Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 32 of 199
Found at i:10161205 original size:43 final size:43
Alignment explanation
Indices: 10161158--10161302 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
10161148 AGACTAAGAG
* *
10161158 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGG-GT
**
10161201 CTTTAGCGGCGTTTTTGTTGA-AAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTAAT-ATAAGCGCCGCTATAGATCAGGGT
* * * *
10161244 CTTTAGCGGCTTTTTTTATATAAGCGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
*
10161287 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
10161303 CCCAAAAACG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 84 0.95
44 3 0.03
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
Found at i:10161209 original size:86 final size:86
Alignment explanation
Indices: 10161113--10161280 Score: 189
Period size: 86 Copynumber: 2.0 Consensus size: 86
10161103 AAAGGTGTTG
10161113 GTCTATAGCGGCGCTTCT-ATCACAAACGCCGCTGA-AGACTAAGAG-CTTTAGCGGCGTTTTTA
1 GTCTATAGCGGCGCTTCTGATCA-AAACGCCGCT-ATAGA-TAAGAGTCTTTAGCGGCGTTTTTA
10161175 ATATAACCGCCGCTATAGATTGGT
63 ATATAACCGCCGCTATAGATTGGT
* * * * * * * * * *
10161199 GTCTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCTTTTTTTATA
1 GTCTATAGCGGCGCTTCTGATCAAAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATA
*
10161264 TAAGCGCCGCTATAGAT
66 TAACCGCCGCTATAGAT
10161281 CATGGCCTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
85 5 0.07
86 61 0.90
87 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (86 bp):
GTCTATAGCGGCGCTTCTGATCAAAACGCCGCTATAGATAAGAGTCTTTAGCGGCGTTTTTAATA
TAACCGCCGCTATAGATTGGT
Found at i:10161315 original size:43 final size:43
Alignment explanation
Indices: 10161225--10161450 Score: 148
Period size: 43 Copynumber: 5.2 Consensus size: 43
10161215 TTGTTGAAAG
* * ** *** * *
10161225 CGCCGCTATAGATCAGGGTCTTTAGCGGCTTTTTTTATATAAG
1 CGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCCAAAAA
* *
10161268 CGCCGCTATAGATCATGGCCTTTAGCGGCGCTTTTCCCAAAAA
1 CGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCCAAAAA
* * * * ** * *
10161311 CGCCGCAATAGACCCTGATCTATAGCGGCATTTTTCCCACAAG
1 CGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCCAAAAA
* * * * *
10161354 CGCCGCAATAGACCCTGATCTATAGCGGCGCTTAT-CCAGAAAA
1 CGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCCA-AAAA
* * * * *
10161397 CGCCGCTAAATACCCTTTGTCTATATAGCGGCGCTTTTACCAAAAA
1 CGCCGCTATAGA-CCATGGTCT-T-TAGCGGCGCTTTTCCCAAAAA
10161443 CGCCGCTA
1 CGCCGCTA
10161451 AATTTGACAG
Statistics
Matches: 146, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
42 3 0.02
43 110 0.75
44 6 0.04
46 24 0.16
47 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
CGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCCAAAAA
Found at i:10161315 original size:86 final size:86
Alignment explanation
Indices: 10161158--10161322 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
10161148 AGACTAAGAG
* * ****
10161158 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
* *
10161223 AGCGCCGCTATAGATCAGGGT
66 AACGCCGCAATAGATCAGGGT
* * *
10161244 CTTTAGCGGCTTTTTTTATATAAGCGCCGCTATAGATCAT-G-GCCTTTAGCGGCGCTTTTCCCA
1 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT--TGGTGCCTTTAGCGGCGCTTTTCCCA
10161307 AAAACGCCGCAATAGA
64 AAAACGCCGCAATAGA
10161323 CCCTGATCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 64 0.97
87 1 0.02
88 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGATTGGTGCCTTTAGCGGCGCTTTTCCCAAA
AACGCCGCAATAGATCAGGGT
Found at i:10161786 original size:21 final size:21
Alignment explanation
Indices: 10161757--10161868 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
10161747 TTTGACGCTG
10161757 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
10161778 CTCTCCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
10161799 CTCTGCTTCCCTTGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
10161820 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
10161841 CTCTGCTTCTCTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
10161862 ATCTGCT
1 CTCTGCT
