGCGGTGGAGCTGGTGGTGGTGTT
41039462 GGC
1 GGC
41039465 ACTGGTGTCC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.95
25 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.56, T:0.27
Consensus pattern (24 bp):
GGCGGTGGAGCTGGTGGTGGTGTT
Found at i:41042457 original size:27 final size:27
Alignment explanation
Indices: 41042423--41042596 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
41042413 TAAATTGTAC
41042423 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41042450 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41042476 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41042504 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41042532 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
41042559 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41042586 AGCACTGAGTG
1 AGCACTAAGTG
41042597 AGCGGACTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41042591 original size:82 final size:81
Alignment explanation
Indices: 41042420--41042572 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 81
41042410 GAGTAAATTG
* *
41042420 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
41042485 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
41042501 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
41042565 AAGTGTGC
64 AAGTGTGC
41042573 AAGTTGATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.29
82 45 0.71
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:41044605 original size:12 final size:12
Alignment explanation
Indices: 41044588--41044612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41044578 GTTACAATGG
41044588 ACTTAAATGTGA
1 ACTTAAATGTGA
41044600 ACTTAAATGTGA
1 ACTTAAATGTGA
41044612 A
1 A
41044613 ATATCCTCTG
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ACTTAAATGTGA
Found at i:41056299 original size:17 final size:17
Alignment explanation
Indices: 41056277--41056310 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41056267 AAAGTTGCTG
41056277 ATTAGTCCCTAAAATTT
1 ATTAGTCCCTAAAATTT
41056294 ATTAGTCCCTAAAATTT
1 ATTAGTCCCTAAAATTT
41056311 TGCTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTAGTCCCTAAAATTT
Found at i:41057616 original size:19 final size:19
Alignment explanation
Indices: 41057588--41057626 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
41057578 AGAGCGAAAG
41057588 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
41057606 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
41057626 A
1 A
41057627 GTACGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:41076788 original size:79 final size:82
Alignment explanation
Indices: 41076677--41076861 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
41076667 GCTACTCGTT
* * *
41076677 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
41076740 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
41076757 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
41076820 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
41076837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41076862 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:41076861 original size:40 final size:40
Alignment explanation
Indices: 41076658--41076861 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
41076648 CGGAATTTAA
** *
41076658 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
41076698 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
41076738 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41076777 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
41076817 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41076857 CCGGA
1 CCGGA
41076862 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41084840 original size:18 final size:19
Alignment explanation
Indices: 41084817--41084853 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41084807 GAGTAAAAGG
*
41084817 AATGAG-AAATGGGCCAAA
1 AATGAGAAAATAGGCCAAA
41084835 AATGAGAAAATAGGCCAAA
1 AATGAGAAAATAGGCCAAA
41084854 GTACGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.54, C:0.11, G:0.24, T:0.11
Consensus pattern (19 bp):
AATGAGAAAATAGGCCAAA
Found at i:41092473 original size:27 final size:25
Alignment explanation
Indices: 41092441--41092499 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
41092431 ATAAAACTTC
**
41092441 AAAATAACTTAAAATACTTAATAATT
1 AAAATAACTTAAAATAAATAATAA-T
* *
41092467 ATAAATAATTTAGAATAAATAATAAT
1 A-AAATAACTTAAAATAAATAATAAT
41092493 AAAATAA
1 AAAATAA
41092500 TAAGAGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 19 0.68
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATAACTTAAAATAAATAATAAT
Found at i:41092556 original size:33 final size:33
Alignment explanation
Indices: 41092514--41092581 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
41092504 AGATGATAAA
41092514 TACAATATTGGGATCATATAGTAAAATTAAGCC
1 TACAATATTGGGATCATATAGTAAAATTAAGCC
*
41092547 TACAATATTGGGATCATATATTAAAATTAAGCC
1 TACAATATTGGGATCATATAGTAAAATTAAGCC
41092580 TA
1 TA
41092582 AAACCTGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (33 bp):
TACAATATTGGGATCATATAGTAAAATTAAGCC
Found at i:41099536 original size:40 final size:39
Alignment explanation
Indices: 41099492--41099714 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 39
41099482 GCTACTCGCT
41099492 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAGTTCACA
** *
41099532 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAGTTCACA
** *
41099572 CAAATGCCTTTC-GGACTTAGCCCGGAATTAGTAACTCTCA
1 CAAATGCC-TTCGGGACTTAGCCCGGAA-TAGTAGTTCACA
*
41099612 CAAATGCCTTCGGGACTTAGCCCGGAAT--TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATAGTAGT-TC-A-CA
*
41099652 CAAATGCCTTCGGGACTTAGCCCGGAAT--TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATAGTAGT-TC-A-CA
41099692 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
41099715 CGTTATCATC
Statistics
Matches: 169, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 5 0.03
40 158 0.93
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAGTTCACA
Found at i:41099614 original size:80 final size:79
Alignment explanation
Indices: 41099473--41099714 Score: 339
Period size: 80 Copynumber: 3.0 Consensus size: 79
41099463 TGGGATTTAA
* **
41099473 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAGTTCACACAAAT
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAAT
41099537 GCCTTCGGGACTTAGC
64 GCCTTCGGGACTTAGC
*
41099553 CCGGATATAGTAACTCGCACAAATGCCTTTC-GGACTTAGCCCGGAATTAGTAACTCTCACAAAT
1 CCGGATATAGT-ACTCGCACAAATGCC-TTCGGGACTTAGCCCGGAATTAGTAACTCACACAAAT
41099617 GCCTTCGGGACTTAGC
64 GCCTTCGGGACTTAGC
* *
41099633 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT-AGCACAAA
