Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 50 of 356
Found at i:16316259 original size:42 final size:43
Alignment explanation
Indices: 16316203--16316317 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
16316193 TATGTGATTC
*
16316203 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
16316245 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
16316287 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
16316318 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:16317534 original size:39 final size:39
Alignment explanation
Indices: 16317480--16317581 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 39
16317470 CTTTTAGTGG
** *
16317480 CTTTAGCAACGCTTTTCAAAAACGCCACTATAGGTACAC
1 CTTTAGCGGCGCTTTTAAAAAACGCCACTATAGGTACAC
* * * *
16317519 CTTTAGCGGTGCTTTTTTAAAAATGCCGCTATAGGTACAC
1 CTTTAGCGGCGC-TTTTAAAAAACGCCACTATAGGTACAC
16317559 CTTTAGCGGCGCTTTTAAAAAAC
1 CTTTAGCGGCGCTTTTAAAAAAC
16317582 ACCGCTAATG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 18 0.34
40 35 0.66
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTAAAAAACGCCACTATAGGTACAC
Found at i:16317747 original size:108 final size:111
Alignment explanation
Indices: 16317559--16317807 Score: 355
Period size: 108 Copynumber: 2.2 Consensus size: 111
16317549 ATAGGTACAC
* * * ** *
16317559 CTTTAGCGGCGC-TTTTAAAAAACACCGCTAATGCTCGATCTTTAGCGGCGTTTTTTGAAAGACG
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACG
*
16317623 CCACTAAATAATTTTGCAAACCG-A-CA-TATTGAACTTTTAGTGG
66 CCACTAAATAATTTTGCAAAACGAATCATTATTGAACTTTTAGTGG
16317666 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACG
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACG
16317731 CCACTAAATAATTTTGCAAAACGACATCATTTTGTATTGAACTTTTAGTGG
66 CCACTAAATAATTTTGCAAAACGA-ATCA---T-TATTGAACTTTTAGTGG
16317782 CTTTAGCAGCGCTTTTT-AAAAACGCC
1 CTTTAGCAGCGCTTTTTAAAAAACGCC
16317808 ACAAAAAATA
Statistics
Matches: 126, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
107 11 0.09
108 69 0.55
110 1 0.01
111 2 0.02
115 9 0.07
116 34 0.27
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (111 bp):
CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACG
CCACTAAATAATTTTGCAAAACGAATCATTATTGAACTTTTAGTGG
Found at i:16318269 original size:14 final size:14
Alignment explanation
Indices: 16318247--16318310 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
16318237 AAGGGTTCAT
* *
16318247 GGTTCAGGATTTAT
1 GGTTTAGGATTTAA
*
16318261 GTTTTAGGATTTAA
1 GGTTTAGGATTTAA
*
16318275 GGTTTAGGGTTTAA
1 GGTTTAGGATTTAA
* * *
16318289 GGATTATGAGTTTAG
1 GGTTTAGGA-TTTAA
16318304 GGTTTAG
1 GGTTTAG
16318311 ATTAATTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 29 0.76
15 9 0.24
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (14 bp):
GGTTTAGGATTTAA
Found at i:16318286 original size:22 final size:22
Alignment explanation
Indices: 16318261--16318309 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
16318251 CAGGATTTAT
*
16318261 GTTTTAGGATTTAAG-GTTTAGG
1 GTTTAAGGA-TTAAGAGTTTAGG
*
16318283 GTTTAAGGATTATGAGTTTAGG
1 GTTTAAGGATTAAGAGTTTAGG
16318305 GTTTA
1 GTTTA
16318310 GATTAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
GTTTAAGGATTAAGAGTTTAGG
Found at i:16318427 original size:14 final size:15
Alignment explanation
Indices: 16318410--16318448 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
16318400 ATCATTATAG
16318410 TTTAGGGTTTATGA-
1 TTTAGGGTTTATGAT
*
16318424 TTTAGGGTATATGAT
1 TTTAGGGTTTATGAT
16318439 TTTAGGGTTT
1 TTTAGGGTTT
16318449 GAAGTGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTATGAT
Found at i:16319110 original size:7 final size:7
Alignment explanation
Indices: 16319098--16319137 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
16319088 AAAAAATTTT
16319098 AAAATTA
1 AAAATTA
16319105 AAAATTA
1 AAAATTA
16319112 AAAATTA
1 AAAATTA
16319119 AAAATTA
1 AAAATTA
16319126 AAAATTA
1 AAAATTA
16319133 AAAAT
1 AAAAT
16319138 ATTTAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:16319114 original size:21 final size:21
Alignment explanation
Indices: 16319089--16319137 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
16319079 AAGTCTTCAA
*
16319089 AAAAATTTTAAAATTAAAAATT
1 AAAAA-TTAAAAATTAAAAATT
16319111 AAAAATTAAAAATTAAAAATT
1 AAAAATTAAAAATTAAAAATT
16319132 AAAAAT
1 AAAAAT
16319138 ATTTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATTAAAAATTAAAAATT
Found at i:16319145 original size:7 final size:7
Alignment explanation
Indices: 16319135--16319169 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
16319125 AAAAATTAAA
16319135 AATATTT
1 AATATTT
16319142 AATATTT
1 AATATTT
16319149 AATATTT
1 AATATTT
16319156 AATATTT
1 AATATTT
16319163 AATATTT
1 AATATTT
16319170 TTGTCCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:16319357 original size:41 final size:41
Alignment explanation
Indices: 16319292--16319391 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
16319282 GAAAAAAATT
* * * * ** *
16319292 AAAACTAAACAATAATGGCGTTTTTGGGAAAAACGCTACAA
1 AAAATTAAACTATAGTGGCATTTTTAAGAAAAACGCCACAA
* * *
16319333 AAAATTAAACTATAGTGGCATTTTTAATAAAAATGCCGCAA
1 AAAATTAAACTATAGTGGCATTTTTAAGAAAAACGCCACAA
16319374 AAAATTAAACTATAGTGG
1 AAAATTAAACTATAGTGG
16319392 TGCTTTTTGT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (41 bp):
AAAATTAAACTATAGTGGCATTTTTAAGAAAAACGCCACAA
Found at i:16322700 original size:168 final size:168
Alignment explanation
Indices: 16322421--16322762 Score: 641
Period size: 168 Copynumber: 2.0 Consensus size: 168
16322411 CGCATTTGAT
*
16322421 TGTGGTATGATCTTCTTCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
1 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
16322486 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
66 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
16322551 AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
131 AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
*
16322589 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCAAACTGT
1 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
16322654 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCA-AAGTGATCTAAGTTTGGCTCTCTCTTT
66 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAA-TGATCTAAGTTTGGCTCTCTCTTT
*
16322718 CAATAAAAAAGTTGAAATCAGGGAACGAGATTGGTGCAA
130 CAATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
16322757 TGTGGT
1 TGTGGT
16322763 TACATGCCAT
Statistics
Matches: 170, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
167 2 0.01
168 168 0.99
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (168 bp):
TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
Found at i:16323785 original size:45 final size:43
Alignment explanation
Indices: 16323729--16323827 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
16323719 GTTTGTTACG
* * * *
16323729 TAGCGGTGTTTGTAAAAAAAAAAAGTCGCTAAAGGTTATGGTTTT
1 TAGCGGCGTTTG--AAAAAAAAAAGCCGCTAAAGGTCATGGTCTT
** **
16323774 TAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGAAAAAAAAAAGCCGCTAAAGGTCATGGTCTT
16323817 TAGCGGCGTTT
1 TAGCGGCGTTT
16323828 TTTTTAAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 35 0.76
45 11 0.24
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGAAAAAAAAAAGCCGCTAAAGGTCATGGTCTT
Found at i:16327858 original size:30 final size:30
Alignment explanation
Indices: 16327822--16327878 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
16327812 AGGTGGTAAC
16327822 AATGCAGCAGCATGCAAGTGACCAAGCCAT
1 AATGCAGCAGCATGCAAGTGACCAAGCCAT
*
16327852 AATGCAGTAGCATGCAAGTGACCAAGC
1 AATGCAGCAGCATGCAAGTGACCAAGC
16327879 AACACAGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.14
Consensus pattern (30 bp):
AATGCAGCAGCATGCAAGTGACCAAGCCAT
Found at i:16331125 original size:30 final size:31
Alignment explanation
Indices: 16331084--16331143 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
16331074 TTGAACTTAT
16331084 TTGTGTAACCCT-GTTTTGAATTGCACACAA
1 TTGTGTAACCCTAGTTTTGAATTGCACACAA
* * *
16331114 TTGTGTGACCCTATTTTTGAATTGTACACA
1 TTGTGTAACCCTAGTTTTGAATTGCACACA
16331144 GTCTGATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (31 bp):
TTGTGTAACCCTAGTTTTGAATTGCACACAA
Found at i:16335109 original size:94 final size:91
Alignment explanation
Indices: 16334991--16335253 Score: 291
Period size: 94 Copynumber: 2.8 Consensus size: 91
16334981 TTATTTGTAT
* *
16334991 GCTAGTGTAAGACATGTCTCGGACATGCATCGGCCACATTATGAAAGACAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGTAAGACAGTGTAAGACCATGTC
16335056 TGGGACATGGCATCGGCAATGAGACGAGA
65 TGGGACATGGCATCGGCAATGAGA-GA-A
* ** * *
16335085 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATATGTAAGACAGTGTAAGACCATGTC
* * *
16335149 TGGGACAT-GCATCGGCTATGAGATAT
65 TGGGACATGGCATCGGCAATGAGAGAA
*
16335175 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACGGATATGTAAGAGCTAGTGTAAGAC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC--ATATGTAAGA-C-AGTGTAAGAC
*
16335238 CATGTCAGGGACATGG
59 CATGTCTGGGACATGG
16335254 TGTCGGCCTT
Statistics
Matches: 142, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
89 1 0.01
90 10 0.07
91 16 0.11
92 27 0.19
93 15 0.11
94 58 0.41
95 14 0.10
96 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGTAAGACAGTGTAAGACCATGTCT
GGGACATGGCATCGGCAATGAGAGAA
Found at i:16335138 original size:46 final size:46
Alignment explanation
Indices: 16334994--16335347 Score: 226
Period size: 46 Copynumber: 7.5 Consensus size: 46
16334984 TTTGTATGCT
* ** * * *
16334994 AGTGTAAGACATGTCTCGGACATGCATCGGCC-ACATTATGAAAGAC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTAAGCC
** * *
16335040 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGTA-AGCC
*
16335088 AGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
* *
16335134 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGA--TATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGTAAGCC
* * * *
16335178 AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GGATATGTAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTTGAGATGT-A-AGCC
* ** * * *
16335228 AGTGTAAGACCATGTCAGGGACATGGTGTCGGCCTTGA-TTTTGATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGT-A-AGCC
* *
16335277 AGTGTAAGACCAT-ACTGGGACATGGCATC-GACTT--GATGGATAAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGAT-G-TAAGCC
*
16335323 AGTGTAAGACCGTGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
16335348 GCATTGACAT
Statistics
Matches: 246, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
44 13 0.05
45 16 0.07
46 86 0.35
47 42 0.17
48 36 0.15
49 21 0.09
50 32 0.13
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
Found at i:16335327 original size:95 final size:100
Alignment explanation
Indices: 16335170--16335348 Score: 244
Period size: 95 Copynumber: 1.8 Consensus size: 100
16335160 TCGGCTATGA
* * *
16335170 GATATGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTAAGAGCTAGTGTAA
1 GATATGTCAGTGTAAGACCATGACTGGGACATGGCATCGACACGGATAGGTAAGAGCCAGTGTAA
16335235 GACCATGTCAGGGACATGGTGTCGGCCTTGATTTT
66 GACCATGTCAGGGACATGGTGTCGGCCTTGATTTT
**
16335270 GATA-GTCAGTGTAAGACCAT-ACTGGGACATGGCATCGAC-TTGAT-GG-ATA-AGCCAGTGTA
1 GATATGTCAGTGTAAGACCATGACTGGGACATGGCATCGACACGGATAGGTA-AGAGCCAGTGTA
* *
16335329 AGACCGTGTCTGGGACATGG
65 AGACCATGTCAGGGACATGG
16335349 CATTGACATT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
95 28 0.39
96 2 0.03
97 3 0.04
98 18 0.25
99 16 0.23
100 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (100 bp):
GATATGTCAGTGTAAGACCATGACTGGGACATGGCATCGACACGGATAGGTAAGAGCCAGTGTAA
GACCATGTCAGGGACATGGTGTCGGCCTTGATTTT
Found at i:16340108 original size:6 final size:6
Alignment explanation
Indices: 16340097--16340183 Score: 81