10161869 CTAAGCTGCT
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:10161804 original size:42 final size:42
Alignment explanation
Indices: 10161757--10161858 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
10161747 TTTGACGCTG
* **
10161757 CTCTGCTTCCCTCGCTGCAGCCTCTCCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGCAGCCTCTCCTTCCCTCGCTGCAGC
* * * * *
10161799 CTCTGCTTCCCTTGCTGTAGCCTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGCCTCTCCTTCCCTCGCTGCAGC
*
10161841 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTTGCTGC
10161859 TGCATCTGCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.03, C:0.43, G:0.17, T:0.37
Consensus pattern (42 bp):
CTCTGCTTCCCTTGCTGCAGCCTCTCCTTCCCTCGCTGCAGC
Found at i:10161929 original size:66 final size:66
Alignment explanation
Indices: 10161840--10161986 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
10161830 CTCGCTGCCG
* *
10161840 CCTCTGCTTCTCTTGCTGCTGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
10161903 GAA
64 GAA
* * *
10161906 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
10161971 A
66 A
*
10161972 CATCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
10161987 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:10162002 original size:66 final size:66
Alignment explanation
Indices: 10161845--10162009 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
10161835 TGCCGCCTCT
* * * * * *
10161845 GCTTCTCTTGCTGCTGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACAT
10161909 CA
65 CA
* * *
10161911 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACAT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACAT
10161975 CA
65 CA
* *
10161977 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
10162010 GTAATTTGCT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 83 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATC
A
Found at i:10167436 original size:16 final size:16
Alignment explanation
Indices: 10167415--10167448 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10167405 ATAGTTAAGC
10167415 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
10167431 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
10167447 TA
1 TA
10167449 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:10167480 original size:25 final size:25
Alignment explanation
Indices: 10167429--10167484 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10167419 TAAGTTATGT
* *
10167429 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
10167454 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
10167479 ATTATG
1 ATTATG
10167485 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:10167498 original size:9 final size:9
Alignment explanation
Indices: 10167486--10167665 Score: 51
Period size: 9 Copynumber: 20.7 Consensus size: 9
10167476 AAAATTATGC
10167486 TATGTAAGT
1 TATGTAAGT
10167495 TATGTAAG-
1 TATGTAAGT
* * *
10167503 -AAGTTATT
1 TATGTAAGT
10167511 TATGTAAGT
1 TATGTAAGT
*
10167520 TAT-TTA-T
1 TATGTAAGT
* *
10167527 TATGAAAAT
1 TATGTAAGT
*
10167536 TAAGTAAGT
1 TATGTAAGT
*
10167545 TATGTAATT
1 TATGTAAGT
*
10167554 TACG-AA-T
1 TATGTAAGT
* **
10167561 AAT-TAAAAA
1 TATGT-AAGT
10167570 TATGTAAGT
1 TATGTAAGT
10167579 TATGTAAG-
1 TATGTAAGT
10167587 T-TGTAAGT
1 TATGTAAGT
*
10167595 TATGTATA-A
1 TATGTA-AGT
10167604 TAT-TAA-T
1 TATGTAAGT
**
10167611 TAACTAAGT
1 TATGTAAGT
* *
10167620 TATGTCATT
1 TATGTAAGT
*
10167629 TATGTATCATAT
1 TATGTA--A-GT
10167641 TAATGTAAGT
1 T-ATGTAAGT
*
10167651 TATGTAATT
1 TATGTAAGT
10167660 TATGTA
1 TATGTA
10167666 TATTAACTAA
Statistics
Matches: 122, Mismatches: 32, Indels: 34
0.65 0.17 0.18
Matches are distributed among these distances:
7 19 0.16
8 14 0.11
9 76 0.62
10 4 0.03
11 2 0.02
12 2 0.02
13 5 0.04
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:10167521 original size:13 final size:13
Alignment explanation
Indices: 10167486--10167526 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
10167476 AAAATTATGC
*
10167486 TATGTAAGTTATG
1 TATGTAAGTTATT
*
10167499 TAAG-AAGTTATT
1 TATGTAAGTTATT
