Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 224 of 228
Found at i:66248796 original size:20 final size:19
Alignment explanation
Indices: 66248757--66248802 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
66248747 GTAAACTTAT
* *
66248757 TAATAATTTAGTGATATTA
1 TAATAATTTACTCATATTA
*
66248776 TATATAATTTACTCATTTTA
1 TA-ATAATTTACTCATATTA
66248796 TAATAAT
1 TAATAAT
66248803 GAAACCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (19 bp):
TAATAATTTACTCATATTA
Found at i:66252633 original size:29 final size:29
Alignment explanation
Indices: 66252591--66252648 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
66252581 ATTGAGTTTT
66252591 AATTCTATTGGCATTGGTACTATTGCCAA
1 AATTCTATTGGCATTGGTACTATTGCCAA
66252620 AATTCTATTGGCATTGGTACTATTGCCAA
1 AATTCTATTGGCATTGGTACTATTGCCAA
66252649 TATAGGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (29 bp):
AATTCTATTGGCATTGGTACTATTGCCAA
Found at i:66258611 original size:21 final size:22
Alignment explanation
Indices: 66258586--66258634 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
66258576 TAAAAGAAGT
* *
66258586 TATTTAGTTATTTTATTA-TTAA
1 TATTTA-TTAATTTAGTATTTAA
66258608 -ATTTATTAATTTAGTATTTAA
1 TATTTATTAATTTAGTATTTAA
66258629 TATTTA
1 TATTTA
66258635 AAATAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.39
21 9 0.39
22 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTATTAATTTAGTATTTAA
Found at i:66271463 original size:177 final size:179
Alignment explanation
Indices: 66271232--66271555 Score: 474
Period size: 177 Copynumber: 1.8 Consensus size: 179
66271222 TGTTGAATGT
* * * *
66271232 ATGCATGCATGCATATATACATACATGTACATGAAAATCAAGATGAGAGGAACTTT-A-AA-GCA
1 ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTTAACAAGGCA
* * *
66271294 AACATCAAAAGTACATCAACATGTTGTATCACGCAAGCAAAGCAAGGGTTGTTTTACAAACTCTA
66 AACATCAAAAGTACATCAACACGATGTATCACGCAAGC-AAGCAAGGGATGTTTTACAAACTCTA
*
66271359 GTTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
130 ATTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
* * * *
66271409 ATGCATACATACATAGATCCATACATATACATGAAAATGAGGATTAGAGGAACTTTAAAGCAAGG
1 ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTT-AA-CAAGG
* *
66271474 CAAACATCAAAAGTACATCAACACGATGTATCATGCAAGCAAGCAAGGGATGTTTTACAAATTCT
64 CAAACATCAAAAGTACATCAACACGATGTATCACGCAAGCAAGCAAGGGATGTTTTACAAACTCT
66271539 AATTTGGAGAATGCATA
129 AATTTGGAGAATGCATA
66271556 CATACATGCA
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
177 48 0.38
179 1 0.01
181 41 0.32
182 38 0.30
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (179 bp):
ATGCATACATACATAGATACATACATATACATGAAAATCAAGATGAGAGGAACTTTAACAAGGCA
AACATCAAAAGTACATCAACACGATGTATCACGCAAGCAAGCAAGGGATGTTTTACAAACTCTAA
TTTGGAGAATGCATATCCTCATCCATCTATGCATGCATGATACATGCAC
Found at i:66271588 original size:148 final size:150
Alignment explanation
Indices: 66271420--66271705 Score: 470
Period size: 148 Copynumber: 1.9 Consensus size: 150
66271410 TGCATACATA
* * *
66271420 CATAGATCCATACATATACATGAAAATGAGGATTAGAGGAACTTTAAAGCAAGGCAAACATCAAA
1 CATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAA
*
66271485 AGTACATCAACACGAT-GTATCATGCAAGC-AAGCAAGGG-ATGTTTTACAAATTCTAATTTGGA
66 AGTACATCAACACG-TGGTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATTTGGA
66271547 GAATGCATACATACATGCATG
130 GAATGCATACATACATGCATG
*
66271568 CATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCGAA
1 CATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAA
* * *
66271633 AGTACATCAACATGTGGTATCATGCAAACAAAGCAAGGGTTTTTTTTACAAATTCTAATTTGGAG
66 AGTACATCAACACGTGGTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATTTGGAG
66271698 AATGCATA
131 AATGCATA
66271706 TCCATCCATC
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
147 1 0.01
148 86 0.68
149 9 0.07
150 31 0.24
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (150 bp):
CATAGATACATACATATACATGAAAATGAAGATGAGAGGAACTTTAAAGCAAGGCAAACATCAAA
AGTACATCAACACGTGGTATCATGCAAACAAAGCAAGGGTATGTTTTACAAATTCTAATTTGGAG
AATGCATACATACATGCATG
Found at i:66273406 original size:145 final size:144
Alignment explanation
Indices: 66273058--66273652 Score: 592
Period size: 145 Copynumber: 4.1 Consensus size: 144
66273048 GTTATGTTAG
* ** *
66273058 AACCCGAAAAACTTCATTACATACACCGAA-AAAGTTCATCAACCAAATCTATCATGTGAAA-AA
1 AACCCG-AAAACTTCATTACATACACCAAACAAAGTTCATCAACTGAATCTATCACGT-AAACAA
* ** ** * * * *
66273121 CTCGTGTTCACAGAGGCTAGAACAATCGTGTTTGGGTTAAAGCAACATTTGATTACACAGTCT--
64 CTC-TGTTCAAAGAACCTAGAATGATCGTGTTCGAGTTAAAGAAACATTTGATAACACAGTCTAA
* *
66273184 --AAGAGCTATTGAACA
128 CCAAGAGCTACTGAACT
* ** ** *
66273199 AACCCAAAAACTTCATTACATACACCAAACTGAGTTCATCAACCAAATCTATCACGTGAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGAATCTATCACGTAAACAACT
* *
66273264 CTAGTTCAAAGAACCTAGAATGACCATGTTCGAGTTAAAGAAACATTTGATAACACAGTCTAACC
66 CT-GTTCAAAGAACCTAGAATGATCGTGTTCGAGTTAAAGAAACATTTGATAACACAGTCTAACC
* *
66273329 AAAAGCTACTTAACT
130 AAGAGCTACTGAACT
* * * **
66273344 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCAACAACTGGATGTATCACACAAACAACT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGAATCTATCACGTAAACAACT
* * * * ** * *
66273409 CTTTTTCATACAGCCTAGAGCGATTGTGTTCGAGTTAAAGCAACATTTGATTAA-ACAGTCTAAC
66 C-TGTTCAAAGAACCTAGAATGATCGTGTTCGAGTTAAAGAAACATTTGA-TAACACAGTCTAAC
66273473 CAAGAGCTACTGAACT
129 CAAGAGCTACTGAACT
* * * *
66273489 AACCCGGAAACTTCATTACATACACCAAACAAAGTTCATTAATTGAATCTATCACGTAAACAAGT
1 AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGAATCTATCACGTAAACAACT
* * * *
66273554 CCTGTTCGAAGAACCTAGAATGATCGTGTTTGAGTTAATGCTTTGAGAAACATTTGATTACAGAG
66 -CTGTTCAAAGAACCTAGAATGATCGTGTTCGAGTTAA-------AGAAACATTTGATAACACAG
*
66273619 TCTAACCAAGAGCTAATGAACT
123 TCTAACCAAGAGCTACTGAACT
66273641 AACCCGAAAACT
1 AACCCGAAAACT
66273653 ATTAACTAAA
Statistics
Matches: 369, Mismatches: 67, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
140 25 0.07
141 81 0.22
145 210 0.57
146 5 0.01
151 2 0.01
152 46 0.12
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (144 bp):
AACCCGAAAACTTCATTACATACACCAAACAAAGTTCATCAACTGAATCTATCACGTAAACAACT
CTGTTCAAAGAACCTAGAATGATCGTGTTCGAGTTAAAGAAACATTTGATAACACAGTCTAACCA
AGAGCTACTGAACT
Found at i:66284817 original size:4 final size:4
Alignment explanation
Indices: 66284810--66284855 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
66284800 CTAAGGTAGG
* * * *
66284810 TACA TACA TACA TACA TGCA TGCA TGCA TGCA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
66284856 TCCATGAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:66287207 original size:29 final size:30
Alignment explanation
Indices: 66287169--66287225 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
66287159 TGATATAACC
* **
66287169 TTAATAGTTTGAGGATGTATTTAGAATGTT
1 TTAATAGTTTGAGAATCAATTTAGAATGTT
66287199 TTAA-AGTTTGAGAATCAATTTAGAATG
1 TTAATAGTTTGAGAATCAATTTAGAATG
66287226 ATGATATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (30 bp):
TTAATAGTTTGAGAATCAATTTAGAATGTT
Found at i:66287251 original size:60 final size:61
Alignment explanation
Indices: 66287173--66287304 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 61
66287163 ATAACCTTAA
* * ** *
66287173 TAGTTT-GAGGATGTATTTAGAATGTTTTAAAGTTT-GAGAATCAATTTAGAATGATGATAT
1 TAGTTTAGAGGATATATTTAAAACATTTTAAAGTTTGGA-AATCAATTTAGAATCATGATAT
* *
66287233 TAGTTTAGA-GATATATTTAAAACATTTTAAAGTTTGGAAATCAATTTGGACTCATGATAT
1 TAGTTTAGAGGATATATTTAAAACATTTTAAAGTTTGGAAATCAATTTAGAATCATGATAT
*
66287293 TAATTTAG-GGAT
1 TAGTTTAGAGGAT
66287305 GTCTAATGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 57 0.93
61 4 0.07
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (61 bp):
TAGTTTAGAGGATATATTTAAAACATTTTAAAGTTTGGAAATCAATTTAGAATCATGATAT
Found at i:66287775 original size:20 final size:21
Alignment explanation
Indices: 66287732--66287778 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
66287722 TCAAGTCGCG
*
66287732 TACGGTTCGAAGAATGAGATTA
1 TACGGTTCGAAGAA-GACATTA
66287754 TACGGTTCGAAGAA-ACATTA
1 TACGGTTCGAAGAAGACATTA
66287774 TACGG
1 TACGG
66287779 ATCCTCGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
22 14 0.58
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (21 bp):
TACGGTTCGAAGAAGACATTA
Found at i:66299589 original size:3 final size:3
Alignment explanation
Indices: 66299581--66299639 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
66299571 CTTGTTCTCA
*
66299581 TCT TCT TCT TCT TCT TCT TCT TCT TCG TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
66299629 TCT TCT TCT TC
1 TCT TCT TCT TC
66299640 ACTTTATTGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:66301441 original size:130 final size:130
Alignment explanation
Indices: 66301149--66301503 Score: 452
Period size: 130 Copynumber: 2.8 Consensus size: 130
66301139 TGCTGTTCGT
* * * * * *
66301149 GGTGCTACCCTCATAAACCACGTCGTAAATT-GAGTTATGATATGTATATGGCAGTGATTTGTTT
1 GGTGCTACTCTCATAATCCACGTCGTAAATTCGAGTTATGATGTGTGTGTGACAGTGATTTGTTT
* * * *
66301213 CTATCAAGGGTATGTGAATTGTACC----ATATATATATACCCAACGTTTAGCCTACTGGTCATA
66 CTATCAAAGGTATGTGAATTGTACCATATATATATATATACACAACATTTAGCCTACTGATCATA
* * * * *
66301274 GATGCTA-TCCTCATAATTCATGTTGTAGATTCGAGTTATGATGTGTGTGTGACAGTGATTTGTT
1 GGTGCTACT-CTCATAATCCACGTCGTAAATTCGAGTTATGATGTGTGTGTGACAGTGATTTGTT
* * *
66301338 TCTATCAAAGGTATGTGAATTATACCATATATATATATATATAGAACATTTAGCCTACTGATCAT
65 TCTATCAAAGGTATGTGAATTGTACCATATATATATATATACACAACATTTAGCCTACTGATCAT
66301403 A
130 A
* * *
66301404 GGTGCTACTCTCATAATCCACGTCCTAAATTCAAGTTATGATGTGTGTGTGACAGTGATTTATTT
1 GGTGCTACTCTCATAATCCACGTCGTAAATTCGAGTTATGATGTGTGTGTGACAGTGATTTGTTT
* *
66301469 CTATCAAAGATGTGTGAATTGTACCATATATATAT
66 CTATCAAAGGTATGTGAATTGTACCATATATATAT
66301504 CTGACTATTA
Statistics
Matches: 194, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
125 23 0.12
126 52 0.27
130 118 0.61
131 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (130 bp):
GGTGCTACTCTCATAATCCACGTCGTAAATTCGAGTTATGATGTGTGTGTGACAGTGATTTGTTT
CTATCAAAGGTATGTGAATTGTACCATATATATATATATACACAACATTTAGCCTACTGATCATA
Found at i:66303178 original size:27 final size:26
Alignment explanation
Indices: 66303117--66303178 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
66303107 CATTTTGGAT
66303117 TTTTTAATTAATTTTATATAAAAATA
1 TTTTTAATTAATTTTATATAAAAATA
* *
66303143 TTATATAATTTATTTTATA-AAAGAATGA
1 TT-TTTAATTAATTTTATATAAA-AAT-A
66303171 TTTTTAAT
1 TTTTTAAT
66303179 CATTACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 5 0.17