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCA-CACAAA
41099696 TGCCTTCGGGACTTAGC
63 TGCCTTCGGGACTTAGC
41099713 CC
1 CC
41099715 CGTTATCATC
Statistics
Matches: 148, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
79 5 0.03
80 138 0.93
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGC
CTTCGGGACTTAGC
Found at i:41099693 original size:120 final size:120
Alignment explanation
Indices: 41099492--41099714 Score: 339
Period size: 120 Copynumber: 1.9 Consensus size: 120
41099482 GCTACTCGCT
*
41099492 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCACACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGG
*
41099557 ATATAGTAACTCGCACAAATGCCTTTC-GGACTTAGCCCGGAATTAGTAACTCTCA
66 ATATAGTAACTAGCACAAATGCC-TTCGGGACTTAGCCCGGAATTAGTAACTCTCA
41099612 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCA-CT-AGCACAAATGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCA-CACAAATGCCTTCGGGACTTAGCC
*
41099674 CGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
63 CGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC
41099715 CGTTATCATC
Statistics
Matches: 95, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
119 6 0.06
120 88 0.93
121 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCACACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCTCA
Found at i:41121840 original size:40 final size:40
Alignment explanation
Indices: 41121810--41121991 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
41121800 ATGGTCACTA
41121810 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
*
41121850 GCACAAATGCCTTCGGGGCTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
*
41121890 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * * *
41121930 GCACAAATGCCTTCGGGACTTAGCCCAGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* *
41121970 GCAGAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
41121992 ACCCCGTTAG
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 129 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
Found at i:41129918 original size:40 final size:40
Alignment explanation
Indices: 41129853--41130077 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
41129843 GGATATAACC
* * * * *
41129853 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
41129892 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
41129932 ACTCGCACAAATGCCTTCAGGG-CTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTC-GGGACTTAGCCCGGAATTAGTA
41129972 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
41130012 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
41130052 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
41130078 ACCCCGTTAG
Statistics
Matches: 171, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 10 0.06
40 156 0.91
41 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:41137714 original size:44 final size:43
Alignment explanation
Indices: 41137662--41137746 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 43
41137652 CGTAAGTTAG
*
41137662 ACTAGTTGCTTTAAAATTTAAACCCCTCCAGCAAAGTTCAAGAA
1 ACTAGTTGCTTTAAAATTTAAA-CCATCCAGCAAAGTTCAAGAA
*
41137706 ACTAGTTGCTTTAAAATTTTAACCATCCAGCAAAGTTCAAG
1 ACTAGTTGCTTTAAAATTTAAACCATCCAGCAAAGTTCAAG
41137747 GAAAGTGGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 18 0.46
44 21 0.54
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (43 bp):
ACTAGTTGCTTTAAAATTTAAACCATCCAGCAAAGTTCAAGAA
Found at i:41141656 original size:47 final size:47
Alignment explanation
Indices: 41141582--41141749 Score: 209
Period size: 47 Copynumber: 3.6 Consensus size: 47
41141572 TCCACAAGTA
41141582 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCTCG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCTCG
* * * * ***
41141629 AACTCAGACTCAACTCAACGAGTTCGGACATTCGC--A-TCCATAAGT-G
1 AACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAATTACATCTCTCG
41141675 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCTCG
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCTCG
*
41141722 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGCTCGGA
41141750 CATTCACATC
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.31
47 58 0.59
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAATTACATCTCTCG
Found at i:41141695 original size:93 final size:93
Alignment explanation
Indices: 41141536--41141799 Score: 456
Period size: 93 Copynumber: 2.8 Consensus size: 93
41141526 CCCATAAGCT
* * * * *
41141536 AACTCGGACTCAACTCAACGAGCTCGGGCATTCTCATCCACAAGTAAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
41141601 GAGCTCGGATGCCTAATTACATCTCTCG
66 GAGCTCGGATGCCTAATTACATCTCTCG
* *
41141629 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
41141694 GAGCTCGGATGCCTAATTACATCTCTCG
66 GAGCTCGGATGCCTAATTACATCTCTCG
41141722 AACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
*
41141787 GAGTTCGGATGCC
66 GAGCTCGGATGCC
41141800 CAAATATCCT
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAATTACATCTCTCG
Found at i:41141795 original size:46 final size:46
Alignment explanation
Indices: 41141527--41141795 Score: 245
Period size: 46 Copynumber: 5.8 Consensus size: 46
41141517 TGTAACCCGC
* *
41141527 CCATAAGCT-AACTCGGACTCAACTCAACGAGCTCGGGCATTCTCAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
* *
41141573 CCACAAGTAAACTCGGACTCAACTCAACGAGCTCGGATGCCTAATT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--ATTCACAT
* * * *
41141623 CTC-T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
41141666 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAATT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--ATTCACAT
* *
41141716 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
41141759 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
41141796 TGCCCAAATA
Statistics
Matches: 184, Mismatches: 16, Indels: 46
0.75 0.07 0.19
Matches are distributed among these distances:
42 8 0.04
43 11 0.06
44 2 0.01
45 1 0.01
46 89 0.48
47 54 0.29
49 2 0.01
50 9 0.05
51 8 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:41144213 original size:15 final size:15
Alignment explanation
Indices: 41144182--41144223 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
41144172 AACAAGAAAA
41144182 CAGAATAAA-AAATC
1 CAGAATAAAGAAATC
*
41144196 CAGAATAAAGAGATC
1 CAGAATAAAGAAATC
*
41144211 CAGGATAAAGAAA
1 CAGAATAAAGAAA
41144224 CCCAAGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.12
Consensus pattern (15 bp):
CAGAATAAAGAAATC
Found at i:41147274 original size:93 final size:93
Alignment explanation
Indices: 41147163--41147428 Score: 435
Period size: 93 Copynumber: 2.9 Consensus size: 93
41147153 CGCCCATAAG
* * *
