Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 34 of 204
Found at i:9539874 original size:17 final size:17
Alignment explanation
Indices: 9539854--9539948 Score: 54
Period size: 17 Copynumber: 5.6 Consensus size: 17
9539844 TTTTAGTAGT
9539854 TTTAATATTAAATATAA
1 TTTAATATTAAATATAA
* *
9539871 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-ATAA
* **
9539888 --TAGTATTTTAT-TAA
1 TTTAATATTAAATATAA
* *
9539902 TTTAATATTAAGGTGATTA
1 TTTAATATTAA-AT-ATAA
*
9539921 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATATAA
9539939 TTTAATATTA
1 TTTAATATTA
9539949 TATTGTAGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
14 3 0.05
15 6 0.10
16 11 0.19
17 22 0.37
18 3 0.05
19 4 0.07
20 10 0.17
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATATAA
Found at i:9539987 original size:60 final size:58
Alignment explanation
Indices: 9539923--9540038 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
9539913 GGTGATTATC
* *
9539923 TTAATATTAAATTTAATTTAATA-TTATATTGTAGATAAGTATTCTATTAATTTAATATAT
1 TTAATATTAAATTTAATCTAATATTTATA-T-T-GATAAGTATTATATTAATTTAATATAT
*
9539983 TTAATATTAAATTTAATCTAATATTTATATTGATAAGTATTATATTATTTTAATAT
1 TTAATATTAAATTTAATCTAATATTTATATTGATAAGTATTATATTAATTTAATAT
9540039 TAAAGTGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 23 0.44
59 1 0.02
60 23 0.44
61 5 0.10
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATATTGATAAGTATTATATTAATTTAATATAT
Found at i:9550470 original size:43 final size:43
Alignment explanation
Indices: 9550420--9550505 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
9550410 TCATATTTCA
* *
9550420 TTTCTCATCTCATAATCATTTCTCGTATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
* *
9550463 TTTCTCATCTCATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
9550506 CAATCACACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:9551743 original size:19 final size:20
Alignment explanation
Indices: 9551709--9551759 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
9551699 TATCTTTCTT
* * *
9551709 TTATTATACATTCATTTAA-
1 TTATTATATATACATTAAAG
9551728 TTATTATATATACATTAAAG
1 TTATTATATATACATTAAAG
*
9551748 TTAATATATATA
1 TTATTATATATA
9551760 ACATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (20 bp):
TTATTATATATACATTAAAG
Found at i:9558371 original size:49 final size:51
Alignment explanation
Indices: 9558314--9558464 Score: 162
Period size: 49 Copynumber: 3.0 Consensus size: 51
9558304 AAGGTAGAAG
* *
9558314 CAGTGGCAGTATATCTGCAAATTAGTGGTGGCTTGTCCATAAAT-T-TTAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCAAAAATGTGTTAT
* * * * *
9558363 CAGTGGCAGTATACCTGCATATCAGTGGTGGCTGGTCTACAAATGTGTTAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCAAAAATGTGTTAT
* * * * * *
9558414 TAGTTGTAGTTTATCTACAAATCAATGGTGGCTTGTCCAAAAATGGTGTTA
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCAAAAAT-GTGTTA
9558465 CGAATGGATA
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
49 38 0.46
50 1 0.01
51 37 0.45
52 6 0.07
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (51 bp):
CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCAAAAATGTGTTAT
Found at i:9564360 original size:27 final size:27
Alignment explanation
Indices: 9564303--9564564 Score: 166
Period size: 27 Copynumber: 9.7 Consensus size: 27
9564293 TTCGCGAGCT
* * * * *
9564303 TGGCTCACCGAAACATATTCGCGAGCT
1 TGGCTCGCCAAAACATATTTGCAAGCA
* *
9564330 TGGCTCGCCAAAAGACATTTGCAAGCA
1 TGGCTCGCCAAAACATATTTGCAAGCA
* * **
9564357 TGGCTTGCTAAAACATATTTGTGAGCA
1 TGGCTCGCCAAAACATATTTGCAAGCA
* *
9564384 TGGCTCGCCAAAACATATCTGCAAGCT
1 TGGCTCGCCAAAACATATTTGCAAGCA
* ** * * *
9564411 TGGCTCGCCAAAATATACCTGCGATCT
1 TGGCTCGCCAAAACATATTTGCAAGCA
* * * * *
9564438 TGGCTTGCCAAAGCATATCTACGAGCA
1 TGGCTCGCCAAAACATATTTGCAAGCA
* * *** * *
9564465 TAGCTCGTCAAAACATATTTATGACCT
1 TGGCTCGCCAAAACATATTTGCAAGCA
* * *
9564492 TGGCTCGCCAAAACATATCTGCGAGCT
1 TGGCTCGCCAAAACATATTTGCAAGCA
* * **
9564519 TGGCTCGCCAAAGCATATCTGTGAGCA
1 TGGCTCGCCAAAACATATTTGCAAGCA
*
9564546 TGGCTCGTCAAAA-ATATTT
1 TGGCTCGCCAAAACATATTT
9564565 ACCACTCATG
Statistics
Matches: 185, Mismatches: 50, Indels: 1
0.78 0.21 0.00
Matches are distributed among these distances:
26 5 0.03
27 180 0.97
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (27 bp):
TGGCTCGCCAAAACATATTTGCAAGCA
Found at i:9564442 original size:81 final size:80
Alignment explanation
Indices: 9564298--9564563 Score: 282
Period size: 81 Copynumber: 3.3 Consensus size: 80
9564288 CCACCTTCGC
* * * * * * * *
9564298 GAGCTTGGCTCACCGAAACATATTCGCGAGCTTGGCTCGCCAAAAGACATTTGCAAGCATGGCTT
1 GAGCATGGCTCGCCAAAACATATT-GCGAGCTTGGCTCGCCAAAACATATCTGCGAGCTTGGCTT
* * *
9564363 GCTAAAACATATTTGT
65 GCCAAAGCATATCTGT
* * * *
9564379 GAGCATGGCTCGCCAAAACATATCTGCAAGCTTGGCTCGCCAAAATATACCTGCGATCTTGGCTT
1 GAGCATGGCTCGCCAAAACATAT-TGCGAGCTTGGCTCGCCAAAACATATCTGCGAGCTTGGCTT
**
9564444 GCCAAAGCATATCTAC
65 GCCAAAGCATATCTGT
* * ** * *
9564460 GAGCATAGCTCGTCAAAACATATTTATGACCTTGGCTCGCCAAAACATATCTGCGAGCTTGGCTC
1 GAGCATGGCTCGCCAAAACATA-TTGCGAGCTTGGCTCGCCAAAACATATCTGCGAGCTTGGCTT
9564525 GCCAAAGCATATCTGT
65 GCCAAAGCATATCTGT
*
9564541 GAGCATGGCTCGTCAAAA-ATATT
1 GAGCATGGCTCGCCAAAACATATT
9564564 TACCACTCAT
Statistics
Matches: 154, Mismatches: 29, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
79 2 0.01
80 3 0.02
81 147 0.95
82 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
GAGCATGGCTCGCCAAAACATATTGCGAGCTTGGCTCGCCAAAACATATCTGCGAGCTTGGCTTG
CCAAAGCATATCTGT
Found at i:9565171 original size:38 final size:38
Alignment explanation
Indices: 9565084--9565199 Score: 117
Period size: 38 Copynumber: 3.0 Consensus size: 38
9565074 TTACTGTGAT
* * *
9565084 CTCACTATAACATAATCACTTACCTTGCAGT-TCTGCGAG
1 CTCATTATAACACAATCACATACCTTGCA-TATC-GCGAG
* *
9565123 CTCATCATAACACAAACACATACCTTGCATATCGCGAG
1 CTCATTATAACACAATCACATACCTTGCATATCGCGAG
* * * * *
9565161 CTTATTATAACACAATCAAACACCTCGCATATTGCGAG
1 CTCATTATAACACAATCACATACCTTGCATATCGCGAG
9565199 C
1 C
9565200 ATACCTCGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 38 0.59
39 26 0.41
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (38 bp):
CTCATTATAACACAATCACATACCTTGCATATCGCGAG
Found at i:9567114 original size:3 final size:3
Alignment explanation
Indices: 9567106--9567141 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9567096 ATCTGCAATC
9567106 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9567142 AAAATAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9567878 original size:99 final size:99
Alignment explanation
Indices: 9567775--9567969 Score: 363
Period size: 99 Copynumber: 2.0 Consensus size: 99
9567765 AGGCCTTTAG
9567775 CTACCAACATCAATTCAAAATTTAAAACATTCAAAATCCATTCATTATGATTTTTAATATCAAGT
1 CTACCAACATCAATTCAAAATTTAAAACATTCAAAATCCATTCATTATGATTTTTAATATCAAGT
*
9567840 TCATTTTATATCAAAATCCATTTAACATCTCATT
66 TCATTTTATATCAAAATCCATTTAAAATCTCATT
*
9567874 CTACCAACATCAATTCAAAATTTAAAACGTTCAAAATCCATTCATTATGATTTTTAATATCAAGT
1 CTACCAACATCAATTCAAAATTTAAAACATTCAAAATCCATTCATTATGATTTTTAATATCAAGT
*
9567939 TCATTTTATATCAAAATCCTTTTAAAATCTC
66 TCATTTTATATCAAAATCCATTTAAAATCTC
9567970 GTTCGAACCT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (99 bp):
CTACCAACATCAATTCAAAATTTAAAACATTCAAAATCCATTCATTATGATTTTTAATATCAAGT
TCATTTTATATCAAAATCCATTTAAAATCTCATT
Found at i:9567953 original size:45 final size:45
Alignment explanation
Indices: 9567805--9567957 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
9567795 TTTAAAACAT
9567805 TCAAAATCCATTCATTATGATTTTTAATATCAAGTTCATTTTATA
1 TCAAAATCCATTCATTATGATTTTTAATATCAAGTTCATTTTATA
* * ** * * *
9567850 TCAAAATCCATTTAACA-TCTCATTCTACCAACATCAA-TTCAAAATTTAAAA
1 TCAAAATCCA-TT--CATTATGATT-T-TTAATATCAAGTTC---ATTTTATA
9567901 CGTTCAAAATCCATTCATTATGATTTTTAATATCAAGTTCATTTTATA
1 ---TCAAAATCCATTCATTATGATTTTTAATATCAAGTTCATTTTATA
9567949 TCAAAATCC
1 TCAAAATCC
9567958 TTTTAAAATC
Statistics
Matches: 81, Mismatches: 14, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
45 19 0.23
46 2 0.02
47 5 0.06
48 12 0.15
49 7 0.09
50 7 0.09
51 12 0.15
52 5 0.06
53 2 0.02
54 10 0.12
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (45 bp):
TCAAAATCCATTCATTATGATTTTTAATATCAAGTTCATTTTATA
Found at i:9570187 original size:11 final size:11
Alignment explanation
Indices: 9570173--9570197 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9570163 ATCTACATAA
9570173 GTAATAATTAC
1 GTAATAATTAC
9570184 GTAATAATTAC
1 GTAATAATTAC
9570195 GTA
1 GTA
9570198 GGACACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (11 bp):
GTAATAATTAC
Found at i:9583482 original size:23 final size:23
Alignment explanation
Indices: 9583456--9583508 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9583446 GGACAGCTCT
*
9583456 TATACACAAAATTTGATAGCATG
1 TATACACAAAATTTGACAGCATG
* *
9583479 TATATACAAAATTTGACAGCATT
1 TATACACAAAATTTGACAGCATG
9583502 TATACAC
1 TATACAC
9583509 CACAATGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.32
Consensus pattern (23 bp):
TATACACAAAATTTGACAGCATG
Found at i:9584437 original size:40 final size:41
Alignment explanation
Indices: 9584342--9584443 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 41
9584332 TTGTATAAAA
*
9584342 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTGATACATTT
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCTGATACATTT
* * ** *
9584383 CACCGACACAAAGCCTGCTAGACATTAAGTCTGAATA-A-TT
1 CACCGGCATAAAGCCTGCTAGACACAAAGCCTG-ATACATTT
*
9584423 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATAAAGCCTGCTAG
9584444 GTACAGAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 20 0.39
41 28 0.55
42 3 0.06
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGACACAAAGCCTGATACATTT
Found at i:9591567 original size:40 final size:40
Alignment explanation
Indices: 9591523--9591613 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
9591513 CACCGACACA
9591523 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCAGCATT
1 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCAGCATT
*
9591563 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCGGCATT
1 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCAGCATT
9591603 AAGCCTGCTAG
1 AAGCCTGCTAG
9591614 GTACAGAACC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
AAGCCTGCTAGACATTAAGTCTGAATAATTCACCAGCATT