27 22 0.73
28 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTTTAATTAATTTTATATAAAAATA
Found at i:66305047 original size:159 final size:159
Alignment explanation
Indices: 66304666--66305088 Score: 573
Period size: 159 Copynumber: 2.7 Consensus size: 159
66304656 AAAATTCAGT
* *
66304666 TTAAAATTCTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTTTGATTGATGAAATTTTAGCTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
** * * *
66304731 GAATTACTTTAATCAGGTTTATTGTGTTGCAAGTAAACTT-CAGGTAAAAAAATTTCTTCAATGT
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAAAAAATTTCTTCAATAT
** * *
66304795 TTAACAATGGTTGCTTTGATGAATTTTGT
131 CAAACAATGGTTGCTTTGATGAATTTAGA
* * * *
66304824 TTGAAATTG-GGG-TTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGGACTTTTAACTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
* ***** *
66304887 GGGTTACTTTAATCAGGTTTCTTGTGTCGCAAGTAAACTTGTAGGTAATTTTTTTTCTTTAATAT
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAAAAAATTTCTTCAATAT
66304952 CAAACAATGGTTGCTTTGATGAATTTAGA
131 CAAACAATGGTTGCTTTGATGAATTTAGA
* * *
66304981 TTAAAATTGTGGGTTTTTCTTATCTTTCATGTTGGTCATTGTCTGATTGATGAAATTTTGGCTTA
1 TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
* * *
66305046 GGGTTACTCTAATTAGGTTTCTTGTTTTGCAAGTAAACTTGTA
66 GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTA
66305089 CTAACAATGG
Statistics
Matches: 229, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
156 83 0.36
157 52 0.23
158 10 0.04
159 84 0.37
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.47
Consensus pattern (159 bp):
TTAAAATTGTGGGTTTTTCTTATTTTTCATGTTGGTGATTGTCTGATTGATGAAATTTTAGCTTA
GGGTTACTTTAATCAGGTTTCTTGTGTTGCAAGTAAACTTGTAGGTAAAAAAATTTCTTCAATAT
CAAACAATGGTTGCTTTGATGAATTTAGA
Found at i:66312645 original size:20 final size:21
Alignment explanation
Indices: 66312616--66312655 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
66312606 TATATTTTAT
*
66312616 TTTATATAAT-ATAATAAATA
1 TTTATATAATCATAAAAAATA
*
66312636 TTTATTTAATCATAAAAAAT
1 TTTATATAATCATAAAAAAT
66312656 TATATATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTATATAATCATAAAAAATA
Found at i:66312662 original size:26 final size:26
Alignment explanation
Indices: 66312603--66312663 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
66312593 AGTAATAATG
* *
66312603 TTATATATTTTATTTTATATAATATAA
1 TTATATA-TTTATTTAATATAATAAAA
*
66312630 -TAAATATTTATTTAATCATAA-AAAA
1 TTATATATTTATTTAAT-ATAATAAAA
66312655 TTATATATT
1 TTATATATT
66312664 GAAATGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATATATTTATTTAATATAATAAAA
Found at i:66328924 original size:22 final size:22
Alignment explanation
Indices: 66328899--66328942 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66328889 TTAAATAGTG
66328899 TGTTAACTCTATCCTTTTTGAA
1 TGTTAACTCTATCCTTTTTGAA
66328921 TGTTAACTCTATCCTTTTTGAA
1 TGTTAACTCTATCCTTTTTGAA
66328943 AACATACAAT
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:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (22 bp):
TGTTAACTCTATCCTTTTTGAA
Found at i:66336501 original size:39 final size:39
Alignment explanation
Indices: 66336447--66336525 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
66336437 GAGATGATTA
*
66336447 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGGATACAGCTTTTAATTG
66336486 TGTAATCTTAGAGTTCTAATTGGATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGGATACAGCTTTTAATTG
66336525 T
1 T
66336526 AGCCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGGATACAGCTTTTAATTG
Found at i:66341595 original size:39 final size:39
Alignment explanation
Indices: 66341541--66341619 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
66341531 GAGATGATTA
*
66341541 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAGTTG
1 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
*
66341580 TGTAATCTTAGAGTTCTAATTGTATACTGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
66341619 T
1 T
66341620 AGCCATTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.48
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
Found at i:66347622 original size:22 final size:22
Alignment explanation
Indices: 66347580--66347622 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
66347570 TTGATGTTGC
* *
66347580 TTGTTGTCATTTTGATGTTATT
1 TTGTTGCCATTTTGATATTATT
*
66347602 TTGTTGCCATTTTGCTATTAT
1 TTGTTGCCATTTTGATATTAT
66347623 ATTGCTACTA
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:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (22 bp):
TTGTTGCCATTTTGATATTATT
Found at i:66349936 original size:19 final size:19
Alignment explanation
Indices: 66349912--66349949 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
66349902 GTTGTAATAA
66349912 AAAAAAGAAA-AATGAGAAG
1 AAAAAAGAAATAA-GAGAAG
66349931 AAAAAAGAAATAAGAGAAG
1 AAAAAAGAAATAAGAGAAG
66349950 CAACGTGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAATAAGAGAAG
Found at i:66351174 original size:38 final size:40
Alignment explanation
Indices: 66351132--66351220 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 40
66351122 AACATTTATA
* * *
66351132 TTTAATATAATATAATATTTATTATATTTAT-TTGTG-TT
1 TTTAATATAATAAAAGATTTATTATATTTATGTAGTGTTT
66351170 TTTAATATAATAAAAGATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAAGATTTATTATATTTAT-GTAGTGTTT
66351211 TTTAATATAA
1 TTTAATATAA
66351221 ATACTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.64
40 4 0.09
41 12 0.27
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (40 bp):
TTTAATATAATAAAAGATTTATTATATTTATGTAGTGTTT
Found at i:66358661 original size:83 final size:83
Alignment explanation
Indices: 66358522--66358684 Score: 317
Period size: 83 Copynumber: 2.0 Consensus size: 83
66358512 CGGCTCTAAG
66358522 TTAGAAATTCAATATGACAAAACCCTAGAGAAATTCAGTTTGTTCTATCTCAGGCATATCACACA
1 TTAGAAATTCAATATGACAAAACCCTAGAGAAATTCAGTTTGTTCTATCTCAGGCATATCACACA
66358587 CGAAACTACCAAGTACCA
66 CGAAACTACCAAGTACCA
*
66358605 TTAGAAATTCAATATGACAAAACCCTAGGGAAATTCAGTTTGTTCTATCTCAGGCATATCACACA
1 TTAGAAATTCAATATGACAAAACCCTAGAGAAATTCAGTTTGTTCTATCTCAGGCATATCACACA
66358670 CGAAACTACCAAGTA
66 CGAAACTACCAAGTA
66358685 ACATCTGCTA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (83 bp):
TTAGAAATTCAATATGACAAAACCCTAGAGAAATTCAGTTTGTTCTATCTCAGGCATATCACACA
CGAAACTACCAAGTACCA
Found at i:66359021 original size:60 final size:62
Alignment explanation
Indices: 66358931--66359103 Score: 215
Period size: 60 Copynumber: 2.7 Consensus size: 62
66358921 ATAAGAAAAT
* * **
66358931 GAATGGCAGGATAGACGTACAAGTTCAAAAACAAAATTGCAACAAAA-AC-CCGACATAATAAA
1 GAATGGCAGG-TAAACATAC-AGTTCAAAAACAAAATTGCAACAAAATACTAAGACATAATAAA
*
66358993 GAATGGCAGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAATTACTAAGAGATAATAAA
1 GAATGGCAGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAA-TACTAAGACATAATAAA
* **
66359056 GAATGACAGGGTACGCATACAGTTCAAAAAGCAAAATTGCAACAAAAT
1 GAATGGCA-GGTAAACATACAGTTCAAAAA-CAAAATTGCAACAAAAT
66359104 TAAGACTACT
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
60 26 0.27
61 7 0.07
62 12 0.12
63 17 0.17
64 20 0.20
65 16 0.16
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (62 bp):
GAATGGCAGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAATACTAAGACATAATAAA
Found at i:66368840 original size:7 final size:7
Alignment explanation
Indices: 66368828--66368852 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66368818 TCTTCACAAG
66368828 TTTAAAA
1 TTTAAAA
66368835 TTTAAAA
1 TTTAAAA
66368842 TTTAAAA
1 TTTAAAA
66368849 TTTA
1 TTTA
66368853 TACTTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:66370624 original size:7 final size:7
Alignment explanation
Indices: 66370598--66370643 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
66370588 TTGCACTTTT
66370598 ATTTTAA
1 ATTTTAA
*
66370605 GTATTTAA
1 AT-TTTAA
66370613 ATTTTTAA
1 A-TTTTAA
*
66370621 TTTTTAA
1 ATTTTAA
66370628 ATTTTAA
1 ATTTTAA
66370635 ATTTTAA
1 ATTTTAA
66370642 AT
1 AT
66370644 CCAATTGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 22 0.67
8 10 0.30
9 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
ATTTTAA
Found at i:66375900 original size:18 final size:18
Alignment explanation
Indices: 66375877--66375912 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66375867 TGTAACTTTT
66375877 TAAAGTAAAAATTAAAAA
1 TAAAGTAAAAATTAAAAA
66375895 TAAAGTAAAAATTAAAAA
1 TAAAGTAAAAATTAAAAA
66375913 AAAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
TAAAGTAAAAATTAAAAA
Found at i:66376686 original size:11 final size:11
Alignment explanation
Indices: 66376672--66376699 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
66376662 TATACGTATT
66376672 TTTATTTAATA
1 TTTATTTAATA
66376683 TTTATTTAATA
1 TTTATTTAATA
66376694 TTTATT
1 TTTATT
66376700 ATTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:66378978 original size:40 final size:40
Alignment explanation
Indices: 66378911--66378987 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
66378901 AAGTCTGCTT
* * *
66378911 ATGTGTGAGCTTGCTTTTTGTTGTAATCTGTGATTTTCTC
1 ATGTGTGAGATTGCTTTGTGTTATAATCTGTGATTTTCTC
*
66378951 ATGTGTGAGATTGGTTTGTGTTATAATCTGTGATTTT
1 ATGTGTGAGATTGCTTTGTGTTATAATCTGTGATTTT
66378988 ATCTTGATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.16, C:0.08, G:0.25, T:0.52
Consensus pattern (40 bp):
ATGTGTGAGATTGCTTTGTGTTATAATCTGTGATTTTCTC
Found at i:66380597 original size:17 final size:17
Alignment explanation
Indices: 66380575--66380609 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
66380565 CTTGTTTTCA
*
66380575 AATATTTCTTATCATAT
1 AATATTTCATATCATAT
66380592 AATATTTCATATCATAT
1 AATATTTCATATCATAT
66380609 A
1 A
66380610 GAGTATTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
AATATTTCATATCATAT
Found at i:66387213 original size:20 final size:20
Alignment explanation
Indices: 66387188--66387237 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66387178 TGGCTTAAAA
66387188 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66387208 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66387225 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66387238 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66391852 original size:20 final size:20
Alignment explanation
Indices: 66391827--66391876 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66391817 TGGCTTAAAA