41147163 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
41147227 AACGAGCTCGGGTGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
* *
41147256 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
41147321 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
41147349 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
41147414 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
41147429 CAAATATCCT
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 2 0.01
93 158 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:41147279 original size:47 final size:47
Alignment explanation
Indices: 41147210--41147377 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
41147200 ATCCACAAGT
41147210 GAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTTACATCTCTC
* * * * * *
41147257 GAACTCAGACTCAACTCAACGAGTTC--G-GAC-A-TTCGCATCTATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTT-ACATCTCT---C
* *
41147303 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTTACATCTCTC
*
41147350 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
41147378 ACATTCACAT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 2 0.02
45 1 0.01
46 24 0.25
47 50 0.52
49 2 0.02
50 7 0.07
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTTACATCTCTC
Found at i:41147419 original size:46 final size:46
Alignment explanation
Indices: 41147156--41147424 Score: 218
Period size: 46 Copynumber: 5.8 Consensus size: 46
41147146 TGTAACCCGC
* * *
41147156 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACAT
* * * *
41147202 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--G-GAC-A-TTCACAT
* *
41147252 CTC-T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* * * *
41147295 CTATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCACAT
41147345 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
41147388 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
41147425 TGCCCAAATA
Statistics
Matches: 177, Mismatches: 23, Indels: 46
0.72 0.09 0.19
Matches are distributed among these distances:
42 5 0.03
43 13 0.07
44 4 0.02
45 2 0.01
46 83 0.47
47 50 0.28
48 1 0.01
49 4 0.02
50 10 0.06
51 5 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:41155976 original size:37 final size:37
Alignment explanation
Indices: 41155917--41156025 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41155907 AGCTCAGACG
* * *
41155917 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41155954 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41155991 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41156026 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41156296 original size:47 final size:47
Alignment explanation
Indices: 41156234--41156522 Score: 425
Period size: 47 Copynumber: 6.1 Consensus size: 47
41156224 ACACGTTTTG
* * * **
41156234 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
41156281 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
41156328 CATTGTCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
41156375 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
41156422 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
41156473 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
41156520 CAT
1 CAT
41156523 AAAATCCTAA
Statistics
Matches: 222, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 178 0.80
51 44 0.20
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:41156417 original size:141 final size:143
Alignment explanation
Indices: 41156234--41156522 Score: 447
Period size: 145 Copynumber: 2.0 Consensus size: 143
41156224 ACACGTTTTG
* **
41156234 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
41156299 AT-CTC-ATATATGCATGTTCACATTCATCACATTGTCCATTCGGCCTTATCACACATACGCATG
66 ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
*
41156362 TTCACATTCATCA
131 TTCACATCCATCA
* *
41156375 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
41156440 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 AT-ACACA-ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
41156505 TGTTCACATCCATCA
129 TGTTCACATCCATCA
41156520 CAT
1 CAT
41156523 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 62 0.47
143 2 0.02
145 69 0.52
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (143 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATACACAATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
TTCACATCCATCA
Found at i:41162624 original size:43 final size:43
Alignment explanation
Indices: 41162574--41162729 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
41162564 TATCCTAGAT
* * *
41162574 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * * *
41162617 AAGGTCTTACACGTATTGA-TTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* *
41162659 ATGGTCTTACACATAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
* *
41162702 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACACGTAATCACATATCGAT
41162730 AACCTAATGT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
42 36 0.40
43 54 0.59
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:41165875 original size:20 final size:20
Alignment explanation
Indices: 41165837--41165884 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
41165827 TAAATTCTAA
* **
41165837 AAAGATAAATATATTTAATT
1 AAAGATAAATAAAGATAATT
41165857 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
41165877 AAA-ATAAA
1 AAAGATAAA
41165885 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:41165983 original size:5 final size:5
Alignment explanation
Indices: 41165935--41165964 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
41165925 TAATTATCCT
41165935 AATATA AATAA AATAA AATAA AATAA AATA
1 AATA-A AATAA AATAA AATAA AATAA AATA
41165965 GAGTCTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:41174080 original size:30 final size:30
Alignment explanation
Indices: 41174044--41174103 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41174034 TTCCCAAGCC
41174044 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
41174074 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
41174104 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:41174817 original size:49 final size:49
Alignment explanation
Indices: 41174758--41174996 Score: 298
Period size: 49 Copynumber: 4.8 Consensus size: 49
41174748 TGAGGTCAGG
* *
41174758 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCA
* * * * * * *
41174807 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTAGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-GGTCGCA
* * * *
41174858 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCGCA
* *
41174908 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCA
* *
41174957 TGTGTAGTACTAAGTGCAGGCTACTATGGGTACCAGATAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
41174997 CTTCGGCTAC
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 76 0.47
50 49 0.30
51 37 0.23
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCA
Found at i:41174887 original size:28 final size:28
Alignment explanation
Indices: 41174855--41174938 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
41174845 AACTTAGATC
41174855 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
41174883 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
41174905 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
41174933 ACGTGT
1 ACGTGT
41174939 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:41178836 original size:19 final size:19
Alignment explanation
Indices: 41178812--41178855 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
41178802 GTAAAAGTAA
41178812 AGTGTGAGCTAACAAGCTC
1 AGTGTGAGCTAACAAGCTC
*
41178831 AGTGTGAGCTAATAAGCTC
1 AGTGTGAGCTAACAAGCTC
41178850 AGTGTG
1 AGTGTG
41178856 TGTAACTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (19 bp):
AGTGTGAGCTAACAAGCTC
Found at i:41180571 original size:22 final size:23
Alignment explanation
Indices: 41180537--41180580 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
41180527 AGAACCAGAT
**
41180537 CAATTCACTAAAC-AAATTTTAA
1 CAATTCAAAAAACAAAATTTTAA
41180559 CAATTCAAAAAACTAAAATTTT
1 CAATTCAAAAAAC-AAAATTTT
41180581 GGGGTGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (23 bp):
CAATTCAAAAAACAAAATTTTAA
Found at i:41183216 original size:15 final size:15
Alignment explanation
Indices: 41183198--41183227 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41183188 ATGCGTTTAA
41183198 TTTTTAATTAATATT
1 TTTTTAATTAATATT
*
41183213 TTTTTAATTATTATT
1 TTTTTAATTAATATT
41183228 GCTTAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAATTAATATT
Found at i:41185190 original size:22 final size:22
Alignment explanation
Indices: 41185154--41185264 Score: 69
Period size: 26 Copynumber: 4.6 Consensus size: 22
41185144 TAAAGAAATG
41185154 AAATAAATAATATAAAACAATTTA
1 AAATAAAT-A-ATAAAACAATTTA
*
41185178 AAATAAATAATAAGACAATTCTA
1 AAATAAATAATAAAACAATT-TA
* *
41185201 AACAAATAATACATAAAAAAATTTAA
1 AA-ATA-AATA-ATAAAACAATTT-A
* * *
41185227 AAATAGATATTACAAAAGCAATTTT
1 AAATA-A-ATAATAAAA-CAATTTA
*
41185252 AAGTAAATAATAA
1 AAATAAATAATAA
41185265 TTTTAAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
22 10 0.15
23 10 0.15
24 11 0.16
25 17 0.25
26 19 0.28
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:41185314 original size:27 final size:26
Alignment explanation
Indices: 41185266--41185351 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
41185256 AAATAATAAT
* * *
41185266 TTTAAAA-AATTAGTATACAAAACAA
1 TTTAAAATAAATAATATATAAAACAA
41185291 TTTAAAATAAAATAATATATAAAACAA
1 TTTAAAAT-AAATAATATATAAAACAA
** * * *
41185318 TCCAAAATGACTAATTTATAAAACAA
1 TTTAAAATAAATAATATATAAAACAA
41185344 TTTAAAAT
1 TTTAAAAT
41185352 GACATATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 7 0.14
26 21 0.43
27 21 0.43
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.30
Consensus pattern (26 bp):
TTTAAAATAAATAATATATAAAACAA
Found at i:41185440 original size:25 final size:25
Alignment explanation
Indices: 41185412--41185460 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
41185402 TACATAATAT
*
41185412 ATAAAAATATAAAACAATTTTAAAA
1 ATAAAAATATAAAACAAATTTAAAA
* * *
41185437 ATAATAATGTAAAATAAATTTAAA
1 ATAAAAATATAAAACAAATTTAAA
41185461 GTAAATAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAAAAATATAAAACAAATTTAAAA
Found at i:41185607 original size:27 final size:26
Alignment explanation
Indices: 41185446--41185608 Score: 98
Period size: 27 Copynumber: 6.2 Consensus size: 26
41185436 AATAATAATG
* * *
41185446 TAAAATAAATTTAAAGTAAATAACATA
1 TAAAA-AAATTTAAAATAAATAATACA
* * ** *
41185473 TAAAATACTTTAAACCAAGTAATACA
1 TAAAAAAATTTAAAATAAATAATACA
* * * *
41185499 T-ATAAAACTTAAAATAGATAATATA
1 TAAAAAAATTTAAAATAAATAATACA
* * * *
41185524 CACAAAGATTTAAAATAAATCAT--A
1 TAAAAAAATTTAAAATAAATAATACA
**
41185548 TAAGGAAAAATTTTAAAATAAATAATATG
1 TAA--AAAAA-TTTAAAATAAATAATACA
41185577 TAAAAATAATTTAAAATAAATAATACA
1 TAAAAA-AATTTAAAATAAATAATACA
41185604 TAAAA
1 TAAAA
41185609 TTTTAAAGTA
Statistics
Matches: 99, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
24 2 0.02
25 15 0.15
26 34 0.34
27 43 0.43
28 2 0.02
29 3 0.03
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (26 bp):
TAAAAAAATTTAAAATAAATAATACA
Found at i:41185613 original size:24 final size:25
Alignment explanation
Indices: 41185455--41185621 Score: 90
Period size: 26 Copynumber: 6.5 Consensus size: 25
41185445 GTAAAATAAA
* * * *
41185455 TTTAAAGTAAATAACATATAAAATAC
1 TTTAAAATAAATAATACATAAAA-AT
** *
41185481 TTTAAACCAAGTAATACATATAAAA-
1 TTTAAAATAAATAATACATA-AAAAT
* * * *
41185506 CTTAAAATAGATAATATACACAAAGA-
1 TTTAAAATAAAT-A-ATACATAAAAAT
*
41185532 TTTAAAATAAATCATATA-AGGAAAAAT
1 TTTAAAATAAAT-A-ATACA-TAAAAAT
**
41185559 TTTAAAATAAATAATATGTAAAAAT
1 TTTAAAATAAATAATACATAAAAAT
41185584 AATTTAAAATAAATAATACAT-AAAAT
1 --TTTAAAATAAATAATACATAAAAAT
*
41185610 TTTAAAGTAAAT
1 TTTAAAATAAAT
41185622 GATGTACAAA
Statistics
Matches: 111, Mismatches: 22, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
24 11 0.10
25 17 0.15
26 45 0.41
27 38 0.34
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.31
Consensus pattern (25 bp):
TTTAAAATAAATAATACATAAAAAT
Found at i:41187499 original size:44 final size:44
Alignment explanation
Indices: 41187429--41188362 Score: 344
Period size: 44 Copynumber: 20.7 Consensus size: 44
41187419 TGTAGCTTTA
* * * * *
41187429 ATCTACTCCACTGTAACTTTAGGGAGATAAAACTTGTGACTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* * *
41187473 ATCTGCTCCACTGCAACTTCATGGAGATAAGATTTGTAA-TCTGT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACT-TCT
* *
41187517 AGTTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* *
41187562 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* * ** *
41187606 ACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTTATA-TAC-
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TA-ACTTCT
* * *
41187650 AGTCTACTCCATTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGA-TT-T
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C-TTGTA-ACTTCT
** * * * * * * * *
41187700 GATCTGAC-CTGCTACTACTTTAGAGG-TATAGGATTTATAGCTT-T
1 -ATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTTGTAACTTCT
* * * *
41187744 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCGCTATC-TCC
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCT
* *