Found at i:9591627 original size:40 final size:40
Alignment explanation
Indices: 9591523--9591629 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
9591513 CACCGACACA
* *
9591523 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCAGCATT
1 AAGCCTGCTAGACATGAAGCCTGAATAATTCACCAGCATT
* * *
9591563 AAGCCTGCTAGACATTAAGTCTGAATAATTCACCGGCATT
1 AAGCCTGCTAGACATGAAGCCTGAATAATTCACCAGCATT
9591603 AAGCCTGCTAGGTACA-GAA-CCTGAATA
1 AAGCCTGCTA-G-ACATGAAGCCTGAATA
9591630 TCACAAATAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
40 56 0.90
41 3 0.05
42 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (40 bp):
AAGCCTGCTAGACATGAAGCCTGAATAATTCACCAGCATT
Found at i:9595506 original size:27 final size:27
Alignment explanation
Indices: 9595465--9595667 Score: 127
Period size: 27 Copynumber: 7.4 Consensus size: 27
9595455 AAAACACCAG
* *
9595465 AAAAATAGAATCCTTTGTGGTGATATA
1 AAAAATGGAAGCCTTTGTGGTGATATA
* *
9595492 AAAAATGGATGCCTTTGTGGTGATCTA
1 AAAAATGGAAGCCTTTGTGGTGATATA
* ** *
9595519 AGAAATGGAAGCCTTTGTGGCAATCTA
1 AAAAATGGAAGCCTTTGTGGTGATATA
* * ** ** **
9595546 AGAAATGAAAGCCTTCATGGCAATCCA
1 AAAAATGGAAGCCTTTGTGGTGATATA
* * * * * * **
9595573 AGAAATAGAAGTCGTCGTAGCAATATA
1 AAAAATGGAAGCCTTTGTGGTGATATA
* * *
9595600 AGAAATGGAAGCCTTTGTGGCGATCTAA
1 AAAAATGGAAGCCTTTGTGGTGATAT-A
*
9595628 AAAAACTGGAAGCCTTTGTAGTGATATA
1 AAAAA-TGGAAGCCTTTGTGGTGATATA
*
9595656 AGAAATGGAAGC
1 AAAAATGGAAGC
9595668 TTTATGGCAA
Statistics
Matches: 142, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 114 0.80
28 10 0.07
29 18 0.13
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAAATGGAAGCCTTTGTGGTGATATA
Found at i:9595552 original size:54 final size:54
Alignment explanation
Indices: 9595467--9595675 Score: 186
Period size: 54 Copynumber: 3.9 Consensus size: 54
9595457 AACACCAGAA
* * ** * * *
9595467 AAATAGAATCCTTTGTGGTGATATAAAAAATGGATGCCTTTGTGGTGATCTAAG
1 AAATAGAAGCCTTTGTAGCAATATAAGAAATGGAAGCCTTTGTGGCGATCTAAG
* * * * ** * *
9595521 AAATGGAAGCCTTTGTGGCAATCTAAGAAATGAAAGCCTTCATGGCAATCCAAG
1 AAATAGAAGCCTTTGTAGCAATATAAGAAATGGAAGCCTTTGTGGCGATCTAAG
* * * *
9595575 AAATAGAAGTCGTCGTAGCAATATAAGAAATGGAAGCCTTTGTGGCGATCTAAAA
1 AAATAGAAGCCTTTGTAGCAATATAAGAAATGGAAGCCTTTGTGGCGATCT-AAG
* ** *
9595630 AAACTGGAAGCCTTTGTAGTGATATAAGAAATGGAAG-CTTTATGGC
1 AAA-TAGAAGCCTTTGTAGCAATATAAGAAATGGAAGCCTTTGTGGC
9595676 AAATCTTGTA
Statistics
Matches: 121, Mismatches: 32, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
54 81 0.67
55 13 0.11
56 27 0.22
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (54 bp):
AAATAGAAGCCTTTGTAGCAATATAAGAAATGGAAGCCTTTGTGGCGATCTAAG
Found at i:9600018 original size:137 final size:137
Alignment explanation
Indices: 9599770--9600081 Score: 457
Period size: 137 Copynumber: 2.3 Consensus size: 137
9599760 TCATTGACTT
* * *
9599770 GAAAAATGAATAAGACCATAGTTGAAATACACTATGACACTACACCGGAAATGAATAAGACCATA
1 GAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTACACCGAAAATGAATAAGACCATA
*
9599835 GTTGAAAGACACTGTGGCACTATACCAAAAAATGAATAAGAACATAGTTGAAAGACACTATGGC-
66 GTTGAAAGACACTATGGCACTATACCAAAAAATGAATAAGAACATAGTTGAAAGACACTATGGCA
* *
9599899 CCTATATC
131 TC-ATACC
*
9599907 GAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGAAAATGAATAAGACCATA
1 GAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTACACCGAAAATGAATAAGACCATA
* * * * *
9599972 GTTGAAAGACATTATGGCCCTATATCAGAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
66 GTTGAAAGACACTATGGCACTATACCAAAAAATGAATAAGAACATAGTTGAAAGACACTATGGCA
*
9600037 TCATGCC
131 TCATACC
* * *
9600044 G-GAAATAAATAAGACCATAGTTGAAAGAAACTATGGCA
1 GAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
9600082 TCATATCGGA
Statistics
Matches: 158, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
136 34 0.22
137 123 0.78
138 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (137 bp):
GAAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTACACCGAAAATGAATAAGACCATA
GTTGAAAGACACTATGGCACTATACCAAAAAATGAATAAGAACATAGTTGAAAGACACTATGGCA
TCATACC
Found at i:9600088 original size:91 final size:91
Alignment explanation
Indices: 9599772--9600080 Score: 444
Period size: 91 Copynumber: 3.4 Consensus size: 91
9599762 ATTGACTTGA
* * * * * *
9599772 AAAATGAATAAGACCATAGTTGAAATACACTATGACACTACA-CCGGAAATGAATAAGACCATAG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCCCTATATCAGAAAATGAATAAGACCATAG
* *
9599836 TTGAAAGACACTGTGGCACTATACCAA
66 TTGAAAGACACTATGGCACTATACC-G
*
9599863 AAAATGAATAAGAACATAGTTGAAAGACACTATGGCCCTATATC-GAAAAATGAATAAGACCATA
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCCCTATATCAG-AAAATGAATAAGACCATA
9599927 GTTGAAAGACACTATGGCACTATACCG
65 GTTGAAAGACACTATGGCACTATACCG
*
9599954 AAAATGAATAAGACCATAGTTGAAAGACATTATGGCCCTATATCAGAAAATGAATAAGACCATAG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCCCTATATCAGAAAATGAATAAGACCATAG
*
9600019 TTGAAAGACACTATGGCA-TCATGCCG
66 TTGAAAGACACTATGGCACT-ATACCG
* * *
9600045 GAAATAAATAAGACCATAGTTGAAAGAAACTATGGC
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGC
9600081 ATCATATCGG
Statistics
Matches: 199, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
90 1 0.01
91 154 0.77
92 44 0.22
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.21
Consensus pattern (91 bp):
AAAATGAATAAGACCATAGTTGAAAGACACTATGGCCCTATATCAGAAAATGAATAAGACCATAG
TTGAAAGACACTATGGCACTATACCG
Found at i:9600092 original size:45 final size:45
Alignment explanation
Indices: 9599772--9600081 Score: 433
Period size: 46 Copynumber: 6.8 Consensus size: 45
9599762 ATTGACTTGA
* * *
9599772 AAAATGAATAAGACCATAGTTGAAATACACTATGACACTACACCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCG
* * *
9599817 GAAATGAATAAGACCATAGTTGAAAGACACTGTGGCACTATACCAA
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACC-G
* * *
9599863 AAAATGAATAAGAACATAGTTGAAAGACACTATGGCCCTATATCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCG
9599908 AAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCG
1 -AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCG
* * *
9599954 AAAATGAATAAGACCATAGTTGAAAGACATTATGGCCCTATATCAG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATA-CCG
*
9600000 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCA-TCATGCCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACT-ATACCG
* * *
9600045 GAAATAAATAAGACCATAGTTGAAAGAAACTATGGCA
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
9600082 TCATATCGGA
Statistics
Matches: 236, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 116 0.49
46 120 0.51
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCG
Found at i:9600104 original size:45 final size:46
Alignment explanation
Indices: 9599772--9600089 Score: 398
Period size: 45 Copynumber: 7.0 Consensus size: 46
9599762 ATTGACTTGA
* * * *
9599772 AAAATGAATAAGACCATAGTTGAAATACACTATGACA-CTACACCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
* * * *
9599817 GAAATGAATAAGACCATAGTTGAAAGACACTGTGGCA-CTATACCAA
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATC-G
*
9599863 AAAATGAATAAGAACATAGTTGAAAGACACTATGGC-CCTATATCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
*
9599908 AAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA-CTATACCG
1 -AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
*
9599954 AAAATGAATAAGACCATAGTTGAAAGACATTATGGC-CCTATATCAG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATC-G
* **
9600000 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCATC-ATGCCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
* * * *
9600045 GAAATAAATAAGACCATAGTTGAAAGAAACTATGGCATC-ATATCG
1 AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
9600090 GAAGTGTGTA
Statistics
Matches: 242, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
45 121 0.50
46 120 0.50
47 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.21
Consensus pattern (46 bp):
AAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCTATATCG
Found at i:9600463 original size:13 final size:13
Alignment explanation
Indices: 9600442--9600477 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9600432 GGTTATATGG
9600442 AAATG-TTATACA
1 AAATGTTTATACA
*
9600454 AAGTGTTTATACA
1 AAATGTTTATACA
9600467 AAATGTTTATA
1 AAATGTTTATA
9600478 TGGATAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (13 bp):
AAATGTTTATACA
Found at i:9600718 original size:31 final size:31
Alignment explanation
Indices: 9600680--9600739 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
9600670 TGAATGAACG
9600680 CATGACCATGATATTGAATTATCTTGTAACT
1 CATGACCATGATATTGAATTATCTTGTAACT
9600711 CATGACCATGATATTGAATTATCTTGTAA
1 CATGACCATGATATTGAATTATCTTGTAA
9600740 AATGTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (31 bp):
CATGACCATGATATTGAATTATCTTGTAACT
Found at i:9606008 original size:25 final size:25
Alignment explanation
Indices: 9605978--9606026 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9605968 TTTTGGAATA
9605978 TGTATTCTGGATTGTATGCTCAATT
1 TGTATTCTGGATTGTATGCTCAATT
*
9606003 TGTATTCTGGATTGTATGTTCAAT
1 TGTATTCTGGATTGTATGCTCAAT
9606027 CTATATACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (25 bp):
TGTATTCTGGATTGTATGCTCAATT
Found at i:9608208 original size:23 final size:19
Alignment explanation
Indices: 9608163--9608202 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9608153 TTCAGTTATT
9608163 TAATTTTAATACATGTATA
1 TAATTTTAATACATGTATA
*
9608182 TAATTTTAATACATGAATA
1 TAATTTTAATACATGTATA
9608201 TA
1 TA
9608203 TATAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TAATTTTAATACATGTATA
Found at i:9610358 original size:9 final size:9
Alignment explanation
Indices: 9610344--9610377 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9610334 TTGCAAAAAA
9610344 GACGATGAG
1 GACGATGAG
*
9610353 GACGATGAA
1 GACGATGAG
9610362 GACGATGAG
1 GACGATGAG
*
9610371 GATGATG
1 GACGATG
9610378 TTTCTTCGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.41, T:0.15
Consensus pattern (9 bp):
GACGATGAG
Found at i:9610365 original size:18 final size:18
Alignment explanation
Indices: 9610342--9610377 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9610332 GGTTGCAAAA
9610342 AAGACGATGAGGACGATG
1 AAGACGATGAGGACGATG
*
9610360 AAGACGATGAGGATGATG
1 AAGACGATGAGGACGATG
9610378 TTTCTTCGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.39, T:0.14