66391827 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66391847 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66391864 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66391877 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66393674 original size:121 final size:121
Alignment explanation
Indices: 66393460--66393701 Score: 466
Period size: 121 Copynumber: 2.0 Consensus size: 121
66393450 AACTTGAATC
66393460 AAGAGTCAACTAATAACATTGAGGCAAATGCCATGCTCAAAATTGGATCCCTAGCTAAGGAATGA
1 AAGAGTCAACTAATAACATTGAGGCAAATGCCATGCTCAAAATTGGATCCCTAGCTAAGGAATGA
*
66393525 GCAGCGGCATATGGTAGGAAATATGTTGAAAATGGCCAACCATGCTGCTGTTATGT
66 GCAGCGACATATGGTAGGAAATATGTTGAAAATGGCCAACCATGCTGCTGTTATGT
*
66393581 AAGAGTCAACTAATAACATTGAGGCAAATGCCATGCTCAAAATTGGATCCCTAGCTAAGGAATGG
1 AAGAGTCAACTAATAACATTGAGGCAAATGCCATGCTCAAAATTGGATCCCTAGCTAAGGAATGA
66393646 GCAGCGACATATGGTAGGAAATATGTTGAAAATGGCCAACCATGCTGCTGTTATGT
66 GCAGCGACATATGGTAGGAAATATGTTGAAAATGGCCAACCATGCTGCTGTTATGT
66393702 TTTTGTTAAA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (121 bp):
AAGAGTCAACTAATAACATTGAGGCAAATGCCATGCTCAAAATTGGATCCCTAGCTAAGGAATGA
GCAGCGACATATGGTAGGAAATATGTTGAAAATGGCCAACCATGCTGCTGTTATGT
Found at i:66394613 original size:9 final size:9
Alignment explanation
Indices: 66394599--66394632 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
66394589 ATGCAGAGAG
66394599 TGATACAGA
1 TGATACAGA
66394608 TGATACAGA
1 TGATACAGA
*
66394617 TGGTACAGA
1 TGATACAGA
66394626 TGATACA
1 TGATACA
66394633 TATGCTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (9 bp):
TGATACAGA
Found at i:66401938 original size:9 final size:9
Alignment explanation
Indices: 66401903--66401941 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
66401893 CAGAGAGTGA
*
66401903 TACAGATGA
1 TACAGATGC
66401912 TACAGATGC
1 TACAGATGC
66401921 TACAGATGC
1 TACAGATGC
66401930 TACAGATGC
1 TACAGATGC
66401939 TAC
1 TAC
66401942 TGAAAAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (9 bp):
TACAGATGC
Found at i:66411139 original size:45 final size:45
Alignment explanation
Indices: 66411074--66411161 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
66411064 GCAGTAATAG
* *
66411074 TAACAGTATTCAACATACAAAGTG-CTAAATCTGTAACAGTAACGA
1 TAACAGTATTCAACACACAAAGTGTC-AAATCGGTAACAGTAACGA
** *
66411119 TAACAGTATTTGACACACAAAGTGTCGAATCGGTAACAGTAAC
1 TAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAAC
66411162 AGTAGTCGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (45 bp):
TAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAACGA
Found at i:66411409 original size:40 final size:41
Alignment explanation
Indices: 66411365--66411449 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 41
66411355 AATTCATTAC
* * *
66411365 TTCAGTAATTTCACAGTTCAATGCAGTACAC-ATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
* *
66411405 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
66411446 TTCA
1 TTCA
66411450 ATATTCCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 27 0.69
41 12 0.31
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
Found at i:66411430 original size:21 final size:21
Alignment explanation
Indices: 66411365--66411432 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
66411355 AATTCATTAC
* *
66411365 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
66411386 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
66411405 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
66411426 TTCAGTA
1 TTCAGTA
66411433 CTCAAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:66412289 original size:30 final size:29
Alignment explanation
Indices: 66412255--66412311 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
66412245 TTATCAAATA
66412255 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
66412285 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
66412312 GAAAATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:66412435 original size:17 final size:16
Alignment explanation
Indices: 66412404--66412447 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
66412394 GATTTATTTA
66412404 ATAATATAATATCATT
1 ATAATATAATATCATT
*
66412420 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
66412437 AATTATATAAT
1 -ATAATATAAT
66412448 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:66414866 original size:6 final size:6
Alignment explanation
Indices: 66414855--66414879 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
66414845 CTCTTCTTTC
66414855 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
66414880 CTTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:66414872 original size:16 final size:16
Alignment explanation
Indices: 66414846--66414885 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
66414836 GCCTTGCGTC
66414846 TCTTCTTTCTTTCTT-TT
1 TCTT-TTTCTTT-TTCTT
66414863 TCTTTTTCTTTTTCTT
1 TCTTTTTCTTTTTCTT
66414879 TCTTTTT
1 TCTTTTT
66414886 AATTTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TCTTTTTCTTTTTCTT
Found at i:66414878 original size:22 final size:23
Alignment explanation
Indices: 66414846--66414894 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
66414836 GCCTTGCGTC
**
66414846 TCTTCTTTCTTTCTTTTTCTTTT
1 TCTTCTTTCTTTCTTTTTAATTT
66414869 TCTT-TTTCTTTCTTTTTAATTT
1 TCTTCTTTCTTTCTTTTTAATTT
66414891 TCTT
1 TCTT
66414895 GGCTTTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (23 bp):
TCTTCTTTCTTTCTTTTTAATTT
Found at i:66414891 original size:16 final size:16
Alignment explanation
Indices: 66414861--66414894 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66414851 TTTCTTTCTT
**
66414861 TTTCTTTTTCTTTTTC
1 TTTCTTTTTAATTTTC
66414877 TTTCTTTTTAATTTTC
1 TTTCTTTTTAATTTTC
66414893 TT
1 TT
66414895 GGCTTTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTAATTTTC
Found at i:66414900 original size:21 final size:21
Alignment explanation
Indices: 66414876--66414915 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
66414866 TTTTCTTTTT
*
66414876 CTTTCTTTTTAATTTTCTTGG
1 CTTTCTCTTTAATTTTCTTGG
* *
66414897 CTTTGTCTTTCATTTTCTT
1 CTTTCTCTTTAATTTTCTT
66414916 TTACTTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.68
Consensus pattern (21 bp):
CTTTCTCTTTAATTTTCTTGG
Found at i:66427538 original size:5 final size:5
Alignment explanation
Indices: 66427528--66427552 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
66427518 GTTAAGAAAA
66427528 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
66427553 GAATGAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:66431690 original size:125 final size:125
Alignment explanation
Indices: 66431535--66431787 Score: 443
Period size: 125 Copynumber: 2.0 Consensus size: 125
66431525 GCTATTATGA
* * *
66431535 AGGGAATGAAGATGGCAGTGATCGGTGTAAGAAAAACAGATGAGGAAACAGAGAGTCAAGAGGGA
1 AGGGAATGAAGATGGCAGTGATCGGCGTAAGAAAAACAGATGAGAAAACAGAAAGTCAAGAGGGA
* *
66431600 ATTAATGGCAGATCTTTGGAAAGGCCATTATGCTTGGAATTTTAGCTATTCAGAAAAGAG
66 ATTAATGGCAGATCTTTGGAAAGGCCATTATGCTTGGAATTTTAGCTATACAAAAAAGAG
* *
66431660 AGGGAATGAAGATGGCAGTGATCGGCGTAAGAAAAGCAGATGAGAAAATAGAAAGTCAAGAGGGA
1 AGGGAATGAAGATGGCAGTGATCGGCGTAAGAAAAACAGATGAGAAAACAGAAAGTCAAGAGGGA
66431725 ATTAATGGCAGATCTTTGGAAAGGCCATTATGCTTGGAATTTTAGCTATACAAAAAAGAG
66 ATTAATGGCAGATCTTTGGAAAGGCCATTATGCTTGGAATTTTAGCTATACAAAAAAGAG
66431785 AGG
1 AGG
66431788 AATAAGTAAG
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (125 bp):
AGGGAATGAAGATGGCAGTGATCGGCGTAAGAAAAACAGATGAGAAAACAGAAAGTCAAGAGGGA
ATTAATGGCAGATCTTTGGAAAGGCCATTATGCTTGGAATTTTAGCTATACAAAAAAGAG
Found at i:66433703 original size:141 final size:141
Alignment explanation
Indices: 66433534--66433816 Score: 514
Period size: 144 Copynumber: 2.0 Consensus size: 141
66433524 CATTGGAAGA
*
66433534 CCTTGACTTGGAATTAACACCCATCATCATCATCATG-GTCATTTGGAACAAGTTTTCTTGTTGG
1 CCTTGACTTGGAATTAACACCCATCATCATCATCATGAATCATTTGGAACAAGTTTTCTTGTTGG
66433598 TCAAAACTCCCTTTTAATACTCTTTCATGCCTTCTTCTTCATCAAAGTCCACATCACCAGAAGGC
66 TCAAAACTCCCTTTTAATACTCTTTCATGCCTTCTTCTTCATCAAAGTCCACATCACCAGAAGGC
66433663 TAATACATAGG
131 TAATACATAGG
66433674 CCTTGACTTGGAAATTAACACCCATCATCATCATCATGATCATCATTTGGAACAAGTTTTCTTGT
1 CCTTGACTTGG-AATTAACACCCATCATCATCATCATGA--ATCATTTGGAACAAGTTTTCTTGT
*
66433739 TGGTCAAAACTCCCTTTTAATAGTCTTTCATGCCTTCTTCTTCATCAAAGTCCACATCACCAGAA
63 TGGTCAAAACTCCCTTTTAATACTCTTTCATGCCTTCTTCTTCATCAAAGTCCACATCACCAGAA
66433804 GGCTAATACATAG
128 GGCTAATACATAG
66433817 ACTTAAGGCA
Statistics
Matches: 137, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
140 11 0.08
141 26 0.19
144 100 0.73
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (141 bp):
CCTTGACTTGGAATTAACACCCATCATCATCATCATGAATCATTTGGAACAAGTTTTCTTGTTGG
TCAAAACTCCCTTTTAATACTCTTTCATGCCTTCTTCTTCATCAAAGTCCACATCACCAGAAGGC
TAATACATAGG
Found at i:66448252 original size:189 final size:189
Alignment explanation
Indices: 66447734--66448252 Score: 849
Period size: 189 Copynumber: 2.7 Consensus size: 189
66447724 GTGGTTGCCC
* * *
66447734 AATTGAAGAAGTGTCGTTGCCTTTCGACCCCCTATGTAATCTTCAGCACTTAAAAATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
* *
66447799 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGCAAACTGAATCTTAGTGGATGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
*
66447864 ATGGTCAAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
** *
66447923 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCTTTTAAATATGAGTAGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
* *
66447988 CAGCAGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAACCTGAATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* *
66448053 CTGGTCGAATTTCCAGAAATCCCAGGAAGCTTAATAGAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
*
66448112 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGCGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
* * * * *
66448177 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCTCTTCATTATCTGGATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* *
66448242 AAGATCGAATT
131 ATGGTCGAATT
66448253 ACTCTCAGAG
Statistics
Matches: 304, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 304 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (189 bp):
AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
ATGGTCGAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
Found at i:66452091 original size:9 final size:9
Alignment explanation
Indices: 66452073--66452139 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
66452063 TTTGGTTAAA
66452073 AATTAACCG
1 AATTAACCG
*
66452082 AATTACCCG
1 AATTAACCG
*
66452091 AATTAACCA
