Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 35
Found at i:6436550 original size:20 final size:21
Alignment explanation
Indices: 6436520--6436566 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
6436510 ATTTTGTATA
6436520 ATTTATTTTAT-AAATATAA-AT
1 ATTT-TTTTATAAAAT-TAATAT
6436541 ATTTTTTTATAAAATTAATAT
1 ATTTTTTTATAAAATTAATAT
6436562 ATTTT
1 ATTTT
6436567 AATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTTTATAAAATTAATAT
Found at i:6436563 original size:21 final size:20
Alignment explanation
Indices: 6436520--6436566 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
6436510 ATTTTGTATA
6436520 ATTTATTTTATAAATATAAAT
1 ATTT-TTTTATAAATATAAAT
6436541 ATTTTTTTATAAA-ATTAATAT
1 ATTTTTTTATAAATA-TAA-AT
6436562 ATTTT
1 ATTTT
6436567 AATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTTTATAAATATAAAT
Found at i:6441095 original size:40 final size:39
Alignment explanation
Indices: 6441044--6441131 Score: 117
Period size: 40 Copynumber: 2.3 Consensus size: 39
6441034 TCGGGTCAGG
*
6441044 TATATAT-ATTTAAATTAAATATCTAAATATTATATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATATA
* *
6441082 TATATATTAATTTAAATTAAATTTATTAATATTATATATA
1 TATATA-TAATTTAAATTAAATATATAAATATTATATATA
6441122 TA-ATAATAAT
1 TATAT-ATAAT
6441132 AATTATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
38 6 0.14
39 7 0.16
40 31 0.70
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (39 bp):
TATATATAATTTAAATTAAATATATAAATATTATATATA
Found at i:6441136 original size:36 final size:36
Alignment explanation
Indices: 6441069--6441147 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 36
6441059 TAAATATCTA
*
6441069 AATATTATATATATATATATTAATTTAAATTAAATTTATT
1 AATATTATATATATATATAATAA-TTAAATT--ATTT-TT
6441109 AATATTATATATATA-ATAATAA-T-AATTATTTTT
1 AATATTATATATATATATAATAATTAAATTATTTTT
6441142 AATATT
1 AATATT
6441148 TATCTGGCCG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.21
34 4 0.11
36 4 0.11
37 1 0.03
39 6 0.16
40 15 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
AATATTATATATATATATAATAATTAAATTATTTTT
Found at i:6441236 original size:35 final size:36
Alignment explanation
Indices: 6441186--6441264 Score: 142
Period size: 35 Copynumber: 2.2 Consensus size: 36
6441176 TACTAAACCA
6441186 GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTC-CC
1 GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTCTCC
*
6441221 GTCCCCGTCCTCGTTTAGCATAAACGGTTTTTCTCC
1 GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTCTCC
6441257 GTCCCCGT
1 GTCCCCGT
6441265 TTAATTCGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 32 0.76
36 10 0.24
ACGTcount: A:0.13, C:0.37, G:0.18, T:0.33
Consensus pattern (36 bp):
GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTCTCC
Found at i:6444381 original size:15 final size:15
Alignment explanation
Indices: 6444361--6444390 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6444351 TAGGCAATCT
6444361 TTGCCTATAACTGGA
1 TTGCCTATAACTGGA
6444376 TTGCCTATAACTGGA
1 TTGCCTATAACTGGA
6444391 AAGCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
TTGCCTATAACTGGA
Found at i:6447767 original size:17 final size:17
Alignment explanation
Indices: 6447730--6447779 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
6447720 ATAATTTATT
*
6447730 TATATTATTTTGAT-ATT
1 TATATTATTTT-ATAATA
6447747 TATATTATTTTATAATA
1 TATATTATTTTATAATA
*
6447764 TATATGA-TTTATAATA
1 TATATTATTTTATAATA
6447780 AAAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
TATATTATTTTATAATA
Found at i:6448199 original size:29 final size:28
Alignment explanation
Indices: 6448148--6448250 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
6448138 TTGTGATTTA
* *
6448148 AATTTAAG-TTTTTTTTGGGATTTTCAT
1 AATTTAGGATTTTTTTTGGAATTTTCAT
6448175 GAATTTAGGATTTTTTTTGGAATTTTCTAT
1 -AATTTAGGATTTTTTTTGGAATTTTC-AT
* *
6448205 AATTTAGGACTTTTTTTGGAATTTTAAT
1 AATTTAGGATTTTTTTTGGAATTTTCAT
* *
6448233 AAATTTACGATGTTTTTT
1 -AATTTAGGATTTTTTTT
6448251 AGAAAATAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
28 9 0.14
29 54 0.83
30 2 0.03
ACGTcount: A:0.25, C:0.04, G:0.15, T:0.56
Consensus pattern (28 bp):
AATTTAGGATTTTTTTTGGAATTTTCAT
Found at i:6454034 original size:352 final size:352
Alignment explanation
Indices: 6453364--6454040 Score: 1072
Period size: 352 Copynumber: 1.9 Consensus size: 352
6453354 TATTAGAATG
* * * * *
6453364 TTAACATTTGTGGCTACAATTAAATGGGAAATTTCGGTATTAAAGCCCTGAAGCATTGATAGTTT
1 TTAACATTGGTAGCCACAATTAAATGGGAAATTTCGGGATTAAAGCCCTAAAGCATTGATAGTTT
*
6453429 GCAAATTGGCCCCCAATACTTCAAAAAAAAAATTGATTTAACCCCTAGAATTAAATAATTAAATT
66 GCAAATTGACCCCCAATACTT--AAAAAAAAATTGATTTAACCCCTAGAATTAAATAATTAAATT
6453494 AAATATATCATTTCATTAAAAATTAGGGGTGTAACAGGAGCCATTCTCAATTAGTGTATCCTCGA
129 AAATATATCATTTCATTAAAAATTAGGGGTG-AACAGGAGCCATTCTCAATTAGTGTATCCTCGA
* * * *
6453559 TGAAGCACCACTCAAGTCTATCATAAGCTTTTTTCATATCGACTTTTATGGCCATCCAACCATGC
193 TGAAGCACAACTCAAGTCTATCATAAGCTTTTTCCAAATCGACTTTTATCGCCATCCAACCATGC
* *
6453624 TTACCAAACTTCTTTCGCATTGAATGGATAATCTCTTGTGTAATGATAATATTATCAATAATGCT
258 TTACCAAACTTCTTTCGCATTGAAGGGATAATCTCTTGTGCAATGATAATATTATCAATAATGCT
6453689 CTCATCTTTATTTTTGTAATTCCTAGATTT
323 CTCATCTTTATTTTTGTAATTCCTAGATTT
* * * * *
6453719 TTAACATTGGTAGCCACAATTGAATGGGAAATTTTGGGCTTAAGGTCCTAAAGCATTGATAGTTT
1 TTAACATTGGTAGCCACAATTAAATGGGAAATTTCGGGATTAAAGCCCTAAAGCATTGATAGTTT
* * *
6453784 GCAAATTGACCCCCAATACTT-TAAAAAAATTCGATTTAGCCCCTAGAATTAAAGT-ATTAATTT
66 GCAAATTGACCCCCAATACTTAAAAAAAAATT-GATTTAACCCCTAGAATTAAA-TAATTAAATT
*
6453847 AAATATATCATTTCATTAAAAATTAGGGGTG-ACAGGAGCCCTTCTCAATTAGTGTATCCTCGAT
129 AAATATATCATTTCATTAAAAATTAGGGGTGAACAGGAGCCATTCTCAATTAGTGTATCCTCGAT
6453911 GAAGCACAACTCAAGTCTATCATAAGCTTTTTCCAAATCGACTTTTTATCGCCATCCAACCATGC
194 GAAGCACAACTCAAGTCTATCATAAGCTTTTTCCAAATCGAC-TTTTATCGCCATCCAACCATGC
* *
6453976 TTACCGAACTTCTTTCGTATTGAAGGGATAATCTCTTGTGCAATGATAATATTATCAATAATGCT
258 TTACCAAACTTCTTTCGCATTGAAGGGATAATCTCTTGTGCAATGATAATATTATCAATAATGCT
6454041 TCTCCCTGGA
Statistics
Matches: 296, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
351 71 0.24
352 91 0.31
353 58 0.20
354 1 0.00
355 75 0.25
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (352 bp):
TTAACATTGGTAGCCACAATTAAATGGGAAATTTCGGGATTAAAGCCCTAAAGCATTGATAGTTT
GCAAATTGACCCCCAATACTTAAAAAAAAATTGATTTAACCCCTAGAATTAAATAATTAAATTAA
ATATATCATTTCATTAAAAATTAGGGGTGAACAGGAGCCATTCTCAATTAGTGTATCCTCGATGA
AGCACAACTCAAGTCTATCATAAGCTTTTTCCAAATCGACTTTTATCGCCATCCAACCATGCTTA
CCAAACTTCTTTCGCATTGAAGGGATAATCTCTTGTGCAATGATAATATTATCAATAATGCTCTC
ATCTTTATTTTTGTAATTCCTAGATTT
Found at i:6457105 original size:17 final size:17
Alignment explanation
Indices: 6457079--6457124 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
6457069 TAATTAAATC
6457079 GTTT-TTTATTACTCAT
1 GTTTGTTTATTACTCAT
6457095 GTTTGTTTATTACTCAT
1 GTTTGTTTATTACTCAT
6457112 GTTTGTTTATTAC
1 GTTTGTTTATTAC
6457125 AGATATAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
GTTTGTTTATTACTCAT
Found at i:6458667 original size:21 final size:21
Alignment explanation
Indices: 6458590--6458659 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
6458580 AGTGGAAAAT
*
6458590 GAAGCAAGGGAAGCAGAGAGA
1 GAAGCAACGGAAGCAGAGAGA
* **
6458611 GCAGCAACGGAAGCAGCTAGA
1 GAAGCAACGGAAGCAGAGAGA
*
6458632 GAAGCAGCGGAAGCAGAGAGA
1 GAAGCAACGGAAGCAGAGAGA
6458653 GAAGCAA
1 GAAGCAA
6458660 TGGCAGCACA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.16, G:0.39, T:0.01
Consensus pattern (21 bp):
GAAGCAACGGAAGCAGAGAGA
Found at i:6459077 original size:43 final size:44
Alignment explanation
Indices: 6459030--6459133 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 44
6459020 AATATACCAT
* *
6459030 ACATTTAGCGGCGTTTGT-GATAAAAACGTCGCGAAATCTCAAG
1 ACATTTAGCGGCGTTTGTCGACAAAAACGCCGCGAAATCTCAAG
* * *
6459073 ACA-TT-GCGGCGTTT-TCGACGAAAATGCCGCTAAATCTCAAG
1 ACATTTAGCGGCGTTTGTCGACAAAAACGCCGCGAAATCTCAAG
6459114 ACATATTATGCGGCGTTTGT
1 ACAT-TTA-GCGGCGTTTGT
6459134 AGGAAAACGC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
40 1 0.02
41 32 0.64
42 2 0.04
43 5 0.10
45 9 0.18
46 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
ACATTTAGCGGCGTTTGTCGACAAAAACGCCGCGAAATCTCAAG
Found at i:6459179 original size:42 final size:42
Alignment explanation
Indices: 6459092--6459328 Score: 172
Period size: 43 Copynumber: 5.5 Consensus size: 42
6459082 CGTTTTCGAC
* * * *
6459092 GAAAATGCCGCTAAATCTCAAGACATATTATGCGGCGTTTGTAG
1 GAAAACGCCGCTAAATATC-A-ACATCTTCTGCGGCGTTTGTAG
*
6459136 GAAAACGCCGCTAAATATCAACATCTTCTGCGGCATTTGTAG
1 GAAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGTAG
* * * * * *
6459178 GAAAAACGCCGGTAAAAATAAACATCTACTACGGCGTTTGTGAA
1 G-AAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGT-AG
* ** * *
6459222 GAAAACGCCGCTAAACATCAACGCCTAT-TGCGACGTTTGTCTG
1 GAAAACGCCGCTAAATATCAACATCT-TCTGCGGCGTTTGT-AG
** * * * * *
6459265 CCAAATGCCGTTAAATATCAACACCTAT-TGCGGCGTTTTTCTG
1 GAAAACGCCGCTAAATATCAACATCT-TCTGCGGCGTTTGT-AG
*
6459308 CAAAACGCCGCTAAATATCAA
1 GAAAACGCCGCTAAATATCAA
6459329 TACCTTTTGC
Statistics
Matches: 156, Mismatches: 34, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
42 20 0.13
43 117 0.75
44 19 0.12
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
GAAAACGCCGCTAAATATCAACATCTTCTGCGGCGTTTGTAG