Consensus pattern (18 bp):
AAGACGATGAGGACGATG
Found at i:9612420 original size:22 final size:22
Alignment explanation
Indices: 9612385--9612442 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9612375 AAAGGGTATC
* *
9612385 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
9612406 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9612429 TGCATATCATATCT
1 TACAAATCATATCT
9612443 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9613056 original size:132 final size:132
Alignment explanation
Indices: 9612898--9613287 Score: 584
Period size: 131 Copynumber: 3.0 Consensus size: 132
9612888 CACTGCAATT
* * *
9612898 TCAGGTAGATAAGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAATATAAGATTTGCCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCG
* * *
9612963 TCTTTGATCTGCTCCACTACTACTTAGGGAGACATGATATACAATCTTCAACCTACTCCGCTACT
66 TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
*
9613028 GC
131 AC
* * *
9613030 TCAGGGAGATAGGACTGGTGGTTTAAATCTGCTT-TCTACTATCTCGGGAAGATAAGATTTGCCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCG
* * * *
9613094 TCTTCGATTTGCTCCACTACTACTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCT
66 TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
9613159 AC
131 AC
* ** * *
9613161 TCAGAGAGATAGGACTGGTGGCTTAAATCTATTTCCCTACTACCTTGGGAAGATAAGATTCGCCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCG
* *
9613226 TCTTTGATCTGCTCCACTACTTCTTAGGGAGACAGGATCTACAATCTTCAACCTATTCCACT
66 TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
9613288 GCAAACTCAA
Statistics
Matches: 230, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 116 0.50
132 114 0.50
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTTGCCG
TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
AC
Found at i:9614529 original size:18 final size:17
Alignment explanation
Indices: 9614496--9614534 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9614486 TTTTATAAAT
9614496 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9614514 TGTGAATTAT-TATTGAA
1 TGTGAATTATAT-TTGAA
9614531 TGTG
1 TGTG
9614535 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9614786 original size:23 final size:23
Alignment explanation
Indices: 9614760--9614858 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
9614750 AGTGTTATTG
*
9614760 ATCAGTGGTAG-TTACGGCTACAT
1 ATCAGTGGTAGCTT-CAGCTACAT
9614783 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* * * **
9614806 TTTAGTGGTAGCTAT-GGCTATGT
1 ATCAGTGGTAGCT-TCAGCTACAT
*
9614829 ATCAATGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
9614852 ATCAGTG
1 ATCAGTG
9614859 TGGTACTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.02
23 56 0.93
24 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:9614832 original size:46 final size:46
Alignment explanation
Indices: 9614763--9614851 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
9614753 GTTATTGATC
* *
9614763 AGTGGTAGTTACGGCTACATATCAGTGGTAGCTTCAGCTACATTTT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCAGCTACATTTT
* **
9614809 AGTGGTAGCTATGGCTATGTATCAATGGTAGCTTCAGCTACAT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCAGCTACAT
9614852 ATCAGTGTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (46 bp):
AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCAGCTACATTTT
Found at i:9616997 original size:88 final size:89
Alignment explanation
Indices: 9616847--9617078 Score: 344
Period size: 88 Copynumber: 2.6 Consensus size: 89
9616837 GGGGAGTTAC
* * *
9616847 AGACAAGATCTGCTATCTTCATTCTACTTCGCTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCG
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTTCAAACTCAGGGAGGCAAGACTGGTGTCTTCG
*
9616912 ATCT-GTTTCGCTACCAATACAGGA
66 ATCTCCTTT-GCTACCAATACAGGA
* *
9616936 AGACAAGATCTGCTATCTTCAGTCTGC-CCGCTTCAAACTCAGGGAGGCAAGGCTGGTGTCTTCG
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTTCAAACTCAGGGAGGCAAGACTGGTGTCTTCG
* *
9617000 ATCTCCTTTGTTGCCAATACAGGA
66 ATCTCCTTTGCTACCAATACAGGA
*
9617024 AGACAAGATCTGCTATCTTCAGTCTACTCCG-TTGCAAAATCAGGGAGGCAAGACT
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTT-CAAACTCAGGGAGGCAAGACT
9617079 TGTAGCTTCC
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
88 79 0.61
89 50 0.39
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (89 bp):
AGACAAGATCTGCTATCTTCAGTCTACTCCGCTTCAAACTCAGGGAGGCAAGACTGGTGTCTTCG
ATCTCCTTTGCTACCAATACAGGA
Found at i:9617076 original size:45 final size:45
Alignment explanation
Indices: 9616850--9617076 Score: 137
Period size: 44 Copynumber: 5.1 Consensus size: 45
9616840 GAGTTACAGA
* * *
9616850 CAAGATCTGCTATCTTCATTCTACTTCGCTGCAAACTCAGGGAGG
1 CAAGATCTGCTATCTTCAGTCTACTTCGTTGCAAAATCAGGGAGG
* * ** * * * * *
9616895 CAAGA-CTGGTGTCTTC-GATCTGTTTCGCTAC-CAATACAGGAAGA
1 CAAGATCTGCTATCTTCAG-TCTACTTCGTTGCAAAAT-CAGGGAGG
* * *
9616939 CAAGATCTGCTATCTTCAGTCTGC-CCGCTT-CAAACTCAGGGAGG
1 CAAGATCTGCTATCTTCAGTCTACTTCG-TTGCAAAATCAGGGAGG
* * * * * * * *
9616983 CAAG-GCTGGTGTCTTC-GATCTCCTTTGTTGC-CAATACAGGAAGA
1 CAAGATCTGCTATCTTCAG-TCTACTTCGTTGCAAAAT-CAGGGAGG
*
9617027 CAAGATCTGCTATCTTCAGTCTACTCCGTTGCAAAATCAGGGAGG
1 CAAGATCTGCTATCTTCAGTCTACTTCGTTGCAAAATCAGGGAGG
9617072 CAAGA
1 CAAGA
9617077 CTTGTAGCTT
Statistics
Matches: 131, Mismatches: 38, Indels: 26
0.67 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 19 0.15
44 55 0.42
45 51 0.39
46 5 0.04
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (45 bp):
CAAGATCTGCTATCTTCAGTCTACTTCGTTGCAAAATCAGGGAGG
Found at i:9617227 original size:44 final size:44
Alignment explanation
Indices: 9617130--9617336 Score: 183
Period size: 44 Copynumber: 4.7 Consensus size: 44
9617120 GTCTGATGCG
* * ***
9617130 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATCCATCATT-TT-A
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGT--TTATTCA
* * * * *
9617174 AT-TCGCTCCACTACAAATTCAGGGAGATAGGATTGGTTTCTTCA
1 ATCT-GCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
9617218 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
* *
9617262 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-G-TAATTTC-
1 ATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGGTTTA-TTCA
** *
9617305 ATCCTATTTCACTGCAACTTCAAGGAGATAAG
1 AT-CTGCTCCACTGCAACTTCAAGGAGATAAG
9617337 GTTTGCTATG
Statistics
Matches: 136, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.01
43 6 0.04
44 125 0.92
45 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCA
Found at i:9617387 original size:85 final size:88
Alignment explanation
Indices: 9617226--9617388 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 88
9617216 CAATCTGCTC
*
9617226 CACTGCAACTTCAAGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAACTTCAAGGAGATA
1 CACTGCAACTTCAAGGAGATAAGATTGGTCTATTCAGTCTGCTCCACTGCAACTTCAAGGAGATA
* *
9617291 AGACTTGTAATTTCATCCTATTT
66 AAACTTATAATTTCATCCTATTT
* * * * *
9617314 CACTGCAACTTCAAGGAGATAAGGTTTG-CTA-TGA-TCTGCTCTATTGCAACTTC-AGAGAGAT
1 CACTGCAACTTCAAGGAGATAAGATTGGTCTATTCAGTCTGCTCCACTGCAACTTCAAG-GAGAT
9617375 AAAA-TCTATAATTT
65 AAAACT-TATAATTT
9617389 ATAGCTTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
84 3 0.05
85 32 0.49
86 2 0.03
87 2 0.03
88 26 0.40
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (88 bp):
CACTGCAACTTCAAGGAGATAAGATTGGTCTATTCAGTCTGCTCCACTGCAACTTCAAGGAGATA
AAACTTATAATTTCATCCTATTT
Found at i:9617504 original size:42 final size:43
Alignment explanation
Indices: 9617393--9617518 Score: 139
Period size: 45 Copynumber: 2.9 Consensus size: 43
9617383 TAATTTATAG
* *
9617393 CTTCAATCTGTTCTACTATAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGTTCTACTGTAACTTCAGGGAGATAAGATT--CTAT
* * *
9617438 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-TA-
1 CTTCAATCTGTTCTACTGTAACTTCAGGGAGATAAGA-TTCTAT
* * *
9617480 CTTCAATCCGTTCCACTGTAACTTCAGGGAGATAGGATT
1 CTTCAATCTGTTCTACTGTAACTTCAGGGAGATAAGATT
9617519 ATTGGCTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.45
43 2 0.03
45 32 0.46
46 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
CTTCAATCTGTTCTACTGTAACTTCAGGGAGATAAGATTCTAT
Found at i:9624775 original size:22 final size:23
Alignment explanation
Indices: 9624736--9624778 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9624726 TCTACAAATC
9624736 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
9624759 TCTAAGATTAC-ATATCATAT
1 TCTAAGATTACAAAATCATAT
9624779 TTAAATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:9625595 original size:46 final size:48
Alignment explanation
Indices: 9625507--9625602 Score: 160
Period size: 46 Copynumber: 2.0 Consensus size: 48
9625497 ATTATTAATT
9625507 TTTTGGATAAGTTTAAAACAAAAAAAAGTTCACTTCATATCTATATAA
1 TTTTGGATAAGTTTAAAACAAAAAAAAGTTCACTTCATATCTATATAA
* *
9625555 TTTTGGATAAGTTTAAAA-TAAAAAAA-TTCACTTCGTATCTATATAA
1 TTTTGGATAAGTTTAAAACAAAAAAAAGTTCACTTCATATCTATATAA
9625601 TT
1 TT
9625603 AAACACTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 21 0.46
47 7 0.15
48 18 0.39
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (48 bp):
TTTTGGATAAGTTTAAAACAAAAAAAAGTTCACTTCATATCTATATAA
Found at i:9633494 original size:30 final size:30
Alignment explanation
Indices: 9633432--9633496 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
9633422 AATAGTCTAT
**
9633432 ATTTTTATAATTTTCAAAGGATTAAATCAA
1 ATTTTTATAATTTTCAAAGGACCAAATCAA
* *
9633462 ATTTTTATAATTTT-AAAGGGCCAAAGTGAA
1 ATTTTTATAATTTTCAAAGGACCAAA-TCAA
9633492 ATTTT
1 ATTTT
9633497 ACCTTTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (30 bp):
ATTTTTATAATTTTCAAAGGACCAAATCAA
Found at i:9636615 original size:10 final size:9
Alignment explanation
Indices: 9636595--9636619 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9636585 TCCATCCTAG
9636595 AAAAAATAA
1 AAAAAATAA
9636604 AAAAAATAA
1 AAAAAATAA
9636613 AAAAAAT
1 AAAAAAT
9636620 TCACCTCAAA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:9641399 original size:50 final size:48
Alignment explanation
Indices: 9641344--9641476 Score: 140
Period size: 50 Copynumber: 2.7 Consensus size: 48
9641334 GAGATTATGT
* *
9641344 GAGGTCCCATGTAAGACCATGTCTGGGACATGATGTTGGCACCGAGATGA
1 GAGGTCCCATATAAGACCATGTCTGGGACATGATG--GGCACCAAGATGA
** *
9641394 GAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCAATATGA
1 GAGGTCCCATATAAGACCATGTCTGGGACAT-G-ATGGGCACCAAGATGA