1 AATTAACCG
66452100 AATTAACCG
1 AATTAACCG
66452109 AATTAACCG
1 AATTAACCG
*
66452118 AATTACCCG
1 AATTAACCG
*
66452127 AATTACCCG
1 AATTAACCG
66452136 AATT
1 AATT
66452140 GAATTACTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:66452206 original size:17 final size:17
Alignment explanation
Indices: 66452147--66452209 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
66452137 ATTGAATTAC
*
66452147 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
66452164 TACATAAGTCTTTGAACCAC
1 TACATAA---TTAAAAACAT
66452184 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
66452201 TACATAATT
1 TACATAATT
66452210 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 22 0.65
20 12 0.35
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:66452387 original size:38 final size:39
Alignment explanation
Indices: 66452343--66452459 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 39
66452333 ACTTAAGAGT
*
66452343 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
*
66452381 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* * *
66452420 TAGACTTTTGTTTTAGTTTTATTGAGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
66452459 T
1 T
66452460 TGGGTTGGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 27 0.38
39 45 0.62
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:66457838 original size:42 final size:42
Alignment explanation
Indices: 66457790--66457994 Score: 270
Period size: 42 Copynumber: 4.9 Consensus size: 42
66457780 AGCGTTTAAA
*
66457790 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAG
1 AAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
66457833 AAATAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
** *
66457875 AAAAAAACGCCGCTAAAGATCATGTTCTTTAATGGCGTTTA-
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
66457916 AAGAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-G
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * **
66457958 AAGAAAACCGTCGCTAAAGGGCATGTTCTTTAGCGGC
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
66457995 ACTTTATACA
Statistics
Matches: 143, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.01
42 138 0.97
43 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:66457943 original size:126 final size:129
Alignment explanation
Indices: 66457781--66458016 Score: 338
Period size: 126 Copynumber: 1.9 Consensus size: 129
66457771 TATGTTTGCA
* *
66457781 GCGTTTAAAAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTAGAA-ATAAA-CGCC
1 GCGTTTAAAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT-GAAGA-AAACCGCC
*
66457844 GCTAAAGATCATGTTCTTTAGCGGCAC-TTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAAT
64 GCTAAAGAGCATGTTCTTTAGCGGCACTTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAAT
66457908 G
129 G
* *
66457909 GCGTTT-AAAGAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTGAAGAAAACCGTCGC
1 GCGTTTAAAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTGAAGAAAACCGCCGC
* * * *
66457972 TAAAGGGCATGTTCTTTAGCGGCACTTTATACACAAACGCCGCTA
66 TAAAGAGCATGTTCTTTAGCGGCACTTTAGAAAAAAACGCCGCTA
66458017 TAGGGACACG
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
125 6 0.06
126 63 0.66
127 21 0.22
128 6 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (129 bp):
GCGTTTAAAAAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTGAAGAAAACCGCCGC
TAAAGAGCATGTTCTTTAGCGGCACTTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAATG
Found at i:66458507 original size:21 final size:21
Alignment explanation
Indices: 66458428--66458500 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
66458418 TTCTTTTGAA
*
66458428 CCTCTGTTTCTCTCACTGCAG
1 CCTCTGCTTCTCTCACTGCAG
*
66458449 CCTCTGCTTCTCTCACTGTAG
1 CCTCTGCTTCTCTCACTGCAG
*
66458470 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCACTGCAG
66458491 CCTCTGCTTC
1 CCTCTGCTTC
66458501 CCTCGCTACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCACTGCAG
Found at i:66458514 original size:21 final size:21
Alignment explanation
Indices: 66458428--66458516 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
66458418 TTCTTTTGAA
* * * *
66458428 CCTCTGTTTCTCTCACTGCAG
1 CCTCTGCTTCCCTCGCTACAG
* * **
66458449 CCTCTGCTTCTCTCACTGTAG
1 CCTCTGCTTCCCTCGCTACAG
* *
66458470 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTACAG
*
66458491 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTACAG
66458512 CCTCT
1 CCTCT
66458517 ACTTTAAGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.07, C:0.44, G:0.15, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:66458515 original size:42 final size:42
Alignment explanation
Indices: 66458428--66458516 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
66458418 TTCTTTTGAA
* * **
66458428 CCTCTGTTTCTCTCACTGCAGCCTCTGCTTCTCTCACTGTAG
1 CCTCTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCACTACAG
* * *
66458470 CCTCTGCTTCTCTCGCTGCAGCCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCACTACAG
66458512 CCTCT
1 CCTCT
66458517 ACTTTAAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.07, C:0.44, G:0.15, T:0.35
Consensus pattern (42 bp):
CCTCTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCACTACAG
Found at i:66464023 original size:25 final size:25
Alignment explanation
Indices: 66463995--66464482 Score: 205
Period size: 25 Copynumber: 19.3 Consensus size: 25
66463985 TGATATATTT
66463995 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
66464020 TTATATATTATGT-A-TTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
66464043 -TACTGTAAGTAATGTGAGTTATGTAAG
1 TTA-TGT-A-TTATGTAAGTTATGTAAG
* *
66464070 TAATGTATTATGTAAGTTGTGTATA-
1 TTATGTATTATGTAAGTTATGTA-AG
* *
66464095 ATAT-TAATTATGTAAGTTGTGT-A-
1 TTATGT-ATTATGTAAGTTATGTAAG
* * * * *
66464118 TAATGTA--A-GTTATTTAAGTAAA
1 TTATGTATTATGTAAGTTATGTAAG
66464140 TGT-TGTATTATGTAAGTTATGTAAG
1 T-TATGTATTATGTAAGTTATGTAAG
66464165 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
66464192 TTATTTAATTTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
66464219 TTATGTATGTTATGT-A-TTATGTTAG
1 TTATGTA--TTATGTAAGTTATGTAAG
* * * *
66464244 TTATTATGTTATTATATGAGTTATGCAAA
1 ---TTATG-TATTATGTAAGTTATGTAAG
* * *
66464273 TT-TCTATATATGTTTA-TATATTGTATG
1 TTATGTAT-TATG-TAAGT-TA-TGTAAG
* *
66464300 TTA-GTTATTATGTTA-TTATATAAG
1 TTATG-TATTATGTAAGTTATGTAAG
* * *
66464324 TTATGCAAGTTATATAAGTTATTTAAG
1 TTATG-TA-TTATGTAAGTTATGTAAG
*
66464351 TTGTGTAAATGT-TGT-A-TTATGTAAG
1 TTATGT--AT-TATGTAAGTTATGTAAG
* *
66464376 TTATGTATTATGTAAGATATGTACG
1 TTATGTATTATGTAAGTTATGTAAG
* * * * *
66464401 TTGTATTTTATGTAATTTCTGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
*
66464424 TTATGTATGTTATGTAAGTTGTGT-AG
1 TTATGTA--TTATGTAAGTTATGTAAG
* *
66464450 -AATGTAAGCTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
66464476 TTATGTA
1 TTATGTA
66464483 AGTGGTGTAT
Statistics
Matches: 351, Mismatches: 66, Indels: 91
0.69 0.13 0.18
Matches are distributed among these distances:
20 7 0.02
21 2 0.01
22 8 0.02
23 24 0.07
24 17 0.05
25 147 0.42
26 27 0.08
27 99 0.28
28 12 0.03
29 8 0.02
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:66464241 original size:12 final size:13
Alignment explanation
Indices: 66464218--66464255 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
66464208 AGTTATGTAA
66464218 GTTATGTATGTTAT
1 GTTAT-TATGTTAT
66464232 G-TATTATGTTA-
1 GTTATTATGTTAT
66464243 GTTATTATGTTAT
1 GTTATTATGTTAT
66464256 TATATGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 17 0.77
13 3 0.14
14 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (13 bp):
GTTATTATGTTAT
Found at i:66464382 original size:16 final size:17
Alignment explanation
Indices: 66464315--66464522 Score: 94
Period size: 16 Copynumber: 12.2 Consensus size: 17
66464305 TATTATGTTA
* *
66464315 TTATATAAGTTATGCAAG
1 TTATGTAAGTTATG-TAG
* *
66464333 TTATATAAGTTATTTAAG
1 TTATGTAAGTTATGT-AG
* *
66464351 TTGTGTAAATGT-TGTA-
1 TTATGTAAGT-TATGTAG
66464367 TTATGTAAGTTATGTA-
1 TTATGTAAGTTATGTAG
*
66464383 TTATGTAAGATATGTACG
1 TTATGTAAGTTATGTA-G
** *
66464401 -T-TGTATTTTATGTAAT
1 TTATGTAAGTTATGT-AG
*
66464417 TTCTGT-A-TTATGTATG
1 TTATGTAAGTTATGTA-G
*
66464433 TTATGTAAGTTGTGTAG
1 TTATGTAAGTTATGTAG
* *
66464450 -AATGTAAGCTATGTAAG
1 TTATGTAAGTTATGT-AG
66464467 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
**
66464485 TGGTGT-A-TTATGTAAG
1 TTATGTAAGTTATGT-AG
* *
66464501 TTGTGCAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
66464519 TTAT
1 TTAT
66464523 TATGTAAGTT
Statistics
Matches: 148, Mismatches: 27, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
15 2 0.01
16 71 0.48
17 10 0.07
18 64 0.43
19 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:66464480 original size:43 final size:43
Alignment explanation
Indices: 66464424--66464522 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
66464414 AATTTCTGTA
* * *
66464424 TTATGTATGTTATGTAAGTTGTGTAGAATGTAAGCTATGTAAG
1 TTATGTAAGTTATGTAAGTGGTGTAGAATGTAAGCTATGCAAG
** * *
66464467 TTATGTAAGTTATGTAAGTGGTGTATTATGTAAGTTGTGCAAG
1 TTATGTAAGTTATGTAAGTGGTGTAGAATGTAAGCTATGCAAG
66464510 TTATGTAAGTTAT
1 TTATGTAAGTTAT
66464523 TATGTAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.43
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTGGTGTAGAATGTAAGCTATGCAAG
Found at i:66464497 original size:34 final size:31
Alignment explanation
Indices: 66464422--66464544 Score: 113
Period size: 34 Copynumber: 3.8 Consensus size: 31
66464412 GTAATTTCTG
* * *
66464422 TATTATGTATGTTATGTAAGTTGTGTAGAATGT
1 TATTATGTAAGTTATGCAAGTTATGT--AATGT
* * *
66464455 AAGCTATGTAAGTTATGTAAGTTATGTAAGTGGT
1 TA-TTATGTAAGTTATGCAAGTTATGTAA-T-GT
*
66464489 GTATTATGTAAGTTGTGCAAGTTATGTAA-GT
1 -TATTATGTAAGTTATGCAAGTTATGTAATGT
66464520 TATTATGTAAGTTATGCAAGCTTAT
1 TATTATGTAAGTTATGCAAG-TTAT
66464545 ATATAAGCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
30 19 0.25
31 6 0.08
32 2 0.03
33 2 0.03
34 46 0.61
35 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (31 bp):
TATTATGTAAGTTATGCAAGTTATGTAATGT
Found at i:66464516 original size:25 final size:25
Alignment explanation
Indices: 66464467--66464539 Score: 65
Period size: 30 Copynumber: 2.7 Consensus size: 25
66464457 GCTATGTAAG
* *
66464467 TTATGTAAGTTATGTAAGTGGTGTA
1 TTATGTAAGTTATGCAAGTGATGTA
* *
66464492 TTATGTAAGTTGTGCAAGTTATGTAAGTTA
1 TTATGTAAGTTATGCAAG---TG-ATG-TA
66464522 TTATGTAAGTTATGCAAG
1 TTATGTAAGTTATGCAAG
66464540 CTTATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 16 0.42