41187789 AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAACTTC-
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* * * * * ** *
41187833 AACTTGCTCTACTGCAACTTTAGAGAGATAAG-GTTAGTGGCTTCA
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCT
** * *
41187878 ATCTGCTCCACTATAACTTCAGAGAGATAAGATTCACCATGGTAGA-TT-T
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG----A-C-TTGTA-ACTTCT
* * * * * ** * *
41187927 GATCCGAC-CTACTGTAACTTCAGAGG-TATAGGGTTTATAGCTT-T
1 -ATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTTGTAACTTCT
* * * * *
41187971 AATCTG-TCTACTACAACTTCAGAGAGATAAGA-TT-TACTATTTTT
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA--ACTTCT
** *
41188015 AGTCCACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTC-
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* * * ** *
41188059 AACTTGCTCCACTGCAACTTCAAGGAGATAAG-GTTAGTGGCTTCG
1 ATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCT
* *
41188104 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGGTAGA-TT-T
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C-TTGTA-ACTTCT
** * * * * *
41188153 GATCTGAC-CTGCTGCAACTTCAGAGG-TATAGGATTTATAGCTT-T
1 -ATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTTGTAACTTCT
* * **
41188197 AATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCGCTATTTTC-
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCT
** * *
41188242 AGTCTGCTCTGCTGCAACTTCAGAGAGATAAGACTTGTAACTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
* * * ** *
41188287 ACCTGCTCCACTGCAACTTTAGGGAGATAAG-GTTAGTGGCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCT
41188331 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
41188363 TTCACCATGG
Statistics
Matches: 662, Mismatches: 154, Indels: 147
0.69 0.16 0.15
Matches are distributed among these distances:
41 2 0.00
42 3 0.00
43 37 0.06
44 358 0.54
45 167 0.25
46 8 0.01
47 2 0.00
50 72 0.11
51 13 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCT
Found at i:41187542 original size:89 final size:88
Alignment explanation
Indices: 41187434--41187682 Score: 288
Period size: 89 Copynumber: 2.8 Consensus size: 88
41187424 CTTTAATCTA
* * * *
41187434 CTCCACTGTAACTTTAGGGAGATAAAACTTGTGACTTCTATCTGCTCCACTGCAACTTCATGGAG
1 CTCCACTGCAACTTTAGGGAGATAAAACTTGTAACTTCTATCTACTCCACTGCAACTTCAGGGAG
* ***
41187499 ATAAGATTTGTAATCTGT-AGTTTG
66 ATAAGACTTGTAA-CT-TCAACCTG
* * *
41187523 CTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCTATCTACTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTTAGGGAGATAAAACTTGTAACTTCTATCTACTCCACTGCAACTTCAGGGAG
41187588 ATAAGACTTGTAACTTCAACCTG
66 ATAAGACTTGTAACTTCAACCTG
*** * *
41187611 CTCCACTGCAACTTTAGGGAGATAAGGTTTGTTATA-TAC-AGTCTACTCCATTGCAACTTCAGG
1 CTCCACTGCAACTTTAGGGAGATAAAACTTG-TA-ACTTCTA-TCTACTCCACTGCAACTTCAGG
41187674 GAGATAAGA
63 GAGATAAGA
41187683 TTCGCCATGG
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
87 1 0.01
88 33 0.24
89 104 0.75
90 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (88 bp):
CTCCACTGCAACTTTAGGGAGATAAAACTTGTAACTTCTATCTACTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAACTTCAACCTG
Found at i:41187642 original size:133 final size:133
Alignment explanation
Indices: 41187429--41187682 Score: 373
Period size: 133 Copynumber: 1.9 Consensus size: 133
41187419 TGTAGCTTTA
* * * * *
41187429 ATCTACTCCACTGTAACTTTAGGGAGATAAAACTTGTGACTTCTATCTGCTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* * ** * *
41187494 TGGAGATAAGATTTGTAATCTGTAGTTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACT
66 GGGAGATAAGATTTGTAATATACAGTCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAACT
41187559 TCT
131 TCT
* *
41187562 ATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
* *
41187627 GGGAGATAAGGTTTGTTATATACAGTCTACTCCATTGCAACTTCAGGGAGATAAGA
66 GGGAGATAAGATTTGTAATATACAGTCTACTCCATTGCAACTTCAGGGAGATAAGA
41187683 TTCGCCATGG
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 106 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (133 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCA
GGGAGATAAGATTTGTAATATACAGTCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAACT
TCT
Found at i:41187954 original size:227 final size:227
Alignment explanation
Indices: 41187529--41188645 Score: 1526
Period size: 227 Copynumber: 4.9 Consensus size: 227
41187519 TTTGCTCCAT
* ** * * *
41187529 TGCAACTTCAGGGAGATAAGACTT-G-TAACTTCTA-TCTACTCCACTGCAACTTCAGGGAGATA
1 TGCAACTTCAGAGAGATAAGA-TTCGCTATTTTC-AGTCTGCTCTACTGCAACTTCAAGGAGATA
* * ** *
41187591 AGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGT-TATATACAGTCT
64 AGACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCT-T-CAATCT
* * * *
41187655 ACTCCATTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTACTACTT
127 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTT
*
41187720 TAGAGGTATAGGATTTATAGCTTTAATCTGCTCTAC
192 CAGAGGTATAGGATTTATAGCTTTAATCTGCTCTAC
* * * *
41187756 TGCAACTTCAGAGAGATAAGATTCGCTATCTCCAGTCTGCTCCACTACAACTTCAAGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAG
* *
41187821 ACTTGTAACTTCAACTTGCTCTACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCAATCTGCTC
66 ACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCAATCTGCTC
** * * * * *
41187886 CACTATAACTTCAGAGAGATAAGATTCACCATGGTAGATTTGATCCGACCTACTGTAACTTCAGA
131 CACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAGA
*
41187951 GGTATAGGGTTTATAGCTTTAATCTG-TCTAC
196 GGTATAGGATTTATAGCTTTAATCTGCTCTAC
* ** * ** *
41187982 TACAACTTCAGAGAGATAAGATTTACTATTTTTAGTCCACTCTACTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAG
* * *
41188047 ACTTGTAACTTCAACTTGCTCCACTGCAACTTCAAGGAGATAAGGTTAGTGGCTTCGATCTGCTC
66 ACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCAATCTGCTC
* *
41188112 CACTACAACTTCAGGGAGATAAGATTTGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAGA
131 CACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAGA
41188177 GGTATAGGATTTATAGCTTTAATCTGCTCTAC
196 GGTATAGGATTTATAGCTTTAATCTGCTCTAC
*
41188209 TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTGCTGCAACTTC-AGAGAGATAA
1 TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTACTGCAACTTCAAG-GAGATAA
* *
41188273 GACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCGATCTGCT
65 GACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCAATCTGCT
* * *
41188338 CCACTGCAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCAGACCTGCTACAACTTCAG
130 CCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAG
*
41188403 AGGTATAGGATTTATAGTTTTAATCTGCTCTAC
195 AGGTATAGGATTTATAGCTTTAATCTGCTCTAC
** * *
41188436 TATAACTTCAGAGAGATAAGATTCACTATTTTCAGTCTGCTCTGCTGCAACTTCAAGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAG
* * ** * * * *
41188501 ACTTGGAACTTTAACTTGCTCCACTAAAACTTCAGGGAGATAAAGTTTGTGGCTTCAATCTACTC
66 ACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCAATCTGCTC
* * * * * * * *
41188566 CACCGCAATTTTAGGGAGATAAGATTTGCCAAGGTAGATTTGATCTGACCTGTTGCAATTTTAGA
131 CACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAGA
41188631 GGTATAGGATTTATA
196 GGTATAGGATTTATA
41188646 ACTTCAATGA
Statistics
Matches: 792, Mismatches: 91, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
226 205 0.26
227 505 0.64
228 81 0.10
229 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (227 bp):
TGCAACTTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAG
ACTTGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCAATCTGCTC
CACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGATTTGATCTGACCTGCTGCAACTTCAGA
GGTATAGGATTTATAGCTTTAATCTGCTCTAC
Found at i:41188263 original size:45 final size:45
Alignment explanation
Indices: 41187746--41188501 Score: 197
Period size: 44 Copynumber: 16.7 Consensus size: 45
41187736 ATAGCTTTAA
* *
41187746 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTCCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
* * **
41187791 TCTGCTCCACTACAACTTCA-AGGAGATAAGACTT-G-TAACTTCA-
1 TCTGCTCTACTGCAACTTCAGA-GAGATAAGA-TTCGCTATTTTCAG
* * * * *** *
41187834 ACTTGCTCTACTGCAACTTTAGAGAGATAAGGTTAG-TGGCTTCAA
1 TC-TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
* ** * * *
41187879 TCTGCTCCACTATAACTTCAGAGAGATAAGATTCACCATGGTAGATT-TG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTAT--T---TTCAG
* * * * ** * *
41187928 ATCCGAC-CTACTGTAACTTCAGAG-GTATAGGGTT-TATAGCTTT-AA
1 -TCTG-CTCTACTGCAACTTCAGAGAG-ATAAGATTCGCTA-TTTTCAG
* ** *
41187973 TCTG-TCTACTACAACTTCAGAGAGATAAGATTTACTATTTTTAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
** * **
41188017 TCCACTCTACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCA-
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCGCTATTTTCAG
* * * * ***
41188060 ACTTGCTCCACTGCAACTTCA-AGGAGATAAGGTTAG-TGGCTTC-G
1 TC-TGCTCTACTGCAACTTCAGA-GAGATAAGATTCGCTATTTTCAG
* * * * * *
41188104 ATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGGTAGATT-TG
1 -TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTAT--T---TTCAG
* * ** * *
41188154 ATCTGAC-CTGCTGCAACTTCAGAG-GTATAGGATT-TATAGCTTT-AA
1 -TCTG-CTCTACTGCAACTTCAGAGAG-ATAAGATTCGCTA-TTTTCAG
41188199 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
* ** *
41188244 TCTGCTCTGCTGCAACTTCAGAGAGATAAGACTT-G-TAACTTCAA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCGCTATTTTCAG
* * * * * * ***
41188288 CCTGCTCCACTGCAACTTTAGGGAGATAAGGTTAG-TGGCTTC-G
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
* * * * **
41188331 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATGGT-AG
1 -TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
* * * * ** *
41188376 ATTTGATCAGACCTGCTACAACTTCAGAG-GTATAGGATT-TATAGTTTT-AA
1 -TCTGCTC-TA-CTG---CAACTTCAGAGAG-ATAAGATTCGCTA-TTTTCAG
** *
41188426 TCTGCTCTACTATAACTTCAGAGAGATAAGATTCACTATTTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
*
41188471 TCTGCTCTGCTGCAACTTCA-AGGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGA-GAGATAAGA
41188502 CTTGGAACTT
Statistics
Matches: 520, Mismatches: 133, Indels: 116
0.68 0.17 0.15
Matches are distributed among these distances:
43 33 0.06
44 253 0.49
45 132 0.25
46 7 0.01
47 5 0.01
48 3 0.01
49 11 0.02
50 74 0.14
51 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATTTTCAG
Found at i:41188377 original size:453 final size:453
Alignment explanation
Indices: 41187566--41188645 Score: 1635
Period size: 453 Copynumber: 2.4 Consensus size: 453
41187556 ACTTCTATCT
* * *
41187566 ACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGA
1 ACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGA
** * *
41187631 GATAAGGTTTGT-TATATACAGTCTACTCCATTGCAACTTCAGGGAGATAAGATTCGCCATGGTA
66 GATAAGGTTTGTGGCT-T-CA-TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTA
* *
41187695 GATTTGATCTGACCTGCTACTACTTTAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCA
128 GATTTGATCTGACCTGCTGCAACTTTAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCA
41187760 ACTTCAGAGAGATAAGATTCGCTATCTCCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTT
193 ACTTCAGAGAGATAAGATTCGCTATCTCCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTT
* *
41187825 GTAACTTCAACTTGCTCTACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCAATCTGCTCCACT
258 GTAACTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCAATCTGCTCCACT
* * **
41187890 ATAACTTCAGAGAGATAAGATTCACCATGGTAGATTTGATCCGACCTACTGTAACTTCAGAGGTA
323 ACAACTTCAGAGAGATAAGATTCACCATGGTAGATTTGATCAGACCTACTACAACTTCAGAGGTA
* * *
41187955 TAGGGTTTATAGCTTTAATCTG-TCTACTACAACTTCAGAGAGATAAGATTTACTATTTTTAGTC
388 TAGGATTTATAGCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTCACTATTTTCAGTC
41188019 C
453 C
*
41188020 ACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAAGGA
1 ACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGA
* * *
41188085 GATAAGGTTAGTGGCTTCGATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGGTAGA
66 GATAAGGTTTGTGGCTTC-ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTAGA
*
41188150 TTTGATCTGACCTGCTGCAACTTCAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCAAC
130 TTTGATCTGACCTGCTGCAACTTTAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCAAC
* * ** *
41188215 TTCAGAGAGATAAGATTCGCTATTTTCAGTCTGCTCTGCTGCAACTTC-AGAGAGATAAGACTTG
195 TTCAGAGAGATAAGATTCGCTATCTCCAGTCTGCTCCACTACAACTTCAAG-GAGATAAGACTTG
* * *
41188279 TAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTAGTGGCTTCGATCTGCTCCACTG
259 TAACTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCAATCTGCTCCACTA
* *
41188344 CAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCAGACCTGCTACAACTTCAGAGGTAT
324 CAACTTCAGAGAGATAAGATTCACCATGGTAGATTTGATCAGACCTACTACAACTTCAGAGGTAT
* * *
41188409 AGGATTTATAGTTTTAATCTGCTCTACTATAACTTCAGAGAGATAAGATTCACTATTTTCAGTCT
389 AGGATTTATAGCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTCACTATTTTCAGTCC
* * * * * **
41188474 GCTCTGCTGCAACTTCAAGGAGATAAGACTTGGAACTTTAACTTGCTCCACTAAAACTTCAGGGA
1 ACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGA
* * * * *
41188539 GATAAAGTTTGTGGCTTCAATCTACTCCACCGCAATTTTAGGGAGATAAGATTTGCCAAGGTAGA
66 GATAAGGTTTGTGGCTTC-ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTAGA
* *
41188604 TTTGATCTGACCTGTTGCAATTTTAGAGGTATAGGATTTATA
130 TTTGATCTGACCTGCTGCAACTTTAGAGGTATAGGATTTATA
41188646 ACTTCAATGA
Statistics
Matches: 566, Mismatches: 56, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
452 2 0.00