Period size: 6 Copynumber: 14.7 Consensus size: 6
16340087 AAGAAAATTG
* * * *
16340097 AAAAAT AAAAAT CAAAAT CAAAAG AAAAAT AAGAAT -AAAAT AAATAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AA-AAAT
* *
16340146 GAAAAT AAAAAT AAGAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
16340184 TAGGAGGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.05
5 4 0.06
6 53 0.80
7 2 0.03
8 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:16340159 original size:31 final size:28
Alignment explanation
Indices: 16340105--16340183 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 28
16340095 TGAAAAATAA
* * *
16340105 AAATCAAAATCAAAAGAAAAATAAGAAT
1 AAATAAAAATAAAAATAAAAATAAGAAT
*
16340133 AAAATAAATAAATGAAAATAAAAATAAGAAT
1 -AAAT-AA-AAATAAAAATAAAAATAAGAAT
16340164 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
16340184 TAGGAGGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 13 0.30
29 6 0.14
30 5 0.11
31 20 0.45
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (28 bp):
AAATAAAAATAAAAATAAAAATAAGAAT
Found at i:16340167 original size:22 final size:21
Alignment explanation
Indices: 16340099--16340185 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 21
16340089 GAAAATTGAA
* *
16340099 AAATAAAAATCAAAATCAAAAGAA
1 AAATAAAAATAAAAAT--AAA-AT
*
16340123 AAATAAGAAT-AAAAT-AAAT
1 AAATAAAAATAAAAATAAAAT
*
16340142 AAATGAAAATAAAAATAAGAAT
1 AAATAAAAATAAAAATAA-AAT
16340164 AAATAAAAATAAAAATAAAAT
1 AAATAAAAATAAAAATAAAAT
16340185 A
1 A
16340186 GGAGGATTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.16
20 7 0.13
21 5 0.09
22 20 0.36
23 5 0.09
24 9 0.16
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAAT
Found at i:16340180 original size:16 final size:16
Alignment explanation
Indices: 16340099--16340182 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
16340089 GAAAATTGAA
*
16340099 AAATAAAAATCAAAAT
1 AAATAAAAATAAAAAT
* *
16340115 CAAAAGAAAAATAAGAAT
1 --AAATAAAAATAAAAAT
* *
16340133 AAA-ATAAATAAATGA-
1 AAATAAAAATAAA-AAT
*
16340148 AAATAAAAATAAGAAT
1 AAATAAAAATAAAAAT
16340164 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
16340180 AAA
1 AAA
16340183 ATAGGAGGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.21
16 29 0.55
18 13 0.25
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:16345515 original size:13 final size:13
Alignment explanation
Indices: 16345493--16345525 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16345483 AAGGGTTTGT
16345493 TTAT-TAAACTAA
1 TTATCTAAACTAA
16345505 TTATCTAAACTAA
1 TTATCTAAACTAA
*
16345518 TTAACTAA
1 TTATCTAA
16345526 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:16349152 original size:13 final size:13
Alignment explanation
Indices: 16349134--16349158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16349124 GGTTGTTTAT
16349134 TAAACTAATTAAC
1 TAAACTAATTAAC
16349147 TAAACTAATTAA
1 TAAACTAATTAA
16349159 GTAATTAAAC
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:16351506 original size:13 final size:13
Alignment explanation
Indices: 16351480--16351522 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
16351470 GGGTGTGTTA
*
16351480 GTGT-GCACGGCC
1 GTGTCGCACGACC
16351492 GTGTCGCACGACC
1 GTGTCGCACGACC
16351505 GTGTCGCACGACC
1 GTGTCGCACGACC
16351518 GTGTC
1 GTGTC
16351523 TGTCTTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 4 0.14
13 25 0.86
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.19
Consensus pattern (13 bp):
GTGTCGCACGACC
Found at i:16357557 original size:23 final size:21
Alignment explanation
Indices: 16357521--16357644 Score: 95
Period size: 23 Copynumber: 5.5 Consensus size: 21
16357511 GGACTCACCA
*
16357521 CAGCTCATATGAGCTTACTGATT
1 CAGCTC-TAAGAGCTTACTG-TT
*
16357544 CAGCTCGTAAGAGCTTACTATTT
1 CAGCTC-TAAGAGCTTACT-GTT
** *
16357567 CAGCTCATTGGAGCTTACCGTT
1 CAGCTC-TAAGAGCTTACTGTT
* *
16357589 CAGCTCCATAGAGCTTACCGTTT
1 CAGCTCTA-AGAGCTTACTG-TT
*
16357612 CAGCTCAATAGAGCTTACTGTT
1 CAGCTCTA-AGAGCTTACTGTT
*
16357634 CAGCTCGAAGA
1 CAGCTCTAAGA
16357645 AACTTACCGA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.04
22 27 0.32
23 54 0.64
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (21 bp):
CAGCTCTAAGAGCTTACTGTT
Found at i:16357651 original size:45 final size:44
Alignment explanation
Indices: 16357521--16357653 Score: 151
Period size: 45 Copynumber: 2.9 Consensus size: 44
16357511 GGACTCACCA
**
16357521 CAGCTC-ATATGAGCTTACTGATTCAGCTCGTAAGAGCTTACTATTT
1 CAGCTCAATA-GAGCTTACTG-TTCAGCTCG-AAGAGCTTACCGTTT
* * * *
16357567 CAGCTCATTGGAGCTTACCGTTCAGCTCCATAGAGCTTACCGTTT
1 CAGCTCAATAGAGCTTACTGTTCAGCTCGA-AGAGCTTACCGTTT
*
16357612 CAGCTCAATAGAGCTTACTGTTCAGCTCGAAGAAACTTACCG
1 CAGCTCAATAGAGCTTACTGTTCAGCTCGAAG-AGCTTACCG
16357654 ACCATGACTC
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
44 3 0.04
45 54 0.74
46 15 0.21
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
CAGCTCAATAGAGCTTACTGTTCAGCTCGAAGAGCTTACCGTTT
Found at i:16362279 original size:42 final size:42
Alignment explanation
Indices: 16362232--16362318 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
16362222 CAATGTACAA
16362232 AGATAAATAATAAAAATATAAGTATAATATTAGAAGAGAGGG
1 AGATAAATAATAAAAATATAAGTATAATATTAGAAGAGAGGG
16362274 AGATAAATAATAAAAATATAAGTATAATATTAGAAGAGAGGG
1 AGATAAATAATAAAAATATAAGTATAATATTAGAAGAGAGGG
16362316 AGA
1 AGA
16362319 GAAGCGAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (42 bp):
AGATAAATAATAAAAATATAAGTATAATATTAGAAGAGAGGG
Found at i:16367922 original size:18 final size:18
Alignment explanation
Indices: 16367895--16367929 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16367885 ACCTGTCAGA
16367895 AGTAAATTAAAAAAAATT
1 AGTAAATTAAAAAAAATT
* *
16367913 AGTAATTTAAGAAAAAT
1 AGTAAATTAAAAAAAAT
16367930 ACAATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (18 bp):
AGTAAATTAAAAAAAATT
Found at i:16398047 original size:44 final size:43
Alignment explanation
Indices: 16397950--16398067 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 43
16397940 CAAACATCGG
* * *
16397950 TGCCACTGTCCTAGACAGGGTCTTACAC-AAAATCAGATACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAAATCAGATACGA
* * **
16397992 TGTCGATGTCCCAGACATGGTCTTACACGTAAAAT-AGAATTTGA
1 TGCCAATGTCCCAGACATGGTCTTACACG-AAAATCAG-ATACGA
**
16398036 TGCCAATGTCCCAGATGTGGTCTTACACGAAA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAA
16398068 TCACATAACA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 23 0.37
43 5 0.08
44 34 0.55
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAAATCAGATACGA
Found at i:16404857 original size:20 final size:19
Alignment explanation
Indices: 16404829--16404870 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
16404819 GGAATAGGGA
16404829 AAATAGG-AAGAAAGGGAAAG
1 AAATAGGAAAG-AAGGG-AAG
*
16404849 AAATGGGAAAGAAGGGAAG
1 AAATAGGAAAGAAGGGAAG
16404868 AAA
1 AAA
16404871 AGAAAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (19 bp):
AAATAGGAAAGAAGGGAAG
Found at i:16421798 original size:30 final size:30
Alignment explanation
Indices: 16421742--16421799 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16421732 ACAAGCCAGG
* *
16421742 ACACACGGGTGTGTGCTCTACCCGTGTGTC
1 ACACACGGGCGTGTGATCTACCCGTGTGTC
*
16421772 ACACACGGGCGTGTGGATC-ACTCGTGTG
1 ACACACGGGCGTGT-GATCTACCCGTGTG
16421800 GAATTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.24
Consensus pattern (30 bp):
ACACACGGGCGTGTGATCTACCCGTGTGTC
Found at i:16422334 original size:151 final size:151
Alignment explanation
Indices: 16422114--16422415 Score: 577
Period size: 151 Copynumber: 2.0 Consensus size: 151
16422104 TACGGGCTGA
*
16422114 CACAAAGCCGTGTCTTGTGGCCATGTGGACAAGTAAGTATGTATACCCTATTTTGCCACAGCTTA
1 CACAAAGCCGTGTCTTGTGGCCATGTGGACAAGTAAGTATGTATACACTATTTTGCCACAGCTTA
16422179 GACACACGGGCATGTCTAATGCTGTGTGAGGCACACGGTCTGTTCACATAGGCGTGTGTCACTTG
66 GACACACGGGCATGTCTAATGCTGTGTGAGGCACACGGTCTGTTCACATAGGCGTGTGTCACTTG
16422244 TAAAGTTGAAAATTTTCTAAG
131 TAAAGTTGAAAATTTTCTAAG
* *
16422265 CACAAAGGCGTGTCTTGTGGCCATGTGGACAAGTAAGTATGTATACACTATTTTGCCACGGCTTA
1 CACAAAGCCGTGTCTTGTGGCCATGTGGACAAGTAAGTATGTATACACTATTTTGCCACAGCTTA
16422330 GACACACGGGCATGTCTAATGCTGTGTGAGGCACACGGTCTGTTCACATAGGCGTGTGTCACTTG
66 GACACACGGGCATGTCTAATGCTGTGTGAGGCACACGGTCTGTTCACATAGGCGTGTGTCACTTG
16422395 TAAAGTTGAAAATTTTCTAAG
131 TAAAGTTGAAAATTTTCTAAG
16422416 TTTCTAAAAT
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 148 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (151 bp):
CACAAAGCCGTGTCTTGTGGCCATGTGGACAAGTAAGTATGTATACACTATTTTGCCACAGCTTA
GACACACGGGCATGTCTAATGCTGTGTGAGGCACACGGTCTGTTCACATAGGCGTGTGTCACTTG
TAAAGTTGAAAATTTTCTAAG
Found at i:16430520 original size:54 final size:54
Alignment explanation
Indices: 16430421--16430565 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
16430411 TAGAGGAAGC
*
16430421 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
16430476 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * *
16430530 GTTCTGATGGCTCTGCCACAA-TATTTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16430566 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
53 5 0.06
54 58 0.69
55 21 0.25
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:16430562 original size:27 final size:27
Alignment explanation
Indices: 16430424--16430583 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
16430414 AGGAAGCGTC
* *
16430424 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
16430452 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
16430479 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
16430506 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
16430533 CTGATGGCTCTGCCACAATATTTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16430560 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
16430584 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.08
27 85 0.76
28 17 0.15
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16430577 original size:81 final size:81
Alignment explanation
Indices: 16430424--16430583 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
16430414 AGGAAGCGTC
* * *
16430424 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTGATGGCTCTGCCACATATATCTGTCCTGGTGACTA
16430489 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** * *
16430506 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGATGGCTCTGCCACA-ATATTTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTGATGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
16430569 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
16430584 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 14 0.21
81 38 0.57
82 15 0.22
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTGATGGCTCTGCCACATATATCTGTCCTGGTGACTA
TGCCACAATATCTGAT
Found at i:16434798 original size:28 final size:26
Alignment explanation
Indices: 16434733--16434784 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16434723 AGATTCAACG
16434733 TAAAAAATTTCAGCAGGATCATTAAA
1 TAAAAAATTTCAGCAGGATCATTAAA
16434759 TAAAAAATTTCAGCAGGATCATTAAA
1 TAAAAAATTTCAGCAGGATCATTAAA
16434785 AATATCTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (26 bp):
TAAAAAATTTCAGCAGGATCATTAAA
Found at i:16435133 original size:33 final size:33
Alignment explanation
Indices: 16435091--16435155 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
16435081 GTAAATATGA
16435091 GGGTTGGATAAATAACCAAATTAAAAAATCTAC
1 GGGTTGGATAAATAACCAAATTAAAAAATCTAC
*
16435124 GGGTTGGATAAATAACCAAATTAAAAATTCTA
1 GGGTTGGATAAATAACCAAATTAAAAAATCTA
16435156 ATCGTAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (33 bp):
GGGTTGGATAAATAACCAAATTAAAAAATCTAC
Found at i:16435493 original size:18 final size:18
Alignment explanation