28 2 0.05
29 1 0.03
30 19 0.50
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (25 bp):
TTATGTAAGTTATGCAAGTGATGTA
Found at i:66464527 original size:12 final size:12
Alignment explanation
Indices: 66464510--66464534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66464500 GTTGTGCAAG
66464510 TTATGTAAGTTA
1 TTATGTAAGTTA
66464522 TTATGTAAGTTA
1 TTATGTAAGTTA
66464534 T
1 T
66464535 GCAAGCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:66464535 original size:9 final size:9
Alignment explanation
Indices: 66464002--66464522 Score: 277
Period size: 9 Copynumber: 60.4 Consensus size: 9
66463992 TTTTTATGTA
66464002 TTATGTAAG
1 TTATGTAAG
66464011 TTATGTAAG
1 TTATGTAAG
*
66464020 TTATAT-A-
1 TTATGTAAG
66464027 TTATGT-A-
1 TTATGTAAG
66464034 TTATGTAAG
1 TTATGTAAG
66464043 -TACTGTAAG
1 TTA-TGTAAG
* *
66464052 TAATGTGAG
1 TTATGTAAG
66464061 TTATGTAAG
1 TTATGTAAG
*
66464070 TAATGT-A-
1 TTATGTAAG
66464077 TTATGTAAG
1 TTATGTAAG
*
66464086 TTGTGTATA-
1 TTATGTA-AG
*
66464095 ATAT-TAA-
1 TTATGTAAG
66464102 TTATGTAAG
1 TTATGTAAG
*
66464111 TTGTGT-A-
1 TTATGTAAG
*
66464118 TAATGTAAG
1 TTATGTAAG
*
66464127 TTATTTAAG
1 TTATGTAAG
* *
66464136 TAAATGT-TG
1 T-TATGTAAG
66464145 TATTATGTAAG
1 --TTATGTAAG
66464156 TTATGTAAG
1 TTATGTAAG
66464165 TTATGTAAG
1 TTATGTAAG
66464174 TTATGTAAG
1 TTATGTAAG
66464183 TTATGTAAG
1 TTATGTAAG
* *
66464192 TTATTTAAT
1 TTATGTAAG
66464201 TTATGTAAG
1 TTATGTAAG
66464210 TTATGTAAG
1 TTATGTAAG
*
66464219 TTATGTATG
1 TTATGTAAG
66464228 TTATGT-A-
1 TTATGTAAG
*
66464235 TTATGTTAG
1 TTATGTAAG
*
66464244 TTAT-TATG
1 TTATGTAAG
*
66464252 TTATTATATGAG
1 TTA-TGTA--AG
* *
66464264 TTATGCAAA
1 TTATGTAAG
*
66464273 TT-TCT-A-
1 TTATGTAAG
*
66464279 TATATGTTTA-
1 T-TATG-TAAG
*
66464289 TATATTGTATG
1 T-TA-TGTAAG
*
66464300 TTA-GTTA-
1 TTATGTAAG
*
66464307 TTATGTTA-
1 TTATGTAAG
*
66464315 TTATATAAG
1 TTATGTAAG
*
66464324 TTATGCAAG
1 TTATGTAAG
*
66464333 TTATATAAG
1 TTATGTAAG
*
66464342 TTATTTAAG
1 TTATGTAAG
* *
66464351 TTGTGTAAA
1 TTATGTAAG
66464360 TGT-TGT-A-
1 T-TATGTAAG
66464367 TTATGTAAG
1 TTATGTAAG
66464376 TTATGT-A-
1 TTATGTAAG
66464383 TTATGTAAG
1 TTATGTAAG
* *
66464392 ATATGTACG
1 TTATGTAAG
**
66464401 -T-TGTATT
1 TTATGTAAG
*
66464408 TTATGTAAT
1 TTATGTAAG
*
66464417 TTCTGT-A-
1 TTATGTAAG
*
66464424 TTATGTATG
1 TTATGTAAG
66464433 TTATGTAAG
1 TTATGTAAG
*
66464442 TTGTGT-AG
1 TTATGTAAG
*
66464450 -AATGTAAG
1 TTATGTAAG
*
66464458 CTATGTAAG
1 TTATGTAAG
66464467 TTATGTAAG
1 TTATGTAAG
66464476 TTATGTAAG
1 TTATGTAAG
**
66464485 TGGTGT-A-
1 TTATGTAAG
66464492 TTATGTAAG
1 TTATGTAAG
* *
66464501 TTGTGCAAG
1 TTATGTAAG
66464510 TTATGTAAG
1 TTATGTAAG
66464519 TTAT
1 TTAT
66464523 TATGTAAGTT
Statistics
Matches: 396, Mismatches: 73, Indels: 86
0.71 0.13 0.15
Matches are distributed among these distances:
6 2 0.01
7 62 0.16
8 46 0.12
9 255 0.64
10 20 0.05
11 7 0.02
12 4 0.01
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:66464551 original size:21 final size:21
Alignment explanation
Indices: 66464507--66464556 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
66464497 TAAGTTGTGC
* *
66464507 AAGTTATGTAAGTTATTATGT
1 AAGTTATGCAAGTTATTATAT
66464528 AAGTTATGCAAGCTTA-TATAT
1 AAGTTATGCAAG-TTATTATAT
66464549 AAGCTTAT
1 AAG-TTAT
66464557 ATATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (21 bp):
AAGTTATGCAAGTTATTATAT
Found at i:66464552 original size:12 final size:12
Alignment explanation
Indices: 66464537--66464562 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66464527 TAAGTTATGC
66464537 AAGCTTATATAT
1 AAGCTTATATAT
66464549 AAGCTTATATAT
1 AAGCTTATATAT
66464561 AA
1 AA
66464563 TTATTTAGAA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAGCTTATATAT
Found at i:66464643 original size:30 final size:30
Alignment explanation
Indices: 66464609--66464690 Score: 114
Period size: 28 Copynumber: 2.8 Consensus size: 30
66464599 TTTATTACTA
* *
66464609 ATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAATTTAGAAAACTTATATAGAAAACTT
* *
66464639 ATAAATTT--AATACTAATATAGAAAACTT
1 ATAAATTTAGAAAACTTATATAGAAAACTT
66464667 ATAAATTTAGAAAACTTATATAGA
1 ATAAATTTAGAAAACTTATATAGA
66464691 TATTAAAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 25 0.56
30 20 0.44
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.35
Consensus pattern (30 bp):
ATAAATTTAGAAAACTTATATAGAAAACTT
Found at i:66464993 original size:21 final size:21
Alignment explanation
Indices: 66464964--66465005 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66464954 TCCAAAATTT
*
66464964 ATTGTGTTTTTGGCACGAATG
1 ATTGCGTTTTTGGCACGAATG
*
66464985 ATTGCGTTTTTTGCACGAATG
1 ATTGCGTTTTTGGCACGAATG
66465006 TAGCAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (21 bp):
ATTGCGTTTTTGGCACGAATG
Found at i:66465720 original size:16 final size:16
Alignment explanation
Indices: 66465680--66465720 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
66465670 TGAAATCCGG
66465680 GAAATTGGGGGAAAAT
1 GAAATTGGGGGAAAAT
*
66465696 G-AATTGGGGGGAAAT
1 GAAATTGGGGGAAAAT
*
66465711 GAAATCGGGG
1 GAAATTGGGG
66465721 AAGTTGGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.44, T:0.17
Consensus pattern (16 bp):
GAAATTGGGGGAAAAT
Found at i:66466117 original size:115 final size:115
Alignment explanation
Indices: 66465877--66466329 Score: 398
Period size: 114 Copynumber: 3.9 Consensus size: 115
66465867 TCCTAGACAG
* * * * *
66465877 AAAACGACAACGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATAATAAAAATGCCACTAA
1 AAAACGACAACATTTAGCAAACACTAAAAACATAATTGCGGCATTT-TTATAAAAACGCCACTAA
* * * * * *
66465942 AACATATCC-TTTACCGGCGTTTTAGTACAAATGCCATTAAAAACGTAGATA
65 CACATAACCTTTTA-CGGCATTTTAGTAAAAACGCCACTAAAAACGTAGATA
* * *** *
66465993 AAAACGACAACGTTTAGCGAACACTTGTAACATAATTGCGGCATTTTTATAAAAACGCCACTATC
1 AAAACGACAACATTTAGCAAACACTAAAAACATAATTGCGGCATTTTTATAAAAACGCCACTAAC
* * * *
66466058 ACATAACCTTTTACGGCATTTTCGTAAAAATGCCACTAATAATGTAGATA
66 ACATAACCTTTTACGGCATTTTAGTAAAAACGCCACTAAAAACGTAGATA
* * * * * *
66466108 AAAATGACAACATTTA-CAGAAGACTAATAACATAATTGTGG---TGTTACCTAACAACGCCACT
1 AAAACGACAACATTTAGCA-AACACTAAAAACATAATTGCGGCATTTTTA--TAAAAACGCCACT
* * * * * * *
66466169 AACACATATCGTTTTGCGGCGTTTTGGCAAAAACGCCACTAAAAACGTAAATA
63 AACACATAACCTTTTACGGCATTTTAGTAAAAACGCCACTAAAAACGTAGATA
* * * * * * *
66466222 AAAATGACAACATTTAACAAAGACAAAAAACATAATTGCGGCATTTTTCGTAGAAACACCACT-A
1 AAAACGACAACATTTAGCAAACACTAAAAACATAATTGCGGCATTTTT-ATAAAAACGCCACTAA
* *
66466286 -ATATAACTCCTTTTGCGGCATTTTAGTAAAAACGCCACTAAAAA
65 CACATAA--CCTTTTACGGCATTTTAGTAAAAACGCCACTAAAAA
66466330 ATCAAACAAA
Statistics
Matches: 277, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
112 4 0.01
114 94 0.34
115 88 0.32
116 88 0.32
117 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (115 bp):
AAAACGACAACATTTAGCAAACACTAAAAACATAATTGCGGCATTTTTATAAAAACGCCACTAAC
ACATAACCTTTTACGGCATTTTAGTAAAAACGCCACTAAAAACGTAGATA
Found at i:66466753 original size:21 final size:21
Alignment explanation
Indices: 66466729--66466804 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 21
66466719 CCATAAATCG
*
66466729 TAAATCATAAATTATAAACCC
1 TAAACCATAAATTATAAACCC
*
66466750 TAAAACCATAAATCT-TAAACCT
1 T-AAACCATAAAT-TATAAACCC
*
66466772 TAAACCATAAATCATAAACCC
1 TAAACCATAAATTATAAACCC
66466793 TAAACCACTAAA
1 TAAACCA-TAAA
66466805 GCCCATGAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 25 0.53
22 21 0.45
23 1 0.02
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCATAAATTATAAACCC
Found at i:66466782 original size:36 final size:38
Alignment explanation
Indices: 66466703--66466782 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 38
66466693 ACCCTAAGCT
* **
66466703 ATAAACCCTAAATTAACCATAAATCGTAAATCATAAATT
1 ATAAACCCTAAA-TAACCATAAATCGTAAACCATAAACC
* *
66466742 ATAAACCCT-AA-AACCATAAATCTTAAACCTTAAACC
1 ATAAACCCTAAATAACCATAAATCGTAAACCATAAACC
66466778 ATAAA
1 ATAAA
66466783 TCATAAACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 25 0.69
38 2 0.06
39 9 0.25
ACGTcount: A:0.53, C:0.21, G:0.01, T:0.25
Consensus pattern (38 bp):
ATAAACCCTAAATAACCATAAATCGTAAACCATAAACC
Found at i:66466796 original size:7 final size:7
Alignment explanation
Indices: 66466717--66466804 Score: 59
Period size: 7 Copynumber: 12.3 Consensus size: 7
66466707 ACCCTAAATT
66466717 AACCATA
1 AACCATA
* *
66466724 AATCGTA
1 AACCATA
*
66466731 AATCATA
1 AACCATA
**
66466738 AATTATA
1 AACCATA
*
66466745 AACCCTAA
1 AACCAT-A
66466753 AACCATA
1 AACCATA
* *
66466760 AATCTTA
1 AACCATA
*
66466767 AACCTTA
1 AACCATA
66466774 AACCATA
1 AACCATA
*
66466781 AATCATA
1 AACCATA
*
66466788 AACCCTA
1 AACCATA
66466795 AACCACTA
1 AACCA-TA
66466803 AA
1 AA
66466805 GCCCATGAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
7 53 0.84
8 10 0.16
ACGTcount: A:0.52, C:0.24, G:0.01, T:0.23
Consensus pattern (7 bp):
AACCATA
Found at i:66467037 original size:21 final size:22
Alignment explanation
Indices: 66467007--66467061 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
66466997 ATAAATCCTA
*
66467007 AAACCCTAAACTA-TAAA-AATT
1 AAACCTTAAA-TACTAAACAATT
*
66467028 AAACCTTAAATACTAAACACTT
1 AAACCTTAAATACTAAACAATT
*
66467050 AAACCTAAAATA
1 AAACCTTAAATA
66467062 AATTTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 14 0.48
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACCTTAAATACTAAACAATT
Found at i:66469387 original size:9 final size:9
Alignment explanation
Indices: 66469365--66469454 Score: 119
Period size: 9 Copynumber: 10.1 Consensus size: 9
66469355 TACGTGGATG
*
66469365 CAGATGATA
1 CAGATGCTA
*
66469374 TAGATGCTA
1 CAGATGCTA
66469383 CAGATGCTA
1 CAGATGCTA
66469392 CAGATGCTA
1 CAGATGCTA
66469401 CAGATGCTA
1 CAGATGCTA
* *
66469410 TAGATGATA
1 CAGATGCTA
*
66469419 CAGATGATA
1 CAGATGCTA
66469428 CAGATGCTA
1 CAGATGCTA
*
66469437 CAGAT-ATA
1 CAGATGCTA
66469445 CAGATGCTA
1 CAGATGCTA
66469454 C
1 C
66469455 TGAAAAGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
8 7 0.10
9 64 0.90
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (9 bp):
CAGATGCTA
Found at i:66477794 original size:43 final size:43
Alignment explanation
Indices: 66477729--66477974 Score: 250
Period size: 43 Copynumber: 5.8 Consensus size: 43
66477719 TTTTAGAAAT
*
66477729 AAACACCGCTATAGATC-AGACCTTTAGCGACGTTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGTTTTTCCCAC
* * * ** *
66477771 AAACACCGCTATAGATTAGGACCTTTAGCGGTGTTGTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGTTTTTCCCAC
* * * * **
66477814 AAACGTCACTATAGCTCAAGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGTTTTTCCCAC
* *
66477857 AAACGCCACTATAGATCAAGACCTTTAGCAACGCTTATTT--CAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACG-TT-TTTCCCAC
* * *
66477900 AAACGCAGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGTTTTTCCCAC
* *
66477943 AAACGGCGCTATAAAAT-AA-ACCTTTAGCGACG
1 AAACGCCGCTAT-AGATCAAGACCTTTAGCGACG
66477975 GTTCTCGCAA
Statistics
Matches: 168, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.02
42 29 0.17
43 129 0.77
44 4 0.02
45 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGTTTTTCCCAC
Found at i:66482759 original size:21 final size:21
Alignment explanation
Indices: 66482722--66482823 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 21
66482712 CCTAACTATT
*
66482722 AACCCTTAAACCTTAAACCCC
1 AACCCATAAACCTTAAACCCC
*
66482743 AGCCCAT-AACTCTTAAACCCC
1 AACCCATAAAC-CTTAAACCCC
* **
66482764 AACCCTTAAACCTTAAACCAT
1 AACCCATAAACCTTAAACCCC
* * * **
66482785 AAACCATAATCCCTAAACCAT
1 AACCCATAAACCTTAAACCCC
66482806 ATA-CCATAAACCTTAAAC
1 A-ACCCATAAACCTTAAAC
66482824 ATTAAAAACC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.05
21 59 0.89
22 4 0.06
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCATAAACCTTAAACCCC
Found at i:66482802 original size:42 final size:42
Alignment explanation
Indices: 66482722--66482803 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
66482712 CCTAACTATT
* ** *
66482722 AACCCTTAAACCTTAAACCCCAGCCCATAACTCTTAAACCCC
1 AACCCTTAAACCTTAAACCACAAACCATAACTCCTAAACCCC
*
66482764 AACCCTTAAACCTTAAACCATAAACCATAA-TCCCTAAACC
1 AACCCTTAAACCTTAAACCACAAACCATAACT-CCTAAACC
66482804 ATATACCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.20
Consensus pattern (42 bp):
AACCCTTAAACCTTAAACCACAAACCATAACTCCTAAACCCC
Found at i:66482839 original size:7 final size:7
Alignment explanation
Indices: 66482770--66482823 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
66482760 CCCCAACCCT
*
66482770 TAAACCT
1 TAAACCA
66482777 TAAACCA
1 TAAACCA
66482784 TAAACCA
1 TAAACCA
* *
66482791 TAATCCC
1 TAAACCA
66482798 TAAACCA
1 TAAACCA
*
66482805 TATACCA
1 TAAACCA
*
66482812 TAAACCT
1 TAAACCA
66482819 TAAAC
1 TAAAC
66482824 ATTAAAAACC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:66482997 original size:14 final size:14
Alignment explanation
Indices: 66482980--66483006 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66482970 CCCATAACGT
66482980 CTAACCCCTAAACC
1 CTAACCCCTAAACC
66482994 CTAACCCCTAAAC
1 CTAACCCCTAAAC
66483007 ATTAAATCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAACCCCTAAACC
Found at i:66483056 original size:15 final size:15
Alignment explanation
Indices: 66483029--66483069 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
66483019 CCCTTAAACT
66483029 ATAATCCCT-AATCC
1 ATAATCCCTAAATCC
66483043 ATAATCCCTAAATCC
1 ATAATCCCTAAATCC
*
66483058 ATACTCCCTAAA
1 ATAATCCCTAAA
66483070 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAATCCCTAAATCC
Found at i:66483494 original size:41 final size:41
Alignment explanation
Indices: 66483449--66483615 Score: 183
Period size: 41 Copynumber: 4.1 Consensus size: 41
66483439 GCCGCTACAT
*
66483449 CCCCGAGCATTAGCGGCGCTTCTTCAAAAATGCCACTAAAG
1 CCCCGAGCATTAGCGACGCTTCTTCAAAAATGCCACTAAAG
* ** * * * * *
66483490 CCCCGAACATTAGCGACGCTTCTTTGAGAACGTCGCTAAAT
1 CCCCGAGCATTAGCGACGCTTCTTCAAAAATGCCACTAAAG
** *
66483531 CCCCGAGCATTAGC-AGCGCTTCTTCAAAAATGCTGCTAAAA
1 CCCCGAGCATTAGCGA-CGCTTCTTCAAAAATGCCACTAAAG
* * *
66483572 CCCCGAGCATTAGCGACGCTTCTTCCAAAATGCTACTAGAG
1 CCCCGAGCATTAGCGACGCTTCTTCAAAAATGCCACTAAAG
66483613 CCC
1 CCC
66483616 TAAAAGGTCT
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.22
Consensus pattern (41 bp):
CCCCGAGCATTAGCGACGCTTCTTCAAAAATGCCACTAAAG
Found at i:66483583 original size:82 final size:82
Alignment explanation
Indices: 66483441--66483595 Score: 256
Period size: 82 Copynumber: 1.9 Consensus size: 82
66483431 TAAAAAAAGC
* * *
66483441 CGCTACATCCCCGAGCATTAGCGGCGCTTCTTCAAAAATGCCACTAAAGCCCCGAACATTAGCGA
1 CGCTAAATCCCCGAGCATTAGCAGCGCTTCTTCAAAAATGCCACTAAAACCCCGAACATTAGCGA
66483506 CGCTTCTTTGAGAACGT
66 CGCTTCTTTGAGAACGT
** *
66483523 CGCTAAATCCCCGAGCATTAGCAGCGCTTCTTCAAAAATGCTGCTAAAACCCCGAGCATTAGCGA
1 CGCTAAATCCCCGAGCATTAGCAGCGCTTCTTCAAAAATGCCACTAAAACCCCGAACATTAGCGA
66483588 CGCTTCTT
66 CGCTTCTT
66483596 CCAAAATGCT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (82 bp):
CGCTAAATCCCCGAGCATTAGCAGCGCTTCTTCAAAAATGCCACTAAAACCCCGAACATTAGCGA
CGCTTCTTTGAGAACGT
Found at i:66483715 original size:39 final size:39
Alignment explanation
Indices: 66483672--66483757 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
66483662 TTTTTTTTTA
66483672 AAACGCCGCTAATG-CTCATTTATAACGGCGTTTT-TCGAC
1 AAACGCCGCTAATGCCTCATTTATAACGGCGTTTTGTC--C
* * *
66483711 AAACGCCGCTAATGCCTGATTTTTACCGGCGTTTTGTCC
1 AAACGCCGCTAATGCCTCATTTATAACGGCGTTTTGTCC
66483750 AAACGCCG
1 AAACGCCG
66483758 TTAAAATTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 23 0.55
40 17 0.40
41 2 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (39 bp):
AAACGCCGCTAATGCCTCATTTATAACGGCGTTTTGTCC
Found at i:66505167 original size:83 final size:82
Alignment explanation
Indices: 66505013--66505178 Score: 280
Period size: 83 Copynumber: 2.0 Consensus size: 82
66505003 GTTTTAGTCT
* *
66505013 CCCATTGGAAGAGCTTGACTTGGAAATTAACACACCCATCATCATCATCGTCATTTGGAACAAGT
1 CCCATTGGAAGACCTTGACTTGGAAATTAACACACCCATAATCATCATCGTCATTTGGAACAAGT
*
66505078 TTTCTTGTTGGTCAAAA
66 TTTCTTGCTGGTCAAAA
66505095 CCCATTGGAAGACCTTGACTTGGAAATTAACAC-CCATCATAATCATCATCGTCATTTGGAACAA
1 CCCATTGGAAGACCTTGACTTGGAAATTAACACACC--CATAATCATCATCGTCATTTGGAACAA
66505159 GTTTTCTTGCTGGTCAAAA
64 GTTTTCTTGCTGGTCAAAA
66505178 C
1 C
66505179 TCCCTTTTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
81 2 0.03
82 32 0.41
83 45 0.57
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (82 bp):
CCCATTGGAAGACCTTGACTTGGAAATTAACACACCCATAATCATCATCGTCATTTGGAACAAGT
TTTCTTGCTGGTCAAAA
Found at i:66506503 original size:22 final size:22
Alignment explanation
Indices: 66506458--66506508 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
66506448 TCCAAACAAT
66506458 AACAATAAAATATTAACAATAC
1 AACAATAAAATATTAACAATAC
*
66506480 AATAATAAAAT-TGTAACGAA-AC
1 AACAATAAAATAT-TAAC-AATAC
66506502 AACAATA
1 AACAATA
66506509 TAACAGCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.22
Consensus pattern (22 bp):
AACAATAAAATATTAACAATAC
Found at i:66529230 original size:12 final size:12
Alignment explanation
Indices: 66529213--66529237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66529203 GGTGTGCATT
66529213 CGGTTAACCGAC
1 CGGTTAACCGAC
66529225 CGGTTAACCGAC
1 CGGTTAACCGAC
66529237 C
1 C
66529238 CGAAATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:66529421 original size:9 final size:9
Alignment explanation
Indices: 66529401--66529473 Score: 92
Period size: 9 Copynumber: 8.1 Consensus size: 9
66529391 GGTTAAAAAC
*
66529401 TAACCAAAT
1 TAACCGAAT
*
66529410 TAACCGATT
1 TAACCGAAT
66529419 TAACCGAAT
1 TAACCGAAT
*
66529428 TAACCAAAT
1 TAACCGAAT
*
66529437 TACCCGAAT
1 TAACCGAAT
*
66529446 TAACTGAAT
1 TAACCGAAT
66529455 TAACCGAAT
1 TAACCGAAT
*
66529464 TACCCGAAT
1 TAACCGAAT
66529473 T
1 T
66529474 GAATCACTAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:66529431 original size:27 final size:27
Alignment explanation
Indices: 66529401--66529473 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
66529391 GGTTAAAAAC
* *
66529401 TAACCAAATTAACCGATTTAACCGAAT
1 TAACCAAATTACCCGAATTAACCGAAT
*
66529428 TAACCAAATTACCCGAATTAACTGAAT
1 TAACCAAATTACCCGAATTAACCGAAT
*
66529455 TAACCGAATTACCCGAATT
1 TAACCAAATTACCCGAATT
66529474 GAATCACTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.26
Consensus pattern (27 bp):
TAACCAAATTACCCGAATTAACCGAAT
Found at i:66529520 original size:37 final size:37
Alignment explanation
Indices: 66529472--66529546 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
66529462 ATTACCCGAA
* *
66529472 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
*
66529509 TTGAACCACTACATAATTAAAAACATTACATAATTCT
1 TTGAACCACTACATAATTAAAAACATTACATAAGTCT
66529546 T
1 T
66529547 GAAATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (37 bp):
TTGAACCACTACATAATTAAAAACATTACATAAGTCT
Found at i:66529540 original size:17 final size:17
Alignment explanation
Indices: 66529481--66529543 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
66529471 ATTGAATCAC
*
66529481 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
66529498 TACATAAGTCTTTGAACCAC
1 TACATAA---TTAAAAACAT
66529518 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
66529535 TACATAATT
1 TACATAATT
66529544 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 22 0.65
20 12 0.35
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:66529557 original size:13 final size:13
Alignment explanation
Indices: 66529539--66529564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66529529 AAACATTACA
66529539 TAATTCTTGAAAT
1 TAATTCTTGAAAT
66529552 TAATTCTTGAAAT
1 TAATTCTTGAAAT
66529565 AGCACATAGT
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:0.08, T:0.46
Consensus pattern (13 bp):
TAATTCTTGAAAT
Found at i:66529773 original size:39 final size:39
Alignment explanation
Indices: 66529688--66529796 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
66529678 ACTTAAGAGT
* * *
66529688 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTTGG
1 TAGACTTTTGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* *
66529726 TAGGCTTTTGTTTTAGTTTTATTAGGTTAGGTAATTGGG
1 TAGACTTTTGTTTTAGTTTTATTGGGTTAGGTAATTGGG
66529765 TAGACTTTTGTTTTAGTTTTATTGGGTTAGGT
1 TAGACTTTTGTTTTAGTTTTATTGGGTTAGGT
66529797 TGGTAATTGG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 24 0.38
39 39 0.62
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (39 bp):
TAGACTTTTGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:66533806 original size:42 final size:43
Alignment explanation
Indices: 66533761--66534006 Score: 306
Period size: 42 Copynumber: 5.8 Consensus size: 43
66533751 TTAAAAAAAT
* * *
66533761 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGCTTAGAA-AT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
* *
66533803 AAACGCCGCTAAAGATCATGTTCTTTAGCGGTGGTTAGAA-AA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