453 298 0.53
454 265 0.47
455 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (453 bp):
ACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGCTCCACTGCAACTTCAGGGA
GATAAGGTTTGTGGCTTCATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGGTAGAT
TTGATCTGACCTGCTGCAACTTTAGAGGTATAGGATTTATAGCTTTAATCTGCTCTACTGCAACT
TCAGAGAGATAAGATTCGCTATCTCCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTA
ACTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGGTTAGTGGCTTCAATCTGCTCCACTACA
ACTTCAGAGAGATAAGATTCACCATGGTAGATTTGATCAGACCTACTACAACTTCAGAGGTATAG
GATTTATAGCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTCACTATTTTCAGTCC
Found at i:41189599 original size:28 final size:28
Alignment explanation
Indices: 41189559--41189614 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
41189549 GATCAAAGAT
41189559 AGAAAATTCAACATGGGTAAGATGAAAA
1 AGAAAATTCAACATGGGTAAGATGAAAA
41189587 AGAAAATTCAACATGGGTAAGATGAAAA
1 AGAAAATTCAACATGGGTAAGATGAAAA
41189615 CTAGATGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.21, T:0.18
Consensus pattern (28 bp):
AGAAAATTCAACATGGGTAAGATGAAAA
Found at i:41189889 original size:6 final size:6
Alignment explanation
Indices: 41189878--41189918 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
41189868 TGTCATCTCC
* *
41189878 TTTTCT TTTTCT TTTTCT TCTTCT TCTTCTT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTT
41189919 TATTATACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:41192966 original size:19 final size:19
Alignment explanation
Indices: 41192925--41192970 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
41192915 GTGAAAGTTT
**
41192925 AATGCAAATGATGCGATGC
1 AATGCAAATGATGAAATGC
41192944 AATGCAAATGCATGAAATG-
1 AATGCAAATG-ATGAAATGC
41192963 AATGCAAA
1 AATGCAAA
41192971 AGAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGCAAATGATGAAATGC
Found at i:41197116 original size:2 final size:2
Alignment explanation
Indices: 41197109--41197148 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
41197099 ATGTTAATGA
41197109 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
41197149 GAAGCAATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41197598 original size:16 final size:17
Alignment explanation
Indices: 41197567--41197624 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
41197557 TTTATATATA
*
41197567 TTAAATAATTTTAAATT
1 TTAAATAATTTCAAATT
41197584 TTAAAT-ATTTCAAATT
1 TTAAATAATTTCAAATT
*
41197600 TTCAATAATTTTCAAGATT
1 TTAAATAA-TTTCAA-ATT
41197619 TTAAAT
1 TTAAAT
41197625 TTTATCTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.40
17 7 0.20
18 6 0.17
19 8 0.23
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAAATAATTTCAAATT
Found at i:41197769 original size:18 final size:17
Alignment explanation
Indices: 41197738--41197771 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41197728 TATAAGTGAT
*
41197738 TTTTTTAATTTATATTG
1 TTTTTAAATTTATATTG
41197755 TTTTTAAATTATATATT
1 TTTTTAAATT-TATATT
41197772 AAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTTAAATTTATATTG
Found at i:41200915 original size:9 final size:9
Alignment explanation
Indices: 41200901--41200925 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
41200891 TGAATTATTG
41200901 AATTTAGAT
1 AATTTAGAT
41200910 AATTTAGAT
1 AATTTAGAT
41200919 AATTTAG
1 AATTTAG
41200926 TACAATTCAA
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:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (9 bp):
AATTTAGAT
Found at i:41203054 original size:86 final size:88
Alignment explanation
Indices: 41202951--41203200 Score: 387
Period size: 86 Copynumber: 2.8 Consensus size: 88
41202941 TTGAAGATAT
* * *
41202951 TATTTTATTTTAGTTTAATCACGATAAATATTTTGTCTACTTTTATTTTAATTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
41203016 ATTAAATTAAATTGTATTT-AAA
66 ATTAAATTAAATTGTATTTAAAA
* * *
41203038 -ATTTTATTTTATTTTAACCAGGAAAAATATTTTGTCTACATTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
41203102 ATTAAATTAAATTGTATTTAAAA
66 ATTAAATTAAATTGTATTTAAAA
*
41203125 TTGTATTTTATTTTTATTTTAATCACGAAAAATATTTTTTCTACTTTTATTTTATTTTTAAATTA
1 ---TATTTTA-TTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
41203190 CCTAATTAAAT
62 CCTAATTAAAT
41203201 AATCATTATT
Statistics
Matches: 147, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
86 77 0.52
87 3 0.02
91 6 0.04
92 61 0.41
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (88 bp):
TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATTGTATTTAAAA
Found at i:41203360 original size:9 final size:9
Alignment explanation
Indices: 41203344--41203397 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
41203334 ATATCATATC
41203344 TTACATAAT
1 TTACATAAT
*
41203353 TTACATAAG
1 TTACATAAT
* * *
41203362 ATAAATAAC
1 TTACATAAT
41203371 TTACATAAT
1 TTACATAAT
*
41203380 TTACATAAC
1 TTACATAAT
*
41203389 CTACATAAT
1 TTACATAAT
41203398 ACATAAATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAT
Found at i:41203387 original size:18 final size:18
Alignment explanation
Indices: 41203344--41203397 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
41203334 ATATCATATC
* *
41203344 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* *
41203362 ATAAATAACTTACATAAT
1 TTACATAACTTACATAAT
*
41203380 TTACATAACCTACATAAT
1 TTACATAACTTACATAAT
41203398 ACATAAATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:41203396 original size:27 final size:27
Alignment explanation
Indices: 41203338--41203403 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
41203328 AAATATATAT
* *
41203338 CATATCTTACATAATTTACATAAGATA
1 CATAACTTACATAATTTACATAACATA
* *
41203365 AATAACTTACATAATTTACATAACCTA
1 CATAACTTACATAATTTACATAACATA
41203392 CATAA--TACATAA
1 CATAACTTACATAA
41203404 ATATATATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 7 0.21
27 27 0.79
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (27 bp):
CATAACTTACATAATTTACATAACATA
Found at i:41208480 original size:13 final size:14
Alignment explanation
Indices: 41208464--41208492 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
41208454 TTATTCTAAA
41208464 TATTTATAATT-TT
1 TATTTATAATTGTT
41208477 TATTTATAATTGTT
1 TATTTATAATTGTT
41208491 TA
1 TA
41208493 ATTCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TATTTATAATTGTT
Found at i:41208963 original size:21 final size:21
Alignment explanation
Indices: 41208907--41208964 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
41208897 ACAACTTAGA
*
41208907 GCAGAGGCAGTAGAGAGGGAG
1 GCAGAGGCAGTAGCGAGGGAG
*
41208928 GCA-ACGGTAGTAGCGAGGGAG
1 GCAGA-GGCAGTAGCGAGGGAG
*
41208949 GCAGAGGCAGCAGCGA
1 GCAGAGGCAGTAGCGA