Indices: 16435470--16435506 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16435460 TTTCAACGTT
16435470 AAATTCTCTGACTAAGAA
1 AAATTCTCTGACTAAGAA
16435488 AAATTCTCTGACTAAGAA
1 AAATTCTCTGACTAAGAA
16435506 A
1 A
16435507 CGTCAACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AAATTCTCTGACTAAGAA
Found at i:16449005 original size:42 final size:42
Alignment explanation
Indices: 16448946--16449035 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
16448936 ATCCTAATTG
16448946 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
16448988 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
*
16449030 ATAAAA
1 AGAAAA
16449036 ATATTCCTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (42 bp):
AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:16449056 original size:43 final size:42
Alignment explanation
Indices: 16448948--16449057 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
16448938 CCTAATTGAG
* * * *
16448948 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAAA
* * * *
16448990 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAA-A
16449033 AAAATA-TT-CCTAAAATATGAATAAA
1 AAAATAGTTCCCT-AAATAT-AATAAA
16449058 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAAA
Found at i:16449082 original size:19 final size:18
Alignment explanation
Indices: 16449060--16449099 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
16449050 TGAATAAAAC
16449060 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
16449079 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
16449097 TTA
1 TTA
16449100 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:16454724 original size:29 final size:30
Alignment explanation
Indices: 16454671--16454728 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16454661 CGGAAGTTTT
*
16454671 GGCACTAAGTGTGTGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
16454701 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
16454729 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:16465812 original size:354 final size:354
Alignment explanation
Indices: 16464933--16467189 Score: 2327
Period size: 354 Copynumber: 6.4 Consensus size: 354
16464923 TTGAAGCAAG
* * * * * *
16464933 TTGATATAACAATTCCATATAGAATATACATTCATCCAAGAAAACTATTTCTCCATCGATAATGG
1 TTGATATAACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * * *
16464998 TTGAAGTTAGAAATGCAGATGGTTTTGATGGTTGTTCTCCT-CTAATAAACTCTTAGGTCGGATG
66 TTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCT-ATCAACTCTTGGGTCGGATG
* * * * *
16465062 ATCAGCCGCACATAAATTGAAGT-CATCCTGAGGCTGATTGTTATTTGCTACAACTAAATACAAA
130 ATCTGCAGCACCTAAATTGAA-TCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAA
* * * ** * * * *
16465126 TTTGAAGATGATGGTTGTTGTTCTCCTATTGATGTTGCAGTATCACTACTTCTATTGGATGTAAA
194 TTTGAAGACGATGGTTGTTGTTCTCCTATAGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAAA
* * * * * * * *
16465191 GAAAATGTCTTGAGGATTCCCATCTA-CAAAGTATTGATTTACATCTGGTAGCAATAATCCTGAA
259 GACAATGTCTTGAGGATTCCCCTC-AGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAA
* * ** * *
16465255 CCAGACTTCAATTCAAATAGATTCATAATACA
323 TCAGGCTTCTTTTAAAATGGATTCATAATACA
** * * * *
16465287 TTGATACCACAGTTCTATATAAAAGATAC-TTCATCCAAGATAACTATTTCACCATCGACAATAG
1 TTGATATAACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * * *
16465351 -TGAAGTTAGAAATACAAATGGTTCTTACGCTTGTTCTCCTCCT-TCCAACTCTTGGGCCGGATG
66 TTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTAT-CAACTCTTGGGTCGGATG
** * ** * * * *
16465414 ATCTGTTGTACCTAAATTGAGGCCAACCAGAGGCTGATTGTTATTTGATACTGCTAAATCCAAAT
130 ATCTGCAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAAT
* * *
16465479 TTGAAGACGATAGTTGTTGTTCTCCTATAGACGTTGCAATATTGCTAATTCTGTTGGAGCCAAAG
195 TTGAAGACGATGGTTGTTGTTCTCCTATAGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAAAG
* * * * * * *
16465544 ACAATGTCTTGACGATTCCACTCAGCAAAGTATCAACTGACATCTAGCAGTAGTAAACATGAATC
260 ACAATGTCTTGAGGATTCCCCTCAGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAATC
* * * *
16465609 AGGGTTCTTTTAAAAAGGATTCATAAAATA
325 AGGCTTCTTTTAAAATGGATTCATAATACA
* * * * * * *
16465639 TTTATATAATAGTTCCTTCA-AAAATATACATTCATTCAGGAAAACTATTTCACAATCGACAATT
1 TTGATATAACAGTTCCAT-ATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATG
* *
16465703 GTTGAAGTTAGAAATGCAAATAGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTGGGTCGGATG
65 GTTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTGGGTCGGATG
* ** *
16465768 ATCTGCAACACCTAAATTGAATCCATCCTGAGTTTGATTGTTATTTTCTACTACTAAATCCAAAT
130 ATCTGCAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAAT
* ** * * * * * * * *
16465833 TTGAAGATGATTATTGTTTTTCCCCTATTGACGTTGTAGTCTTGCTAATCCTGTTGGAGGTAGAG
195 TTGAAGACGATGGTTGTTGTTCTCCTATAGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAAAG
* * * * *
16465898 ACAATCTCTTAAGGATTCCCCTCTGCAAAATATTGATTGACATCTGGTAGTAGTAAACTTGAATC
260 ACAATGTCTTGAGGATTCCCCTCAGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAATC
* * * *
16465963 AGGATTCTTTTTAAATTGATTCATAATCCA
325 AGGCTTCTTTTAAAATGGATTCATAATACA
* ** *
16465993 TTGATATAACAGTTCCATAAAAAAGGCACATTCGTCCAGGAAAACTATTTCACCATCGACAATGG
1 TTGATATAACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * *
16466058 TTGAAGTTAGAAATGCAAATGGTTCTGATGGTTGCTT-TCCTTCTATAAACTCTAT-GGTCAGAT
66 TTGAAGTTAGAAATGCAAATGGTTCTAATGGTTG-TTCTCCTCCTATCAACTCT-TGGGTCGGAT
* * * * *
16466121 GATCTACCA-CACCTAAATTAAATCCATTCTGAGGCTGATTGTTATTTGCTACTGCTGAATCCAA
129 GATCT-GCAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAA
* * * * * * * *
16466185 ATTTGAAGACGATGATTATTGTTCTCCTATCGACGTTGCAGTATTGCTAATTTTTTTAGAGGTAG
193 ATTTGAAGACGATGGTTGTTGTTCTCCTATAGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAA
* * * * * *
16466250 AGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATCAATTAACATCTAGTAGTAGTAAATTTGAA
258 AGACAATGTCTTGAGGATTCCCCTCAGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAA
* * *
16466315 TCAGGCTTCTTTTCAAATTGATTCATAATCCA
323 TCAGGCTTCTTTTAAAATGGATTCATAATACA
* * ** *
16466347 TTGATATAATAGTTCCATATAAAAGATACCTTTTGTCCAGGAAAACTATTTCACCATCAACAATG
1 TTGATATAACAGTTCCATATAAAAGATA-CATTCATCCAGGAAAACTATTTCACCATCGACAATG
* * *
16466412 GTTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTAGGTCAGATG
65 GTTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTGGGTCGGATG
* * * *
16466477 ATCTGTC-GCACCTAAATTGAAGCCATCTTGAGGCTGATTGTTATTTGCTACTGCTGAAA-CTAA
130 ATCTG-CAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACT-AAATCCAA
* * * * *
16466540 ATTTGAAAACGACGGTTGATGTTCTCCTATCA-ACGTTGCAGTATTGCTAATTCTGTTAGAAGCA
193 ATTTGAAGACGATGGTTGTTGTTCTCCTAT-AGACGTTGCAGTATTGCTAATTCTGTTGGAGGCA
* ** * ** ** *
16466604 AAGACAATGTCTTGAGGATTCTCCTTTGCAAAGTATCGGTTCG-CATCTGACAAAAGCAAACTTG
257 AAGACAATGTCTTGAGGATTCCCCTCAGCAAAGTATCGATT-GACATCTGGTAGTAGTAAACTTG
* *
16466668 AATCAGGCTTCTTTTGAAATGGATTTATAATACA
321 AATCAGGCTTCTTTTAAAATGGATTCATAATACA
* * * *
16466702 TTGATA-ATACAGTTCCATATAAAATATACATTCATCAAGGAAAACTATTTCACCATCAACGATG
1 TTGATATA-ACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATG
* * * *
16466766 GTTGATGTTAGAAATGCAAATGGTTCTAATGGTAGTTCTCCTCTTATCAACTCTTGGGTTGGATG
65 GTTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTGGGTCGGATG
** * * * * * * * * * *
16466831 ATCTGTTGTACCTAATTTGAAACCATCTTCAAGCTGATTATTATTTTCTACTACTGAATTCAAAT
130 ATCTGCAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAAT
** * * * * * * *
16466896 TTGAAGTTGATGGTTGTTTTTCTCATATCA-ACGTTGCAGTATTCCTACTTATGTTGAAGGCAGA
195 TTGAAGACGATGGTTGTTGTTCTCCTAT-AGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAAA
* * *
16466960 GACAATGTCTTAAGGATTCCCCTCTA-CAAAGTATCGATTGACATCTGGTAGTGGCAAACTTGAA
259 GACAATGTCTTGAGGATTCCCCTC-AGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAA
* * *
16467024 TCATGCTTCTTTTTAAAATGG-TACATAGTACA
323 TCAGGCTTC-TTTTAAAATGGATTCATAATACA
* * * * * * *
16467056 TTGACATAACAGTTCCATATAGAAGATACATCCATCCAGGAAAGCTATTTCACCGTCGAAAAAGG
1 TTGATATAACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * * * *
16467121 TTGAAGATAGTAATGAAAATGGTTCTAAAGGTTGTTTTCCTCCTATCAAGTCTTGGGTCGGATGA
66 TTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTGGGTCGGATGA
16467186 TCTG
131 TCTG
16467190 TAACAGCCCG
Statistics
Matches: 1577, Mismatches: 299, Indels: 54
0.82 0.15 0.03
Matches are distributed among these distances:
351 2 0.00
352 242 0.15
353 68 0.04
354 950 0.60
355 313 0.20
356 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (354 bp):
TTGATATAACAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
TTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTGGGTCGGATGA
TCTGCAGCACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAATT
TGAAGACGATGGTTGTTGTTCTCCTATAGACGTTGCAGTATTGCTAATTCTGTTGGAGGCAAAGA
CAATGTCTTGAGGATTCCCCTCAGCAAAGTATCGATTGACATCTGGTAGTAGTAAACTTGAATCA
GGCTTCTTTTAAAATGGATTCATAATACA
Found at i:16466359 original size:708 final size:704
Alignment explanation
Indices: 16464933--16467194 Score: 2439
Period size: 709 Copynumber: 3.2 Consensus size: 704
16464923 TTGAAGCAAG
* * * * * * *
16464933 TTGATATAACAATTCCATATAGAATATACATTCATCCAAGAAAACTATTTCTCCATCGATAATGG
1 TTGATATAATAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * *
16464998 TTGAAGTTAGAAATGCAGATGGTTTTGATGGTTGTTCTCCT-CTAATAAACTCTTAGGTCGGATG
66 TTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCT-ATAAACTCTTAGGTCGGATG
* ** * * *
16465062 ATCAGCCGCACATAAATTGAAGT-CATCCTGAGGCTGATTGTTATTTGCTACAACTAAATACAAA
130 ATCTGCAACACCTAAATTGAA-TCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAA
* ** * * *
16465126 TTTGAAGATGATGGTTGTTGTTCTCCTATTGATGTTGCAGTATCACTACTTCTATTGGATGTAAA
194 TTTGAAGATGATGGTTGTTGTTCTCCTATTGACGTTGCAGTATTGCTAATTCTGTTGGAAGTAAA
* * * * * *
16465191 GAAAATGTCTTGAGGATTCCCATCTACAAAGTATTGATTTACATCTGGTAGCAA-TAATCCTGAA
259 GACAATGTCTTGAGGATTCCCCTCTGCAAAGTATTGATTGACATCTGGTAG-AAGTAAACTTGAA
* ** * *
16465255 CCA-GACTTCAATTCAAATAGATTCATAATACATTGATACCACAGTTCTATATAAAAGATAC-TT
323 TCAGGA-TTCTTTTCAAATAGATTCATAATACATTGATA-AACAGTTCCATATAAAAGATACATT
* * * * * * *
16465318 CATCCAAGATAACTATTTCACCATCGACAATAG-TGAAGTTAGAAATACAAATGGTTCTTACGCT
386 CATCCAGGAAAACTATTTCACCATCGACAATGGTTGAAGTTAGAAATGCAAATGGTTCTAATGGT
* * ** * *
16465382 TGTTCTCCTCCT-TCCAACTCTTGGGCCGGATGATCTGTTGTACCTAAATTGAGGCCAACCAGAG
451 TGTTCTCCTTCTAT-CAACTCTTGGGTCGGATGATCTGTTGTACCTAAATT-AAACC-ATCTGAG
* * *
16465446 GCTGATTGTTATTTGATACTGCTAAATCCAAATTTGAAGACGAT-AGTTGTTGTTCTCCTATAGA
513 GCTGATTGTTATTTGCTACTGCTGAATCCAAATTTGAAGACGATGA-TTGTTGTTCTCCTATCGA
* * * * * * *
16465510 CGTTGCAATATTGCTAATTCTGTTGGAGCCAAAGACAATGTCTTGACGATTCCACTCAGCAAAGT
577 CGTTGCAGTATTGCTAATTATGTT-GAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGCAAAGT
* * * * * * *
16465575 ATCAACTGACATCTAGCAGTAGTAAACATGAATCAGGGTTCTTTTAAAAAGGATTCATAAAATA
641 ATCAATTGACATCTAGTAGTAGTAAACTTGAATCAGGCTTCTTTTAAAAATGATTCATAATACA
* * * * * *
16465639 TTTATATAATAGTTCCTTCA-AAAATATACATTCATTCAGGAAAACTATTTCACAATCGACAATT
1 TTGATATAATAGTTCCAT-ATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATG
* * *
16465703 GTTGAAGTTAGAAATGCAAATAGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTGGGTCGGATG
65 GTTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTAGGTCGGATG
** *
16465768 ATCTGCAACACCTAAATTGAATCCATCCTGAGTTTGATTGTTATTTTCTACTACTAAATCCAAAT
130 ATCTGCAACACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAAT
** * * * * * * *
16465833 TTGAAGATGATTATTGTTTTTCCCCTATTGACGTTGTAGTCTTGCTAATCCTGTTGGAGGTAGAG
195 TTGAAGATGATGGTTGTTGTTCTCCTATTGACGTTGCAGTATTGCTAATTCTGTTGGAAGTAAAG
* * * *
16465898 ACAATCTCTTAAGGATTCCCCTCTGCAAAATATTGATTGACATCTGGTAGTAGTAAACTTGAATC
260 ACAATGTCTTGAGGATTCCCCTCTGCAAAGTATTGATTGACATCTGGTAGAAGTAAACTTGAATC
* * * * ** *
16465963 AGGATTCTTTTTAAATTGATTCATAATCCATTGATATAACAGTTCCATAAAAAAGGCACATTCGT