Found at i:6459299 original size:86 final size:85
Alignment explanation
Indices: 6459093--6459334 Score: 207
Period size: 86 Copynumber: 2.8 Consensus size: 85
6459083 GTTTTCGACG
* * * *
6459093 AAAATGCCGCTAAATCTCAAGACATATTATGCGGCGTTTGTAGGAAAACGCCGCTAAATATCAAC
1 AAAATGCCGCTAAATATCAACACCTA-T-TGCGGCGTTTGTAAGAAAACGCCGCTAAATATCAAC
* *
6459158 ATCTTCTGCGGCATTTGTAGGA
64 ACCTTCTGCGACATTTGTAGGA
* * * * * * * * *
6459180 AAAACGCCGGTAAAAATAAACATCTACTACGGCGTTTGTGAAGAAAACGCCGCTAAACATCAACG
1 AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGT-AAGAAAACGCCGCTAAATATCAACA
* ** *
6459245 CCTAT-TGCGACGTTTGTCTGC
65 CCT-TCTGCGACATTTGTAGGA
* * * ** *
6459266 CAAATGCCGTTAAATATCAACACCTATTGCGGCGTTTTTCTGCAAAACGCCGCTAAATATCAATA
1 AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGTAAG-AAAACGCCGCTAAATATCAACA
6459331 CCTT
65 CCTT
6459335 TTGCAGTGCC
Statistics
Matches: 119, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
85 13 0.11
86 87 0.73
87 19 0.16
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (85 bp):
AAAATGCCGCTAAATATCAACACCTATTGCGGCGTTTGTAAGAAAACGCCGCTAAATATCAACAC
CTTCTGCGACATTTGTAGGA
Found at i:6465128 original size:24 final size:24
Alignment explanation
Indices: 6465101--6465155 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
6465091 GTGTGTATAT
6465101 GTTGCAGAACAAGGTCATAAACGA
1 GTTGCAGAACAAGGTCATAAACGA
6465125 GTTGCAGAACAAGGTCATAAACGA
1 GTTGCAGAACAAGGTCATAAACGA
6465149 GTTGCAG
1 GTTGCAG
6465156 TACATGCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.18
Consensus pattern (24 bp):
GTTGCAGAACAAGGTCATAAACGA
Found at i:6466558 original size:7 final size:7
Alignment explanation
Indices: 6466548--6466588 Score: 52
Period size: 6 Copynumber: 6.1 Consensus size: 7
6466538 TCTTAAAATA
6466548 TAAACCC
1 TAAACCC
6466555 TAAACCC
1 TAAACCC
6466562 -AAACCC
1 TAAACCC
6466568 -AAACCC
1 TAAACCC
6466574 TTAAA-CC
1 -TAAACCC
6466581 TAAACCC
1 TAAACCC
6466588 T
1 T
6466589 TAATCTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 16 0.52
7 12 0.39
8 3 0.10
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:6466580 original size:20 final size:19
Alignment explanation
Indices: 6466549--6466587 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6466539 CTTAAAATAT
6466549 AAACCCTAAACCCAAACCC
1 AAACCCTAAACCCAAACCC
*
6466568 AAACCCTTAAACCTAAACCC
1 AAACCC-TAAACCCAAACCC
6466588 TTAATCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (19 bp):
AAACCCTAAACCCAAACCC
Found at i:6466585 original size:14 final size:14
Alignment explanation
Indices: 6466548--6466591 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
6466538 TCTTAAAATA
6466548 TAAACCCTAAACCC-
1 TAAA-CCTAAACCCT
*
6466562 -AAACCCAAACCCT
1 TAAACCTAAACCCT
6466575 TAAACCTAAACCCT
1 TAAACCTAAACCCT
6466589 TAA
1 TAA
6466592 TCTGATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCTAAACCCT
Found at i:6467583 original size:23 final size:23
Alignment explanation
Indices: 6467557--6467610 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
6467547 CCTAATTTAG
6467557 GGTTTTCTATTTACCCAGGATCA
1 GGTTTTCTATTTACCCAGGATCA
* *
6467580 GGTTTTCTATTTACCCGGGATCG
1 GGTTTTCTATTTACCCAGGATCA
6467603 GGTTTTCT
1 GGTTTTCT
6467611 TCCCGCCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (23 bp):
GGTTTTCTATTTACCCAGGATCA
Found at i:6475490 original size:24 final size:24
Alignment explanation
Indices: 6475463--6475520 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
6475453 TGGGGTAGTG
*
6475463 CATCGATGCACATGTTAAGGGATA
1 CATCGATACACATGTTAAGGGATA
*
6475487 CATCGATACACATGTTAAGGGATG
1 CATCGATACACATGTTAAGGGATA
*
6475511 CATCAATACA
1 CATCGATACA
6475521 TTGTAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (24 bp):
CATCGATACACATGTTAAGGGATA
Found at i:6477048 original size:23 final size:23
Alignment explanation
Indices: 6476983--6477040 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
6476973 TTTTATATGT
6476983 CACTTCGGTGCAATTCTACGCGG
1 CACTTCGGTGCAATTCTACGCGG
*
6477006 CACTTCGGTGCAATTCTACGTGG
1 CACTTCGGTGCAATTCTACGCGG
*
6477029 CACTTCAGTGCA
1 CACTTCGGTGCA
6477041 TTTATACGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.28
Consensus pattern (23 bp):
CACTTCGGTGCAATTCTACGCGG
Found at i:6477461 original size:17 final size:18
Alignment explanation
Indices: 6477439--6477472 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6477429 TTTAAAATAA
6477439 TGCATAATATG-TATATG
1 TGCATAATATGTTATATG
*
6477456 TGCATAGTATGTTATAT
1 TGCATAATATGTTATAT
6477473 ATAATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (18 bp):
TGCATAATATGTTATATG
Found at i:6479544 original size:34 final size:34
Alignment explanation
Indices: 6479504--6479574 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
6479494 AATGGTAATA
* *
6479504 AACAAAATTATCAAAACAAA-TTAAGAAAAAATCC
1 AACAAAATAAGCAAAACAAATTTAA-AAAAAATCC
* *
6479538 AACAAAATAAGCAAAATAAATTTTAAAAAAATCC
1 AACAAAATAAGCAAAACAAATTTAAAAAAAATCC
6479572 AAC
1 AAC
6479575 TGGTTGTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.65, C:0.14, G:0.03, T:0.18
Consensus pattern (34 bp):
AACAAAATAAGCAAAACAAATTTAAAAAAAATCC
Found at i:6486946 original size:44 final size:44
Alignment explanation
Indices: 6486883--6486974 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
6486873 TTGAGTGTTA
6486883 AGTATCAGCTCCCGAATGAGGATCTTGACGCGTTGATTTCAGTG
1 AGTATCAGCTCCCGAATGAGGATCTTGACGCGTTGATTTCAGTG
6486927 AGTATCAGCTCCCGAATGAGGATCTTGACGCGTTGATTTCAGTG
1 AGTATCAGCTCCCGAATGAGGATCTTGACGCGTTGATTTCAGTG
6486971 AGTA
1 AGTA
6486975 CCGACGAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (44 bp):
AGTATCAGCTCCCGAATGAGGATCTTGACGCGTTGATTTCAGTG
Found at i:6492960 original size:26 final size:28
Alignment explanation
Indices: 6492921--6492977 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
6492911 CCAGTATTAA
6492921 ATTACTATAC-AAAACATGATATTGATT
1 ATTACTATACAAAAACATGATATTGATT
* *
6492948 ATTATATATAAAAAAACATGATATTGATT
1 ATTA-CTATACAAAAACATGATATTGATT
6492977 A
1 A
6492978 AAACGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
29 18 0.69
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (28 bp):
ATTACTATACAAAAACATGATATTGATT
Found at i:6501805 original size:18 final size:21
Alignment explanation
Indices: 6501762--6501805 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6501752 GTTTTATATA
*
6501762 AAATCCGATTCAACCGCAGTT
1 AAATCCGATTCAAACGCAGTT
6501783 AAATCCGATT-AAAC-CAG-T
1 AAATCCGATTCAAACGCAGTT
6501801 AAATC
1 AAATC
6501806 ATTACCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 3 0.14
20 3 0.14
21 10 0.45
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (21 bp):
AAATCCGATTCAAACGCAGTT
Found at i:6505483 original size:243 final size:241
Alignment explanation
Indices: 6505045--6505528 Score: 918
Period size: 243 Copynumber: 2.0 Consensus size: 241
6505035 TTACCATGTT
6505045 GATTTAACGATTATACTTTTTTTTACATAAAATAAATATTTAAATATTTTTAATTTATTTAAATT
1 GATTTAACGATTATACTTTTTTTTACATAAAATAAATATTTAAATATTTTTAATTTATTTAAATT
6505110 TCAACATGTAAAATATTTTTCTAGAAGTAATTAGTTTTATTAAAATAGAAATTGTACAAATTCAA
66 TCAACATGTAAAATATTTTTCTAGAAGTAATTAGTTTTATTAAAATAGAAATTGTACAAATTCAA
6505175 TGAATGTTTACAATCACAATCGTAATTAATCACATAATAAATATATTTTCCTATAATCATTAATA
131 TGAATGTTTACAATCACAATCGTAATTAATCACATAATAAATATATTTTCCTATAATCATTAATA
6505240 CAAAAATAA-T-ATCGCTTAAAATCACACAAAAATCATACAAGTAA
196 CAAAAATAATTAATCGCTTAAAATCACACAAAAATCATACAAGTAA
6505284 GATTTAACGATTATACTTTTTTTTTACATAAAATAAATATTTAAATATTTTTAATTTATTTAAAT
1 GATTTAACGATTATAC-TTTTTTTTACATAAAATAAATATTTAAATATTTTTAATTTATTTAAAT
6505349 TTCAACATGTAAAATATTTTTTCTAGAAGTAATTAGTTTTATTAAAAATAGAAATTGTACAAATT
65 TTCAACATGTAAAATA-TTTTTCTAGAAGTAATTAGTTTTATT-AAAATAGAAATTGTACAAATT
6505414 ACAATGAATGTTTACAATCACAATCGTAATTAATCACATAATAAATATATTTTCCTATAATCATT
128 -CAATGAATGTTTACAATCACAATCGTAATTAATCACATAATAAATATATTTTCCTATAATCATT
6505479 AATACAAAAATAATTAATCGCTTAAAATCACACAAAAATCATACAAGTAA
192 AATACAAAAATAATTAATCGCTTAAAATCACACAAAAATCATACAAGTAA
6505529 AAGATTAAAA
Statistics
Matches: 239, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
239 16 0.07
240 64 0.27
241 26 0.11
242 21 0.09
243 77 0.32
244 1 0.00
245 34 0.14
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.39
Consensus pattern (241 bp):
GATTTAACGATTATACTTTTTTTTACATAAAATAAATATTTAAATATTTTTAATTTATTTAAATT
TCAACATGTAAAATATTTTTCTAGAAGTAATTAGTTTTATTAAAATAGAAATTGTACAAATTCAA
TGAATGTTTACAATCACAATCGTAATTAATCACATAATAAATATATTTTCCTATAATCATTAATA
CAAAAATAATTAATCGCTTAAAATCACACAAAAATCATACAAGTAA
Found at i:6507807 original size:22 final size:24
Alignment explanation
Indices: 6507781--6507829 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6507771 TAGTTTTATT
6507781 TCTCT-GT-TTTTTTTTCTGTCTC
1 TCTCTAGTCTTTTTTTTCTGTCTC
* *
6507803 TCTCTATTCTTTTTTTTTTGTCTC
1 TCTCTAGTCTTTTTTTTCTGTCTC
6507827 TCT
1 TCT
6507830 GTCTCGTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 1 0.04
24 17 0.74
ACGTcount: A:0.02, C:0.22, G:0.06, T:0.69
Consensus pattern (24 bp):
TCTCTAGTCTTTTTTTTCTGTCTC
Found at i:6508358 original size:3 final size:3
Alignment explanation
Indices: 6508345--6508426 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
6508335 TTAATATATT
* *