10167511 TATGTAAGTTATT
1 TATGTAAGTTATT
10167524 TAT
1 TAT
10167527 TATGAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (13 bp):
TATGTAAGTTATT
Found at i:10167550 original size:34 final size:34
Alignment explanation
Indices: 10167510--10167588 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
10167500 AAGAAGTTAT
*** * *
10167510 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
10167544 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
10167578 TTATGTAAGTT
1 TTATGTAAGTT
10167589 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:10167632 original size:34 final size:34
Alignment explanation
Indices: 10167588--10167740 Score: 183
Period size: 34 Copynumber: 4.7 Consensus size: 34
10167578 TTATGTAAGT
* *
10167588 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
10167622 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
10167653 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
10167684 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
10167718 TGTCATTTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
10167741 GTAAGTTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
31 33 0.33
33 2 0.02
34 57 0.56
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:10167653 original size:31 final size:31
Alignment explanation
Indices: 10167594--10167807 Score: 208
Period size: 31 Copynumber: 6.9 Consensus size: 31
10167584 AAGTTGTAAG
*
10167594 TTATGTATAATATTAATTAACTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
* *
10167628 TTATGTATCATATTAATGTAAGTTATGTAAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* * * * *
10167659 TTATGTATATTAACTAAT-TAATTTATGTAAG
1 TTATGTATAAT-ATTAATGTAAGTTATGTCAT
*
10167690 TTATGTATAATATTAATTAATTAAGTTATGTCAT
1 TTATGTATAATATTAA-T--GTAAGTTATGTCAT
10167724 TTATGTATAATATTAATGTAAGTTATGT-A-
1 TTATGTATAATATTAATGTAAGTTATGTCAT
* *
10167753 -TA-ATATTA-ATTAAT-TAAGTTATGTCAT
1 TTATGTATAATATTAATGTAAGTTATGTCAT
*
10167780 CTATGTATAATATTAATGTAAGTTATGT
1 TTATGTATAATATTAATGTAAGTTATGT
10167808 ATAATATTAA
Statistics
Matches: 151, Mismatches: 18, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
25 10 0.07
26 7 0.05
27 4 0.03
28 4 0.03
29 4 0.03
30 11 0.07
31 63 0.42
32 5 0.03
33 2 0.01
34 41 0.27
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (31 bp):
TTATGTATAATATTAATGTAAGTTATGTCAT
Found at i:10167744 original size:56 final size:56
Alignment explanation
Indices: 10167683--10167833 Score: 293
Period size: 56 Copynumber: 2.7 Consensus size: 56
10167673 TAATTAATTT
*
10167683 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
10167739 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
10167795 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
10167834 CCTTACAATA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 94 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
Found at i:10167957 original size:24 final size:24
Alignment explanation
Indices: 10167925--10167981 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
10167915 ATTATTTTAT
10167925 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
10167949 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
10167973 AATATAATA
1 AATATAATA
10167982 CAAATAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:10169471 original size:17 final size:17
Alignment explanation
Indices: 10169451--10169484 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10169441 AGTTCACAAT
10169451 GAAGTAAAGGCTGCAAG
1 GAAGTAAAGGCTGCAAG
*
10169468 GAAGTAGAGGCTGCAAG
1 GAAGTAAAGGCTGCAAG
10169485 TTCCTGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (17 bp):
GAAGTAAAGGCTGCAAG
Found at i:10169772 original size:33 final size:33
Alignment explanation
Indices: 10169725--10169792 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
10169715 ATATACATAT
*
10169725 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
10169758 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
10169791 AT
1 AT
10169793 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:10170033 original size:14 final size:15
Alignment explanation