** *
66533845 AAACGCCGCTAAAGATCATGTTCTTTAATGGCGTTTA-AAGAA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
* *
66533887 AAACGCCACTAAATATCATGTTCTTTAGCGGCGCTT-GAAG-A
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
** *
66533928 AAACTGCCGCTAAAGGGCATGTTCTTTAGCGGCGCCT-GAAGAA
1 AAAC-GCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
* *
66533971 AAACGTCGCTAAAGAACATGTTCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
66534007 TATACACAAA
Statistics
Matches: 177, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
41 7 0.04
42 165 0.93
43 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAGAA
Found at i:66539989 original size:9 final size:9
Alignment explanation
Indices: 66539975--66540527 Score: 219
Period size: 9 Copynumber: 63.4 Consensus size: 9
66539965 TTTTTATGTA
66539975 TTATGTAAG
1 TTATGTAAG
66539984 TTATGTAAG
1 TTATGTAAG
* *
66539993 CTATAT-A-
1 TTATGTAAG
66540000 TTATGT-A-
1 TTATGTAAG
*
66540007 TTGTGTAAG
1 TTATGTAAG
*
66540016 -AACTGTAAG
1 TTA-TGTAAG
* *
66540025 TAATGTGAG
1 TTATGTAAG
66540034 TTATGTAAG
1 TTATGTAAG
*
66540043 TAATGT-A-
1 TTATGTAAG
66540050 TTATGTAAG
1 TTATGTAAG
*
66540059 TTGTGTATA-
1 TTATGTA-AG
*
66540068 ATAT-TAA-
1 TTATGTAAG
66540075 TTATGTAAG
1 TTATGTAAG
*
66540084 TTGTGT-A-
1 TTATGTAAG
*
66540091 TAATGTAAG
1 TTATGTAAG
*
66540100 TTAAG-AAGG
1 TTATGTAA-G
66540109 TTATGT-A-
1 TTATGTAAG
66540116 TTATGTAAG
1 TTATGTAAG
*
66540125 TTATTTAAG
1 TTATGTAAG
* *
66540134 TAAATGT-TG
1 T-TATGTAAG
66540143 TATTATGTAAG
1 --TTATGTAAG
66540154 TTATGTAAG
1 TTATGTAAG
66540163 TTATGTAAG
1 TTATGTAAG
* *
66540172 TTATTTAAT
1 TTATGTAAG
*
66540181 TTATATAAG
1 TTATGTAAG
*
66540190 TTACGTAAG
1 TTATGTAAG
66540199 TTATGTAAG
1 TTATGTAAG
*
66540208 TTAT-TTAG
1 TTATGTAAG
66540216 TTTATGTAAG
1 -TTATGTAAG
66540226 TTATGTAAG
1 TTATGTAAG
*
66540235 TTATGTAGG
1 TTATGTAAG
66540244 TTATGT-A-
1 TTATGTAAG
*
66540251 TTATGTTAG
1 TTATGTAAG
*
66540260 TTAT-TATG
1 TTATGTAAG
*
66540268 TTATTATATAAG
1 ---TTATGTAAG
*
66540280 TTATGCAAG
1 TTATGTAAG
*
66540289 TT-TCT-A-
1 TTATGTAAG
*
66540295 TATATGTTTA-
1 T-TATG-TAAG
*
66540305 TATATTGTATG
1 T-TA-TGTAAG
*
66540316 TTA-GTTA-
1 TTATGTAAG
*
66540323 TTATGTTA-
1 TTATGTAAG
*
66540331 TTATATAAG
1 TTATGTAAG
*
66540340 TTATGCAAG
1 TTATGTAAG
*
66540349 TTATATAAG
1 TTATGTAAG
*
66540358 TTATTTAAG
1 TTATGTAAG
* *
66540367 TTGTGTAAA
1 TTATGTAAG
66540376 TGT-TGT-A-
1 T-TATGTAAG
66540383 TTATGTAAG
1 TTATGTAAG
66540392 TTATGT-A-
1 TTATGTAAG
66540399 TTATGTAAG
1 TTATGTAAG
* * *
66540408 ATACGTACG
1 TTATGTAAG
**
66540417 -T-TGTATT
1 TTATGTAAG
*
66540424 TTATGTAAT
1 TTATGTAAG
*
66540433 TTCTGT-A-
1 TTATGTAAG
*
66540440 TTATGTATG
1 TTATGTAAG
66540449 TTATGTAAG
1 TTATGTAAG
*
66540458 TTGTGT-AG
1 TTATGTAAG
*
66540466 -AATGTAAG
1 TTATGTAAG
*
66540474 CTATGTAAG
1 TTATGTAAG
66540483 TTATGTAAG
1 TTATGTAAG
66540492 TTATTATGTAAG
1 ---TTATGTAAG
*
66540504 TTATGCAAG
1 TTATGTAAG
*
66540513 CTTATATAAG
1 -TTATGTAAG
66540523 CTTAT
1 -TTAT
66540528 ATATAATTAT
Statistics
Matches: 413, Mismatches: 80, Indels: 101
0.70 0.13 0.17
Matches are distributed among these distances:
6 2 0.00
7 61 0.15
8 45 0.11
9 250 0.61
10 34 0.08
11 9 0.02
12 12 0.03
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:66540001 original size:25 final size:25
Alignment explanation
Indices: 66539973--66540090 Score: 77
Period size: 25 Copynumber: 4.7 Consensus size: 25
66539963 TATTTTTATG
*
66539973 TATTATGTAAGTTATGTAAGCTATA
1 TATTATGTAAGTTGTGTAAGCTATA
*
66539998 TATTATGT-A-TTGTGTAAGAACTGTA
1 TATTATGTAAGTTGTGTAAG--CTATA
* * * *
66540023 -AGTAATGTGAGTTATGTAAG-TAATG
1 TA-TTATGTAAGTTGTGTAAGCT-ATA
*
66540048 TATTATGTAAGTTGTGTATA-ATAT-
1 TATTATGTAAGTTGTGTA-AGCTATA
66540072 TAATTATGTAAGTTGTGTA
1 T-ATTATGTAAGTTGTGTA
66540091 TAATGTAAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.11
24 4 0.05
25 50 0.68
26 4 0.05
27 8 0.11
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (25 bp):
TATTATGTAAGTTGTGTAAGCTATA
Found at i:66540014 original size:32 final size:34
Alignment explanation
Indices: 66539941--66540015 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 34
66539931 CATAAATGAG
* *
66539941 TTATGTAAGTTATGATATGATATATTTTTATGTA
1 TTATGTAAGTTATGATAAGATATATTATTATGTA
*
66539975 TTATGTAAGTTATG-TAAGCTATA-TATTATGTA
1 TTATGTAAGTTATGATAAGATATATTATTATGTA
*
66540007 TTGTGTAAG
1 TTATGTAAG
66540016 AACTGTAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 16 0.43
33 7 0.19
34 14 0.38
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGATAAGATATATTATTATGTA
Found at i:66540169 original size:25 final size:25
Alignment explanation
Indices: 66540019--66540495 Score: 188
Period size: 25 Copynumber: 18.8 Consensus size: 25
66540009 GTGTAAGAAC
* * *
66540019 TGTAAGTAATGTGAGTTATGTAAGTAA
1 TGTAAGTTATGTAAGTTATGT-A-TTA
*
66540046 TGT-A-TTATGTAAGTTGTGTATAATA
1 TGTAAGTTATGTAAGTTATGTAT--TA
* *
66540071 T-TAA-TTATGTAAGTTGTGTATAA
1 TGTAAGTTATGTAAGTTATGTATTA
*
66540094 TGTAAGTTAAG-AAGGTTATGTATTA
1 TGTAAGTTATGTAA-GTTATGTATTA
* *
66540119 TGTAAGTTATTTAAGTAAATGTTGTATTA
1 TGTAAGTTATGTAAGT---T-ATGTATTA
66540148 TGTAAGTTATGTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGT-A-TTA
* * * *
66540175 TTTAATTTATATAAGTTACGTAAGTTA
1 TGTAAGTTATGTAAGTTATGT-A-TTA
*
66540202 TGTAAGTTAT-TTAGTTTATGTAAGTTA
1 TGTAAGTTATGTAAG-TTATGT-A-TTA
*
66540229 TGTAAGTTATGTAGGTTATGTATTA
1 TGTAAGTTATGTAAGTTATGTATTA
* *
66540254 TGTTAGTTAT-TATGTTAT-TA-TA
1 TGTAAGTTATGTAAGTTATGTATTA
* *
66540276 --TAAGTTATGCAAGTT-TCTATATA
1 TGTAAGTTATGTAAGTTATGTAT-TA
* *
66540299 TGTTTA-TATATTGTATGTTA-GTTATTA
1 TG-TAAGT-TA-TGTAAGTTATG-TATTA
* * *
66540326 TGTTA-TTATATAAGTTATGCAAGTTA
1 TGTAAGTTATGTAAGTTATG-TA-TTA
* * *
66540352 TATAAGTTATTTAAGTTGTGTAAATGT-
1 TGTAAGTTATGTAAGTTATGT--AT-TA
66540379 TGT-A-TTATGTAAGTTATGTATTA
1 TGTAAGTTATGTAAGTTATGTATTA
* * * * * *
66540402 TGTAAGATACGTACGTTGTATTTTA
1 TGTAAGTTATGTAAGTTATGTATTA
* *
66540427 TGTAATTTCTGT-A-TTATGTATGTTA
1 TGTAAGTTATGTAAGTTATGTA--TTA
* * *
66540452 TGTAAGTTGTGT-AG-AATGTAAGCTA
1 TGTAAGTTATGTAAGTTATGT-A-TTA
66540477 TGTAAGTTATGTAAGTTAT
1 TGTAAGTTATGTAAGTTAT
66540496 TATGTAAGTT
Statistics
Matches: 345, Mismatches: 64, Indels: 82
0.70 0.13 0.17
Matches are distributed among these distances:
20 8 0.02
21 6 0.02
22 3 0.01
23 16 0.05
24 22 0.06
25 142 0.41
26 27 0.08
27 91 0.26
28 8 0.02
29 22 0.06
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (25 bp):
TGTAAGTTATGTAAGTTATGTATTA
Found at i:66540198 original size:36 final size:36
Alignment explanation
Indices: 66539939--66540271 Score: 173
Period size: 36 Copynumber: 9.4 Consensus size: 36
66539929 ACCATAAATG
* *
66539939 AGTTATGTAAGTTATGATATGATATATT--TTTATGT-
1 AGTTATGTAAGTTATG-TAAGTTAT-TTAATTTATGTA
* *
66539974 A-TTATGTAAGTTATGTAAGCTATATATTATGTATTGTGTA
1 AGTTATGTAAGTTATGTAAG-T-TAT-TTA-AT-TTATGTA
* * * * * *
66540014 AG-AACTGTAAGTAATGTGAGTTATGTAAGTAATGT-
1 AGTTA-TGTAAGTTATGTAAGTTATTTAATTTATGTA
* *
66540049 A-TTATGTAAGTTGTGT-A-TAATATTAA-TTATGTA
1 AGTTATGTAAGTTATGTAAGTTAT-TTAATTTATGTA
* * ** *
66540082 AGTTGTGT-A-TAATGTAAGTTA-AGAAGGTTATGT-
1 AGTTATGTAAGTTATGTAAGTTATTTAA-TTTATGTA
* * *
66540115 A-TTATGTAAGTTATTTAAGTAAATGTT-GTATTATGTA
1 AGTTATGTAAGTTATGTAAGT-TAT-TTAAT-TTATGTA
*
66540152 AGTTATGTAAGTTATGTAAGTTATTTAATTTATATA
1 AGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
* *
66540188 AGTTACGTAAGTTATGTAAGTTATTTAGTTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
* * *
66540224 AGTTATGTAAGTTATGTAGGTTATGT-A-TTATGTT
1 AGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
*
66540258 AGTTAT-TATGTTAT
1 AGTTATGTAAGTTAT
66540272 TATATAAGTT
Statistics
Matches: 228, Mismatches: 44, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
32 19 0.08
33 19 0.08
34 57 0.25
35 10 0.04
36 74 0.32
37 4 0.02
38 21 0.09
39 8 0.04
40 3 0.01
41 13 0.06
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (36 bp):
AGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
Found at i:66540290 original size:29 final size:30
Alignment explanation
Indices: 66540258--66540362 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 30
66540248 GTATTATGTT
66540258 AGTTAT-TATGTTATTATATAAGTTATGCA
1 AGTTATATATGTTATTATATAAGTTATGCA
* **
66540287 AGTTTCTATATATG-T-TTATAT-ATTGTATGTT
1 AG--T-TATATATGTTATTATATAAGT-TATGCA
66540318 AGTTAT-TATGTTATTATATAAGTTATGCA
1 AGTTATATATGTTATTATATAAGTTATGCA
*
66540347 AGTTATATAAGTTATT
1 AGTTATATATGTTATT
66540363 TAAGTTGTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
27 4 0.07
28 4 0.07
29 19 0.32
30 12 0.20
31 13 0.22
32 4 0.07
33 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.51
Consensus pattern (30 bp):
AGTTATATATGTTATTATATAAGTTATGCA
Found at i:66540398 original size:16 final size:17
Alignment explanation
Indices: 66540331--66540495 Score: 76
Period size: 16 Copynumber: 9.8 Consensus size: 17
66540321 TATTATGTTA
* *
66540331 TTATATAAGTTATGCAAG
1 TTATGTAAGTTATG-TAG
* *
66540349 TTATATAAGTTATTTAAG
1 TTATGTAAGTTATGT-AG
* *
66540367 TTGTGTAAATGT-TGTA-
1 TTATGTAAGT-TATGTAG
66540383 TTATGTAAGTTATGTA-
1 TTATGTAAGTTATGTAG
* *
66540399 TTATGTAAGATACGTACG
1 TTATGTAAGTTATGTA-G
** *
66540417 -T-TGTATTTTATGTAAT
1 TTATGTAAGTTATGT-AG
*
66540433 TTCTGT-A-TTATGTATG
1 TTATGTAAGTTATGTA-G
*
66540449 TTATGTAAGTTGTGTAG
1 TTATGTAAGTTATGTAG
* *
66540466 -AATGTAAGCTATGTAAG
1 TTATGTAAGTTATGT-AG
66540483 TTATGTAAGTTAT
1 TTATGTAAGTTAT
66540496 TATGTAAGTT
Statistics
Matches: 110, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
15 2 0.02
16 56 0.51
17 8 0.07
18 43 0.39
19 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:66540461 original size:41 final size:41
Alignment explanation
Indices: 66540383--66540461 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
66540373 AAATGTTGTA
*
66540383 TTATGTAAGTTATGTATTATGTAAGATACGTACGTTGTATT
1 TTATGTAAGTTATGTATTATGTAAGATACGTAAGTTGTATT
* * * * *
66540424 TTATGTAATTTCTGTATTATGTATGTTATGTAAGTTGT
1 TTATGTAAGTTATGTATTATGTAAGATACGTAAGTTGT
66540462 GTAGAATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.51
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGTAAGATACGTAAGTTGTATT
Found at i:66540500 original size:12 final size:12
Alignment explanation
Indices: 66540483--66540507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66540473 GCTATGTAAG
66540483 TTATGTAAGTTA
1 TTATGTAAGTTA
66540495 TTATGTAAGTTA
1 TTATGTAAGTTA
66540507 T
1 T
66540508 GCAAGCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:66540501 original size:21 final size:22