6508345 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6508392 TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6508427 TGGATAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6509224 original size:112 final size:113
Alignment explanation
Indices: 6508743--6509378 Score: 1094
Period size: 113 Copynumber: 5.7 Consensus size: 113
6508733 GAATTATGCC
* * *
6508743 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
6508806 TATGAAC-TTCTCCGG-AAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
6508852 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
6508917 TATGAACTTTTTCTGGAAAAAATGTTCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
6508965 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
6509030 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
6509078 AAAAGGTTG-ATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
6509142 TATGAAC-TTCTCTGG-AAA-A-GATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
6509186 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
6509250 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
6509298 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
6509363 TATGAACCTTCTCTGG
66 TATGAACTTTCTCTGG
6509379 CAATGTTAAT
Statistics
Matches: 503, Mismatches: 14, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
108 45 0.09
109 63 0.13
110 39 0.08
111 40 0.08
112 153 0.30
113 163 0.32
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
Found at i:6509224 original size:221 final size:224
Alignment explanation
Indices: 6508743--6509378 Score: 1099
Period size: 221 Copynumber: 2.9 Consensus size: 224
6508733 GAATTATGCC
* * *
6508743 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
6508806 TATGAAC-TTCTCCGG-AAAGATAATCCATCAATTGATGGATTCAGGTAAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATT
*
6508869 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGG-
*
6508934 AAAAATGTTCCATCAAGTGATGAATTCAGGT
194 AAAAATGATCCATCAAGTGATGAATTCAGGT
6508965 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
6509030 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTG-ATAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATT
6509094 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG-A
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
6509158 AAA-GATCCATCAAGTGATGAATTCAGGT
196 AAATGATCCATCAAGTGATGAATTCAGGT
6509186 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT-TCAT
1 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
6509250 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATT
6509315 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGG
6509379 CAATGTTAAT
Statistics
Matches: 398, Mismatches: 10, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
220 61 0.15
221 145 0.36
222 17 0.04
223 32 0.08
224 38 0.10
225 68 0.17
226 37 0.09
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (224 bp):
AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAATAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
AAATGATCCATCAAGTGATGAATTCAGGT
Found at i:6510237 original size:50 final size:50
Alignment explanation
Indices: 6510125--6510367 Score: 461
Period size: 50 Copynumber: 4.9 Consensus size: 50
6510115 GGTTCTGCCA
6510125 AACCAGATCAGATAACTCAAAGAACACTTCCAG-AGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
6510174 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
* *
6510224 AACCAGATAAGATAATTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
6510274 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
6510324 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
6510368 AGCAAATTCA
Statistics
Matches: 189, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
49 33 0.17
50 156 0.83
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (50 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCT
Found at i:6510416 original size:83 final size:84
Alignment explanation
Indices: 6510327--6510487 Score: 315
Period size: 83 Copynumber: 1.9 Consensus size: 84
6510317 TCTGTCTAAC
6510327 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCAAATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCA
6510391 ATGATTGGTTCTGCCAAAT
66 ATGATTGGTTCTGCCAAAT
6510410 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCA
6510475 ATGATTGGTTCTG
66 ATGATTGGTTCTG
6510488 AGATATCACA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 41 0.53
84 36 0.47
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCA
ATGATTGGTTCTGCCAAAT
Found at i:6511269 original size:16 final size:17
Alignment explanation
Indices: 6511231--6511275 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
6511221 CAATATAAAG
*
6511231 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
6511249 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
6511265 AATAAATTGAA
1 AATAAATTGAA
6511276 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:6522202 original size:16 final size:15
Alignment explanation
Indices: 6522181--6522229 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
6522171 CCTTTGACAG
*
6522181 TAAAATAATAATGAAA
1 TAAAATAATAA-CAAA
*
6522197 TAAAATAATTACAAA
1 TAAAATAATAACAAA
*
6522212 TAAAATAA-AACAGA
1 TAAAATAATAACAAA
6522226 TAAA
1 TAAA
6522230 TATTATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 8 0.28
15 11 0.38
16 10 0.34
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (15 bp):
TAAAATAATAACAAA
Found at i:6524461 original size:3 final size:3
Alignment explanation
Indices: 6524453--6524562 Score: 184
Period size: 3 Copynumber: 36.7 Consensus size: 3
6524443 TTAATATATT
*
6524453 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
6524501 TAA TAA TAA TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6524549 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
6524563 TGGATAAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6526614 original size:32 final size:31
Alignment explanation
Indices: 6526572--6526649 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
6526562 CAATTATTTT
*
6526572 TAATAATTATTATTAAGAGTTCAAATTTCCTC
1 TAATATTTATTATTAAGAGTTC-AATTTCCTC
* * ** *
6526604 TAATATTTATTATTATGGGTTCAATTTTTTT
1 TAATATTTATTATTAAGAGTTCAATTTCCTC
6526635 TAATATTTATTATTA
1 TAATATTTATTATTA
6526650 GGGCCTACTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 21 0.52
32 19 0.47
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (31 bp):
TAATATTTATTATTAAGAGTTCAATTTCCTC
Found at i:6536399 original size:12 final size:13
Alignment explanation
Indices: 6536367--6536393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6536357 TTATTATAAA
6536367 ATAATATTTTTTT
1 ATAATATTTTTTT
6536380 ATAATATTTTTTT
1 ATAATATTTTTTT
6536393 A
1 A
6536394 ATTATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATAATATTTTTTT
Found at i:6543199 original size:6 final size:7
Alignment explanation
Indices: 6543165--6543196 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6543155 GAAGAAAACT
*
6543165 ATTTTAG
1 ATTTTAA
6543172 ATTTTAA
1 ATTTTAA
6543179 ATTTTAA
1 ATTTTAA
6543186 ATTTTAA
1 ATTTTAA
6543193 ATTT
1 ATTT
6543197 AAACTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (7 bp):
ATTTTAA
Found at i:6543227 original size:23 final size:22
Alignment explanation
Indices: 6543196--6543272 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 22
6543186 ATTTTAAATT
6543196 TAAACTATACAAATATAGAAAAAA
1 TAAA-TATACAAATATA-AAAAAA
*
6543220 TAAATATA-AAAT-TACTAAAAA
1 TAAATATACAAATATA-AAAAAA
*
6543241 TAAAAAT-CAAATTACTAAAAAAA
1 TAAATATACAAA-TA-TAAAAAAA
6543264 TTAAATATA
1 -TAAATATA
6543273 TTTATATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
21 16 0.38
22 5 0.12
23 9 0.21
24 12 0.29
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAATATACAAATATAAAAAAA
Found at i:6543239 original size:21 final size:21
Alignment explanation
Indices: 6543215--6543261 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6543205 CAAATATAGA
*
6543215 AAAAATAAATATAAAATTACT
1 AAAAATAAAAATAAAATTACT
*
6543236 AAAAATAAAAATCAAATTACT
1 AAAAATAAAAATAAAATTACT
6543257 AAAAA
1 AAAAA
6543262 AATTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATAAAAATAAAATTACT
Found at i:6543555 original size:21 final size:21
Alignment explanation
Indices: 6543529--6543575 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6543519 ATATATATAC
*
6543529 TTTTTAGTAATTTAATTTTTA
1 TTTTTAGTAATTTAATATTTA
* *
6543550 TTTTTAGTAGTTTTATATTTA
1 TTTTTAGTAATTTAATATTTA
6543571 TTTTT
1 TTTTT
6543576 TCTATATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTTAGTAATTTAATATTTA
Found at i:6543748 original size:21 final size:21
Alignment explanation
Indices: 6543724--6543764 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6543714 TCAGCCACTG
*
6543724 TGAATCGCCACATCAACACCT
1 TGAAGCGCCACATCAACACCT
* *
6543745 TGAAGCGTCACGTCAACACC
1 TGAAGCGCCACATCAACACC
6543765 GTAATAGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.37, G:0.15, T:0.17
Consensus pattern (21 bp):
TGAAGCGCCACATCAACACCT
Found at i:6556049 original size:12 final size:12
Alignment explanation
Indices: 6556032--6556057 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6556022 TATGACAAAC
6556032 TTTCATCTAGCA
1 TTTCATCTAGCA
6556044 TTTCATCTAGCA
1 TTTCATCTAGCA
6556056 TT
1 TT
6556058 AGCAGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTCATCTAGCA
Found at i:6559170 original size:23 final size:23
Alignment explanation
Indices: 6559144--6559194 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
6559134 TATTTGTTCA
*
6559144 TTTAAAGTTCACGAATATATTCG
1 TTTAAAGTTCACGAACATATTCG
* ** *
6559167 TTTAATGTTCGTGAACATGTTCG
1 TTTAAAGTTCACGAACATATTCG
6559190 TTTAA
1 TTTAA
6559195 CATCTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (23 bp):
TTTAAAGTTCACGAACATATTCG
Found at i:6559441 original size:24 final size:24
Alignment explanation
Indices: 6559414--6559499 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
6559404 AAAAGAATCG
*
6559414 ATAAACGAGTTTATAAATAAGCCA
1 ATAAACGAGTTTATAAATAAGACA
* **
6559438 ATAAACGA-TATTATAAACAAGATG
1 ATAAACGAGT-TTATAAATAAGACA
* **
6559462 ATAAACAAACTTATAAATAAGACA
1 ATAAACGAGTTTATAAATAAGACA
*
6559486 ATAAATGAGTTTAT
1 ATAAACGAGTTTAT
6559500 TCGTGAACAT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.27
Consensus pattern (24 bp):
ATAAACGAGTTTATAAATAAGACA
Found at i:6559441 original size:48 final size:48
Alignment explanation
Indices: 6559389--6559491 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
6559379 AGGAGAACCG
* * ** *
6559389 AATAAATAATCTTAT-AA-AAGAATCGATAAACGAGTTTATAAATAAGCC
1 AATAAATAATATTATAAACAAG-AT-GATAAACAAACTTATAAATAAGAC
**
6559437 AATAAACGATATTATAAACAAGATGATAAACAAACTTATAAATAAGAC
1 AATAAATAATATTATAAACAAGATGATAAACAAACTTATAAATAAGAC
6559485 AATAAAT
1 AATAAAT
6559492 GAGTTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
48 38 0.84
49 4 0.09
50 3 0.07
ACGTcount: A:0.56, C:0.10, G:0.09, T:0.25
Consensus pattern (48 bp):
AATAAATAATATTATAAACAAGATGATAAACAAACTTATAAATAAGAC
Found at i:6560601 original size:27 final size:27
Alignment explanation
Indices: 6560544--6560613 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
6560534 CTCGACCCCG
* *
6560544 ACCCGAATATCACACTTAAAAAAGCCTA
1 ACCCAAATATCAAACTTAAAAAA-CCTA
6560572 ACCCAAATATCAAACTTAAAAAA-CTA
1 ACCCAAATATCAAACTTAAAAAACCTA
*
6560598 AACCAAA-ACTCAAACT
1 ACCCAAATA-TCAAACT
6560614 ATTTATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.03
26 16 0.42
28 21 0.55
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.17
Consensus pattern (27 bp):
ACCCAAATATCAAACTTAAAAAACCTA
Found at i:6565609 original size:27 final size:28
Alignment explanation
Indices: 6565570--6565633 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
6565560 GAAAGGACAG
* *
6565570 AAATACCCTTGAACTGTA-AAATGACC-A
1 AAATACCCCTGAACTG-AGAAATAACCTA
*
6565597 AAATACCCCTGAATTGAGAAATAACCTA
1 AAATACCCCTGAACTGAGAAATAACCTA
6565625 AAATACCCC
1 AAATACCCC
6565634 CAAACCTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.66
28 10 0.31
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.20
Consensus pattern (28 bp):
AAATACCCCTGAACTGAGAAATAACCTA
Found at i:6569926 original size:3 final size:3
Alignment explanation
Indices: 6569914--6569961 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
6569904 CCGTTATATA
*
6569914 TAT T-T TAT TAT TAT TAAT TAT TAT TAAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
6569960 TA
1 TA
6569962 ATTTTACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6569935 original size:10 final size:10
Alignment explanation
Indices: 6569920--6569964 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
6569910 TATATATTTT
6569920 ATTATTATTA
1 ATTATTATTA
6569930 ATTATTATTA
1 ATTATTATTA
*
6569940 ACTATTATTA
1 ATTATTATTA
6569950 TTATTATTATTA
1 --ATTATTATTA
6569962 ATT
1 ATT
6569965 TTACATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 22 0.71
12 9 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATTATTA
Found at i:6569936 original size:13 final size:12
Alignment explanation
Indices: 6569914--6569961 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
6569904 CCGTTATATA
6569914 TATT-TTATTAT
1 TATTATTATTAT
6569925 TATTAATTATTAT
1 TATT-ATTATTAT
*
6569938 TAACTATTATTAT
1 T-ATTATTATTAT
6569951 TATTATTATTA
1 TATTATTATTA
6569962 ATTTTACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.12
12 9 0.28
13 17 0.53
14 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAT
Found at i:6571453 original size:2 final size:2
Alignment explanation
Indices: 6571446--6571498 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6571436 ATATTTATTT
6571446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6571488 TA TA TA TA TA T
1 TA TA TA TA TA T
6571499 TCCCTTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6573312 original size:16 final size:16
Alignment explanation
Indices: 6573291--6573323 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6573281 TTCCTGTTAG
6573291 AGCCGAAACCATGCAT
1 AGCCGAAACCATGCAT
6573307 AGCCGAAACCATGCAT
1 AGCCGAAACCATGCAT
6573323 A
1 A
6573324 TAATGAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.12
Consensus pattern (16 bp):
AGCCGAAACCATGCAT
Found at i:6584746 original size:43 final size:40
Alignment explanation
Indices: 6584650--6584753 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
6584640 AAGATGGCCA
** *
6584650 AGAACTCTTCATCACGTATGAGTCGTGTCATCCTTCGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
** *
6584690 AGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGACGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTT---CGACC
*
6584733 CGAACTCTTCATCACGTATGA
1 AGAACTCTTCATCACGTATGA
6584754 GCAGTGTCGT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
40 29 0.57
43 22 0.43
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
Found at i:6584932 original size:3 final size:3
Alignment explanation
Indices: 6584919--6584973 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
6584909 TTTATATATA
* *
6584919 TAT TTT TAT TAT TAT TAAT TAT TAT TAAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
6584966 TAT TAT TA
1 TAT TAT TA
6584974 ATTTTACATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:6584941 original size:10 final size:10
Alignment explanation
Indices: 6584926--6584976 Score: 79
Period size: 10 Copynumber: 5.3 Consensus size: 10
6584916 ATATATTTTT
6584926 ATTATTATTA
1 ATTATTATTA
6584936 ATTATTATTA
1 ATTATTATTA
*
6584946 ACTATTATT-
1 ATTATTATTA
6584955 ATTATTATT-
1 ATTATTATTA
6584964 ATTATTATTA
1 ATTATTATTA
6584974 ATT
1 ATT
6584977 TTACATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 17 0.45
10 21 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATTATTA
Found at i:6602263 original size:20 final size:20
Alignment explanation
Indices: 6602229--6602285 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
6602219 TTATATTTTA
* *
6602229 TAATTATATATTATTTAAAT
1 TAATTATAAAATATTTAAAT
* **
6602249 TAATTATAAACTATTT-TTT
1 TAATTATAAAATATTTAAAT
6602268 TAATTATAAAATATTTAA
1 TAATTATAAAATATTTAA
6602286 TTTTTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTATAAAATATTTAAAT
Found at i:6602283 original size:39 final size:41
Alignment explanation
Indices: 6602205--6602285 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 41
6602195 AATCAATATT
* * *
6602205 AATTAATTAAAAATTTATATTTTATAATTATATATTATTTA
1 AATTAATTAAAAATCTATATTTTATAATTATAAAATATTTA
* *
6602246 AATTAATTATAAA-CTAT-TTTTTTAATTATAAAATATTTA
1 AATTAATTAAAAATCTATATTTTATAATTATAAAATATTTA
6602285 A
1 A
6602286 TTTTTTTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.57
40 3 0.09
41 12 0.34
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (41 bp):
AATTAATTAAAAATCTATATTTTATAATTATAAAATATTTA
Found at i:6611128 original size:34 final size:37
Alignment explanation
Indices: 6611080--6611148 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
6611070 TTTTAAATAC
*
6611080 AAACAAACTTACAATAA-G-TATTAAATGGTAATGAT
1 AAACAAACTTACAATAACGATATTAAATGATAATGAT
6611115 AAACAAA-TTACAATAACTGATATTAAATGATAAT
1 AAACAAACTTACAATAAC-GATATTAAATGATAAT
6611149 AAACAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 9 0.30
35 7 0.23
36 1 0.03
37 13 0.43
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (37 bp):
AAACAAACTTACAATAACGATATTAAATGATAATGAT
Found at i:6611151 original size:34 final size:34
Alignment explanation
Indices: 6611080--6611155 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
6611070 TTTTAAATAC
*
6611080 AAACAAACTTACAATAAGTATTAAATGGTAATGAT
1 AAACAAACTTACAATAAGTATTAAATGG-AATAAT
6611115 AAACAAA-TTACAATAACTGATATTAAAT-G-ATAAT
1 AAACAAACTTACAATAA--G-TATTAAATGGAATAAT
6611149 AAACAAA
1 AAACAAA
6611156 ATTAATCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
34 20 0.54
35 7 0.19
36 2 0.05
37 8 0.22
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (34 bp):
AAACAAACTTACAATAAGTATTAAATGGAATAAT
Found at i:6611192 original size:34 final size:34
Alignment explanation
Indices: 6611154--6611237 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
6611144 ATAATAAACA
*
6611154 AAATTAATCAAAATACATTAACAA-AAAGTCCAA-C
1 AAATTAATCAAAATAAATTAA-AATAAA-TCCAACC
6611188 AAATTTAA-CAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAATCAAAATAAATTAAAATAAATCCAACC
*
6611222 AAATTAAT-GAAATAAA
1 AAATTAATCAAAATAAA
6611238 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (34 bp):
AAATTAATCAAAATAAATTAAAATAAATCCAACC
Found at i:6613543 original size:17 final size:18
Alignment explanation
Indices: 6613506--6613561 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 18
6613496 TTTATATCTG