** * * *
9641444 GAACTCCCATCTAAGACCATATCTGGGATATGA
1 GAGGTCCCATATAAGACCATGTCTGGGACATGA
9641477 CATTGGCAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 63 0.91
51 1 0.01
52 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (48 bp):
GAGGTCCCATATAAGACCATGTCTGGGACATGATGGGCACCAAGATGA
Found at i:9644517 original size:38 final size:38
Alignment explanation
Indices: 9644464--9644600 Score: 150
Period size: 38 Copynumber: 3.6 Consensus size: 38
9644454 TTGTAGTCAT
* *
9644464 GGTGTCACCCTAAAGGACCATTAGATAATCGTCATCAC
1 GGTGTCACCCCAAAGGACCAGTAGATAATCGTCATCAC
* *
9644502 GGTGTCACCCCAAAGGACCAGTAGATAATTGTTATCAC
1 GGTGTCACCCCAAAGGACCAGTAGATAATCGTCATCAC
* * * *
9644540 AGTGTCGCCCCAAAGGACAAGTAGATAA-CTGTCGTCAC
1 GGTGTCACCCCAAAGGACCAGTAGATAATC-GTCATCAC
* * **
9644578 AGTGTCGCCCTGAAGGACCAGTA
1 GGTGTCACCCCAAAGGACCAGTA
9644601 CATATCTGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
GGTGTCACCCCAAAGGACCAGTAGATAATCGTCATCAC
Found at i:9646561 original size:20 final size:21
Alignment explanation
Indices: 9646536--9646574 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9646526 AGGTCTGCCA
9646536 TTAATC-TAGAAAAT-AATGAG
1 TTAATCAT-GAAAATCAATGAG
9646556 TTAATCATGAAAATCAATG
1 TTAATCATGAAAATCAATG
9646575 GCGAGATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (21 bp):
TTAATCATGAAAATCAATGAG
Found at i:9650557 original size:19 final size:21
Alignment explanation
Indices: 9650512--9650557 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
9650502 TAACCTAAGC
*
9650512 ATAAATAGATCTAGTTATTACT
1 ATAAATAGATCTAG-TATTACG
*
9650534 TTAAATAGAT-TA-TATTACG
1 ATAAATAGATCTAGTATTACG
9650553 ATAAA
1 ATAAA
9650558 GAAAAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.48
21 2 0.10
22 9 0.43
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (21 bp):
ATAAATAGATCTAGTATTACG
Found at i:9652988 original size:22 final size:21
Alignment explanation
Indices: 9652935--9652988 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
9652925 CTTCATACCT
* * *
9652935 ATTTAAAATGTAATATATAGA
1 ATTTAAAATCTAATATAAAAA
*
9652956 ACTTAATAATCTAATAATAAAAA
1 ATTTAA-AATCTAAT-ATAAAAA
9652979 ATTTAAAATC
1 ATTTAAAATC
9652989 ACTTATCCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 5 0.19
22 11 0.42
23 10 0.38
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
ATTTAAAATCTAATATAAAAA
Found at i:9658050 original size:110 final size:111
Alignment explanation
Indices: 9657856--9658080 Score: 380
Period size: 110 Copynumber: 2.0 Consensus size: 111
9657846 ATTTTTATCT
* * * *
9657856 CTTCCAACCTTGAAGGGAGCAATATCTTTACAATGATAGGGTCTTTAATTGTCTCTTTCTCTAGT
1 CTTCCAACCTTGAAGGGAACAATATCTTTACAATGATAGGGTCTTTAATTATCTCTTTCTCCAAT
9657921 TCAACTACCGGTGCAACTACTTCCTCTAGTTTTGGTTCATCATCAG
66 TCAACTACCGGTGCAACTACTTCCTCTAGTTTTGGTTCATCATCAG
*
9657967 CTTCCAACCTTGAAGGGAACAATAT-TTTACAATGGTAGGGTCTTTAATTATCTCTTTCTCCAAT
1 CTTCCAACCTTGAAGGGAACAATATCTTTACAATGATAGGGTCTTTAATTATCTCTTTCTCCAAT
* *
9658031 TCAACTACCGGTGCAACTACTTTCTCTAGTTTTGGTTCATCATCAT
66 TCAACTACCGGTGCAACTACTTCCTCTAGTTTTGGTTCATCATCAG
9658077 CTTC
1 CTTC
9658081 TAAGGGTCCT
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 83 0.78
111 24 0.22
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (111 bp):
CTTCCAACCTTGAAGGGAACAATATCTTTACAATGATAGGGTCTTTAATTATCTCTTTCTCCAAT
TCAACTACCGGTGCAACTACTTCCTCTAGTTTTGGTTCATCATCAG
Found at i:9662243 original size:17 final size:17
Alignment explanation
Indices: 9662196--9662243 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
9662186 GCAACATAGT
*
9662196 ATAAAGGAAATAAAGTA
1 ATAAAAGAAATAAAGTA
* *
9662213 A-AATAAGCATTAAAGTA
1 ATAA-AAGAAATAAAGTA
9662230 ATAAAAGAAATAAA
1 ATAAAAGAAATAAA
9662244 ACAAAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (17 bp):
ATAAAAGAAATAAAGTA
Found at i:9672497 original size:28 final size:30
Alignment explanation
Indices: 9672397--9672515 Score: 179
Period size: 30 Copynumber: 4.0 Consensus size: 30
9672387 TAATAGTACA
*
9672397 GTGTGGGCCTTAGCCCATTACAGTAACAAT
1 GTGTGGGCCTTAGCCCAATACAGTAACAAT
* *
9672427 ATGTGGGCCTTAGCCCAATATAGTAACAAT
1 GTGTGGGCCTTAGCCCAATACAGTAACAAT
9672457 GTGTGGGCCTTAGCCCAATACAGTAAC-A-
1 GTGTGGGCCTTAGCCCAATACAGTAACAAT
*
9672485 GTGTGAGCCTTAGCCCAATACAGTAATCAAT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAAT
9672516 ACAATGCAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
28 25 0.31
29 2 0.03
30 53 0.66
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAAT
Found at i:9672647 original size:26 final size:26
Alignment explanation
Indices: 9672618--9672698 Score: 119
Period size: 26 Copynumber: 3.1 Consensus size: 26
9672608 AACACACCAA
9672618 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
9672644 TATCGCAGCAAAGCTGTCAGTAACTA-
1 TATCGCAGCAAAGCTGCCAGTAAC-AG
* *
9672670 TATCGCAGTAAAGCTGCTAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
9672696 TAT
1 TAT
9672699 ACTTCCTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.02
26 47 0.96
27 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:9672905 original size:27 final size:27
Alignment explanation
Indices: 9672868--9673577 Score: 576
Period size: 27 Copynumber: 26.4 Consensus size: 27
9672858 AACAATCATT
*
9672868 ATTTTACCCTATGGGGGTAATTT-GTTC
1 ATTTTACCCTATGGGGGT-ATTTCGATC
*
9672895 ATTTTACCCTATGGGGGTAATTT-GTTC
1 ATTTTACCCTATGGGGGT-ATTTCGATC
* * *
9672922 ATTTTACCCTACGAGGGTAATTC-AGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* * * * *
9672949 ATTTTACCCTA-CGAGATAATTC-AGTT
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* * *
9672975 ATTTTATCCTACGGGGGTAATTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* **
9673002 ATTTTACCCTACGGGGGTAACTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* * * *
9673029 ATTTTACCTTATAGAGGTAATTT-GGTC
1 ATTTTACCCTATGGGGGT-ATTTCGATC
* *
9673056 ATTTTACCCTA-CGGGGTAATTTAG-TC
1 ATTTTACCCTATGGGGGT-ATTTCGATC
* * * *
9673082 ATTTTACCCTACGAGGGTAATTCAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* ** * *
9673109 ATTTTATCCT-TCGACGGTATTT-AAGTT
1 ATTTTACCCTAT-GGGGGTATTTCGA-TC
*
9673136 ATTTAACCCTATGGGGGTATTTC-AGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* *
9673163 ATTTTACCCT-TCGAGGGTATTTTGATC
1 ATTTTACCCTAT-GGGGGTATTTCGATC
*
9673190 ATTTTACCCT-TCGGGGGTATTTTGATC
1 ATTTTACCCTAT-GGGGGTATTTCGATC
* * * *
9673217 ATTTTAACTTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
**
9673244 ATTTTACCCTATGGGGGTATTTTAATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
9673271 ATTCTATCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
9673298 ATTCTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
9673325 ATTCTACCTTAT-GGGGTATTTCCG-TC
1 ATTTTACCCTATGGGGGTATTT-CGATC
*
9673351 ATTTTACCCTATGAGGGTATTTC-AGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* * * *
9673378 ATTTCACCTTATGGGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
9673405 ATTCTACCCAATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* * *
9673432 ATTCTACCTTAT-GGGGTATTT-AAGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TC
* * *
9673458 ATTCTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
9673485 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
*
9673512 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
9673539 -TTTCTACCCTATAGGGGTATTTCGGTC
1 ATTT-TACCCTATGGGGGTATTTCGATC
*
9673566 ACTTTACCCTAT
1 ATTTTACCCTAT
9673578 CAGGATATTT
Statistics
Matches: 568, Mismatches: 90, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.00
26 98 0.17
27 461 0.81
28 8 0.01
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:9672991 original size:80 final size:81
Alignment explanation
Indices: 9672868--9673199 Score: 331
Period size: 80 Copynumber: 4.1 Consensus size: 81
9672858 AACAATCATT
* * * *
9672868 ATTTTACCCTATGGGGGTAATT-TGTTCATTTTACCCTATGGGGGTAATTT-GTTCATTTTACCC
1 ATTTTACCCTA-CGAGGTAATTAAGTT-ATTTTACCCTACGGGGGTAATTTAG-TCATTTTACCC
9672931 TACGAGGGTAATTCAG-TC
63 TACGAGGGTAATTCAGATC
* * * *
9672949 ATTTTACCCTACGAGATAATTCAGTTATTTTATCCTACGGGGGTAA-TTCGATCATTTTACCCTA
1 ATTTTACCCTACGAGGTAATTAAGTTATTTTACCCTACGGGGGTAATTTAG-TCATTTTACCCTA
* *
9673013 CGGGGGTAACTC-GATC
65 CGAGGGTAATTCAGATC
* * ** *
9673029 ATTTTACCTTATAGAGGTAATTTGGTCATTTTACCCTAC-GGGGTAATTTAGTCATTTTACCCTA
1 ATTTTACCCTA-CGAGGTAATTAAGTTATTTTACCCTACGGGGGTAATTTAGTCATTTTACCCTA
9673093 CGAGGGTAATTCA-ATC
65 CGAGGGTAATTCAGATC
* * * * *
9673109 ATTTTATCCTTCGACGGTATTTAAGTTATTTAACCCTATGGGGGT-ATTTCAGTCATTTTACCCT
1 ATTTTACCCTACGA-GGTAATTAAGTTATTTTACCCTACGGGGGTAATTT-AGTCATTTTACCCT
* **
9673173 TCGAGGGT-ATTTTGATC
64 ACGAGGGTAATTCAGATC
9673190 ATTTTACCCT
1 ATTTTACCCT
9673200 TCGGGGGTAT
Statistics
Matches: 208, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
79 5 0.02
80 127 0.61
81 76 0.37
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (81 bp):
ATTTTACCCTACGAGGTAATTAAGTTATTTTACCCTACGGGGGTAATTTAGTCATTTTACCCTAC
GAGGGTAATTCAGATC
Found at i:9673498 original size:107 final size:106
Alignment explanation
Indices: 9672872--9673598 Score: 580
Period size: 107 Copynumber: 6.8 Consensus size: 106
9672862 ATCATTATTT
* * * *
9672872 TACCCTATGGGGGTAATTT-GTTCATTTTACCCTATGGGGGTAATTT--GTTCATTTTACCCTAC
1 TACCCTATGGGGGT-ATTTCGATCATTCTACCTTAT-GGGGT-ATTTCAG-TCA-TTTACCCTAT
* * * * * * *
9672934 GAGGGTAATTCAGTCATTTTACCCTA-CGAGATAATTC-AGTTATTT
61 GAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGA-TCATTC
* * * * * * ** *
9672979 TATCCTACGGGGGTAATTCGATCATTTTACCCTACGGGGGTAACTC-GATCATTTTACCTTAT-A
1 TACCCTATGGGGGTATTTCGATCATTCTACCTTA-TGGGGTATTTCAG-TCA-TTTACCCTATGA
* * * *
9673042 GAGGTAATTT-GGTCATTTTACCCTA-CGGGGTAATTTAG-TCATTT
63 G-GGT-ATTTCAGTCATTTTACCCTATGGGGGT-ATTTCGATCATTC
* * * * * * * * * *
9673086 TACCCTACGAGGGTAATTCAATCATTTTATCCTT-CGACGGTATTTAAGTTATTTAACCCTATGG
1 TACCCTATGGGGGTATTTCGATCATTCTA-CCTTATG-GGGTATTTCAGTCATTT-ACCCTATGA
* * *
9673150 GGGTATTTCAGTCATTTTACCCT-TCGAGGGTATTTTGATCATTT
63 GGGTATTTCAGTCATTTTACCCTAT-GGGGGTATTTCGATCATTC
* * * * *
9673194 TACCCT-TCGGGGGTATTTTGATCATTTTAACTTATGAGGGTATTTCGGTCATTTTACCCTATGG
1 TACCCTAT-GGGGGTATTTCGATCATTCTACCTTATG-GGGTATTTCAGTCA-TTTACCCTATGA
* * * *
9673258 GGGTATTTTAATCATTCTATCCTATGGGGGTATTTCGATCATTC
63 GGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTC
* *
9673302 TACCCTATGGGGGTATTTCGGTCATTCTACCTTATGGGGTATTTCCGTCATTTTACCCTATGAGG