325 AGGATTCTTTTCAAATAGATTCATAATACATTGATA-AACAGTTCCATATAAAAGATACATTCAT
*
16466028 CCAGGAAAACTATTTCACCATCGACAATGGTTGAAGTTAGAAATGCAAATGGTTCTGATGGTTGC
389 CCAGGAAAACTATTTCACCATCGACAATGGTTGAAGTTAGAAATGCAAATGGTTCTAATGGTTG-
* * *****
16466093 TT-TCCTTCTATAAACTCTAT-GGTCAGATGATCTACCACACCTAAATTAAATCCATTCTGAGGC
453 TTCTCCTTCTATCAACTCT-TGGGTCGGATGATCTGTTGTACCTAAATTAAA-CCA-TCTGAGGC
*
16466156 TGATTGTTATTTGCTACTGCTGAATCCAAATTTGAAGACGATGATTATTGTTCTCCTATCGACGT
515 TGATTGTTATTTGCTACTGCTGAATCCAAATTTGAAGACGATGATTGTTGTTCTCCTATCGACGT
* * * *
16466221 TGCAGTATTGCTAATTTTTTTAGAGGTAGAGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATC
580 TGCAGTATTGCTAATTATGTT-GAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGCAAAGTATC
* * * * *
16466286 AATTAACATCTAGTAGTAGTAAATTTGAATCAGGCTTCTTTTCAAATTGATTCATAATCCA
644 AATTGACATCTAGTAGTAGTAAACTTGAATCAGGCTTCTTTTAAAAATGATTCATAATACA
* ** *
16466347 TTGATATAATAGTTCCATATAAAAGATACCTTTTGTCCAGGAAAACTATTTCACCATCAACAATG
1 TTGATATAATAGTTCCATATAAAAGATA-CATTCATCCAGGAAAACTATTTCACCATCGACAATG
* *
16466412 GTTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATCAACTCTTAGGTCAGATG
65 GTTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTAGGTCGGATG
* * * * *
16466477 ATCTGTC-GCACCTAAATTGAAGCCATCTTGAGGCTGATTGTTATTTGCTACTGCTGAAA-CTAA
130 ATCTG-CAACACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACT-AAATCCAA
* * * * ** * *
16466540 ATTTGAAAACGACGGTTGATGTTCTCCTATCAACGTTGCAGTATTGCTAATTCTGTTAGAAGCAA
193 ATTTGAAGATGATGGTTGTTGTTCTCCTATTGACGTTGCAGTATTGCTAATTCTGTTGGAAGTAA
* * * * ** * *
16466605 AGACAATGTCTTGAGGATTCTCCTTTGCAAAGTATCGGTTCG-CATCTGACAAAAGCAAACTTGA
258 AGACAATGTCTTGAGGATTCCCCTCTGCAAAGTATTGATT-GACATCTGGTAGAAGTAAACTTGA
* * * * *
16466669 ATCAGGCTTCTTTTGAAATGGATTTATAATACATTGATAATACAGTTCCATATAAAATATACATT
322 ATCAGGATTCTTTTCAAATAGATTCATAATACATTGATAA-ACAGTTCCATATAAAAGATACATT
* * * *
16466734 CATCAAGGAAAACTATTTCACCATCAACGATGGTTGATGTTAGAAATGCAAATGGTTCTAATGGT
386 CATCCAGGAAAACTATTTCACCATCGACAATGGTTGAAGTTAGAAATGCAAATGGTTCTAATGGT
* * * * *
16466799 AGTTCTCC-TCTTATCAACTCTTGGGTTGGATGATCTGTTGTACCTAATTTGAAACCATCTTCAA
451 TGTTCTCCTTC-TATCAACTCTTGGGTCGGATGATCTGTTGTACCTAAATT-AAACCATC-TGAG
* * * * ** * * * *
16466863 GCTGATTATTATTTTCTACTACTGAATTCAAATTTGAAGTTGATGGTTGTTTTTCTCATATCAAC
513 GCTGATTGTTATTTGCTACTGCTGAATCCAAATTTGAAGACGATGATTGTTGTTCTCCTATCGAC
* * * *
16466928 GTTGCAGTATTCCTACTTATGTTGAAGGCAGAGACAATGTCTTAAGGATTCCCCTCTACAAAGTA
578 GTTGCAGTATTGCTAATTATGTTG-AGGCAGAGACAATGTCTTGAGGATTCCCCTCTGCAAAGTA
* * * * * * * * *
16466993 TCGATTGACATCTGGTAGTGGCAAACTTGAATCATGCTTCTTTTTAAAATGGTACATAGTACA
642 TCAATTGACATCTAGTAGTAGTAAACTTGAATCAGGCTTCTTTTAAAAATGATTCATAATACA
* * * * * * * *
16467056 TTGACATAACAGTTCCATATAGAAGATACATCCATCCAGGAAAGCTATTTCACCGTCGAAAAAGG
1 TTGATATAATAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
* * * * * * *
16467121 TTGAAGATAGTAATGAAAATGGTTCTAAAGGTTGTTTTCCTCCTATCAAGTCTTGGGTCGGATGA
66 TTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTAGGTCGGATGA
*
16467186 TCTGTAACA
131 TCTGCAACA
16467195 GCCCGATTTT
Statistics
Matches: 1289, Mismatches: 241, Indels: 50
0.82 0.15 0.03
Matches are distributed among these distances:
705 2 0.00
706 310 0.24
707 39 0.03
708 355 0.28
709 575 0.45
710 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (704 bp):
TTGATATAATAGTTCCATATAAAAGATACATTCATCCAGGAAAACTATTTCACCATCGACAATGG
TTGAAGTTAGAAATGAAAATGGTTCTAATGGTTGTTCTCCTCCTATAAACTCTTAGGTCGGATGA
TCTGCAACACCTAAATTGAATCCATCCTGAGGCTGATTGTTATTTGCTACTACTAAATCCAAATT
TGAAGATGATGGTTGTTGTTCTCCTATTGACGTTGCAGTATTGCTAATTCTGTTGGAAGTAAAGA
CAATGTCTTGAGGATTCCCCTCTGCAAAGTATTGATTGACATCTGGTAGAAGTAAACTTGAATCA
GGATTCTTTTCAAATAGATTCATAATACATTGATAAACAGTTCCATATAAAAGATACATTCATCC
AGGAAAACTATTTCACCATCGACAATGGTTGAAGTTAGAAATGCAAATGGTTCTAATGGTTGTTC
TCCTTCTATCAACTCTTGGGTCGGATGATCTGTTGTACCTAAATTAAACCATCTGAGGCTGATTG
TTATTTGCTACTGCTGAATCCAAATTTGAAGACGATGATTGTTGTTCTCCTATCGACGTTGCAGT
ATTGCTAATTATGTTGAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGCAAAGTATCAATTGAC
ATCTAGTAGTAGTAAACTTGAATCAGGCTTCTTTTAAAAATGATTCATAATACA
Found at i:16468533 original size:48 final size:48
Alignment explanation
Indices: 16468469--16468579 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
16468459 GTGCAATTTA
* * * *
16468469 TGCCTTGATTTAGCTTCAGGCCATGGTATTGGCACTTCAGAGG-TAAAT
1 TGCCTTGATTTGGCTTCAGGCCATCGTATAGGCACTCCA-AGGATAAAT
* * *
16468517 TGCCTTGATTTGGCTTCGGGCCATCGTATAGGTACTCCAAGGATAAGT
1 TGCCTTGATTTGGCTTCAGGCCATCGTATAGGCACTCCAAGGATAAAT
*
16468565 TACCTTGATTTGGCT
1 TGCCTTGATTTGGCT
16468580 ATGGGCCACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 3 0.06
48 51 0.94
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (48 bp):
TGCCTTGATTTGGCTTCAGGCCATCGTATAGGCACTCCAAGGATAAAT
Found at i:16470059 original size:31 final size:31
Alignment explanation
Indices: 16470021--16470085 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
16470011 GTGTTGAATG
16470021 TATTTGAGTATAAATGCATAAATGTATGAGT
1 TATTTGAGTATAAATGCATAAATGTATGAGT
16470052 TATTTGAGTATAAATGCATAAATGTATGAGT
1 TATTTGAGTATAAATGCATAAATGTATGAGT
16470083 TAT
1 TAT
16470086 GTATGCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.40
Consensus pattern (31 bp):
TATTTGAGTATAAATGCATAAATGTATGAGT
Found at i:16471595 original size:353 final size:346
Alignment explanation
Indices: 16470810--16471788 Score: 1187
Period size: 353 Copynumber: 2.8 Consensus size: 346
16470800 TCGACAATGG
* * * * *
16470810 CCTCCTATCAACTCTTGGGTTGGATGATCTGTCGCAACTAAATTGAAGCCGTCCTAAGGCTGATT
1 CCTCCTATCAACTCTTGGGTCGGATGATCTGTCGCACCTAAATTGAAGCCATTCTGAGGCTGATT
* * * * *
16470875 TTTATTTGCTACTGCTAAATGCAAATTTGAAGATGATGGTTGTTGTTCTCCTATCGACATTGTAG
66 GTTATTTGCTACTGCTGAATCCAAATTTGAAGATGATGGTTGTTGTTCTCCTATCGACGTTGCAG
* * *
16470940 TATTGCTACTTCTGTTGAAGGCAAAGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATCGATTA
131 TATTGTTACTTCTGTTGAAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATCGATTG
* * * *
16471005 ACATCTGGTAGTAGTAAACTTGAATCAGACTTCTTTTAAAATGGATTCATAACACATTAATATAA
196 ACATCTGGTAGAAGTAAACTTGAATCAGGCTTC-TTTCAAATGGATTCATAATACATTAATATAA
* * * * *
16471070 CAGTTCCATATAGAAGATACATTCATCTAGGAATCACCATCTACAATGGTTGAAGTTAGAATTTC
260 CAGTTCCATATAGAAGATACATTCATCCAGGAATCACCATCAACAATGGTTGAAGTTAAAAATGC
* *
16471135 AAATGGTTTTGATGGTTATTCT
325 AAACGGTTCTGATGGTTATTCT
* * * * * *
16471157 CCCCCTATCAACTCTTGGGTCGGATGATATGTCACACCTAAATTAAAGCTA-TCTTGAGGCTAAT
1 CCTCCTATCAACTCTTGGGTCGGATGATCTGTCGCACCTAAATTGAAGCCATTC-TGAGGCTGAT
* * * * * * *
16471221 TGTTATTTTCTACTGCTGAATCCAAATTCGAAGACGATGATTGATGTTCTCTTATCGGCGTTGCA
65 TGTTATTTGCTACTGCTGAATCCAAATTTGAAGATGATGGTTGTTGTTCTCCTATCGACGTTGCA
* * * * * * *
16471286 ATATTGTTACTTCTATTGCAGGCAGTGACAATGTTTTGATGATTCCCC-CTGTAAAGTATTGATT
130 GTATTGTTACTTCTGTTGAAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATCGATT
* **
16471350 GACATATGGTAGAAGTAAACTTGAATCAGGCTTCGTTTCAAACAGATTCATAATACATTAATATA
195 GACATCTGGTAGAAGTAAACTTGAATCAGGCTTC-TTTCAAATGGATTCATAATACATTAATATA
* * *
16471415 AAAGTTCGATATAGAAGATACCTTCATCCAGGAAAATGATTTCACCATCAACAATGGTTGAAGTT
259 ACAGTTCCATATAGAAGATACATTCATCCAGG---A--A--TCACCATCAACAATGGTTGAAGTT
16471480 AAAAATGCAAACGGTTCTGATGG-TAGTTCT
317 AAAAATGCAAACGGTTCTGATGGTTA-TTCT
* * ** * * *
16471510 CCTCCTATCAACTATTAGGTCAAATGATCTATTGCACCTAAATTGAAGCCATTCTGAGGCTGATC
1 CCTCCTATCAACTCTTGGGTCGGATGATCTGTCGCACCTAAATTGAAGCCATTCTGAGGCTGATT
* * * *
16471575 GTTACTTGCTACTACTGAATCCAAATTTGAAGATGATGGTTGTTGTTCTCCTACCGACGTTACAG
66 GTTATTTGCTACTGCTGAATCCAAATTTGAAGATGATGGTTGTTGTTCTCCTATCGACGTTGCAG
* * * *
16471640 TATTCTTACTTCTGTTGGAGGCAGAGAAAATGTCTTGAGGATTCCCCTCAT-CAAA-TATCGATT
131 TATTGTTACTTCTGTTGAAGGCAGAGACAATGTCTTGAGGATTCCCCTC-TGTAAAGTATCGATT
* *
16471703 GACATCTGGTAGCAA-TAAACTTGAATCGGGCTTCTTCTCAAATGGATTCATAATACATTGATAT
195 GACATCTGGTAG-AAGTAAACTTGAATCAGGCTTCTT-TCAAATGGATTCATAATACATTAATAT
16471767 AACAGTTCCATATAGAAGATAC
258 AACAGTTCCATATAGAAGATAC
16471789 TTGACCGCCT
Statistics
Matches: 526, Mismatches: 92, Indels: 22
0.82 0.14 0.03
Matches are distributed among these distances:
346 100 0.19
347 144 0.27
349 1 0.00
351 1 0.00
352 4 0.01
353 267 0.51
354 8 0.02
355 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (346 bp):
CCTCCTATCAACTCTTGGGTCGGATGATCTGTCGCACCTAAATTGAAGCCATTCTGAGGCTGATT
GTTATTTGCTACTGCTGAATCCAAATTTGAAGATGATGGTTGTTGTTCTCCTATCGACGTTGCAG
TATTGTTACTTCTGTTGAAGGCAGAGACAATGTCTTGAGGATTCCCCTCTGTAAAGTATCGATTG
ACATCTGGTAGAAGTAAACTTGAATCAGGCTTCTTTCAAATGGATTCATAATACATTAATATAAC
AGTTCCATATAGAAGATACATTCATCCAGGAATCACCATCAACAATGGTTGAAGTTAAAAATGCA
AACGGTTCTGATGGTTATTCT
Found at i:16482300 original size:12 final size:12
Alignment explanation
Indices: 16482283--16482308 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16482273 CCCAAAAGAA
16482283 CTACTCTTGAAG
1 CTACTCTTGAAG
16482295 CTACTCTTGAAG
1 CTACTCTTGAAG
16482307 CT
1 CT
16482309 CTTGAGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (12 bp):
CTACTCTTGAAG
Found at i:16482757 original size:25 final size:24
Alignment explanation
Indices: 16482685--16482758 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 24
16482675 TATTGAAAAA
* *
16482685 AGAGCACTAAAGTGCTAT-A-CAG
1 AGAGCACTAATGTGCTATAATCGG
* *
16482707 AGAGCACGAATCTGCTA-AAT-GG
1 AGAGCACTAATGTGCTATAATCGG
16482729 AGAGCACTAATGTGCTAGTAATCGG
1 AGAGCACTAATGTGCTA-TAATCGG
16482754 AGAGC
1 AGAGC
16482759 GCACTAAGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 31 0.76
24 3 0.07
25 7 0.17
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (24 bp):
AGAGCACTAATGTGCTATAATCGG
Found at i:16482953 original size:22 final size:22
Alignment explanation
Indices: 16482923--16482973 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16482913 TTTCACAAAT
*
16482923 CACAAATACCACATCTTTTTCA
1 CACATATACCACATCTTTTTCA
***
16482945 CACATATACTTTATCTTTTTCA
1 CACATATACCACATCTTTTTCA
16482967 CACATAT
1 CACATAT
16482974 GCTTTTACCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (22 bp):
CACATATACCACATCTTTTTCA
Found at i:16482978 original size:22 final size:22
Alignment explanation
Indices: 16482935--16482978 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16482925 CAAATACCAC
16482935 ATCTTTTTCACACATATACTTT
1 ATCTTTTTCACACATATACTTT
*
16482957 ATCTTTTTCACACATATGCTTT
1 ATCTTTTTCACACATATACTTT
16482979 TACCACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.50
Consensus pattern (22 bp):
ATCTTTTTCACACATATACTTT
Found at i:16490042 original size:46 final size:47
Alignment explanation
Indices: 16489974--16490067 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 47
16489964 TTAAGGAGTT
**
16489974 GTGTGATAGACTTCCGGGGCAGTTGGGAGGAGTACTTGTTGTTAGCA
1 GTGTGATAGACTTCCGGGGCAGTTGGGAGGAGTACTTGTCATTAGCA
*
16490021 GTGTG-TAGACTTTCGGGGCAGTTGGGAGGAGTACTTGTCATTAGCA
1 GTGTGATAGACTTCCGGGGCAGTTGGGAGGAGTACTTGTCATTAGCA
16490067 G
1 G
16490068 AGTTTGCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 39 0.89
47 5 0.11
ACGTcount: A:0.19, C:0.13, G:0.38, T:0.30
Consensus pattern (47 bp):
GTGTGATAGACTTCCGGGGCAGTTGGGAGGAGTACTTGTCATTAGCA
Found at i:16493534 original size:22 final size:22
Alignment explanation
Indices: 16493509--16493562 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
16493499 TGGCACGCAA
*
16493509 CCATAATCAGGTTGGCACAGAG
1 CCATAATCAGGTTGGCACAAAG
* *
16493531 CCAT-ATGTAGGTTGGCGCAAAG
1 CCATAAT-CAGGTTGGCACAAAG
16493553 CCATAATCAG
1 CCATAATCAG
16493563 AATAATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.20
Consensus pattern (22 bp):
CCATAATCAGGTTGGCACAAAG
Found at i:16493763 original size:41 final size:41
Alignment explanation
Indices: 16493706--16493826 Score: 197
Period size: 41 Copynumber: 3.0 Consensus size: 41
16493696 AAAGCCACCG
* * *