* *
6613506 TAAAAAAATTAATTAAA-
1 TAAAATAATTAAATAAAT
*
6613523 TAAAAT-ATTTAA-AAAT
1 TAAAATAATTAAATAAAT
*
6613539 TTAAATAATTAAATAAAT
1 TAAAATAATTAAATAAAT
6613557 TAAAA
1 TAAAA
6613562 ACAAAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
17 10 0.33
18 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAATAATTAAATAAAT
Found at i:6613635 original size:20 final size:20
Alignment explanation
Indices: 6613612--6613663 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
6613602 AAATAGAATA
6613612 TAAGAGTATTTGAGAGAAGT
1 TAAGAGTATTTGAGAGAAGT
6613632 TAAGAGTATTTGAGAGAAGT
1 TAAGAGTATTTGAGAGAAGT
* *
6613652 TGAGAGGATTTG
1 TAAGAGTATTTG
6613664 GTGTGATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.31
Consensus pattern (20 bp):
TAAGAGTATTTGAGAGAAGT
Found at i:6618026 original size:77 final size:78
Alignment explanation
Indices: 6617933--6618085 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 78
6617923 GCTTCCTTAT
6617933 TAGGTGCTTTGTGGTAAGTTTTTCTTTCTTGACCAAACTTTGTGATATGTTTTCAAGCTATATAA
1 TAGGTGCTTTGTGGTAAGTTTTTCTTTCTTGACCAAACTTTGTGATATGTTTTCAAGCTATATAA
6617998 TTTA-TTGATTGA
66 TTTATTTGATTGA
*
6618010 TAGGTGCTTTGTGGTAAGTTTTTCTTTCTTGGCCAAACTTTGTGATATGTTTTCAAGCTATATAA
1 TAGGTGCTTTGTGGTAAGTTTTTCTTTCTTGACCAAACTTTGTGATATGTTTTCAAGCTATATAA
6618075 TTTATTTGATT
66 TTTATTTGATT
6618086 TTATATATTG
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
77 68 0.92
78 6 0.08
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (78 bp):
TAGGTGCTTTGTGGTAAGTTTTTCTTTCTTGACCAAACTTTGTGATATGTTTTCAAGCTATATAA
TTTATTTGATTGA
Found at i:6625413 original size:89 final size:90
Alignment explanation
Indices: 6625250--6625433 Score: 352
Period size: 89 Copynumber: 2.1 Consensus size: 90
6625240 TTTTTGAAAA
*
6625250 TGAAAGAACCCAAATGGTCTGATAATCGATACCCGCCTATTAATTTCCAGGATATTTGTTATTAC
1 TGAATGAACCCAAATGGTCTGATAATCGATACCCGCCTATTAATTTCCAGGATATTTGTTATTAC
6625315 TCTGCACCCGAAAAGAAGCCAACTT
66 TCTGCACCCGAAAAGAAGCCAACTT
6625340 TGAATGAACCC-AATGGTCTGATAATCGATACCCGCCTATTAATTTCCAGGATATTTGTTATTAC
1 TGAATGAACCCAAATGGTCTGATAATCGATACCCGCCTATTAATTTCCAGGATATTTGTTATTAC
6625404 TCTGCACCCGAAAAGAAGCCAACTT
66 TCTGCACCCGAAAAGAAGCCAACTT
6625429 TGAAT
1 TGAAT
6625434 AGCTTAGATG
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 83 0.89
90 10 0.11
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (90 bp):
TGAATGAACCCAAATGGTCTGATAATCGATACCCGCCTATTAATTTCCAGGATATTTGTTATTAC
TCTGCACCCGAAAAGAAGCCAACTT
Found at i:6626677 original size:2 final size:2
Alignment explanation
Indices: 6626670--6626697 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6626660 TATTTTAAGA
6626670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6626698 TTTTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6628545 original size:114 final size:113
Alignment explanation
Indices: 6628346--6628790 Score: 707
Period size: 113 Copynumber: 3.9 Consensus size: 113
6628336 ATAGAGTCGT
* *
6628346 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* * *
6628411 TTATGACCTTCTACCTGGCAATGCTAATCCATCGAGTGATGAATTGAA
66 TTATGAACTTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTGAA
*
6628459 GCAAAATGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCCTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TTCCTCTTCAGATGAGTTCTTCTC
* *
6628524 ATTATGAACTTTTACCTGGCAATGCTGATCCATCAAGTGATGGATTTG-A
65 ATTATGAACTTCTACCTGGCAATGCTGATCCATCAAGTGAT-GAATTGAA
** *
6628573 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTTTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* *
6628638 TTATGAACTTCTACCTGACAATGCTGATCCATCGAGTGATGAATTGAA
66 TTATGAACTTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTGAA
*
6628686 GCAAAATGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
*
6628751 TTATGAACTT-T-CTCTGGAAATGCTGATCCATCAAGTGATG
66 TTATGAACTTCTAC-CTGGCAATGCTGATCCATCAAGTGATG
6628791 GATTTGAATC
Statistics
Matches: 305, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
111 1 0.00
112 30 0.10
113 171 0.56
114 98 0.32
115 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTGAA
Found at i:6628670 original size:227 final size:225
Alignment explanation
Indices: 6628346--6628797 Score: 807
Period size: 227 Copynumber: 2.0 Consensus size: 225
6628336 ATAGAGTCGT
*
6628346 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* *
6628411 TTATGACCTTCTACCTGGCAATGCTAATCCATCGAGTGATGAATTGAAGCAAAATGTTGAACAAA
66 TTATGAACTTCTACCTGACAATGCTAATCCATCGAGTGATGAATTGAAGCAAAATGTTGAACAAA
6628476 TTCTTCTCATTATGAATTTCTTCTTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TACC
131 TTCTTCTCATTATGAATTTCTTC-TTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT--C
*
6628540 TGGCAATGCTGATCCATCAAGTGATGGATTTGA
193 TGGAAATGCTGATCCATCAAGTGATGGATTTGA
* *
6628573 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTTTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
*
6628638 TTATGAACTTCTACCTGACAATGCTGATCCATCGAGTGATGAATTGAAGCAAAATGTTGAACAAA
66 TTATGAACTTCTACCTGACAATGCTAATCCATCGAGTGATGAATTGAAGCAAAATGTTGAACAAA
6628703 TTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
6628768 AAATGCTGATCCATCAAGTGATGGATTTGA
196 AAATGCTGATCCATCAAGTGATGGATTTGA
6628798 ATCTTTGCTA
Statistics
Matches: 217, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
225 33 0.15
226 36 0.17
227 148 0.68
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (225 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTACCTGACAATGCTAATCCATCGAGTGATGAATTGAAGCAAAATGTTGAACAAA
TTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAATGCTGATCCATCAAGTGATGGATTTGA
Found at i:6629645 original size:54 final size:54
Alignment explanation
Indices: 6629551--6629653 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
6629541 AGAATAACTG
* * *
6629551 GTTCGTAAAATATTTGACAACACATTCATCCTCTCATGTGGTTTCTGCCCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTCTGCCCAGAT
* * * *
6629605 GTTCATAAAACATTTGATAACACATTCATCTTTTCCTGTGGCTTCTGCC
1 GTTCATAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTCTGCC
6629654 ACATTTTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCCTCTCATGTGGCTTCTGCCCAGAT
Found at i:6638444 original size:28 final size:26
Alignment explanation
Indices: 6638389--6638446 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
6638379 AAACATTAAT
*
6638389 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
6638415 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
6638443 AAAA
1 AAAA
6638447 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:6638549 original size:26 final size:28
Alignment explanation
Indices: 6638507--6638577 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
6638497 GAAAAATAAA
6638507 ATAAAACATTAAT-AAAATAAT-A-TACAT
1 ATAAAA-ATT-ATGAAAATAATAAGTACAT
* *
6638534 ATAAATATTATGAAAATAATAAGTATAT
1 ATAAAAATTATGAAAATAATAAGTACAT
*
6638562 ATAAAAATTTTGAAAA
1 ATAAAAATTATGAAAA
6638578 GAAAGAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.05
26 11 0.30
27 6 0.16
28 18 0.49
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAAAAATTATGAAAATAATAAGTACAT
Found at i:6638557 original size:131 final size:131
Alignment explanation
Indices: 6638335--6638597 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 131
6638325 TGTTTAAACC
* * *
6638335 TCTGACAGATAAATAATGAAATAAAATATTTGAAAAATAAAATGAAACATTAATAAAATAATATA
1 TCTGACACATAAATAATGAAATAAAATACTTGAAAAATAAAATAAAACATTAATAAAATAATATA
6638400 CATATAAATATTATGAAAATAATAAGTATATATAAAAATTTTGAAAAGAAAGAATTAAAAATTAA
66 CATATAAATATTATGAAAATAATAAGTATATATAAAAATTTTGAAAAGAAAGAATTAAAAATTAA
6638465 A
131 A
6638466 TCTGACACATAAATAATGAAATAAAATACTTGAAAAATAAAATAAAACATTAATAAAATAATATA
1 TCTGACACATAAATAATGAAATAAAATACTTGAAAAATAAAATAAAACATTAATAAAATAATATA
6638531 CATATAAATATTATGAAAATAATAAGTATATATAAAAATTTTGAAAAGAAAGAATTAAAAATTAA
66 CATATAAATATTATGAAAATAATAAGTATATATAAAAATTTTGAAAAGAAAGAATTAAAAATTAA
6638596 A
131 A
6638597 T
1 T
6638598 ATATGAATTT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (131 bp):
TCTGACACATAAATAATGAAATAAAATACTTGAAAAATAAAATAAAACATTAATAAAATAATATA
CATATAAATATTATGAAAATAATAAGTATATATAAAAATTTTGAAAAGAAAGAATTAAAAATTAA
A
Found at i:6639235 original size:2 final size:2
Alignment explanation
Indices: 6639228--6639267 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6639218 AAATACAATA
6639228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6639268 AATAGGATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6647919 original size:64 final size:62
Alignment explanation
Indices: 6647843--6648026 Score: 183
Period size: 64 Copynumber: 2.9 Consensus size: 62
6647833 CCGTTGGAAC
* *
6647843 ACTTGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT
1 ACTTGGTGCATCGATGCA-CAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT
** * *
6647906 AGCTTGGTGCATCGATGCA-TGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAAT
1 A-CTTGGTGCATCGATGCACAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT
* * * * *
6647970 A-TTCAGAGTGCATCGATGCATAGAGAGTGCATCGGTGTATGGAATGCATTCGATGTT
1 ACTT--G-GTGCATCGATGCACA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
6648027 CAATTAATTT
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
62 3 0.03
63 1 0.01
64 55 0.55
65 40 0.40
67 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (62 bp):
ACTTGGTGCATCGATGCACAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT
Found at i:6647936 original size:19 final size:20
Alignment explanation
Indices: 6647907--6647944 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
6647897 TTGAAAAATA
6647907 GCTTGGTGCATCGATGCATG
1 GCTTGGTGCATCGATGCATG
6647927 GCTT-GTGCATCGATGCAT
1 GCTTGGTGCATCGATGCAT
6647945 CAAATGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.32
Consensus pattern (20 bp):
GCTTGGTGCATCGATGCATG
Found at i:6648016 original size:65 final size:63
Alignment explanation
Indices: 6647867--6648026 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
6647857 TGCACCAAGT
* ***
6647867 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCTTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATA-CTTGGTGCATCGATGCATAGAGA
* *
6647931 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAATA-TTCAGAGTGCATCGATGCATAGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATACTT--G-GTGCATCGATGCATAGAG
6647995 A
63 A
* * *
6647996 GTGCATCGGTGTATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
6648027 CAATTAATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
62 2 0.02
64 39 0.47
65 42 0.51
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATACTTGGTGCATCGATGCATAGAGA
Found at i:6656610 original size:64 final size:63
Alignment explanation
Indices: 6656542--6656719 Score: 189
Period size: 64 Copynumber: 2.8 Consensus size: 63
6656532 GAACACTTGA
* *
6656542 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCA-CAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
** * **
6656606 TGCATCGATGCA-TGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGA
1 TGCATCGATGCACAAG--TGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGA
6656670 G
63 G
* * * *
6656671 TGCATCGATGCATAGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCACA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
6656720 CAATTAATTC
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
64 50 0.53
65 43 0.45
67 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (63 bp):
TGCATCGATGCACAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:6656693 original size:65 final size:65
Alignment explanation
Indices: 6656560--6656719 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
6656550 TGCACCAAGT
* * ***
6656560 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATAGAGA
* **
6656624 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATAGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATAGAG
6656688 A
65 A
* *
6656689 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
6656720 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATAGAGA
Found at i:6656759 original size:65 final size:65
Alignment explanation
Indices: 6656561--6656768 Score: 198
Period size: 65 Copynumber: 3.2 Consensus size: 65
6656551 GCACCAAGTG
* * ** *
6656561 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
6656624 G-
64 GA
* * * *
6656625 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATAGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
6656688 A
65 A
* *
6656689 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
6656751 CTGA
62 CTGA
6656755 TGCATCGGTGCATG
1 TGCATCGGTGCATG
6656769 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 50 0.41
65 59 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:6667658 original size:64 final size:63
Alignment explanation
Indices: 6667589--6667746 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 63
6667579 TTGAAGGTGT
* ***
6667589 ATCGATGCATCATTAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGTAATTCATG
1 ATCGATGCATCAGTAGTGCATCGATGCA-TACCAGTAATAAT-AAAACATCGAATG-AATTCATG
6667652 C
63 C
* * * *
6667653 ATCGATGCATAAGTAGTGCATCGATGCATACCAGTAATAATACAACATCGAATGCATTTATGC
1 ATCGATGCATCAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGAATTCATGC
*
6667716 AACGATGCATCAGTAGTGCATCGATGCATAC
1 ATCGATGCATCAGTAGTGCATCGATGCATAC
6667747 TTTCATTGAA
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
63 37 0.45
64 42 0.51
65 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATCGATGCATCAGTAGTGCATCGATGCATACCAGTAATAATAAAACATCGAATGAATTCATGC
Found at i:6668352 original size:31 final size:31
Alignment explanation
Indices: 6668258--6668365 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
6668248 AGTCGAGGGT
* *
6668258 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
6668289 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
6668320 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
6668351 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
6668366 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:6668372 original size:30 final size:30
Alignment explanation
Indices: 6668280--6668386 Score: 90
Period size: 31 Copynumber: 3.5 Consensus size: 30
6668270 TTTCGAGACA
* * * *
6668280 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
6668311 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
6668342 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
6668372 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
6668387 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
30 29 0.46
31 30 0.48
32 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:6675556 original size:21 final size:21
Alignment explanation
Indices: 6675530--6675572 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6675520 TTTCTGGGTT
* *
6675530 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
6675551 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
6675572 A
1 A
6675573 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:6675650 original size:70 final size:71
Alignment explanation
Indices: 6675552--6675693 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
6675542 ACCCATTCAA
* * *
6675552 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6675616 GGGGGG
66 GGGGGG
* * * *
6675622 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6675687 GGGGGG
66 GGGGGG
6675693 G
1 G
6675694 AACCGATTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 26 0.41
71 38 0.59
ACGTcount: A:0.26, C:0.25, G:0.31, T:0.18
Consensus pattern (71 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGGGGG
Found at i:6676386 original size:22 final size:22
Alignment explanation
Indices: 6676312--6676378 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
6676302 TTATGGACAT
6676312 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6676334 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6676356 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6676378 A
1 A
6676379 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:6682446 original size:21 final size:21
Alignment explanation
Indices: 6682420--6682462 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6682410 TTTCTGGGTT
* *
6682420 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
6682441 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
6682462 A
1 A
6682463 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:6682538 original size:68 final size:68
Alignment explanation
Indices: 6682442--6682594 Score: 218
Period size: 68 Copynumber: 2.2 Consensus size: 68
6682432 ACCCATTCAA
* * *
6682442 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6682506 GGGG
66 -GGG
* * * *
6682510 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
6682575 GGG
66 GGG
*
6682578 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
6682595 ATGAGAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
68 45 0.59
69 31 0.41
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GGG
Found at i:6683274 original size:22 final size:22
Alignment explanation
Indices: 6683200--6683266 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
6683190 TTATGGACAT
6683200 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6683222 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6683244 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
6683266 A
1 A
6683267 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:6684667 original size:14 final size:14
Alignment explanation
Indices: 6684648--6684690 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
6684638 TAAAATATTA
*
6684648 TATGAACAGTACCG
1 TATGAACAATACCG
**
6684662 TATGAACAATACAT
1 TATGAACAATACCG
6684676 TATGAACAATACCG
1 TATGAACAATACCG
6684690 T
1 T
6684691 GAACAGTACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (14 bp):
TATGAACAATACCG
Found at i:6685240 original size:18 final size:17
Alignment explanation
Indices: 6685216--6685262 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
6685206 CATGAACATA
6685216 TTTATCAATAA-TCATCT
1 TTTATCAATAATTCAT-T
*
6685233 TATTATCACTAATTCATT
1 T-TTATCAATAATTCATT
6685251 TTTATCATATAA
1 TTTATCA-ATAA
6685263 GCATATGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
19 4 0.16
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTATCAATAATTCATT
Found at i:6685549 original size:21 final size:21
Alignment explanation
Indices: 6685523--6685571 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6685513 CATATGAAAT
*
6685523 TTGTCCCGAAGGACCACTGTA
1 TTGTCCCGAAAGACCACTGTA
*
6685544 TTGTCCTGAAAGACCACTGTA
1 TTGTCCCGAAAGACCACTGTA
*
6685565 TTATCCC