1 TACCCTATGGGGGTATTTCGATCATTCTACCTTATGGGGTATTTCAGTCA-TTTACCCTATGAGG
* * * *
9673367 GTATTTCAGTCATTTCACCTTATGGGGGTATTTCGGTTATTC
65 GTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTC
* *
9673409 TACCCAATGGGGGTATTTCGATCATTCTACCTTATGGGGTATTTAAGTCATTCTACCCTATGAGG
1 TACCCTATGGGGGTATTTCGATCATTCTACCTTATGGGGTATTTCAGTCATT-TACCCTATGAGG
* *
9673474 GTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
65 GTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTC
* * * * *
9673516 TACCCTATGGGGGTATTTCGGTCTTTCTACCCTATAGGGGTATTTCGGTCACTTTACCCTATCAG
1 TACCCTATGGGGGTATTTCGATCATTCTACCTTAT-GGGGTATTTCAGTCA-TTTACCCTATGAG
* **
9673581 GATATTTTGGTCATTTTA
64 GGTATTTCAGTCATTTTA
9673599 ACTATTTTGG
Statistics
Matches: 512, Mismatches: 84, Indels: 47
0.80 0.13 0.07
Matches are distributed among these distances:
106 17 0.03
107 319 0.62
108 169 0.33
109 7 0.01
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (106 bp):
TACCCTATGGGGGTATTTCGATCATTCTACCTTATGGGGTATTTCAGTCATTTACCCTATGAGGG
TATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTC
Found at i:9676076 original size:17 final size:17
Alignment explanation
Indices: 9676054--9676086 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9676044 TTAACTTGTT
*
9676054 TTTAAACTTTCTCTAAC
1 TTTAAACTCTCTCTAAC
9676071 TTTAAACTCTCTCTAA
1 TTTAAACTCTCTCTAA
9676087 AACCTTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTAAACTCTCTCTAAC
Found at i:9678442 original size:20 final size:20
Alignment explanation
Indices: 9678417--9678477 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
9678407 ATAATATTTG
9678417 GAAAAATAAAAATATTTTTA
1 GAAAAATAAAAATATTTTTA
* *
9678437 GAAAAAT-----TA-ATTTC
1 GAAAAATAAAAATATTTTTA
9678451 GAAAAATAAAAATATTTTTA
1 GAAAAATAAAAATATTTTTA
9678471 GAAAAAT
1 GAAAAAT
9678478 TAATTTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
14 10 0.32
15 2 0.06
19 2 0.06
20 17 0.55
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
GAAAAATAAAAATATTTTTA
Found at i:9678460 original size:34 final size:34
Alignment explanation
Indices: 9678412--9678483 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
9678402 GTTAAATAAT
*
9678412 ATTTGGAAAAATAAAAATATTTTTAGAAAAATTA
1 ATTTCGAAAAATAAAAATATTTTTAGAAAAATTA
9678446 ATTTCGAAAAATAAAAATATTTTTAGAAAAATTA
1 ATTTCGAAAAATAAAAATATTTTTAGAAAAATTA
9678480 ATTT
1 ATTT
9678484 TATGGTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (34 bp):
ATTTCGAAAAATAAAAATATTTTTAGAAAAATTA
Found at i:9678823 original size:2 final size:2
Alignment explanation
Indices: 9678816--9678867 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
9678806 ATTGAGAGTG
*
9678816 CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9678858 CT CT CT CT CT
1 CT CT CT CT CT
9678868 TTGCTTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:9683615 original size:22 final size:22
Alignment explanation
Indices: 9683590--9683640 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
9683580 AAAATTGAAA
*
9683590 TAACAATGACAATGTCTTATAT
1 TAACAACGACAATGTCTTATAT
*
9683612 TAACAACGTCAATGTCTTATAT
1 TAACAACGACAATGTCTTATAT
9683634 TAACAAC
1 TAACAAC
9683641 AAGGTAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (22 bp):
TAACAACGACAATGTCTTATAT
Found at i:9687331 original size:31 final size:29
Alignment explanation
Indices: 9687258--9687339 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
9687248 AATGTGTAAT
*
9687258 TGTATACAT-AAACTTTAATTTGGTGCAA
1 TGTATACTTGAAACTTTAATTTGGTGCAA
* *
9687286 T-TATACATGTGAAACTCTAATTGTGGTTCAAA
1 TGTATAC-T-TGAAACTTTAATT-TGGTGC-AA
9687318 TGTATACTTGAAACTTTAATTT
1 TGTATACTTGAAACTTTAATTT
9687340 TGATTTAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.11
28 1 0.02
29 1 0.02
30 11 0.25
31 17 0.39
32 4 0.09
33 5 0.11
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (29 bp):
TGTATACTTGAAACTTTAATTTGGTGCAA
Found at i:9687504 original size:30 final size:30
Alignment explanation
Indices: 9687470--9687561 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
9687460 ATTATTTACA
9687470 AAAATTAAATCAAATCAAAATTTCATATAT
1 AAAATTAAATCAAATCAAAATTTCATATAT
*
9687500 AAAATTATA-CAAAATCAAAATTT-ATATAT
1 AAAATTAAATC-AAATCAAAATTTCATATAT
* * * *
9687529 ACAATTATATATTAAACCATAA-TTCATATAT
1 AAAATTA-A-ATCAAATCAAAATTTCATATAT
9687560 AA
1 AA
9687562 TTTTAAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
29 13 0.26
30 22 0.44
31 15 0.30
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATTAAATCAAATCAAAATTTCATATAT
Found at i:9687512 original size:29 final size:30
Alignment explanation
Indices: 9687470--9687538 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
9687460 ATTATTTACA
*
9687470 AAAATTAAATC-AAATCAAAATTTCATATAT
1 AAAATTATATCAAAATCAAAATTT-ATATAT
9687500 AAAATTATA-CAAAATCAAAATTTATATAT
1 AAAATTATATCAAAATCAAAATTTATATAT
*
9687529 ACAATTATAT
1 AAAATTATAT
9687539 ATTAAACCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATTATATCAAAATCAAAATTTATATAT
Found at i:9687558 original size:31 final size:29
Alignment explanation
Indices: 9687485--9687561 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
9687475 TAAATCAAAT
*
9687485 CAAAATTTCATATATAAAATTATACAAAAT
1 CAAAA-TTCATATATAAAATTATACAAAAC
* * *
9687515 CAAAATTTATATATACAATTATATATTAAAC
1 CAAAATTCATATATAAAATTATACA--AAAC
*
9687546 CATAATTCATATATAA
1 CAAAATTCATATATAA
9687562 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 17 0.45
30 5 0.13
31 16 0.42
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (29 bp):
CAAAATTCATATATAAAATTATACAAAAC
Found at i:9688572 original size:8 final size:8
Alignment explanation
Indices: 9688561--9688603 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9688551 TTTAAGGTTT
9688561 ATATATAC
1 ATATATAC
9688569 ATATATAC
1 ATATATAC
* *
9688577 ATACATAT
1 ATATATAC
*
9688585 ATATATGC
1 ATATATAC
*
9688593 ATGTATAC
1 ATATATAC
9688601 ATA
1 ATA
9688604 CATATATAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (8 bp):
ATATATAC
Found at i:9688580 original size:12 final size:12
Alignment explanation
Indices: 9688560--9688611 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
9688550 TTTTAAGGTT
*
9688560 TATATATACATA
1 TATACATACATA
9688572 TATACATACATA
1 TATACATACATA
* * *
9688584 TATATATGCATG
1 TATACATACATA
9688596 TATACATACATA
1 TATACATACATA
9688608 TATA
1 TATA
9688612 AGCACAGACA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (12 bp):
TATACATACATA
Found at i:9688599 original size:24 final size:24
Alignment explanation
Indices: 9688560--9688611 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
9688550 TTTTAAGGTT
9688560 TATATATACATATATACATACATA
1 TATATATACATATATACATACATA
* *
9688584 TATATATGCATGTATACATACATA
1 TATATATACATATATACATACATA
9688608 TATA
1 TATA
9688612 AGCACAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
TATATATACATATATACATACATA
Found at i:9694924 original size:20 final size:20
Alignment explanation
Indices: 9694901--9694942 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9694891 TATGTTTCAG
*
9694901 TGGTGAGTTTAGTGTTTAAA
1 TGGTGAGTTTAGTGTCTAAA
*
9694921 TGGTGGGTTTAGTGTCTAAA
1 TGGTGAGTTTAGTGTCTAAA
9694941 TG
1 TG
9694943 TAGCATCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.43
Consensus pattern (20 bp):
TGGTGAGTTTAGTGTCTAAA
Found at i:9697571 original size:25 final size:27
Alignment explanation
Indices: 9697543--9697601 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
9697533 GTATATGAAT
*
9697543 TGAAATGAA-CTATTGGAA-TGAGAT-G
1 TGAAAT-AATCTAATGGAATTGAGATAG
9697568 TGAAA-AATCTAATGGAATTGAGATAG
1 TGAAATAATCTAATGGAATTGAGATAG
9697594 TGAAATAA
1 TGAAATAA
9697602 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (27 bp):
TGAAATAATCTAATGGAATTGAGATAG
Found at i:9700889 original size:24 final size:24
Alignment explanation
Indices: 9700862--9700908 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9700852 TTTGAAATGG
9700862 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
9700886 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
9700909 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:9701186 original size:40 final size:40
Alignment explanation
Indices: 9701067--9701204 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
9701057 CTTCGAGTCA
* * *
9701067 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATT-ATCCG
* * * * * * *
9701108 ATGGGGCACTGGGT-CCCAA-T-TTACTTAGGTTTAACCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
*
9701145 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
*
9701185 ATGAGGCACTGGGTGTCAAA
1 ATGAGACACTGGGTGTCAAA
9701205 CTGGTGTGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 15 0.20
38 12 0.16
39 2 0.03
40 34 0.45
41 12 0.16
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTATTACTTCGGATTATCCG
Found at i:9713921 original size:11 final size:11
Alignment explanation
Indices: 9713892--9713930 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9713882 AATTAAATGT
9713892 TATTTAATTAAA
1 TATTTAATT-AA
*
9713904 CATTTAATTAA
1 TATTTAATTAA
9713915 TATTTAATTAA
1 TATTTAATTAA
*
9713926 GATTT
1 TATTT
9713931 TTAGTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:9724280 original size:35 final size:35
Alignment explanation
Indices: 9724230--9724314 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
9724220 TTTCAAGGTA
* * * *
9724230 TCACCACGAAAGACCTGTATACCATTTACATGGTG
1 TCACCCCGAAGGACCTATATACCATTTACACGGTG
*
9724265 TCACCCTGAAGGACCTATATACCATTTACACGGTG
1 TCACCCCGAAGGACCTATATACCATTTACACGGTG
**
9724300 TTGCCCCGAAGGACC
1 TCACCCCGAAGGACC
9724315 AGTAGATAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (35 bp):
TCACCCCGAAGGACCTATATACCATTTACACGGTG
Found at i:9729215 original size:17 final size:16
Alignment explanation
Indices: 9729193--9729248 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
9729183 AAGTAACGAG
9729193 AAATAACAAAAAAATAA
1 AAATAA-AAAAAAATAA
* *
9729210 AAATAAAGAAAACTGAA
1 AAATAAAAAAAAAT-AA
9729227 AAATAAAACAAAATATAA
1 AAATAAAA-AAAA-ATAA
9729245 AAAT
1 AAAT
9729249 TCTTTAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.19
17 15 0.47
18 10 0.31
19 1 0.03
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (16 bp):
AAATAAAAAAAAATAA
Found at i:9738757 original size:131 final size:131
Alignment explanation
Indices: 9738523--9738786 Score: 528
Period size: 131 Copynumber: 2.0 Consensus size: 131