Indices: 10170014--10170052 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
10170004 AATTGGGAAA
10170014 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
10170028 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
10170044 TGGGGGAAA
1 TTGGGGAAA
10170053 TTGGGGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:10170057 original size:25 final size:22
Alignment explanation
Indices: 10170028--10170084 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
10170018 GGAAAATACT
*
10170028 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
10170053 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
10170076 TTGGGGAAA
1 TTGGGGAAA
10170085 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:10170097 original size:23 final size:23
Alignment explanation
Indices: 10170047--10170100 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
10170037 AATAACTTGG
* *
10170047 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
10170070 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
10170092 GTGGAAATT
1 G-GGAAATT
10170101 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:10171324 original size:16 final size:16
Alignment explanation
Indices: 10171299--10171329 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10171289 AACCCCATAA
*
10171299 CCCCTTACCCCTAAAT
1 CCCCTAACCCCTAAAT
10171315 CCCCTAACCCCTAAA
1 CCCCTAACCCCTAAA
10171330 GCATAACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.52, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:10171337 original size:37 final size:38
Alignment explanation
Indices: 10171294--10171367 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
10171284 TCCATAACCC
* *
10171294 CATAACCCCTT-ACCCCTAAAT-CCCCTAACCCCTAAAG
1 CATAA-CCCTTAAACCCTAAATCCCCCTAACACCTAAAG
10171331 CATAACCCTTAAACCCTAAATCCCCCTAACACCTAAA
1 CATAACCCTTAAACCCTAAATCCCCCTAACACCTAAA
10171368 CCTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 5 0.15
37 14 0.42
38 14 0.42
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.19
Consensus pattern (38 bp):
CATAACCCTTAAACCCTAAATCCCCCTAACACCTAAAG
Found at i:10172359 original size:40 final size:42
Alignment explanation
Indices: 10172168--10172409 Score: 269
Period size: 42 Copynumber: 5.9 Consensus size: 42
10172158 AAGGTTAATA
* * * * *
10172168 CATTCGCGGCGCTTAGA-TACAAACGCCGCTGAATAC-AGGAG
1 CATTAGCGGCGCTTAGACGA-AAACGCCGCTAAAGACTCGGAG
* * * ** *
10172209 AATTAGCGGCGCATATATAAAAACGCCGCTAAAGAC-CCGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
* * * *
10172250 CATTAGCGGCGCATAGGCGAAAACGCCGCTATAGACCCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
10172292 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
* *
10172334 CATTA-CCG-GCTTAGACGAAAGCGCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
* *
10172374 CATTAGCGGCGCTTAGACGAAAACACCGCTATAGAC
1 CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC
10172410 AAAAACGCCG
Statistics
Matches: 171, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
40 36 0.21
41 64 0.37
42 71 0.42
ACGTcount: A:0.32, C:0.27, G:0.26, T:0.15
Consensus pattern (42 bp):
CATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAG
Found at i:10172383 original size:82 final size:83
Alignment explanation
Indices: 10172188--10172409 Score: 261
Period size: 82 Copynumber: 2.7 Consensus size: 83
10172178 GCTTAGATAC
* * * * * * **
10172188 AAACGCCGCTGAATA-CAGGAGAATTAGCGGCGCATATATAAAAACGCCGCTAAAGACCCGAGCA
1 AAACGCCGCTAAAGACCCGGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAGCA
* *
10172252 TTAGCGGCGCATAGGCGA
66 TTAGCCGCGCATAGACGA
* *
10172270 AAACGCCGCTATAGACCCGGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACTCGGAGC
1 AAACGCCGCTAAAGACCCGGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC-CCGAGC
*
10172335 ATTA-CCG-GCTTAGACGA
65 ATTAGCCGCGCATAGACGA
* * * *
10172352 AAGCGCCGCTAAAGACTCGGAGCATTAGCGGCGCTTAGACGAAAACACCGCTATAGAC
1 AAACGCCGCTAAAGACCCGGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGAC
10172410 AAAAACGCCG
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
82 73 0.61
83 38 0.32