1 TTGTCCC
6685572 AAAAACCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (21 bp):
TTGTCCCGAAAGACCACTGTA
Found at i:6687999 original size:45 final size:46
Alignment explanation
Indices: 6687909--6687999 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 46
6687899 TTGAAAAAGC
* * *
6687909 CTGAGTACATCGATGCATAGTCTTGTACATCAATGCATCAAATGCA
1 CTGAGTACATAGATGCATAGTCATGTACATCAATGCATAAAATGCA
* * * *
6687955 CTGAGTGCATAGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTACATAGATGCATAGTCATGTACATCAATGCATAAAATGCA
6688000 TTCGATGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 20 0.53
46 18 0.47
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (46 bp):
CTGAGTACATAGATGCATAGTCATGTACATCAATGCATAAAATGCA
Found at i:6695776 original size:64 final size:63
Alignment explanation
Indices: 6695672--6695790 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 63
6695662 TTGTTTAAGG
* **
6695672 TGCATCGATGCACATGAAGTGCATCGATGCATTAATTTAAAAAGAAAACATCGAATGCCATCGA
1 TGCATCGATGCACAAGAAGTGCATCGATGCACCAATTTAAAAA-AAAACATCGAATGCCATCGA
* * * * *
6695736 TGCATCGATGCATAAGGAGTGCATCGATGCACCCCA-TTAAATACAAACATCGAAT
1 TGCATCGATGCACAAGAAGTGCATCGATGCA-CCAATTTAAAAAAAAACATCGAAT
6695791 AAGATTTATG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 11 0.24
64 34 0.74
65 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (63 bp):
TGCATCGATGCACAAGAAGTGCATCGATGCACCAATTTAAAAAAAAACATCGAATGCCATCGA
Found at i:6696444 original size:103 final size:103
Alignment explanation
Indices: 6696265--6696592 Score: 611
Period size: 103 Copynumber: 3.2 Consensus size: 103
6696255 GTAGAGGGTC
6696265 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
6696330 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
*
6696368 TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
6696433 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
* *
6696471 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
*
6696536 TTGATCTTTGGCATATGTATATGATTATTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
*
6696574 TATGTGGTCCTTAGGGACA
1 TATGTGGTCCTTCGGGACA
6696593 ACTTTATATG
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 218 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAC
TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:6696628 original size:23 final size:23
Alignment explanation
Indices: 6696602--6696669 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
6696592 AACTTTATAT
*
6696602 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
6696625 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
6696648 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
6696670 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:6698859 original size:19 final size:19
Alignment explanation
Indices: 6698835--6698886 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
6698825 TTGGACCCTT
6698835 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
6698854 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
6698873 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
6698887 TAAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:6699003 original size:45 final size:46
Alignment explanation
Indices: 6698918--6699005 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
6698908 AAAAAGCCTG
* * *
6698918 AGTGCATCGATGCATAGTCTTGTGCATCGATGTATCAAATGCACTA
1 AGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCACTA
*
6698964 AGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCA
6699006 TTCGATGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 21 0.55
46 17 0.45
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (46 bp):
AGTGCATCGATGCATAGTCATGTGCATCGATGCATAAAATGCACTA
Found at i:6699053 original size:20 final size:20
Alignment explanation
Indices: 6699025--6699062 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6699015 CAATAAATTA
6699025 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
6699045 ATTGGTGCATCGGTGCAT
1 ATTGATGCATCGATGCAT
6699063 ACCCTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:6705576 original size:25 final size:25
Alignment explanation
Indices: 6705542--6705601 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
6705532 TTCATCGAAA
6705542 ACTATGAAATGTTATTGATTTATGG
1 ACTATGAAATGTTATTGATTTATGG
6705567 ACTATGAAATGTTATTGATTTATGG
1 ACTATGAAATGTTATTGATTTATGG
*
6705592 ACCATGAAAT
1 ACTATGAAAT
6705602 ATACTTGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (25 bp):
ACTATGAAATGTTATTGATTTATGG
Found at i:6706142 original size:83 final size:83
Alignment explanation
Indices: 6706003--6706168 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
6705993 CTTTGCTGTG
* **
6706003 TGCTTAGGGTAAGCCCTATGGACGCAGTTATGGGGAACTGTTTAATGGAGTTTGGTTAGAGGGTT
1 TGCTTAGGGTAAGCCCTACGGACGCAGTTATGGGGAACTGCATAATGGAGTTTGGTTAGAGGGTT
6706068 CCACTATGGTTTTAAAAA
66 CCACTATGGTTTTAAAAA
* *
6706086 TGCTTAGGGTAAGCCCTACGGACGCAGTTTTGGGGAACTGCATAATGGAGTTTGGTTGGAGGGTT
1 TGCTTAGGGTAAGCCCTACGGACGCAGTTATGGGGAACTGCATAATGGAGTTTGGTTAGAGGGTT
6706151 CCACTATGGTTTTAAAAA
66 CCACTATGGTTTTAAAAA
6706169 GATTTATATC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (83 bp):
TGCTTAGGGTAAGCCCTACGGACGCAGTTATGGGGAACTGCATAATGGAGTTTGGTTAGAGGGTT
CCACTATGGTTTTAAAAA
Found at i:6709710 original size:36 final size:36
Alignment explanation
Indices: 6709648--6709720 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
6709638 TTCATTTAGG
*
6709648 GGGGAATTGATACGCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATAC-CCCCCCAGGGGGAATCTGTTCCC
6709685 GGGGAATCGATA-CCCCCCAGAGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAG-GGGGAATCTGTTCCC
6709721 CCTGCACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.24
36 15 0.44
37 11 0.32
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.18
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
Found at i:6713045 original size:2 final size:2
Alignment explanation
Indices: 6713038--6713062 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6713028 ATCAAATTAT
6713038 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6713063 TCCAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6715801 original size:36 final size:37
Alignment explanation
Indices: 6715748--6715819 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
6715738 TTTCATTTAG
6715748 GGGGAAATCGATACCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAAATCGATACCCCCCAGGGGGGAATCTGTTCCC
6715784 GGGG-AATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAAATCGATACCCCCCAGGGGGGAATCTGTTCCC
6715820 CCTGCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 15 0.43
36 20 0.57
ACGTcount: A:0.21, C:0.31, G:0.32, T:0.17
Consensus pattern (37 bp):
GGGGAAATCGATACCCCCCAGGGGGGAATCTGTTCCC
Found at i:6728898 original size:53 final size:53
Alignment explanation
Indices: 6728835--6728940 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
6728825 TAATTTACGG
6728835 CATCAACTTAATAAAAGATATTATTATAAATATAAATACTCAAATGAATAACA
1 CATCAACTTAATAAAAGATATTATTATAAATATAAATACTCAAATGAATAACA
*
6728888 CATCAACTTAATAAAAGATGTTATTATAAATATAAATACTCAAATGAATAACA
1 CATCAACTTAATAAAAGATATTATTATAAATATAAATACTCAAATGAATAACA
6728941 TGTTGTATGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (53 bp):
CATCAACTTAATAAAAGATATTATTATAAATATAAATACTCAAATGAATAACA
Found at i:6730085 original size:24 final size:27
Alignment explanation
Indices: 6730039--6730089 Score: 81
Period size: 24 Copynumber: 2.0 Consensus size: 27
6730029 GGTAAGCTTC
6730039 AGTGTAAACTTTTATTTGAAGGTGTAT
1 AGTGTAAACTTTTATTTGAAGGTGTAT
6730066 AGTGT-AAC-TTT-TTTGAAGGTGTAT
1 AGTGTAAACTTTTATTTGAAGGTGTAT
6730090 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 3 0.12
27 5 0.21
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (27 bp):
AGTGTAAACTTTTATTTGAAGGTGTAT
Found at i:6730818 original size:2 final size:2
Alignment explanation
Indices: 6730813--6730857 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6730803 CCCCAACAAA
6730813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6730855 AT A
1 AT A
6730858 AATCAAAGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6733474 original size:2 final size:2
Alignment explanation
Indices: 6733467--6733534 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
6733457 TAGATTTCTC
6733467 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6733508 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6733535 AAACTACGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6734543 original size:23 final size:23
Alignment explanation
Indices: 6734517--6734564 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6734507 ATAAAGTACA
*
6734517 ATAACATACTAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
** *
6734540 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
6734563 AT
1 AT
6734565 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:6735013 original size:23 final size:23
Alignment explanation
Indices: 6734987--6735049 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
6734977 ATATAACCAC
6734987 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
6735010 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
6735033 TACCTATTACATCATAT
1 TACCTATTACATTATAT
6735050 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:6735518 original size:39 final size:39