9738513 TAGACCTCTT
9738523 TCCCCAGGTAAAATTGTCATGCGGTAGACATTTGATAAATTTGATGATGGGCAAATTAACCAGTG
1 TCCCCAGGTAAAATTGTCATGCGGTAGACATTTGATAAATTTGATGATGGGCAAATTAACCAGTG
9738588 ACTTGATGGCCTGTTATTGATACAGGGCCTTCCCAACATGGGTGCAAGTGGTGCTGGGGCTGGCA
66 ACTTGATGGCCTGTTATTGATACAGGGCCTTCCCAACATGGGTGCAAGTGGTGCTGGGGCTGGCA
9738653 C
131 C
9738654 TCCCCAGGTAAAATTGTCATGCGGTAGACATTTGATAAATTTGATGATGGGCAAATTAACCAGTG
1 TCCCCAGGTAAAATTGTCATGCGGTAGACATTTGATAAATTTGATGATGGGCAAATTAACCAGTG
9738719 ACTTGATGGCCTGTTATTGATACAGGGCCTTCCCAACATGGGTGCAAGTGGTGCTGGGGCTGGCA
66 ACTTGATGGCCTGTTATTGATACAGGGCCTTCCCAACATGGGTGCAAGTGGTGCTGGGGCTGGCA
9738784 C
131 C
9738785 TC
1 TC
9738787 TTGATTTTTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (131 bp):
TCCCCAGGTAAAATTGTCATGCGGTAGACATTTGATAAATTTGATGATGGGCAAATTAACCAGTG
ACTTGATGGCCTGTTATTGATACAGGGCCTTCCCAACATGGGTGCAAGTGGTGCTGGGGCTGGCA
C
Found at i:9746655 original size:70 final size:69
Alignment explanation
Indices: 9746542--9746746 Score: 250
Period size: 70 Copynumber: 2.9 Consensus size: 69
9746532 GGCTCGTAGG
* * *
9746542 TTCAATACCGCAGCCTCCAAAACAGTTAGTGAAAGCTCAAGCTCCCAGCTATAATCTTAGAA-CT
1 TTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAGCTC-AGCTCCCAGCTATAATCTTA-AAGCT
* *
9746606 CGCGAG
64 CGCAAA
* ** *
9746612 TTCAGTATTGCAGCCTCCAAAATAGTTAGCGAGAGCTACAGCTCCCAACTATAATCTTAAAGCTC
1 TTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAGCT-CAGCTCCCAGCTATAATCTTAAAGCTC
9746677 GCAAA
65 GCAAA
* * * *
9746682 TTCAATACCGCAGCCTCCAAAATAATTAGCGAGAGCTCAGGCTCCCAGATGTAATCTTAAGGCTC
1 TTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAGCTCA-GCTCCCAGCTATAATCTTAAAGCTC
9746747 ATAGCCTCTA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
69 4 0.03
70 110 0.96
71 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (69 bp):
TTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAGCTCAGCTCCCAGCTATAATCTTAAAGCTCG
CAAA
Found at i:9746779 original size:56 final size:56
Alignment explanation
Indices: 9746693--9746801 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
9746683 TCAATACCGC
*
9746693 AGCCTCCAAAATAATTAGCGAGAGCTCAGGCTCCCAGATGTAATCTTAAGGCTCAT
1 AGCCTCCAAAATAATTAGCGAAAGCTCAGGCTCCCAGATGTAATCTTAAGGCTCAT
* * * *
9746749 AGCCTCTAAAATAGTTAGTGAAAGCTCAGGCTCCCAGCTGTAATCTTAAGGCT
1 AGCCTCCAAAATAATTAGCGAAAGCTCAGGCTCCCAGATGTAATCTTAAGGCT
9746802 TGTAGGTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (56 bp):
AGCCTCCAAAATAATTAGCGAAAGCTCAGGCTCCCAGATGTAATCTTAAGGCTCAT
Found at i:9746872 original size:126 final size:126
Alignment explanation
Indices: 9746623--9746872 Score: 263
Period size: 126 Copynumber: 2.0 Consensus size: 126
9746613 TCAGTATTGC
*
9746623 AGCCTCCAAAATAGTTAGCGAGAGCTACAGCTCCCAACTATAATCTTAAAGCTCGCAAATTCAAT
1 AGCCTCCAAAATAGTTAGCGAAAGCTACAGCTCCCAACTATAATCTTAAAGCTCGCAAATTCAAT
* * * * *
9746688 ACCGCAGCCTCCAAAATAATTAGCGAGAGCTCAGGCTCCCAGATGTAATCTTAAGGCTCAT
66 ACCGCAGCATCCAAAATAATTAGCAAGAGCTCAAGCTCCCAGATGCAAACTTAAGGCTCAT
* * * * * * * ** *
9746749 AGCCTCTAAAATAGTTAGTGAAAGCT-CAGGCTCCCAGCTGTAATCTTAAGGCTTGTAGGTTTAA
1 AGCCTCCAAAATAGTTAGCGAAAGCTACA-GCTCCCAACTATAATCTTAAAGCTCGCAAATTCAA
* * * * *
9746813 TACCGCAATCAT-CAAGATAGTTAGCAAGAGCTCAAGCTCTCA-ATTGCAAACTTATGGCTC
65 TACCGC-AGCATCCAAAATAATTAGCAAGAGCTCAAGCTCCCAGA-TGCAAACTTAAGGCTC
9746873 GCAAGTTCGG
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
125 3 0.03
126 94 0.94
127 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (126 bp):
AGCCTCCAAAATAGTTAGCGAAAGCTACAGCTCCCAACTATAATCTTAAAGCTCGCAAATTCAAT
ACCGCAGCATCCAAAATAATTAGCAAGAGCTCAAGCTCCCAGATGCAAACTTAAGGCTCAT
Found at i:9749858 original size:33 final size:33
Alignment explanation
Indices: 9749811--9749886 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
9749801 GGACAGTGAG
* * * * *
9749811 GGGAGCTTGCGATATCAGCTCATAGGAGTTGAA
1 GGGAGCTCGCGATATCAACCCACAAGAGTTGAA
*
9749844 GGGAGCTCGTGATATCAACCCACAAGAGTTGAA
1 GGGAGCTCGCGATATCAACCCACAAGAGTTGAA
*
9749877 GGGAGTTCGC
1 GGGAGCTCGC
9749887 AGTCCTAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (33 bp):
GGGAGCTCGCGATATCAACCCACAAGAGTTGAA
Found at i:9750039 original size:20 final size:20
Alignment explanation
Indices: 9750016--9750053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9750006 GAATAGTAGG
*
9750016 GTCAAGTCATGAACAGTGGA
1 GTCAAATCATGAACAGTGGA
9750036 GTCAAATCATGAACAGTG
1 GTCAAATCATGAACAGTG
9750054 ATAATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
GTCAAATCATGAACAGTGGA
Found at i:9752649 original size:86 final size:86
Alignment explanation
Indices: 9752504--9752675 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
9752494 TCTTGAGACC
9752504 GTTAGAATAAAATTTACCTTATTGTTCGTGCAAAATCTTAATGTCTTGAAACATTCCAAGTTAGT
1 GTTAGAATAAAATTTACCTTATTGTTCGTGCAAAATCTTAATGTCTTGAAACATTCCAAGTTAGT
9752569 CTCAAGACAAAGTGGCTCTAG
66 CTCAAGACAAAGTGGCTCTAG
9752590 GTTAGAATAAAATTTACCTTATTGTTCGTGCAAAATCTTAATGTCTTGAAACATTCCAAGTTAGT
1 GTTAGAATAAAATTTACCTTATTGTTCGTGCAAAATCTTAATGTCTTGAAACATTCCAAGTTAGT
9752655 CTCAAGACAAAGTGGCTCTAG
66 CTCAAGACAAAGTGGCTCTAG
9752676 TCTTGAGACA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (86 bp):
GTTAGAATAAAATTTACCTTATTGTTCGTGCAAAATCTTAATGTCTTGAAACATTCCAAGTTAGT
CTCAAGACAAAGTGGCTCTAG
Found at i:9759428 original size:16 final size:15
Alignment explanation
Indices: 9759388--9759428 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
9759378 TTTCAATTTT
9759388 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
9759402 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
9759416 ATTTTAAATAATA
1 ATTTTAAATAATA
9759429 TTCTTTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:9762988 original size:47 final size:47
Alignment explanation
Indices: 9762918--9763011 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
9762908 CCGCCATAGG
*
9762918 CCTATCTTAAACTATGCAAGGAATTAATTGAGTTGAATCTATGCTTA
1 CCTATCTTAAACTATGCAAGGAATTAATTGAGTCGAATCTATGCTTA
* * * *
9762965 CCTATCTTGAACTATGTAGGGAATTAATTGAGTCGAATCTGTGCTTA
1 CCTATCTTAAACTATGCAAGGAATTAATTGAGTCGAATCTATGCTTA
9763012 GAAACTGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (47 bp):
CCTATCTTAAACTATGCAAGGAATTAATTGAGTCGAATCTATGCTTA
Found at i:9770695 original size:268 final size:268
Alignment explanation
Indices: 9770218--9770763 Score: 1083
Period size: 268 Copynumber: 2.0 Consensus size: 268
9770208 ATATTAATTG
9770218 CCAAACATGAAGAGCATGCATTATTCACCAATAAATGGAATTAAACCTAATCTAACGATTGAACT
1 CCAAACATGAAGAGCATGCATTATTCACCAATAAATGGAATTAAACCTAATCTAACGATTGAACT
9770283 AGTTATTTCAGATTAATATTTCTCAAAAACTTATCAAAACATCCGTAGCACATACCTTCAACAAC
66 AGTTATTTCAGATTAATATTTCTCAAAAACTTATCAAAACATCCGTAGCACATACCTTCAACAAC
9770348 AATATAATTAGGGTTGCAAAGATAGGTTTAGCTCTGACAAGAACCACTGTACAAGCTCTAACCAC
131 AATATAATTAGGGTTGCAAAGATAGGTTTAGCTCTGACAAGAACCACTGTACAAGCTCTAACCAC
*
9770413 TTACCATCACAATGTAGCACAGAGTAATTTGGGGCAAACAAGAAATATTGGGCCCATTCGTATTT
196 TTACCATCACAATGTAACACAGAGTAATTTGGGGCAAACAAGAAATATTGGGCCCATTCGTATTT
9770478 GGACAACT
261 GGACAACT
9770486 CCAAACATGAAGAGCATGCATTATTCACCAATAAATGGAATTAAACCTAATCTAACGATTGAACT
1 CCAAACATGAAGAGCATGCATTATTCACCAATAAATGGAATTAAACCTAATCTAACGATTGAACT
9770551 AGTTATTTCAGATTAATATTTCTCAAAAACTTATCAAAACATCCGTAGCACATACCTTCAACAAC
66 AGTTATTTCAGATTAATATTTCTCAAAAACTTATCAAAACATCCGTAGCACATACCTTCAACAAC
9770616 AATATAATTAGGGTTGCAAAGATAGGTTTAGCTCTGACAAGAACCACTGTACAAGCTCTAACCAC
131 AATATAATTAGGGTTGCAAAGATAGGTTTAGCTCTGACAAGAACCACTGTACAAGCTCTAACCAC
9770681 TTACCATCACAATGTAACACAGAGTAATTTGGGGCAAACAAGAAATATTGGGCCCATTCGTATTT
196 TTACCATCACAATGTAACACAGAGTAATTTGGGGCAAACAAGAAATATTGGGCCCATTCGTATTT
9770746 GGACAACT
261 GGACAACT
9770754 CCAAACATGA
1 CCAAACATGA
9770764 TCATAAATAA
Statistics
Matches: 277, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 277 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (268 bp):
CCAAACATGAAGAGCATGCATTATTCACCAATAAATGGAATTAAACCTAATCTAACGATTGAACT
AGTTATTTCAGATTAATATTTCTCAAAAACTTATCAAAACATCCGTAGCACATACCTTCAACAAC
AATATAATTAGGGTTGCAAAGATAGGTTTAGCTCTGACAAGAACCACTGTACAAGCTCTAACCAC
TTACCATCACAATGTAACACAGAGTAATTTGGGGCAAACAAGAAATATTGGGCCCATTCGTATTT
GGACAACT
Found at i:9781441 original size:169 final size:169
Alignment explanation
Indices: 9781162--9781502 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 169
9781152 TGCAAGTGTG
*
9781162 ACTATTCCATGAATTGTGTCCAATCCATAGATAAATGACTTAAGGATTATTGCATGAAAGGTTAA
1 ACTATTCCATGAATTGTGTCCAATCCATAGATAAAGGACTTAAGGATTATTGCATGAAAGGTTAA
9781227 TCATAAAAAGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGT
66 TCATAAAAAGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGT
9781292 GCCACTCATTGTTTGTAACATTGGAATCGTTCTAGTATT
131 GCCACTCATTGTTTGTAACATTGGAATCGTTCTAGTATT
9781331 ACTATTCCATGAATTGTGTCCAATCCATAGATAAAGGACTTAAGGATTATTGCATGAAAGGTTAA
1 ACTATTCCATGAATTGTGTCCAATCCATAGATAAAGGACTTAAGGATTATTGCATGAAAGGTTAA
9781396 TCATAAAAAGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGT
66 TCATAAAAAGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGT
9781461 GCCACTCATTGTTTGTAACATTGGAATCGTTCTAGTATT
131 GCCACTCATTGTTTGTAACATTGGAATCGTTCTAGTATT
9781500 ACT
1 ACT
9781503 GCTAACGTTA
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (169 bp):
ACTATTCCATGAATTGTGTCCAATCCATAGATAAAGGACTTAAGGATTATTGCATGAAAGGTTAA
TCATAAAAAGGTTATGTCGAATCATGATTTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGGT
GCCACTCATTGTTTGTAACATTGGAATCGTTCTAGTATT
Found at i:9782328 original size:26 final size:27
Alignment explanation
Indices: 9782286--9782345 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
9782276 CCATTTAACT
* *
9782286 GATAGTCCTTACGGACTTT-CACAAAA
1 GATAGTCCTCACAGACTTTCCACAAAA
9782312 GATAGTCCTCACAGACTTTCCACAAAA
1 GATAGTCCTCACAGACTTTCCACAAAA
9782339 GATAGTC
1 GATAGTC
9782346 ATGATAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (27 bp):
GATAGTCCTCACAGACTTTCCACAAAA
Found at i:9782354 original size:27 final size:27
Alignment explanation
Indices: 9782299--9782361 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
9782289 AGTCCTTACG
*
9782299 GACTTT-CACAAAAGATAGTCCTCACA
1 GACTTTCCACAAAAGATAGTCATCACA
* *
9782325 GACTTTCCACAAAAGATAGTCATGATA
1 GACTTTCCACAAAAGATAGTCATCACA
9782352 GAC-TTCCACA
1 GACTTTCCACA
9782362 TTAGATTGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (27 bp):
GACTTTCCACAAAAGATAGTCATCACA
Found at i:9782367 original size:26 final size:26
Alignment explanation