16493706 GTGGATCCACGATCGTCAAGTAACCATGCGATCCTTAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
*
16493747 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCG
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
*
16493788 GTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
16493827 TTCTTCCTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
Found at i:16494125 original size:27 final size:27
Alignment explanation
Indices: 16494086--16494597 Score: 178
Period size: 27 Copynumber: 18.9 Consensus size: 27
16494076 AGAAAATCTA
16494086 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* * *
16494113 CAAACTAATGGTATTTCTGTAATTTTTG
1 CAAACCAAGGGTATTTCAGTAA-TTTTG
* * *
16494141 -AAAGTCAAGGGTATTTCTGCAATTTTG
1 CAAA-CCAAGGGTATTTCAGTAATTTTG
* * * * * *
16494168 TAAATCAGGGGAATTTCTGTAATTTTC
1 CAAACCAAGGGTATTTCAGTAATTTTG
* * *
16494195 CAAATCAAGGATATTTC-GATAATTTTC
1 CAAACCAAGGGTATTTCAG-TAATTTTG
** * ** *
16494222 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
*** * *
16494249 CAAATTGAGGGTATTTCGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
*** * *
16494276 CAGGTCAAGGGTATTT-TGATAATTTTA
1 CAAACCAAGGGTATTTCAG-TAATTTTG
* *
16494303 CAAACC-AGTAGTATTTCTGTAATTTTTG
1 CAAACCAAG-GGTATTTCAGTAA-TTTTG
* *
16494331 -AAAGTCAAGGGTATTTCTA-TAATTTTA
1 CAAA-CCAAGGGTATTTC-AGTAATTTTG
* * ** **
16494358 TAAATCGGGGGTATTTTTGTAATTTT-
1 CAAACCAAGGGTATTTCAGTAATTTTG
* * * *
16494384 CTAAATCAAAGGTATTTCGGTAATTTTC
1 C-AAACCAAGGGTATTTCAGTAATTTTG
** * *
16494412 CAAATTAAGGGTATTTCGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
* ** * *
16494439 TAATTCGAGGGTATTTC-GATAATTTTA
1 CAAACCAAGGGTATTTCAG-TAATTTTG
*** * **
16494466 CAAGTTAAGTGTATTTC-GATAATTTCA
1 CAAACCAAGGGTATTTCAG-TAATTTTG
** * ** *
16494493 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
* **
16494520 CAAACCAAGAGTATTTTGGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* * * **
16494547 CTAATCGAGGGTATTTTGGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* *
16494574 TAAACCAAGGATATTTCAGTAATT
1 CAAACCAAGGGTATTTCAGTAATT
16494598 CTACCCTACA
Statistics
Matches: 386, Mismatches: 81, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.01
27 334 0.87
28 45 0.12
29 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCAGTAATTTTG
Found at i:16494156 original size:55 final size:52
Alignment explanation
Indices: 16494084--16494597 Score: 279
Period size: 54 Copynumber: 9.5 Consensus size: 52
16494074 TTAGAAAATC
* **
16494084 TACAAACCAAGGGTATTTCAGTAATTTTGCAAACTAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTC-GTAATTTTGCAAA-TAGGGGTATTTCTGTAATTT
** * * *
16494138 TTGAAAGTCAAGGGTATTTCTGCAATTTTGTAAATCAGGGGAATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTC-GTAATTTTGCAAAT-AGGGGTATTTCTGTAATTT
* * *
16494193 TCCAAATCAAGGATATTTCGATAATTTTCCAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCG-TAATTTTGCAAA-TAGGGGTATTTCT-GTAATTT
** * ** *
16494247 TACAAATTGAGGGTATTTCGGTAATTTTACAGGTCAAGGGTATTT-TGATAATTT
1 TACAAATCAAGGGTATTTC-GTAATTTTGCAAAT-AGGGGTATTTCTG-TAATTT
* * * *
16494301 TACAAA-CCAGTAGTATTTCTGTAATTTTTG-AAAGTCAAGGGTATTTCTATAATTT
1 TACAAATCAAG-GGTATTTC-GTAA-TTTTGCAAA-T-AGGGGTATTTCTGTAATTT
* ** * ** *
16494356 TATAAATCGGGGGTATTTTTGTAATTTT-CTAAATCAAAGGTATTTCGGTAATTT
1 TACAAATCAAGGGTA-TTTCGTAATTTTGC-AAAT-AGGGGTATTTCTGTAATTT
* * ** * *
16494410 TCCAAATTAAGGGTATTTCGGTAATTTTATAATTCGAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTC-GTAATTTTGCAAATAG-GGGTATTTCTG-TAATTT
* * * **
16494464 TACAAGTTAAGTGTATTTCGATAATTTCACAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCG-TAATTTTGCAAA-TAGGGGTATTTCT-GTAATTT
* * * * *
16494518 TACAAACCAAGAGTATTTTGGTAATTTTGCTAATCGAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTA-TTTCGTAATTTTGCAAATAG-GGGTATTTCT-GTAATTT
** * *
16494572 TGTAAACCAAGGATATTTCAGTAATT
1 TACAAATCAAGGGTATTTC-GTAATT
16494598 CTACCCTACA
Statistics
Matches: 361, Mismatches: 72, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
53 16 0.04
54 250 0.69
55 89 0.25
56 6 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (52 bp):
TACAAATCAAGGGTATTTCGTAATTTTGCAAATAGGGGTATTTCTGTAATTT
Found at i:16494271 original size:81 final size:81
Alignment explanation
Indices: 16494092--16494572 Score: 328
Period size: 81 Copynumber: 5.9 Consensus size: 81
16494082 TCTACAAACC
* * * ** * *
16494092 AAGGGTATTTCAGTAATTTTGCAAA-CTAATGGTATTTCTG-TAATTTTTGAAAGTCAAGGGTAT
1 AAGGGTATTTCGGTAATTTTACAAATC-AAGGGTATTT-TGATAATTTTACAAA-TTAGGGGTAT
* ** *
16494155 TTCT-GCAATTTTGTAAATC
63 TT-TGGTAATTTTACAAATT
* * * * * * *
16494174 AGGGGAATTTCTGTAATTTTCCAAATCAAGGATATTTCGATAATTTTCCAAATTAGGGGTATTTT
1 AAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATTAGGGGTATTTT
16494239 GGTAATTTTACAAATT
66 GGTAATTTTACAAATT
* ** ** **
16494255 GAGGGTATTTCGGTAATTTTACAGGTCAAGGGTATTTTGATAATTTTACAAACCAGTAGTATTTC
1 AAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATTAGGGGTATTT-
** *
16494320 T-GTAATTTTTGAAAGTC
65 TGGTAATTTTACAAA-TT
** * ** * **
16494337 AAGGGTATTTCTATAATTTTATAAATCGGGGGTATTTTTG-TAATTTT-CTAAATCAAAGGTATT
1 AAGGGTATTTCGGTAATTTTACAAATCAAGGGTA-TTTTGATAATTTTAC-AAATTAGGGGTATT
* *
16494400 TCGGTAATTTTCCAAATT
64 TTGGTAATTTTACAAATT
* * * * * * * *
16494418 AAGGGTATTTCGGTAATTTTATAATTCGAGGGTATTTCGATAATTTTACAAGTTAAGTGTATTTC
1 AAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATTAGGGGTATTTT
* *
16494483 GATAATTTCACAAATT
66 GGTAATTTTACAAATT
* * * * * * * *
16494499 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTGCTAA-TCGAGGGTATTT
1 AAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATTAG-GGGTATTT
16494563 TGGTAATTTT
65 TGGTAATTTT
16494573 GTAAACCAAG
Statistics
Matches: 310, Mismatches: 78, Indels: 23
0.75 0.19 0.06
Matches are distributed among these distances:
80 6 0.02
81 201 0.65
82 97 0.31
83 6 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGATAATTTTACAAATTAGGGGTATTTT
GGTAATTTTACAAATT
Found at i:16494381 original size:190 final size:190
Alignment explanation
Indices: 16494091--16494496 Score: 566
Period size: 190 Copynumber: 2.1 Consensus size: 190
16494081 ATCTACAAAC
* * * *
16494091 CAAGGGTA-TTTCAGTAATTTTGCAAACTAATGGTATTTCTGTAATTTTTGAAAGTCAAGGGTAT
1 CAAGGGTATTTTGA-TAATTTTACAAACCAATAGTATTTCTGTAATTTTTGAAAGTCAAGGGTAT
* *
16494155 TTCTGCAATTTTGTAAATCAGGGGAATTTCTGTAATTTTCCAAATC-AAGGATATTTCGATAATT
65 TTCTACAATTTTATAAATCAGGGGAATTTCTGTAATTTTCCAAATCAAAGG-TATTTCGATAATT
* * * *
16494219 TTCCAAATTAGGGGTATTTTGGTAATTTTACAAATT-GAGGGTATTTCGGTAATTTTACAGGT
129 TTCCAAATTAAGGGTATTTCGGTAATTTTA-AAATTCGAGGGTATTTCGATAATTTTACAAGT
*
16494281 CAAGGGTATTTTGATAATTTTACAAACCAGTAGTATTTCTGTAATTTTTGAAAGTCAAGGGTATT
1 CAAGGGTATTTTGATAATTTTACAAACCAATAGTATTTCTGTAATTTTTGAAAGTCAAGGGTATT
* * * * * *
16494346 TCTATAATTTTATAAATCGGGGGTATTTTTGTAATTTTCTAAATCAAAGGTATTTCGGTAATTTT
66 TCTACAATTTTATAAATCAGGGGAATTTCTGTAATTTTCCAAATCAAAGGTATTTCGATAATTTT
*
16494411 CCAAATTAAGGGTATTTCGGTAATTTTATAATTCGAGGGTATTTCGATAATTTTACAAGT
131 CCAAATTAAGGGTATTTCGGTAATTTTAAAATTCGAGGGTATTTCGATAATTTTACAAGT
* * * *
16494471 TAAGTGTATTTCGATAATTTCACAAA
1 CAAGGGTATTTTGATAATTTTACAAA
16494497 TTAGGGGTAT
Statistics
Matches: 191, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
189 4 0.02
190 179 0.94
191 8 0.04
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (190 bp):
CAAGGGTATTTTGATAATTTTACAAACCAATAGTATTTCTGTAATTTTTGAAAGTCAAGGGTATT
TCTACAATTTTATAAATCAGGGGAATTTCTGTAATTTTCCAAATCAAAGGTATTTCGATAATTTT
CCAAATTAAGGGTATTTCGGTAATTTTAAAATTCGAGGGTATTTCGATAATTTTACAAGT
Found at i:16499780 original size:55 final size:53
Alignment explanation
Indices: 16499637--16499844 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
16499627 ATCCTTTTGA
* * *
16499637 AACTTACCATTGCCAGGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
16499690 AACTCACTAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
16499744 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
16499798 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
16499845 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 9 0.07
55 70 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:16502208 original size:21 final size:23
Alignment explanation
Indices: 16502174--16502215 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16502164 ATAAATGACA
*
16502174 TGCATTTTACTAACT-AATACAT
1 TGCATATTACTAACTCAATACAT
16502196 TGCATATTA-TAACTCAATAC
1 TGCATATTACTAACTCAATAC
16502216 GCATACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TGCATATTACTAACTCAATACAT
Found at i:16506802 original size:19 final size:19
Alignment explanation
Indices: 16506778--16506823 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16506768 TATCTTTCTT
*
16506778 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
16506797 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
16506816 TTTGCATT
1 TTTGCATT
16506824 AGACTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:16508637 original size:29 final size:30
Alignment explanation
Indices: 16508590--16508657 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
16508580 TGGCCCAAGA
* *
16508590 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
16508620 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
16508650 GCAAATAT
1 GTAAATAT
16508658 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:16511132 original size:46 final size:46
Alignment explanation
Indices: 16511080--16511445 Score: 599
Period size: 46 Copynumber: 8.0 Consensus size: 46
16511070 AGTGTGCCCT
* *
16511080 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16511126 CTGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
16511172 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16511218 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16511264 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16511310 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16511356 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16511402 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16511446 TCATGTCAAA
Statistics
Matches: 305, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 304 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16514516 original size:13 final size:13
Alignment explanation
Indices: 16514498--16514531 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16514488 TCTAAATAGT
*
16514498 ACAGGAGCCTGAA
1 ACAGGACCCTGAA
16514511 ACAGGACCCTGAA
1 ACAGGACCCTGAA
16514524 ACAGGACC
1 ACAGGACC
16514532 ATTATTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.29, G:0.26, T:0.06
Consensus pattern (13 bp):
ACAGGACCCTGAA
Found at i:16515105 original size:64 final size:64
Alignment explanation
Indices: 16515031--16515152 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
16515021 ATAACACATC
**
16515031 TAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATCACTTT
1 TAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCACTTT
* *
16515095 TAGTTAGGAGCATTTGATTCATTTCAATCATAGTATCCTAATTATTTGGCATAAGCAT
1 TAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
16515153 AGATACATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (64 bp):
TAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCACTTT
Found at i:16515325 original size:87 final size:87
Alignment explanation
Indices: 16515222--16515866 Score: 963
Period size: 87 Copynumber: 7.4 Consensus size: 87
16515212 TGAAGCCACA
*
16515222 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
*
16515287 GGGAAACAGATCGAAGATGATG
66 GGGAAACAGATCGAAGGTGATG
* *
16515309 GGCCTTAAACCTCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
*
16515374 GGGAAACAGATCGAATGTGATG
66 GGGAAACAGATCGAAGGTGATG
* * * *
16515396 GGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAAATCTTATCACCCTAAGCAGTA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