41208965 TGGCAGCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.48, T:0.05
Consensus pattern (21 bp):
GCAGAGGCAGTAGCGAGGGAG
Found at i:41209502 original size:43 final size:43
Alignment explanation
Indices: 41209363--41209531 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
41209353 CGCCGCTAAA
* * * ** **
41209363 AAACGTCGCTAAAAGTCATGGCTTTTATCGGTACTTTTTGCAC
1 AAACGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTTAC
* * *
41209406 AAACACCGCTAAAAGCCATGACTTTTAGCGGTGC-TTTTTTAC
1 AAACGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTTAC
* ** * *
41209448 AAATGTAGCTAAAATTCATTACTTTTAGCGGCGCTTTTTTTAC
1 AAACGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTTAC
* * *
41209491 AAACGCCGCTAAAAGTTATGGCTTTTAGCGGCG-TTTATTTA
1 AAACGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTTA
41209532 AATAAACGCC
Statistics
Matches: 101, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 39 0.39
43 62 0.61
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTTTTAC
Found at i:41213059 original size:50 final size:45
Alignment explanation
Indices: 41212902--41213055 Score: 168
Period size: 46 Copynumber: 3.3 Consensus size: 45
41212892 TTGAGACGAG
* * *
41212902 AGCTAGTGTAAGACATGTCTAGGACATGTATTGGCCTCGAGACGTA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATTGG-CACGAGATGTA
41212948 AGCTAGTGTAAGACATGTCTAGGACATGCATTGGCTACGAGATGT-
1 AGCTAGTGTAAGACATGTCTAGGACATGCATTGGC-ACGAGATGTA
* * * *
41212993 -GTTAGTGTAAGACCATGTCTGGGACATGGCAGTGGCACAGATATGTGA
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCAC-GAGATGT-A
41213041 GAGCTAGTGTAAGAC
1 -AGCTAGTGTAAGAC
41213056 CATGCTTGGG
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
44 11 0.12
45 16 0.17
46 53 0.58
49 1 0.01
50 11 0.12
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATTGGCACGAGATGTA
Found at i:41213115 original size:49 final size:48
Alignment explanation
Indices: 41212851--41213171 Score: 163
Period size: 47 Copynumber: 6.8 Consensus size: 48
41212841 ATGGGTTATT
* * * *
41212851 ATGAGCCAATGTAAGACCATGTCTGGGACATGACATC-GATATTGAGACG
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGA-CTCGAGA-G
* * * ** *
41212900 A-GAGCTAGTGTAAGA-CATGTCTAGGACAT-GTATTGGCCTCGAGACG
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGA-G
* * * * *
41212946 -TAAGCTAGTGTAAGA-CATGTCTAGGACAT-GCAT-TGGCT--ACGAG
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGA-GAG
* ** *
41212989 ATGTGTTAGTGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA-T--ATGTG
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-T----CAGACTCGA-GAG
* *
41213040 A-GAGCTAGTGTAAGACCATG-CTTGGGACATGGCATCAGCCTCGATGACG
1 ATGAGCCAGTGTAAGACCATGTC-TGGGACATGGCATCAGACTCGA-GA-G
* * * *
41213089 AT-AGTCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTTGAGAT
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGAG
* *
41213135 ATGAGCCAGTATAAGACCATGTCCGGGACATGGCATC
1 ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
41213172 GGCATTCTAC
Statistics
Matches: 217, Mismatches: 34, Indels: 43
0.74 0.12 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 19 0.09
46 45 0.21
47 47 0.22
48 20 0.09
49 34 0.16
50 30 0.14
51 5 0.02
52 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
ATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTCGAGAG
Found at i:41218430 original size:17 final size:17
Alignment explanation
Indices: 41218408--41218441 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41218398 TTGTTGATTC
41218408 AATTTTGGAATTGTCTT
1 AATTTTGGAATTGTCTT
41218425 AATTTTGGAATTGTCTT
1 AATTTTGGAATTGTCTT
41218442 TCTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
AATTTTGGAATTGTCTT
Found at i:41218451 original size:21 final size:21
Alignment explanation
Indices: 41218427--41218467 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
41218417 ATTGTCTTAA
*
41218427 TTTTGGAATTGTCTTTCTTTC
1 TTTTGGAATTGTCTTCCTTTC
41218448 TTTTGGAATTGTCTTCCTTT
1 TTTTGGAATTGTCTTCCTTT
41218468 GTTGGACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (21 bp):
TTTTGGAATTGTCTTCCTTTC
Found at i:41218467 original size:17 final size:17
Alignment explanation
Indices: 41218410--41218467 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
41218400 GTTGATTCAA
**
41218410 TTTTGGAATTGTCTTAA
1 TTTTGGAATTGTCTTCC
41218427 TTTTGGAATTGTCTTTCTTTC
1 TTTTGGAATTGTC-TTC---C
41218448 TTTTGGAATTGTCTTCC
1 TTTTGGAATTGTCTTCC
41218465 TTT
1 TTT
41218468 GTTGGACCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 17 0.49
18 2 0.06
20 3 0.09
21 13 0.37
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.59
Consensus pattern (17 bp):
TTTTGGAATTGTCTTCC
Found at i:41220376 original size:20 final size:20
Alignment explanation
Indices: 41220345--41220406 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
41220335 GTTTGATGTG
*
41220345 TTAAAATGATTTTAACTTGA
1 TTAAAATAATTTTAACTTGA
* * *
41220365 TTGAAATCATTTTGACTTCG-
1 TTAAAATAATTTTAACTT-GA
*
41220385 TTAAAATAATTTTCACTTGA
1 TTAAAATAATTTTAACTTGA
41220405 TT
1 TT
41220407 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTAAAATAATTTTAACTTGA
Found at i:41222634 original size:40 final size:40
Alignment explanation
Indices: 41222588--41222778 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
41222578 TATAACCACA
* ** *
41222588 AGCACAAATGCCTTCGGGTCTTAGCCCGAATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
41222628 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
41222668 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
41222708 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
41222748 AGCACAATTGCCTTCGGGACTTAG-CCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
41222779 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 29, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
39 7 0.06
40 115 0.94
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:41222708 original size:80 final size:79
Alignment explanation
Indices: 41222569--41222770 Score: 287
Period size: 80 Copynumber: 2.5 Consensus size: 79
41222559 TCTTCAGAAT
* * * * * * *
41222569 TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGAATTTAGTAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGAATATAGCAACTCGCACA
41222634 AATGCCTTCGGATC
66 AATGCCTTCGGATC
**
41222648 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGAATATAGCAACTCGCAC
*
41222713 AAATGCCTTCGGGTC
65 AAATGCCTTCGGATC
*
41222728 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTA
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTA
41222771 GCCGGATATC
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 4 0.04
80 106 0.96
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGAATATAGCAACTCGCACA
AATGCCTTCGGATC
Done.