Alignment explanation
Indices: 66540475--66540517 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
66540465 GAATGTAAGC
*
66540475 TATGTAAGTTATGTAAG-TTAT
1 TATGTAAGTTATGCAAGCTTAT
66540496 TATGTAAGTTATGCAAGCTTAT
1 TATGTAAGTTATGCAAGCTTAT
66540518 ATAAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (22 bp):
TATGTAAGTTATGCAAGCTTAT
Found at i:66540630 original size:15 final size:15
Alignment explanation
Indices: 66540610--66540642 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
66540600 TAGAAAACTT
66540610 ATAAATTTAATACTA
1 ATAAATTTAATACTA
66540625 ATAAATTTAATACTA
1 ATAAATTTAATACTA
66540640 ATA
1 ATA
66540643 TAGAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:66540656 original size:43 final size:44
Alignment explanation
Indices: 66540564--66540661 Score: 135
Period size: 43 Copynumber: 2.2 Consensus size: 44
66540554 ATTAATACTA
* * *
66540564 ATAAATTTTATTACTAATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAA-TTTAATACTAATAAATTTA-AACACTAATATAGAAAACTT
*
66540610 ATAAATTTAATACTAATAAATTT-AATACTAATATAGAAAACTT
1 ATAAATTTAATACTAATAAATTTAAACACTAATATAGAAAACTT
66540653 ATAAATTTA
1 ATAAATTTA
66540662 GAAAACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 26 0.54
45 17 0.35
46 5 0.10
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (44 bp):
ATAAATTTAATACTAATAAATTTAAACACTAATATAGAAAACTT
Found at i:66540662 original size:60 final size:59
Alignment explanation
Indices: 66540534--66540672 Score: 176
Period size: 61 Copynumber: 2.3 Consensus size: 59
66540524 TTATATATAA
* *
66540534 TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTATTACTAATAAATTTAGAACAC
1 TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATACTAAT-AA-TTAGAAAAC
*
66540595 TTATTTAGAAAACTTATAAATTTAATACTAATAAA-TTTAATACTAAT-A-TAGAAAAC
1 TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATACTAATAATTAGAAAAC
66540651 TTATAAATTTAGAAAACTTATA
1 -T-T--ATTTAGAAAACTTATA
66540673 TAGATATTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
56 7 0.10
57 1 0.01
58 2 0.03
60 27 0.38
61 34 0.48
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (59 bp):
TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTAATACTAATAATTAGAAAAC
Found at i:66540712 original size:19 final size:18
Alignment explanation
Indices: 66540646--66540717 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 18
66540636 ACTAATATAG
*
66540646 AAAACTTATAA-ATTTAG
1 AAAACTTATAATATTTAA
*
66540663 AAAACTTATATAGATATTAA
1 AAAACTTATA-ATAT-TTAA
66540683 AACAA-TATATAATTATTTAA
1 AA-AACT-TATAA-TATTTAA
66540703 AAAACTTATAA-ATTT
1 AAAACTTATAATATTT
66540718 TATAGTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
17 14 0.30
18 1 0.02
19 9 0.20
20 14 0.30
21 8 0.17
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAACTTATAATATTTAA
Found at i:66540712 original size:21 final size:21
Alignment explanation
Indices: 66540657--66540716 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
66540647 AAACTTATAA
*
66540657 ATTTAGAAAACTTATATAGA-T
1 ATTTAAAAAACTTATATA-ATT
66540678 A-TTAAAACAA--TATATAATT
1 ATTTAAAA-AACTTATATAATT
66540697 ATTTAAAAAACTTATA-AATT
1 ATTTAAAAAACTTATATAATT
66540717 TTATAGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
18 1 0.03
19 10 0.30
20 15 0.45
21 7 0.21
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTTAAAAAACTTATATAATT
Found at i:66541620 original size:8 final size:8
Alignment explanation
Indices: 66541607--66541631 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
66541597 ACATGAGGGA
66541607 ATTTGGGG
1 ATTTGGGG
66541615 ATTTGGGG
1 ATTTGGGG
66541623 ATTTGGGG
1 ATTTGGGG
66541631 A
1 A
66541632 AATGAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (8 bp):
ATTTGGGG
Found at i:66541657 original size:24 final size:25
Alignment explanation
Indices: 66541627--66541673 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
66541617 TTGGGGATTT
*
66541627 GGGGAAATGAAATT-GGGGAAATTG
1 GGGGAAAAGAAATTGGGGGAAATTG
*
66541651 GGGGAAAAGGAATTGGGGGAAAT
1 GGGGAAAAGAAATTGGGGGAAAT
66541674 GAAATCGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.17
Consensus pattern (25 bp):
GGGGAAAAGAAATTGGGGGAAATTG
Found at i:66541683 original size:15 final size:15
Alignment explanation
Indices: 66541644--66541683 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
66541634 TGAAATTGGG
66541644 GAAATTGGGGGAAAA
1 GAAATTGGGGGAAAA
* *
66541659 GGAATTGGGGGAAAT
1 GAAATTGGGGGAAAA
*
66541674 GAAATCGGGG
1 GAAATTGGGG
66541684 AAGTTGGGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.03, G:0.45, T:0.15
Consensus pattern (15 bp):
GAAATTGGGGGAAAA
Found at i:66541701 original size:39 final size:39
Alignment explanation
Indices: 66541627--66541706 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
66541617 TTGGGGATTT
* *
66541627 GGGGAAATGAAATTGGGGAAATTGGGGGAAAAGGAATTG
1 GGGGAAATGAAATCGGGGAAATTGGGGGAAAAGGAAATG
* * *
66541666 GGGGAAATGAAATCGGGGAAGTTGGGGGGATAGGAAATG
1 GGGGAAATGAAATCGGGGAAATTGGGGGAAAAGGAAATG
66541705 GG
1 GG
66541707 AAATTAGGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.01, G:0.47, T:0.16
Consensus pattern (39 bp):
GGGGAAATGAAATCGGGGAAATTGGGGGAAAAGGAAATG
Found at i:66541726 original size:14 final size:14
Alignment explanation
Indices: 66541707--66541733 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66541697 AGGAAATGGG
66541707 AAATTAGGGAAATA
1 AAATTAGGGAAATA
66541721 AAATTAGGGAAAT
1 AAATTAGGGAAAT
66541734 CAGAGTGGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (14 bp):
AAATTAGGGAAATA
Found at i:66542090 original size:115 final size:114
Alignment explanation
Indices: 66541854--66542305 Score: 455
Period size: 114 Copynumber: 3.9 Consensus size: 114
66541844 TCCTAGACAG
* *
66541854 AAAACGACAACGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATAATAAAAACGCCACTAA
1 AAAACGACAACGTTTAGCAAACACTAAAAACATAATTGCGGCGTTT-TTATAAAAACGCCACTAA
* * * * *
66541919 AACATATCC-TTTACCGACGTTTTAGTACAAACGCCATTAAAAACGTAGATA
65 CACATAACCTTTTA-CGGCGTTTTAGTAAAAACGCCACT-AAAACGTAGATA
* *** * *
66541970 AAAACGACAACGTTTAGCGAACACTTGTAACATAATTGCGGCATTTTTATAAAAACGCCACTATC
1 AAAACGACAACGTTTAGCAAACACTAAAAACATAATTGCGGCGTTTTTATAAAAACGCCACTAAC
* * *
66542035 ACATAACCTTTTACGGCGTTTTCGTAAAAATGCCACTAATAATGTAGATA
66 ACATAACCTTTTACGGCGTTTTAGTAAAAACGCCACTAA-AACGTAGATA
* * * *** * *
66542085 AAAACGACAACGTTTA-CAGAAGACTAATAACATAATTGCAGCG-TTACCTAACAATGCCACTAA
1 AAAACGACAACGTTTAGCA-AACACTAAAAACATAATTGCGGCGTTTTTATAAAAACGCCACTAA
* * * *
66542148 CACATATCATTTTACGGCGTTTTGGCAAAAACGCCACTGAAAACGTAGATA
65 CACATAACCTTTTACGGCGTTTTAGTAAAAACGCCACT-AAAACGTAGATA
* * * * * *
66542199 AAAACGACAACATTTAACAAAGACAAAAAACATAATTGCGGCGTTTTTCGTAGAAACGCCACT-A
1 AAAACGACAACGTTTAGCAAACACTAAAAACATAATTGCGGCGTTTTT-ATAAAAACGCCACTAA
* * *
66542263 -ATATAACTCCTTTTGCGGCATTTTAGTAAAAACGCCACTAAAA
65 CACATAA--CCTTTTACGGCGTTTTAGTAAAAACGCCACTAAAA
66542306 AATCAGACAA
Statistics
Matches: 278, Mismatches: 49, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
114 99 0.36
115 97 0.35
116 82 0.29
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (114 bp):
AAAACGACAACGTTTAGCAAACACTAAAAACATAATTGCGGCGTTTTTATAAAAACGCCACTAAC
ACATAACCTTTTACGGCGTTTTAGTAAAAACGCCACTAAAACGTAGATA
Found at i:66542320 original size:229 final size:230
Alignment explanation
Indices: 66541854--66542306 Score: 513
Period size: 229 Copynumber: 2.0 Consensus size: 230
66541844 TCCTAGACAG
*
66541854 AAAACGACAACGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATAATAAAAACGCCACTAA
1 AAAACGACAACGTTTAGCAAACACTTAAAACATAATTGCAGCGTTTATAATAAAAACGCCACTAA
* * * *
66541919 AACATATCCTTTACCGACGTTTTAGTACAAACGCCATTAAAAACGTAGATAAAAACGACAACGTT
66 AACATATCCTTTACCGACGTTTTAGCAAAAACGCCACTAAAAACGTAGATAAAAACGACAACATT
* * ****
66541984 TAGCGAACACTTGTAACATAATTGCGGCATTTTTATAAAAACGCCACTATCACATAACCTTTTAC
131 TAACAAACACAAAAAACATAATTGCGGCATTTTTATAAAAACGCCACTA-CACATAACCTTTTAC
* * * * *
66542049 GGCGTTTTCGTAAAAATGCCACTAATAATGTAGATA
195 GGCATTTTAGTAAAAACGCCACTAAAAATGCAGATA
* ** * *
66542085 AAAACGACAACGTTTA-CAGAAGAC-TAATAACATAATTGCAGCG-TTA-CCTAACAATGCCACT
1 AAAACGACAACGTTTAGCA-AACACTTAA-AACATAATTGCAGCGTTTATAATAAAAACGCCACT
* * * * *
66542146 AACACATATCATTTTA-CGGCGTTTTGGCAAAAACGCCACTGAAAACGTAGATAAAAACGACAAC
64 AAAACATATC-CTTTACCGACGTTTTAGCAAAAACGCCACTAAAAACGTAGATAAAAACGACAAC
* * * * *
66542210 ATTTAACAAAGACAAAAAACATAATTGCGGCGTTTTTCGTAGAAACGCCACTA-ATATAACTCCT
128 ATTTAACAAACACAAAAAACATAATTGCGGCATTTTT-ATAAAAACGCCACTACACATAA--CCT
*
66542274 TTTGCGGCATTTTAGTAAAAACGCCACTAAAAA
190 TTTACGGCATTTTAGTAAAAACGCCACTAAAAA
66542307 ATCAGACAAA
Statistics
Matches: 185, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
228 5 0.03
229 90 0.49
230 56 0.30
231 34 0.18
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (230 bp):
AAAACGACAACGTTTAGCAAACACTTAAAACATAATTGCAGCGTTTATAATAAAAACGCCACTAA
AACATATCCTTTACCGACGTTTTAGCAAAAACGCCACTAAAAACGTAGATAAAAACGACAACATT
TAACAAACACAAAAAACATAATTGCGGCATTTTTATAAAAACGCCACTACACATAACCTTTTACG
GCATTTTAGTAAAAACGCCACTAAAAATGCAGATA
Found at i:66542733 original size:22 final size:22
Alignment explanation
Indices: 66542708--66542753 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
66542698 ATAAAATCAT
66542708 AAATAATAAAT-TATAAACCCTA
1 AAATAATAAATCT-TAAACCCTA
* *
66542730 AAATCATAAATCTTAAACCTTA
1 AAATAATAAATCTTAAACCCTA
66542752 AA
1 AA
66542754 CGTTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAATAAATCTTAAACCCTA
Found at i:66542798 original size:17 final size:16
Alignment explanation
Indices: 66542757--66542802 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
66542747 CCTTAAACGT
66542757 TAAA-CCCTAAA-CCC
1 TAAACCCCTAAACCCC
**
66542771 TAAACTACTAAACCCC
1 TAAACCCCTAAACCCC
66542787 ATAAACCCCTAAACCC
1 -TAAACCCCTAAACCC
66542803 TTAACCTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 4 0.16
15 5 0.20
16 3 0.12
17 13 0.52
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAACCCCTAAACCCC
Found at i:66542799 original size:8 final size:8
Alignment explanation
Indices: 66542757--66542802 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
66542747 CCTTAAACGT
66542757 TAAA-CCC
1 TAAACCCC
66542764 TAAA-CCC
1 TAAACCCC
**
66542771 TAAACTAC
1 TAAACCCC
66542779 TAAACCCC
1 TAAACCCC
66542787 ATAAACCCC
1 -TAAACCCC
66542796 TAAACCC
1 TAAACCC
66542803 TTAACCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 11 0.33
8 14 0.42
9 8 0.24
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAACCCC
Done.