* * *
16515461 GGGAAACAGATAGAAGGCGAAG
66 GGGAAACAGATCGAAGGTGATG
* * *
16515483 CGCCTTAAACCCCTAAGCAGTTGGGTAACAGGCTGAATTTACAGATCTCAACCCCCTAAGCAGTA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
** *
16515548 GAAAAACAGATCGAAGATGATG
66 GGGAAACAGATCGAAGGTGATG
*
16515570 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
*
16515635 GGGAAACAGATCGAAGCTGATG
66 GGGAAACAGATCGAAGGTGATG
* *
16515657 GGCCTTAAACCCCTAAGCAGTAGGGTAATAGGCCGAATTTACAGATCTT-ACCACCCTAAGCAGT
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC-CCCTAAGCAGT
** *
16515721 AGGGAAACAGATTAAAGGCGATG
65 AGGGAAACAGATCGAAGGTGATG
*
16515744 GGCCTT-AACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTT-ACCACCCTAAGCAGT
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC-CCCTAAGCAGT
* * **
16515807 AAGGAAACAGATTGAAGGCAATG
65 AGGGAAACAGATCGAAGGTGATG
* *
16515830 GGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAA
1 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
16515867 GCTACAAATC
Statistics
Matches: 505, Mismatches: 51, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
86 83 0.16
87 422 0.84
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (87 bp):
GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
GGGAAACAGATCGAAGGTGATG
Found at i:16515968 original size:68 final size:68
Alignment explanation
Indices: 16515896--16516078 Score: 285
Period size: 68 Copynumber: 2.7 Consensus size: 68
16515886 TAAAATGGCG
* * *
16515896 TTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGCGGATCTCTTTTCCCTGAAATG
1 TTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTCTCCCTGAAATG
16515961 GAA
66 GAA
16515964 TTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTCTCCCTGAAATG
1 TTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTCTCCCTGAAATG
**
16516029 GCG
66 GAA
* * **
16516032 TTGGAGCGGCTCGAAGCCATAGTAGATCTCCTTGAAGTTTCAGCGGA
1 TTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGA
16516079 GTAGATTGAA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 106 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (68 bp):
TTGGAGCGGCTAGAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTCTCCCTGAAATG
GAA
Found at i:16519434 original size:45 final size:41
Alignment explanation
Indices: 16519345--16519442 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 41
16519335 TCCCAAATAG
* * *
16519345 GGTCTTACACGAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAACCAAATACGACGCCAATGTCCCAGACAT
* *
16519386 GGTCTTACACGTAACCACATATATCGACGCCAATGTTCCAGACGT
1 GGTCTTACACG-AACCA-A-ATA-CGACGCCAATGTCCCAGACAT
16519431 GGTCTTACACGA
1 GGTCTTACACGA
16519443 GAAAACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
41 11 0.23
42 4 0.08
43 1 0.02
44 4 0.08
45 28 0.58
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
GGTCTTACACGAACCAAATACGACGCCAATGTCCCAGACAT
Found at i:16525064 original size:22 final size:22
Alignment explanation
Indices: 16525036--16525077 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16525026 ATCGGGAGAT
16525036 CGAATCAACTCAAAAAATCATA
1 CGAATCAACTCAAAAAATCATA
* *
16525058 CGAATCAACTCGAAGAATCA
1 CGAATCAACTCAAAAAATCA
16525078 CACTATCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.24, G:0.10, T:0.17
Consensus pattern (22 bp):
CGAATCAACTCAAAAAATCATA
Found at i:16527792 original size:60 final size:59
Alignment explanation
Indices: 16527716--16527852 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
16527706 AACTATGTTA
* * *
16527716 ATATGGGCAAGGCCCAATATA-TCTCGACT-TCTAATAGGGCTGCGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATCTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
16527776 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TCTAAAGGGCTACGGCCCAGATTAATACTG
16527836 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
16527853 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 51 0.77
61 14 0.21
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATCTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:16531811 original size:57 final size:58
Alignment explanation
Indices: 16531718--16531839 Score: 194
Period size: 57 Copynumber: 2.1 Consensus size: 58
16531708 ATAGAAATTG
*
16531718 TGAAAATGGATAAATGAGAAACATTTGAAAATGAATGT-GATTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAG-TTTTCTCCAAAATAAAAA
* *
16531776 TGAAAATGGAGAAATGA-AATCATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATAAAAA
16531833 TGAAAAT
1 TGAAAAT
16531840 AACCTGGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
57 43 0.72
58 17 0.28
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATAAAAA
Found at i:16532640 original size:22 final size:22
Alignment explanation
Indices: 16532612--16532655 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
16532602 TAAATATCAC
16532612 AAATCAACTCAATTTTCAAAAT
1 AAATCAACTCAATTTTCAAAAT
16532634 AAATCAACTCAATTTTCAAAAT
1 AAATCAACTCAATTTTCAAAAT
16532656 TTTTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATCAACTCAATTTTCAAAAT
Found at i:16532750 original size:30 final size:30
Alignment explanation
Indices: 16532714--16532773 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
16532704 TCTAATAAAA
*
16532714 AGTTGATCCCCAAGTCTAACCTCATAGCAC
1 AGTTGATCCCCAAGTCTAACCCCATAGCAC
16532744 AGTTGATCCCCAAGTCTAACCCCATAGCAC
1 AGTTGATCCCCAAGTCTAACCCCATAGCAC
16532774 CGATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (30 bp):
AGTTGATCCCCAAGTCTAACCCCATAGCAC
Found at i:16536538 original size:18 final size:18
Alignment explanation
Indices: 16536512--16536554 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
16536502 AAAAGCTGTT
*
16536512 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
16536530 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
16536548 TTTATAT
1 TTTATAT
16536555 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:16537858 original size:32 final size:32
Alignment explanation
Indices: 16537812--16537872 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
16537802 TGTCAATCAT
16537812 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
16537844 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
16537873 TAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:16537879 original size:27 final size:30
Alignment explanation
Indices: 16537812--16537885 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
16537802 TGTCAATCAT
*
16537812 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
16537844 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
16537872 TT-AATATCTAACAA
1 TTCAATATCTAACAA
16537886 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 12 0.29
28 4 0.10
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:16537896 original size:27 final size:28
Alignment explanation
Indices: 16537812--16537899 Score: 81
Period size: 32 Copynumber: 3.0 Consensus size: 28
16537802 TGTCAATCAT
* *
16537812 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGATTAAAAC---AT-AA
*
16537844 TTCAATATCTAACAAGCTTAAAACATAA
1 TTCAATATCTAACAAGATTAAAACATAA
*
16537872 TT-AATATCTAACAA-ATTCAAGACATAA
1 TTCAATATCTAACAAGATT-AAAACATAA
16537899 T
1 T
16537900 AATTTCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 21 0.40
28 4 0.08
29 2 0.04
32 23 0.44
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.28
Consensus pattern (28 bp):
TTCAATATCTAACAAGATTAAAACATAA
Found at i:16542713 original size:17 final size:16
Alignment explanation
Indices: 16542684--16542726 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
16542674 AATTGAAAAA
16542684 AGAATT-AAA-TTTTT
1 AGAATTAAAATTTTTT
16542698 AGAGATTAAAATTTTTT
1 AGA-ATTAAAATTTTTT
*
16542715 AGAATTAGAATT
1 AGAATTAAAATT
16542727 AAAATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 3 0.12
16 11 0.44
17 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
AGAATTAAAATTTTTT
Found at i:16546398 original size:17 final size:17
Alignment explanation
Indices: 16546372--16546405 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16546362 TAAGAAATCT
16546372 TAAATTT-AAAATAATA
1 TAAATTTAAAAATAATA
16546388 TAAATTTTAAAAATAATA
1 TAAA-TTTAAAAATAATA
16546406 ATATGGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 3 0.19
18 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAAATAATA
Found at i:16553341 original size:13 final size:13
Alignment explanation
Indices: 16553323--16553348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16553313 CTTGATGCTA
16553323 TTGGTAAAACTAT
1 TTGGTAAAACTAT
16553336 TTGGTAAAACTAT
1 TTGGTAAAACTAT
16553349 CACTTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGGTAAAACTAT
Found at i:16554986 original size:17 final size:17
Alignment explanation
Indices: 16554966--16555014 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16554956 CTATTATTTT
16554966 TAAAAATATATAAAATA
1 TAAAAATATATAAAATA
*
16554983 TAAACATAGTA-AAAATA
1 TAAAAATA-TATAAAATA
* *
16555000 TATAAATTTATAAAA
1 TAAAAATATATAAAA
16555015 AGAGTGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAAAATATATAAAATA
Found at i:16556983 original size:22 final size:22
Alignment explanation
Indices: 16556944--16556985 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16556934 TAAAGCTCAT
* *
16556944 TTATATTTGATGATAATTAAAA
1 TTATATTTGATAACAATTAAAA
*
16556966 TTATATTTTATAACAATTAA
1 TTATATTTGATAACAATTAA
16556986 CAAGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATATTTGATAACAATTAAAA
Found at i:16558641 original size:4 final size:4
Alignment explanation
Indices: 16558632--16558704 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
16558622 AGTAAGTTAA
* *** * * **
16558632 AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG TGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G AAAG
16558682 AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAA
16558705 TAGAAAAGGA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
4 49 0.92
5 3 0.06
6 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:16560903 original size:23 final size:22
Alignment explanation
Indices: 16560877--16560945 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
16560867 TATATAATGC
16560877 AATAACAATGAAGACAAAAATAA
1 AATAACAATGAA-ACAAAAATAA
** *
16560900 AATAAGGATGAAACAATAAT--
1 AATAACAATGAAACAAAAATAA
* *
16560920 AATAA-AATAAAATAAAAATAA
1 AATAACAATGAAACAAAAATAA
16560941 CAATA
1 -AATA
16560946 CATTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
22 11 0.31
23 10 0.28
ACGTcount: A:0.70, C:0.06, G:0.07, T:0.17
Consensus pattern (22 bp):
AATAACAATGAAACAAAAATAA
Found at i:16560922 original size:3 final size:3
Alignment explanation
Indices: 16560914--16560973 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
16560904 AGGATGAAAC
* * * *
16560914 AAT AAT AAT AA- AAT AA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
16560959 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
16560974 GATGATGATG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.82
4 2 0.04
5 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:16560953 original size:30 final size:28
Alignment explanation
Indices: 16560893--16560972 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 28
16560883 AATGAAGACA
**
16560893 AAAATAAAATAAGGATGAAACAATAATAAT
1 AAAATAAAATAAAAAT--AACAATAATAAT
16560923 AAAATAAAATAAAAATAACAATACATTAAT
1 AAAATAAAATAAAAATAACAATA-A-TAAT
* *
16560953 AAGAGTAATAATAATAATAA
1 AA-AATAA-AATAAAAATAA
16560973 TGATGATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 7 0.17
29 1 0.02
30 20 0.48
31 4 0.10
32 10 0.24
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (28 bp):
AAAATAAAATAAAAATAACAATAATAAT
Found at i:16560978 original size:3 final size:3
Alignment explanation