Indices: 9782299--9782385 Score: 93
Period size: 26 Copynumber: 3.3 Consensus size: 26
9782289 AGTCCTTACG
* * *
9782299 GACTTTCACAAAAGATAGTCCTCACA
1 GACTTCCACAAAAGATAGTCATGACA
*
9782325 GACTTTCCACAAAAGATAGTCATGATA
1 GAC-TTCCACAAAAGATAGTCATGACA
** * *
9782352 GACTTCCACATTAGATTGTCTTGACA
1 GACTTCCACAAAAGATAGTCATGACA
9782378 GACTTCCA
1 GACTTCCA
9782386 TATTTGCGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 29 0.57
27 22 0.43
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (26 bp):
GACTTCCACAAAAGATAGTCATGACA
Found at i:9788243 original size:24 final size:24
Alignment explanation
Indices: 9788195--9788241 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9788185 ATTGGTCATA
*
9788195 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
9788219 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
9788242 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:9789352 original size:27 final size:27
Alignment explanation
Indices: 9789316--9789563 Score: 245
Period size: 27 Copynumber: 9.2 Consensus size: 27
9789306 CTAATAGATG
9789316 AAAATGACTGAAATACCCCCATAAGGT
1 AAAATGACTGAAATACCCCCATAAGGT
*
9789343 AAAATGACTGAAATACTCCCAT-AGAGT
1 AAAATGACTGAAATACCCCCATAAG-GT
* *
9789370 AAAATGACTGAAATACTCTCATAAGGT
1 AAAATGACTGAAATACCCCCATAAGGT
* * *
9789397 AAAATAACTGAAATAGCCTCAT-AGAGT
1 AAAATGACTGAAATACCCCCATAAG-GT
** * *
9789424 AAAATGACCAAAATAACCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAAGGT
* **
9789451 AAAATGA-TCAAAATACCCCCATTGGGT
1 AAAATGACT-GAAATACCCCCATAAGGT
* *
9789478 AAAAT-AATCGAAATACCCTCATAAGGT
1 AAAATGACT-GAAATACCCCCATAAGGT
* * * *
9789505 AAAATAACCGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCCCATAAGGT
9789532 AAAATGACTGAAATACCCCCAT-AGGAT
1 AAAATGACTGAAATACCCCCATAAGG-T
9789559 AAAAT
1 AAAAT
9789564 ACTATTATAC
Statistics
Matches: 186, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 7 0.04
27 175 0.94
28 4 0.02
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAAGGT
Found at i:9789384 original size:54 final size:53
Alignment explanation
Indices: 9789316--9789593 Score: 271
Period size: 54 Copynumber: 5.2 Consensus size: 53
9789306 CTAATAGATG
*
9789316 AAAATGACTGAAATACCCCCATAAGGTAAAATGACTGAAATACTCCCATAGAGT
1 AAAATGACTGAAATACCCCCATAAGGTAAAATAACTGAAATAC-CCCATAGAGT
* * *
9789370 AAAATGACTGAAATACTCTCATAAGGTAAAATAACTGAAATAGCCTCATAGAGT
1 AAAATGACTGAAATACCCCCATAAGGTAAAATAACTGAAATA-CCCCATAGAGT
** * * * * * *
9789424 AAAATGACCAAAATAACCCCATAGGGTAAAATGA-TCAAAATACCCCCATTGGGT
1 AAAATGACTGAAATACCCCCATAAGGTAAAATAACT-GAAATA-CCCCATAGAGT
* * * *
9789478 AAAAT-AATCGAAATACCCTCATAAGGTAAAATAACCGAAATACCCCTATAGGGT
1 AAAATGACT-GAAATACCCCCATAAGGTAAAATAACTGAAATACCCC-ATAGAGT
*
9789532 AAAATGACTGAAATACCCCCAT-AGGATAAAAT-ACT-ATTATACCCC-TAGGAGAT
1 AAAATGACTGAAATACCCCCATAAGG-TAAAATAACTGA-AATACCCCATA-GAG-T
9789585 AAAATGACT
1 AAAATGACT
9789594 ATTATGGCCT
Statistics
Matches: 183, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
51 2 0.01
52 3 0.02
53 28 0.15
54 147 0.80
55 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.21
Consensus pattern (53 bp):
AAAATGACTGAAATACCCCCATAAGGTAAAATAACTGAAATACCCCATAGAGT
Found at i:9789438 original size:81 final size:79
Alignment explanation
Indices: 9789257--9789564 Score: 302
Period size: 81 Copynumber: 3.8 Consensus size: 79
9789247 ACCCCAAAAT
* * ** *
9789257 AGGTAAAATGACCAAAATACCCC-TGAAGTGTAAAATGACT-AATTTACCTCTAATAGATGAAAA
1 AGGTAAAATGACCAAAATACCCCAT--AGGGTAAAATGACTGAA-ATACC-CCCATAGGT-AAAA
* *
9789320 TGACTGAAATACCCCCATA
61 TAACTGAAATACCCTCATA
** * * *
9789339 AGGTAAAATGACTGAAATACTCCCATAGAGTAAAATGACTGAAATACTCTCATAAGGTAAAATAA
1 AGGTAAAATGACCAAAATAC-CCCATAGGGTAAAATGACTGAAATACCCCCAT-AGGTAAAATAA
*
9789404 CTGAAATAGCCTCAT-
64 CTGAAATACCCTCATA
* *
9789419 AGAGTAAAATGACCAAAATAACCCCATAGGGTAAAATGA-TCAAAATACCCCCATTGGGTAAAAT
1 AG-GTAAAATGACCAAAAT-ACCCCATAGGGTAAAATGACT-GAAATACCCCCA-TAGGTAAAAT
9789483 AA-TCGAAATACCCTCATA
62 AACT-GAAATACCCTCATA
* *
9789501 AGGTAAAATAACCGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAGGATAAAATA
1 AGGTAAAATGACCAAAATACCCC-ATAGGGTAAAATGACTGAAATACCCCCATAGG-TAAAATA
9789565 CTATTATACC
Statistics
Matches: 191, Mismatches: 22, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
80 12 0.06
81 130 0.68
82 43 0.23
83 5 0.03
84 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.21
Consensus pattern (79 bp):
AGGTAAAATGACCAAAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGTAAAATAACT
GAAATACCCTCATA
Found at i:9790131 original size:28 final size:28
Alignment explanation
Indices: 9789941--9790130 Score: 267
Period size: 28 Copynumber: 6.8 Consensus size: 28
9789931 ACTGTTACTA
*
9789941 TATTGGGCTAAGACCCACACTGATTCTG
1 TATTGGGCTAAGGCCCACACTGATTCTG
* *
9789969 TATTGGGTTAAGGCCGACACTG-TTACTG
1 TATTGGGCTAAGGCCCACACTGATT-CTG
9789997 TATTGGGCTAAGGCCCACACTGATTCTG
1 TATTGGGCTAAGGCCCACACTGATTCTG
* *
9790025 TATTGGGCTAAGGCTCACACTGATTCTA
1 TATTGGGCTAAGGCCCACACTGATTCTG
*
9790053 TATTGGGCTAAGGCCCACACTGATTTTG
1 TATTGGGCTAAGGCCCACACTGATTCTG
*
9790081 AATTGGGCTAAGGCCCACACTG-TTACTG
1 TATTGGGCTAAGGCCCACACTGATT-CTG
* *
9790109 TATTGGGCTAAAGCCCATACTG
1 TATTGGGCTAAGGCCCACACTG
9790131 TACTGCCACT
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
27 4 0.03
28 138 0.96
29 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACACTGATTCTG
Found at i:9793315 original size:22 final size:20
Alignment explanation
Indices: 9793258--9793316 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
9793248 TCTTTGTTCC
*
9793258 TAATCCTAAAACAAAATTAAA
1 TAATCCTAAAA-GAAATTAAA
* *
9793279 TCATCCTTAAAGAAATTAATA
1 TAATCCTAAAAGAAATTAA-A
9793300 TAATCCATAAAAGAAAT
1 TAATCC-TAAAAGAAAT
9793317 ATTTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (20 bp):
TAATCCTAAAAGAAATTAAA
Found at i:9794099 original size:20 final size:20
Alignment explanation
Indices: 9794072--9794131 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
9794062 TTTTTGATGT
*
9794072 GTTAAAATAATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
* * *
9794092 GTTGAAATCATTTTGATTTG
1 GTTAAAATCATTTTAACTTG
9794112 GTTAAAATCATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
9794132 ATTTTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:9796498 original size:141 final size:142
Alignment explanation
Indices: 9796244--9796526 Score: 532
Period size: 141 Copynumber: 2.0 Consensus size: 142
9796234 CCAAATTCTT
9796244 TAAACATATATGATGATGGACATGAATTTACTTCAAAGCACTTAAAAATTGAATATATATCCATA
1 TAAACATATATGATGATGGACATGAATTTACTTCAAAGCACTTAAAAATTGAATATATATCCATA
*
9796309 CCGAAAAAATAACAATTTCAACAAATGTCCATCAAACCAATTTAACATAAAATCATAATTGAATC
66 CCGAAAAAATAACAACTTCAACAAATGTCCATCAAACCAATTTAACATAAAATCATAATTGAATC
9796374 CATAAA-AAAAA
131 CATAAATAAAAA
*
9796385 TAAACATATATGATGATTGACATGAATTTACTTCAAAGCACTTAAAAATTGAATATATATCCATA
1 TAAACATATATGATGATGGACATGAATTTACTTCAAAGCACTTAAAAATTGAATATATATCCATA
*
9796450 CCGAAAAAATAACAACTTCAACAAATGTCCATCAAACCAATTTAACATAAAATCATAATTGAATT
66 CCGAAAAAATAACAACTTCAACAAATGTCCATCAAACCAATTTAACATAAAATCATAATTGAATC
9796515 CATAAATAAAAA
131 CATAAATAAAAA
9796527 GTATCAACAA
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
141 133 0.96
142 5 0.04
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.28
Consensus pattern (142 bp):
TAAACATATATGATGATGGACATGAATTTACTTCAAAGCACTTAAAAATTGAATATATATCCATA
CCGAAAAAATAACAACTTCAACAAATGTCCATCAAACCAATTTAACATAAAATCATAATTGAATC
CATAAATAAAAA
Found at i:9797682 original size:9 final size:9
Alignment explanation
Indices: 9797668--9797713 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
9797658 AATTAACCAA
*
9797668 TTAACCAAT
1 TTAACCGAT
9797677 TTAACCGAT
1 TTAACCGAT
9797686 TTAACCGA-
1 TTAACCGAT
9797694 TTAACCGAT
1 TTAACCGAT
9797703 TTAACCGAT
1 TTAACCGAT
9797712 TT
1 TT
9797714 GAATCACTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 8 0.23
9 27 0.77
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (9 bp):
TTAACCGAT
Found at i:9797689 original size:26 final size:26
Alignment explanation
Indices: 9797660--9797713 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
9797650 TGGTTAAAAA
9797660 TTAACCAATTAACCAATTTAACCGAT
1 TTAACCAATTAACCAATTTAACCGAT
* *
9797686 TTAACCGATTAACCGATTTAACCGAT
1 TTAACCAATTAACCAATTTAACCGAT
9797712 TT
1 TT
9797714 GAATCACTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
TTAACCAATTAACCAATTTAACCGAT
Found at i:9797709 original size:17 final size:17
Alignment explanation
Indices: 9797659--9797712 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
9797649 TTGGTTAAAA
* *
9797659 ATTAACC-AATTAACCA
1 ATTAACCGATTTAACCG
9797675 ATTTAACCGATTTAACCG
1 A-TTAACCGATTTAACCG
9797693 ATTAACCGATTTAACCG
1 ATTAACCGATTTAACCG
9797710 ATT
1 ATT
9797713 TGAATCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 1 0.03
17 25 0.74
18 8 0.24
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (17 bp):
ATTAACCGATTTAACCG
Found at i:9797752 original size:37 final size:37
Alignment explanation
Indices: 9797711--9797855 Score: 219
Period size: 37 Copynumber: 4.1 Consensus size: 37
9797701 ATTTAACCGA
9797711 TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
*
9797748 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
9797785 TTTGAATCACTACATAATT---AAAA--ACATAAGTC
1 TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
* * *
9797817 TTTAAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
9797854 TT
1 TT
9797856 AAAATTAACA
Statistics
Matches: 98, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
32 26 0.27
34 3 0.03
35 3 0.03
37 66 0.67
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
TTTGAATCACTACATAATTAAAAAAATTACATAAGTC
Found at i:9797763 original size:20 final size:20
Alignment explanation
Indices: 9797738--9797801 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
9797728 TTAAAAAAAT
9797738 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
9797758 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
9797775 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
9797795 TACATAA
1 TACATAA
9797802 TTAAAAACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.39
20 20 0.61
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:9797780 original size:17 final size:17
Alignment explanation
Indices: 9797721--9797781 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