Alignment explanation
Indices: 6735464--6735549 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
6735454 CAAGTTGTAG
*
6735464 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
6735503 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
6735542 ATTTTGAT
1 ATTTTGAT
6735550 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:6735831 original size:18 final size:18
Alignment explanation
Indices: 6735808--6735844 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6735798 CGAAATATAT
6735808 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
6735826 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
6735844 A
1 A
6735845 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:6736257 original size:25 final size:25
Alignment explanation
Indices: 6736200--6736265 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
6736190 CACTCAAAAG
*
6736200 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
6736225 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
6736250 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
6736266 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:6739045 original size:183 final size:182
Alignment explanation
Indices: 6738733--6739225 Score: 860
Period size: 183 Copynumber: 2.7 Consensus size: 182
6738723 TTAAAATTAC
6738733 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
6738798 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * *
6738863 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTAGCTATTACATTATAAATATGGGTTCCGATGTGTAAATAT
* *
6738916 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
6738981 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTACATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
6739046 ATATTACAAAATTAGCTATTACATTATAATTATGGGTTCCGATGTGTAAATAT
130 ATATTACAAAATTAGCTATTACATTATAAATATGGGTTCCGATGTGTAAATAT
* *
6739099 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTTA-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
6739164 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
6739226 ATAGCATTGC
Statistics
Matches: 294, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
183 291 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTAGCTATTACATTATAAATATGGGTTCCGATGTGTAAATAT
Found at i:6740735 original size:3 final size:3
Alignment explanation
Indices: 6740727--6740811 Score: 71
Period size: 3 Copynumber: 28.3 Consensus size: 3
6740717 ACTTGTTTGG
* * * **
6740727 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * *
6740775 AGC TTC ATC GTC ATC TTC ATC GTC ATC TTC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
6740812 GCTTCATCTT
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:6740744 original size:12 final size:12
Alignment explanation
Indices: 6740731--6740819 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
6740721 GTTTGGATCA
* *
6740731 TCATCTTCATCA
1 TCATCATCATCT
*
6740743 TCATCATCATCA
1 TCATCATCATCT
*
6740755 TCGTCATCATCT
1 TCATCATCATCT
** *
6740767 TCATCGCCAGCT
1 TCATCATCATCT
*
6740779 TCATCGTCATCT
1 TCATCATCATCT
*
6740791 TCATCGTCATCT
1 TCATCATCATCT
*
6740803 TCATCATCAGCT
1 TCATCATCATCT
6740815 TCATC
1 TCATC
6740820 TTCTGCGACC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 66 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:6740822 original size:6 final size:6
Alignment explanation
Indices: 6740731--6740822 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
6740721 GTTTGGATCA
* * * * * * * *
6740731 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
6740779 TCATCG TCATCT TCATCG TCATCT TCATCA TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
6740823 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:6742814 original size:199 final size:199
Alignment explanation
Indices: 6742280--6743630 Score: 2387
Period size: 199 Copynumber: 6.8 Consensus size: 199
6742270 TTTAAATTAG
* *
6742280 TATCGACACAAACTAAA--ACGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
6742343 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* * *
6742408 TGGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCT-GAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAA-
6742472 CAAAAA
194 CAAAAA
* *
6742478 TATCGACACCAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6742542 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTAGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6742607 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACTCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
6742672 AAAA
196 AAAA
6742676 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6742741 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * * *
6742806 CAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTATGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
6742871 AAAA
196 AAAA
* *
6742875 TATCGACACCAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6742939 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6743004 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
6743069 AAAA
196 AAAA
* *
6743073 TATCAACACAAACTAAATTAGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6743138 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6743203 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
6743268 AAAA
196 AAAA
6743272 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6743337 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6743402 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC-
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
6743466 AAAA
196 AAAA
6743470 TATCGACACAAACTAAATTAGTGTCGACAC---ATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
6743532 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
6743597 TTGACACTTTTTATATATGGATCGACACTTTATG
130 TCGACACTTTTTATATATGGATCGACACTTTATG
6743631 TTTTTGGGAT
Statistics
Matches: 1109, Mismatches: 39, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
195 79 0.07
196 49 0.04
198 422 0.38
199 559 0.50
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:6743032 original size:397 final size:397
Alignment explanation
Indices: 6742280--6743630 Score: 2426
Period size: 397 Copynumber: 3.4 Consensus size: 397
6742270 TTTAAATTAG
* *
6742280 TATCGACACAAACTAAA--ACGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
6742343 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* * *
6742408 TGGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTGAACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACC
6742473 AAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
195 AAAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
6742538 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTA
260 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
6742603 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACTCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
6742668 AACAAAAA
390 AACAAAAA
6742676 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6742741 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
6742806 CAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTATGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
6742871 AAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
6742936 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGATTTTGG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
6743001 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
6743066 ACAAAAA
391 ACAAAAA
* *
6743073 TATCAACACAAACTAAATTAGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
6743138 CTTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6743203 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
* *
6743268 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACCAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
6743333 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
260 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
6743398 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
6743463 AAC-AAAA
390 AACAAAAA
6743470 TATCGACACAAACTAAATTAGTGTCGACAC---ATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
6743532 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
6743597 TTGACACTTTTTATATATGGATCGACACTTTATG
130 TCGACACTTTTTATATATGGATCGACACTTTATG
6743631 TTTTTGGGAT
Statistics
Matches: 920, Mismatches: 31, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
394 78 0.08
395 48 0.05
396 17 0.02
397 603 0.66
398 174 0.19
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (397 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAATATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
ACAAAAA
Found at i:6743623 original size:21 final size:21
Alignment explanation
Indices: 6743594--6743671 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
6743584 GATGTTTTTG
*
6743594 GGATTGACACTTTTTATATAT
1 GGATCGACACTTTTTATATAT
* * * *
6743615 GGATCGACACTTTATGTTTTT
1 GGATCGACACTTTTTATATAT
*
6743636 GGGATTGACACTTTTTATATAT
1 -GGATCGACACTTTTTATATAT
6743658 GGATCGACACTTTT
1 GGATCGACACTTTT
6743672 CTCATCTCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 29 0.64
22 16 0.36
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (21 bp):
GGATCGACACTTTTTATATAT
Done.