Indices: 16560972--16561001 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16560962 AATAATAATA
*
16560972 ATG ATG ATG ATG ATG GTG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
16561002 TAAGTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:16563048 original size:181 final size:181
Alignment explanation
Indices: 16562769--16563216 Score: 682
Period size: 181 Copynumber: 2.5 Consensus size: 181
16562759 GGATTAGTTG
* * * *
16562769 TCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCAACTACA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTGCA
* * *
16562834 ACTTCAAGGAGAT-AGGATTTGCTATGATCTGCTCTACTGCAACTTTAGAGATATAAGATCTGTT
65 ACTTCAGGGAGATAAGG-TTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTT
* * * * *
16562898 TATTTGTATCTTCAATCTGTTCCCCTGCAACTTCAAGGAAATAAAATACGTTA
129 TATTTATAGCTTCAATCTATTCCACTACAACTTCAAGGAAATAAAATACGTTA
* *
16562951 TCTTCAGCCTGCTCCGCTGCAACTTCAGGGAGATGAGACTTTAACTTCAACCTGCTCCACTGCAA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAA
16563016 CTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTA
66 CTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTA
* *
16563081 TTTATAGCTTCAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGTTA
131 TTTATAGCTTCAATCTATTCCACTACAACTTCAAGGAAATAAAATACGTTA
* * *
16563132 TCTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAACTTCAACCTGCTCCACTGCAA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAA
* *
16563197 CTTTAGGGAGATAAAGTTTG
66 CTTCAGGGAGATAAGGTTTG
16563217 TTTTGACCTG
Statistics
Matches: 242, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 201 0.83
182 41 0.17
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTA
TTTATAGCTTCAATCTATTCCACTACAACTTCAAGGAAATAAAATACGTTA
Found at i:16563155 original size:45 final size:43
Alignment explanation
Indices: 16563088--16563199 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 43
16563078 TTATTTATAG
* * *
16563088 CTTCAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGTTAT
1 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATT--TTAA
* * *
16563133 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
1 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTTAA
* *
16563176 CTTCAACCTGCTCCACTGCAACTT
1 CTTCAATCTGTTCCACTGCAACTT
16563200 TAGGGAGATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 24 0.41
45 34 0.59
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (43 bp):
CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTTAA
Found at i:16563194 original size:43 final size:43
Alignment explanation
Indices: 16562907--16563210 Score: 191
Period size: 43 Copynumber: 6.8 Consensus size: 43
16562897 TTATTTGTAT
* * * * * * *
16562907 CTTCAATCTGTTCCCCTGCAACTTCAAGGAAATAAAATACGTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT--TTTAA
** * * *
16562952 CTTCAGCCTGCTCCGCTGCAACTTCAGGGAGATGAGACTTTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTAA
* * *
16562995 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTT-G
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTAA
* * * * *
16563036 CTAT-GATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTATTTATA
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA------T-TTTA-A
** * * * *
16563087 GCTTCAATCTATTCCACTACAACTTCAAGGAAATAAGATTCGTTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--TTAA
* *
16563133 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTAA
* *
16563176 CTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
16563211 AGTTTGTTTT
Statistics
Matches: 201, Mismatches: 43, Indels: 32
0.73 0.16 0.12
Matches are distributed among these distances:
41 28 0.14
42 4 0.02
43 70 0.35
45 64 0.32
46 1 0.00
47 3 0.01
49 3 0.01
51 1 0.00
52 27 0.13
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTAA
Found at i:16563303 original size:44 final size:45
Alignment explanation
Indices: 16563224--16563308 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
16563214 TTGTTTTGAC
*
16563224 CTGCCCCATTGCTATCTCAAGGAAACAAGATCTACAATCTTCAGT
1 CTGCCCCATTGCTACCTCAAGGAAACAAGATCTACAATCTTCAGT
* * *
16563269 CTGCTCCATTGCTACCT-TAGGAAGATAAGA-CTACAATCTT
1 CTGCCCCATTGCTACCTCAAGGAA-ACAAGATCTACAATCTT
16563309 TAGCTTGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 15 0.43
45 20 0.57
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (45 bp):
CTGCCCCATTGCTACCTCAAGGAAACAAGATCTACAATCTTCAGT
Found at i:16563549 original size:178 final size:177
Alignment explanation
Indices: 16563216--16563622 Score: 546
Period size: 178 Copynumber: 2.3 Consensus size: 177
16563206 GATAAAGTTT
* * * *
16563216 GTTTTGACCTGCCCCATTGCTATCTCAAGGAAACAAGATCTACAATCTTCAGTCTGCTCCATTGC
1 GTTTTGATCTGCCCCATTGCTATCTCAAGGAGACAAGATCTACAATCTTCAATCTGCTCCATTAC
* * *
16563281 TACCTTAGGAAGATAAGACTACAATCTTTAGCTTGCTCATTTGCTCCCTCAGAGAGATGAGGCTG
66 TACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCATTTGCTACCTCAGAGAGATGAGGCTG
* *
16563346 GTGGTTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATTCGCC
131 GTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
* * *
16563393 GCTTTTGATCTGCCCCACTGCTATCTCAAAGAGACAAGATCTACAATCTTCAATCTGCTCCCTTA
1 G-TTTTGATCTGCCCCATTGCTATCTCAAGGAGACAAGATCTACAATCTTCAATCTGCTCCATTA
* * *
16563458 CTGCCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTTC-TTTGCTACCTTAGAGAGATGAGGT
65 CTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGC-TCATTTGCTACCTCAGAGAGATGAGGC
* * * * *
16563522 TGGTGGCTTGAATCTTCTTCTCTACTACCTCGGGAAGATAAGATCCGCC
129 TGGTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
* ** * * *
16563571 GTCTTCGATCTGTTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCA
1 GT-TTTGATCTGCCCCATTGCTATCTCAAGGAGACAAGATCTACAATCTTCA
16563623 GCCTGCTCTA
Statistics
Matches: 199, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
177 2 0.01
178 195 0.98
179 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (177 bp):
GTTTTGATCTGCCCCATTGCTATCTCAAGGAGACAAGATCTACAATCTTCAATCTGCTCCATTAC
TACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCATTTGCTACCTCAGAGAGATGAGGCTG
GTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
Found at i:16563728 original size:88 final size:88
Alignment explanation
Indices: 16563578--16563740 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
16563568 GCCGTCTTCG
* * * *
16563578 ATCTGTTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAGCCTGCTCTAATGCTGCTCA
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCTAATACTGCTCA
*
16563643 GGGAGACAAGGCTAGTGGCTTAA
66 GAGAGACAAGGCTAGTGGCTTAA
* * ** * * *
16563666 ATCTGCTCCCTTGCTACCTTAGGGAGATAAGA-CTCACCGTCTTCAATCTGCTCTACTACTGCTT
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCT-ACAATCTTCAACCTGCTCTAATACTGCTC
16563730 AGAGAGACAAG
65 AGAGAGACAAG
16563741 ATCTACAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
87 2 0.03
88 60 0.97
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (88 bp):
ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACAATCTTCAACCTGCTCTAATACTGCTCA
GAGAGACAAGGCTAGTGGCTTAA
Found at i:16563806 original size:42 final size:43
Alignment explanation
Indices: 16563625--16563854 Score: 120
Period size: 44 Copynumber: 5.3 Consensus size: 43
16563615 AATCTTCAGC
* * * * **
16563625 CTGCTCTAATGCTGCTCAGGGAGACAAGGCTAGTGGCTTAAAT
1 CTGCTCCATTGCTGCTTAGAGAGACAAGATTAGTGGCTTAAAT
* * * * * ** * *
16563668 CTGCTCCCTTGCTACCTTAGGGAGATAAGACTCACCGTCTTCAAT
1 CTGCTCCATTGCT-GCTTAGAGAGACAAGA-TTAGTGGCTTAAAT
* * * **** * **
16563713 CTGCTCTACTACTGCTTAGAGAGACAAGATCTACAATCTTCAGC
1 CTGCTCCATTGCTGCTTAGAGAGACAAGAT-TAGTGGCTTAAAT
* * * * *
16563757 CTACTCCATTGCTGTTTAGAGAGATAATA-TGGTGGCTTAAAT
1 CTGCTCCATTGCTGCTTAGAGAGACAAGATTAGTGGCTTAAAT
* *
16563799 CTGCTCCACTACTGCTTAGAGAGACAAGATTAGTGGCTTAAAT
1 CTGCTCCATTGCTGCTTAGAGAGACAAGATTAGTGGCTTAAAT
* *
16563842 CTGTTCCCTTGCT
1 CTGCTCCATTGCT
16563855 ACCTCAGGGA
Statistics
Matches: 132, Mismatches: 51, Indels: 8
0.69 0.27 0.04
Matches are distributed among these distances:
42 28 0.21
43 32 0.24
44 55 0.42
45 17 0.13
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
CTGCTCCATTGCTGCTTAGAGAGACAAGATTAGTGGCTTAAAT
Found at i:16563867 original size:86 final size:88
Alignment explanation
Indices: 16563636--16563871 Score: 217
Period size: 86 Copynumber: 2.7 Consensus size: 88
16563626 TGCTCTAATG
* * **
16563636 CTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGACTC
1 CTGCTTAGAGAGACAAGATTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGACTC
* * *
16563701 ACCGTCTTCAATCTGCTCTACTA
66 ACCGGCTTAAATCTGCTCCACTA
**** * ** * * ** * *
16563724 CTGCTTAGAGAGACAAGATCTACAATCTTCAGCCTACTCCATTGCT-GTTTAGAGAGATAATA-T
1 CTGCTTAGAGAGACAAGAT-TAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGACT
***
16563787 -GGTGGCTTAAATCTGCTCCACTA
65 CACCGGCTTAAATCTGCTCCACTA
* *
16563810 CTGCTTAGAGAGACAAGATTAGTGGCTTAAATCTGTTCCCTTGCTACCTCAGGGAGATAAGA
1 CTGCTTAGAGAGACAAGATTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGA
16563872 TCTACCATCT
Statistics
Matches: 108, Mismatches: 38, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
85 16 0.15
86 47 0.44
87 1 0.01
88 27 0.25
89 17 0.16
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
CTGCTTAGAGAGACAAGATTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGACTC
ACCGGCTTAAATCTGCTCCACTA
Found at i:16563901 original size:45 final size:45
Alignment explanation
Indices: 16563840--16564185 Score: 229
Period size: 45 Copynumber: 7.8 Consensus size: 45
16563830 AGTGGCTTAA
* *
16563840 ATCTGTTCCCTTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * * *
16563885 ATCTACTCCATTGCTACCTCATGGAGATAAGATCTACAATTTTC-
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * * * * ** **
16563929 AGCCTGCTCCACTGCT-GCTCAGGGAGACAAG-GCTAGTGA-CTTAA
1 A-TCTGCTCCATTGCTACCTCAGGGAGATAAGATCTA-CCATCTTCG
* * * * *
16563973 ATCTGCTCCCTTGCTACCTCAGAGAGATAAGATCTGCCGTCCTCG
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * * *
16564018 ATCTGCTCCATTGCTACTTCATGGAGATAAAATCTACAATCTTC-
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * ** * * **** **
16564062 AGCCTGCTCCACTG-TTGCTCAGGGAGACAAGGT-TAGTGGCTTAA
1 A-TCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * * *
16564106 ATCTGCTCCCTTGCTACCTCAGGAAGATAAGATCCACCGTCTTCG
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
* * *
16564151 ATCTGCTCTATTGGTACCTCATGGAGATAAGATCT
1 ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCT
16564186 GTGAATTCAC
Statistics
Matches: 217, Mismatches: 74, Indels: 20
0.70 0.24 0.06
Matches are distributed among these distances:
43 30 0.14
44 55 0.25
45 132 0.61
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCATTGCTACCTCAGGGAGATAAGATCTACCATCTTCG
Found at i:16563973 original size:133 final size:133
Alignment explanation
Indices: 16563799--16564185 Score: 594
Period size: 133 Copynumber: 2.9 Consensus size: 133
16563789 TGGCTTAAAT
* * * * *
16563799 CTGCTCCACTACTGCTTAGAGAGACAAGATTAGTGGCTTAAATCTGTTCCCTTGCTACCTCAGGG
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * *
16563864 AGATAAGATCTACCATCTTCGATCTACTCCATTGCTACCTCATGGAGATAAGATCTACAATTTTC
66 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTC
16563929 AGC
131 AGC
* * *
16563932 CTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGACTTAAATCTGCTCCCTTGCTACCTCAGAG
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * * *
16563997 AGATAAGATCTGCCGTCCTCGATCTGCTCCATTGCTACTTCATGGAGATAAAATCTACAATCTTC
66 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTC
16564062 AGC
131 AGC
* *
16564065 CTGCTCCACTGTTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGA
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * *
16564130 AGATAAGATCCACCGTCTTCGATCTGCTCTATTGGTACCTCATGGAGATAAGATCT
66 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCT
16564186 GTGAATTCAC
Statistics
Matches: 227, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 227 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (133 bp):
CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTC
AGC
Found at i:16570154 original size:3 final size:3
Alignment explanation
Indices: 16570148--16570189 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16570138 AGTAATAATA
16570148 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
16570190 TAAGTAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:16570331 original size:17 final size:17
Alignment explanation
Indices: 16570311--16570352 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16570301 GGTAGAAAAG
*
16570311 ATAATAATAAT-GTATTA
1 ATAATAATAATAATA-TA
*
16570328 ATAAGAATAATAATATA
1 ATAATAATAATAATATA
16570345 ATAATAAT
1 ATAATAAT
16570353 TATGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATATA
Found at i:16570336 original size:20 final size:20
Alignment explanation
Indices: 16570313--16570351 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16570303 TAGAAAAGAT
* *
16570313 AATAATAATGTATTAATAAG
1 AATAATAATATAATAATAAG
16570333 AATAATAATATAATAATAA
1 AATAATAATATAATAATAA
16570352 TTATGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAATAATATAATAATAAG
Found at i:16576748 original size:22 final size:22
Alignment explanation
Indices: 16576723--16576765 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16576713 AAACATGTCA
*
16576723 AATTAAATTCTTGTTACAGTAT
1 AATTAAATTCATGTTACAGTAT
* *
16576745 AATTAATTTCATGTTAGAGTA
1 AATTAAATTCATGTTACAGTA
16576766 CATAAATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
AATTAAATTCATGTTACAGTAT
Found at i:16576943 original size:21 final size:20
Alignment explanation
Indices: 16576913--16576954 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16576903 TTTATATATT
*
16576913 TTTTAGAATTTCTTTTAGAAA
1 TTTTAGAATTT-TTTTAAAAA
*
16576934 TTTTATAATTTTTTTAAAAA
1 TTTTAGAATTTTTTTAAAAA
16576954 T
1 T
16576955 ATAAATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTTTTAAAAA
Found at i:16577373 original size:25 final size:26
Alignment explanation
Indices: 16577337--16577391 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
16577327 AGTATTTATT
* * *
16577337 AATTTTTCATATTT-TTTGAATTTTA
1 AATTTTTAATATTTGTATAAATTTTA
16577362 AATTTTTAATATTTGTATAAATTTTA
1 AATTTTTAATATTTGTATAAATTTTA
16577388 AATT
1 AATT
16577392 ATTATTGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
AATTTTTAATATTTGTATAAATTTTA
Found at i:16578853 original size:40 final size:40
Alignment explanation
Indices: 16578808--16578887 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
16578798 GATTAATGAT
16578808 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
1 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
*
16578848 TAATCTGATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
1 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
16578888 CTACTGCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.53
Consensus pattern (40 bp):
TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
Found at i:16589415 original size:21 final size:21
Alignment explanation
Indices: 16589389--16589429 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16589379 ATCTGCTCAA
* *
16589389 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16589410 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16589430 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16594273 original size:13 final size:13
Alignment explanation
Indices: 16594238--16594275 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
16594228 ACCTATTAAG
16594238 ATATAATTAAAAA
1 ATATAATTAAAAA
16594251 AT-T-ATGTAAAAA
1 ATATAAT-TAAAAA
16594263 ATATAATTAAAAA
1 ATATAATTAAAAA
16594276 TTATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.09
12 9 0.41
13 9 0.41
14 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
ATATAATTAAAAA
Found at i:16599659 original size:16 final size:15
Alignment explanation
Indices: 16599632--16599698 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 15
16599622 TATCATTTCA
16599632 ATATATAATTTAAAT
1 ATATATAATTTAAAT
16599647 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
16599663 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
16599676 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
16599691 A-ATATAAT
1 ATATATAAT
16599699 AATATAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 11 0.25
15 10 0.23
16 14 0.32
17 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:16599676 original size:11 final size:11
Alignment explanation
Indices: 16599660--16599702 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
16599650 TATAAATTTA
16599660 AATATATTAAT
1 AATATATTAAT
*
16599671 AATATATAAAT
1 AATATATTAAT
16599682 -A-ATATTAAT
1 AATATATTAAT
*
16599691 AATATAATAAT
1 AATATATTAAT
16599702 A
1 A
16599703 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:16599688 original size:20 final size:19
Alignment explanation
Indices: 16599642--16599696 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
16599632 ATATATAATT
*
16599642 TAAATATA-T-ATAA-ATT
1 TAAATATATTAATAATATA
16599658 TAAATATATTAATAATATA
1 TAAATATATTAATAATATA
16599677 TAAATAATATTAATAATATA
1 TAAAT-ATATTAATAATATA
16599697 ATAATATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 4 0.12
19 7 0.21
20 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATATTAATAATATA
Found at i:16603891 original size:271 final size:271
Alignment explanation
Indices: 16603408--16603960 Score: 989
Period size: 271 Copynumber: 2.0 Consensus size: 271
16603398 CTGCAGCAGT
*
16603408 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAGTTAAACCA
1 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
*
16603473 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTTCTTAAAGAATA
66 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
*
16603538 TAGAAGAAACAATAACATTTTTAGTAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
131 TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
*
16603603 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAGAAGGCTCTA
196 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
16603668 AAAATGTTTCA
261 AAAATGTTTCA
* **
16603679 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAGAAGTGGAGACATTATACAGAAATTATGCCA
1 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
*
16603744 AAAACTATTTCATACATTCAATAAGAAATTTCACAACATTTTTATTGAAGACTGCTTAAAGAATA
66 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
* * * *
16603809 TAGAAGAAACGATACCATTTTTAGCAACGAAATACAGAGACGATAATAACAAGCACAAGGATGCT
131 TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
16603874 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
196 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
16603939 AAAATGTTTCA
261 AAAATGTTTCA
*
16603950 AGCACTAGAAC
1 AGCACTTGAAC
16603961 CTCCAAAAAT
Statistics
Matches: 269, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
271 269 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (271 bp):
AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
AAAATGTTTCA
Found at i:16607084 original size:66 final size:66
Alignment explanation
Indices: 16606978--16607121 Score: 279
Period size: 66 Copynumber: 2.2 Consensus size: 66
16606968 ACTCAGTTAG
16606978 TCACCCAACTTTAAGGTGCTTTCATTTTGGTCACTTAAAAAGGAAAAGGAAATTTTTACAATTTT
1 TCACCCAACTTTAAGGTGCTTTCATTTTGGTCACTTAAAAAGGAAAAGGAAATTTTTACAATTTT
16607043 A
66 A
16607044 TCACCCAACTTTAAGGTGCTTTCATTTTGGTCACTTAAAAAGGAAAAGGAAATTTTTACAATTTT
1 TCACCCAACTTTAAGGTGCTTTCATTTTGGTCACTTAAAAAGGAAAAGGAAATTTTTACAATTTT
16607109 A
66 A
*
16607110 TCATCCAACTTT
1 TCACCCAACTTT
16607122 TAGGCTACTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (66 bp):
TCACCCAACTTTAAGGTGCTTTCATTTTGGTCACTTAAAAAGGAAAAGGAAATTTTTACAATTTT
A
Found at i:16609359 original size:29 final size:25
Alignment explanation
Indices: 16609287--16609352 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
16609277 ATTTGGCTTT
*
16609287 CATGAGCTTCCCTATTAA-TGGCTCG
1 CATGAGCTTCCCGA-TAATTGGCTCG
16609312 CATGAGCTTCCCGATAATTGGCTCG
1 CATGAGCTTCCCGATAATTGGCTCG
*
16609337 CATGAGCTTTCCGATA
1 CATGAGCTTCCCGATA
16609353 TATAATTCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (25 bp):
CATGAGCTTCCCGATAATTGGCTCG
Found at i:16611145 original size:21 final size:21
Alignment explanation
Indices: 16611119--16611201 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
16611109 TGATCAGTAT
*
16611119 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
16611140 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
16611161 ATGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
16611183 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
16611202 GATAGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:16611599 original size:15 final size:15
Alignment explanation
Indices: 16611574--16611631 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
16611564 TCATATATAT
16611574 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
16611590 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
16611605 AATAATTTCAATCAA
1 TATAAATTCAATCAA
16611620 TATAAATTCAAT
1 TATAAATTCAAT
16611632 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:16612910 original size:5 final size:5
Alignment explanation
Indices: 16612897--16612938 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
16612887 TTCTTTAGTT
16612897 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
16612939 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:16612974 original size:8 final size:8
Alignment explanation
Indices: 16612961--16612989 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
16612951 TATCTTTATT
16612961 ATATAATA
1 ATATAATA
16612969 ATATAATA
1 ATATAATA
16612977 ATATAATA
1 ATATAATA
16612985 ATATA
1 ATATA
16612990 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:16618571 original size:32 final size:32
Alignment explanation
Indices: 16618530--16618594 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
16618520 ATATGGAACT
16618530 TACTATAATATTTTATATTATGTTGAATTGTA
1 TACTATAATATTTTATATTATGTTGAATTGTA
16618562 TACTATAATATTTTATATTATGTTGAATTGTA
1 TACTATAATATTTTATATTATGTTGAATTGTA
16618594 T
1 T
16618595 GATCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (32 bp):
TACTATAATATTTTATATTATGTTGAATTGTA
Found at i:16637585 original size:20 final size:21
Alignment explanation
Indices: 16637552--16637593 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
16637542 AAAAAATTCT
16637552 AAAAATACAGAAAATTCATAA
1 AAAAATACAGAAAATTCATAA
* *
16637573 AAAAATTCA-AAAATTGATAA
1 AAAAATACAGAAAATTCATAA
16637593 A
1 A
16637594 GTGAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAATACAGAAAATTCATAA
Found at i:16639697 original size:18 final size:18
Alignment explanation
Indices: 16639674--16639711 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
16639664 GTTTGATGCC
16639674 TTAAAACTAGCATCAAAA
1 TTAAAACTAGCATCAAAA
16639692 TTAAAACTAGCATCAAAA
1 TTAAAACTAGCATCAAAA
16639710 TT
1 TT
16639712 GACCTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (18 bp):
TTAAAACTAGCATCAAAA
Found at i:16653053 original size:21 final size:21
Alignment explanation
Indices: 16653013--16653064 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
16653003 AACAATTAAA
* *
16653013 AATATAAATAAATTAAAAATT
1 AATATAATTAAATTAAAAATC
16653034 AATATAATTCAAATT-AAAATC
1 AATATAATT-AAATTAAAAATC
16653055 AATA-AATTAA
1 AATATAATTAA
16653065 GCCAATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 17 0.61
22 5 0.18
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATAATTAAATTAAAAATC
Done.