9797711 TTTGAATCAC
*
9797721 TACATAATTAAAAAAAT
1 TACATAATTAAAAACAT
** * *
9797738 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
9797758 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
9797775 TACATAA
1 TACATAA
9797782 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 20 0.62
20 12 0.38
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:9797834 original size:69 final size:71
Alignment explanation
Indices: 9797711--9797855 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 71
9797701 ATTTAACCGA
*
9797711 TTTGAATCACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATT
1 TTTGAATCACTACATAATT--AAAAA-TACATAAGTCTTTAAATCACTACATAATTAAAAACATT
9797776 ACATAAGTC
63 ACATAAGTC
*
9797785 TTTGAATCACTACATAATT-AAAA-ACATAAGTCTTTAAATCACTATATAATTAAAAACATTACA
1 TTTGAATCACTACATAATTAAAAATACATAAGTCTTTAAATCACTACATAATTAAAAACATTACA
9797848 TAAGTC
66 TAAGTC
9797854 TT
1 TT
9797856 AAAATTAACA
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
69 46 0.67
71 4 0.06
74 19 0.28
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (71 bp):
TTTGAATCACTACATAATTAAAAATACATAAGTCTTTAAATCACTACATAATTAAAAACATTACA
TAAGTC
Found at i:9797869 original size:69 final size:68
Alignment explanation
Indices: 9797739--9797889 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 68
9797729 TAAAAAAATT
* ** *
9797739 ACATAAGTCTTTGAATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTACATAATT
1 ACATAAGTCTTTAAATCACTACATAATTAAAAACATTACATAAGTCTTAAAATAACTACATAATT
9797804 AAAA
66 -AAA
*
9797808 ACATAAGTCTTTAAATCACTATATAATTAAAAACATTACATAAGTCTTAAAATTAAC-ACATAAT
1 ACATAAGTCTTTAAATCACTACATAATTAAAAACATTACATAAGTCTTAAAA-TAACTACATAAT
*
9797872 TGAA
65 TAAA
**
9797876 ATGTAAGTCTTTAA
1 ACATAAGTCTTTAA
9797890 TATTCTCCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
68 14 0.19
69 56 0.77
70 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (68 bp):
ACATAAGTCTTTAAATCACTACATAATTAAAAACATTACATAAGTCTTAAAATAACTACATAATT
AAA
Found at i:9801812 original size:13 final size:13
Alignment explanation
Indices: 9801794--9801822 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9801784 TGTTAGAGAC
9801794 TTAGACTTTAGTT
1 TTAGACTTTAGTT
9801807 TTAGACTTTAGTT
1 TTAGACTTTAGTT
9801820 TTA
1 TTA
9801823 TTGGGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGACTTTAGTT
Found at i:9801846 original size:19 final size:19
Alignment explanation
Indices: 9801822--9801894 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
9801812 CTTTAGTTTT
9801822 ATTGGGTTGGTAAATGGTA
1 ATTGGGTTGGTAAATGGTA
* * *
9801841 ATTGGGTTTGGGTAGACTTTAGTTT
1 ATTGGG-TT-GGTA-A--AT-GGTA
9801866 ATTGGGTTGGTAAATGGTA
1 ATTGGGTTGGTAAATGGTA
9801885 ATTGGGTTGG
1 ATTGGGTTGG
9801895 GTAATTGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 18 0.43
20 3 0.07
21 4 0.10
22 2 0.05
23 4 0.10
24 3 0.07
25 8 0.19
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.41
Consensus pattern (19 bp):
ATTGGGTTGGTAAATGGTA
Found at i:9801875 original size:44 final size:44
Alignment explanation
Indices: 9801808--9801897 Score: 164
Period size: 44 Copynumber: 2.0 Consensus size: 44
9801798 ACTTTAGTTT
9801808 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGG-TTGGG
9801853 TAGACTTTAG-TTTATTGGGTTGGTAAATGGTAATTGGGTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTGGG
9801896 TA
1 TA
9801898 ATTGGGTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 7 0.16
44 28 0.62
45 10 0.22
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.43
Consensus pattern (44 bp):
TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTGGG
Found at i:9801899 original size:13 final size:13
Alignment explanation
Indices: 9801881--9801905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9801871 GTTGGTAAAT
9801881 GGTAATTGGGTTG
1 GGTAATTGGGTTG
9801894 GGTAATTGGGTT
1 GGTAATTGGGTT
9801906 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:9803516 original size:25 final size:25
Alignment explanation
Indices: 9803482--9803552 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
9803472 TATGCACATT
*
9803482 TATGCTCACACGAGCTGTGTATCAG
1 TATGCTCACACGAGCTGTGAATCAG
* * *
9803507 TATGCTCACACGAGCTATAAATCGG
1 TATGCTCACACGAGCTGTGAATCAG
*
9803532 TATGCTCACATGAGCTGTGAA
1 TATGCTCACACGAGCTGTGAA
9803553 AATAGGCCTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATCAG
Found at i:9811179 original size:27 final size:25
Alignment explanation
Indices: 9811121--9811184 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
9811111 TCCTTTATAT
* * *
9811121 GTATGCTCACACGAGCTGTGTATCG
1 GTATGCTCACACAAGCTGTGAATAG
9811146 GTATGCTCACACAAGCTGTGAAAATAG
1 GTATGCTCACACAAGCTGTG--AATAG
*
9811173 GTCTGCTCACAC
1 GTATGCTCACAC
9811185 GAGTTATGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 19 0.58
27 14 0.42
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTGAATAG
Found at i:9821151 original size:75 final size:75
Alignment explanation
Indices: 9821066--9821216 Score: 266
Period size: 75 Copynumber: 2.0 Consensus size: 75
9821056 ATCTACTTGA
*
9821066 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTGGAATTTGATGTTGGATATCACC
1 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
*
9821131 AGGATGATAT
66 AGAATGATAT
*
9821141 ACAAAAAACTTATAGCTCTTAGACTGATGGTTGAAGAATACTAGAATTTGATGTTGGATATCACC
1 ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
*
9821206 ATAATGATAT
66 AGAATGATAT
9821216 A
1 A
9821217 AATGAAGAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (75 bp):
ACAAAAAACTTATAGCTCTTAGACTGATGGGTGAAGAATACTAGAATTTGATGTTGGATATCACC
AGAATGATAT
Found at i:9823276 original size:18 final size:18
Alignment explanation
Indices: 9823253--9823288 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9823243 CCACCCCAAT
9823253 CTGATTTTATCACTAAAA
1 CTGATTTTATCACTAAAA
9823271 CTGATTTTATCACTAAAA
1 CTGATTTTATCACTAAAA
9823289 GAATTAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
CTGATTTTATCACTAAAA
Found at i:9824092 original size:31 final size:31
Alignment explanation
Indices: 9824050--9824111 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9824040 TTAAATAGGA
* *
9824050 TAGTGTGATAGTGGAAAGAAGATTTCTTATT
1 TAGTGTAATAGTAGAAAGAAGATTTCTTATT
*
9824081 TAGTGTAATAGTAGAGAGAAGATTTCTTATT
1 TAGTGTAATAGTAGAAAGAAGATTTCTTATT
9824112 CAGCTTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (31 bp):
TAGTGTAATAGTAGAAAGAAGATTTCTTATT
Found at i:9826132 original size:44 final size:44
Alignment explanation
Indices: 9826069--9826171 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
9826059 AGTATTTCTA
* *
9826069 ATCAGTGACAAGAGATAAGTGGTAGCTTTAGCTGCACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
9826113 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
9826157 ATCAGTGACAAGTGA
1 ATCAGTGACAAGTGA
9826172 CAAGCGATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
Found at i:9826215 original size:57 final size:58
Alignment explanation
Indices: 9826122--9826248 Score: 211
Period size: 57 Copynumber: 2.2 Consensus size: 58
9826112 GATCAGTGAC
9826122 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
* * *
9826180 AAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGATAAGTGATAAGTGAT
1 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
*
9826237 AGGTGATAAGTG
1 AAGTGATAAGTG
9826249 ATAAGTGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 48 0.74
58 17 0.26
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (58 bp):
AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGCGAT
Found at i:9826227 original size:7 final size:7
Alignment explanation
Indices: 9826212--9826278 Score: 107
Period size: 7 Copynumber: 9.6 Consensus size: 7
9826202 TACACTTATC
*
9826212 TGATCAG
1 TGATAAG
9826219 TGATAAG
1 TGATAAG
9826226 TGATAAG
1 TGATAAG
*
9826233 TGATAGG
1 TGATAAG
9826240 TGATAAG
1 TGATAAG
9826247 TGATAAG
1 TGATAAG
9826254 TGATAAG
1 TGATAAG
*
9826261 TGATAAA
1 TGATAAG
9826268 TGATAAG
1 TGATAAG
9826275 TGAT
1 TGAT
9826279 TCCATGTAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 55 1.00
ACGTcount: A:0.40, C:0.01, G:0.28, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:9828907 original size:5 final size:5
Alignment explanation
Indices: 9828897--9828937 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
9828887 CTTTTGTCAT
9828897 TATTA TATTA TATTA TATTA TTATTA TATCTA TATATA TAT
1 TATTA TATTA TATTA TATTA -TATTA TAT-TA TAT-TA TAT
9828938 ACGCATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 18 0.55
6 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:9828921 original size:21 final size:23
Alignment explanation
Indices: 9828895--9828937 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
9828885 CCCTTTTGTC
9828895 ATTATTATAT-TATAT-TATATT
1 ATTATTATATCTATATATATATT
9828916 ATTATTATATCTATATATATAT
1 ATTATTATATCTATATATATAT
9828938 ACGCATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTATTATATCTATATATATATT
Found at i:9835141 original size:1 final size:1
Alignment explanation
Indices: 9835135--9835196 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
9835125 TAGATTAAAT
* * * * * * * *
9835135 AAAAAAAAAACAAAAACAAAAAACAACAAAAAAACAAAAAAATAAAAAAAGAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9835197 CCCCGCTAGG
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:9835157 original size:8 final size:8
Alignment explanation
Indices: 9835138--9835184 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
9835128 ATTAAATAAA
9835138 AAAAAAAC
1 AAAAAAAC
9835146 AAAAACAA-
1 AAAAA-AAC
*
9835154 AAAACAAC
1 AAAAAAAC
9835162 AAAAAAAC
1 AAAAAAAC
*
9835170 AAAAAAAT
1 AAAAAAAC
9835178 AAAAAAA
1 AAAAAAA
9835185 GAAGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 2 0.06
8 30 0.88
9 2 0.06
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9835176 original size:27 final size:27
Alignment explanation
Indices: 9835135--9835196 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
9835125 TAGATTAAAT
9835135 AAAAAAAAAACAAAA-ACAAAAAACAAC
1 AAAAAAAAAACAAAATA-AAAAAACAAC
* *
9835162 AAAAAAACAAA-AAAATAAAAAAAGAAG
1 AAAAAAA-AAACAAAATAAAAAAACAAC
9835189 AAAAAAAA
1 AAAAAAAA
9835197 CCCCGCTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 26 0.84
28 4 0.13
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (27 bp):
AAAAAAAAAACAAAATAAAAAAACAAC
Done.