84 9 0.08
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.14
Consensus pattern (83 bp):
AAACGCCGCTAAAGACCCGGAGCATTAGCGGCGCTTAGACGAAAACGCCGCTAAAGACCCGAGCA
TTAGCCGCGCATAGACGA
Found at i:10172414 original size:18 final size:18
Alignment explanation
Indices: 10172383--10172427 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10172373 GCATTAGCGG
*
10172383 CGCT-TAGACGAAAACAC
1 CGCTATAGACAAAAACAC
*
10172400 CGCTATAGACAAAAACGC
1 CGCTATAGACAAAAACAC
10172418 CGCTATAGAC
1 CGCTATAGAC
10172428 CCGAGCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (18 bp):
CGCTATAGACAAAAACAC
Found at i:10172444 original size:59 final size:60
Alignment explanation
Indices: 10172345--10172468 Score: 178
Period size: 59 Copynumber: 2.1 Consensus size: 60
10172335 ATTACCGGCT
* * * *
10172345 TAGACGAAAGCGCCGCTAAAGACTCGGAGCATTAGCGGCGCTTAGACGAAAACACCGCTA
1 TAGACAAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACACCGCTA
* * *
10172405 TAGACAAAAACGCCGCTATAGAC-CCGAGCATTAGTGGCGCTTAGACAAAAACGCCGCTA
1 TAGACAAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACACCGCTA
10172464 TAGAC
1 TAGAC
10172469 CCGAGCATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 37 0.65
60 20 0.35
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.15
Consensus pattern (60 bp):
TAGACAAAAACGCCGCTAAAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACACCGCTA
Found at i:10172462 original size:41 final size:41
Alignment explanation
Indices: 10172400--10172504 Score: 192
Period size: 41 Copynumber: 2.5 Consensus size: 41
10172390 ACGAAAACAC
*
10172400 CGCTATAGACAAAAACGCCGCTATAGACCCGAGCATTAGTGG
1 CGCT-TAGACAAAAACGCCGCTATAGACCCGAGCATTAGCGG
10172442 CGCTTAGACAAAAACGCCGCTATAGACCCGAGCATTAGCGG
1 CGCTTAGACAAAAACGCCGCTATAGACCCGAGCATTAGCGG
10172483 CGCTTAGACAAAAACGCCGCTA
1 CGCTTAGACAAAAACGCCGCTA
10172505 AATGTTTAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
41 58 0.94
42 4 0.06
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.15
Consensus pattern (41 bp):
CGCTTAGACAAAAACGCCGCTATAGACCCGAGCATTAGCGG
Found at i:10172478 original size:100 final size:100
Alignment explanation
Indices: 10172301--10172504 Score: 270
Period size: 100 Copynumber: 2.0 Consensus size: 100
10172291 GCATTAGCGG
* * * *
10172301 CGCT-TAGACGAAAACGCCGCTAAAGACTCGGAGCATTACCGGCTTAGACGAAAGCGCCGCTAAA
1 CGCTATAGACAAAAACGCCGCTAAAGACTCCGAGCATTACCGGCTTAGACAAAAACGCCGCTAAA
* *
10172365 GACTCGGAGCATTAGCGGCGCTTAGACGAAAACAC
66 GACTCCGAGCATTAGCGGCGCTTAGACAAAAACAC
* **
10172400 CGCTATAGACAAAAACGCCGCTATAGAC-CCGAGCATTAGTGGCGCTTAGACAAAAACGCCGCTA
1 CGCTATAGACAAAAACGCCGCTAAAGACTCCGAGCATTA-CCG-GCTTAGACAAAAACGCCGCTA
* *
10172464 TAGAC-CCGAGCATTAGCGGCGCTTAGACAAAAACGC
64 AAGACTCCGAGCATTAGCGGCGCTTAGACAAAAACAC
10172500 CGCTA
1 CGCTA
10172505 AATGTTTAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 13 0.14
100 55 0.60
101 23 0.25
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (100 bp):
CGCTATAGACAAAAACGCCGCTAAAGACTCCGAGCATTACCGGCTTAGACAAAAACGCCGCTAAA
GACTCCGAGCATTAGCGGCGCTTAGACAAAAACAC
Found at i:10172677 original size:40 final size:39
Alignment explanation
Indices: 10172554--10172680 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
10172544 GGTTTTTTGT
* * *
10172554 GGCGCTTTATATAAAACGCCGTTAATTC-CTATTTTTAGC
1 GGCGCTTTA-GTAAAACGCCGCTAATGCTCTATTTTTAGC
** * **
10172593 GGCGCTTCCGTATAAACGCCGCTGATGCTCTACCTTTAGC
1 GGCGCTTTAGTA-AAACGCCGCTAATGCTCTATTTTTAGC
* * * *
10172633 GGCGCTTTGGCTAAATCGCCGCTAATGCTCTATTTTTTGT
1 GGCGCTTTAG-TAAAACGCCGCTAATGCTCTATTTTTAGC
10172673 GGCGCTTT
1 GGCGCTTT
10172681 TGTTCCAACG
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 19 0.28
40 46 0.67
41 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (39 bp):
GGCGCTTTAGTAAAACGCCGCTAATGCTCTATTTTTAGC
Found at i:10173538 original size:49 final size:50
Alignment explanation
Indices: 10173466--10173574 Score: 145
Period size: 49 Copynumber: 2.2 Consensus size: 50
10173456 TTTTTAAAAT
*
10173466 TATTT-CTTTTTTTTTCTCTTTCTTTTTCCA-GGTAATGTTTC-TCTTTCCC
1 TATTTCCTTTTTGTTTCTCTTTCTTTTT-CATGGTAATGTTTCTTC-TTCCC
*
10173515 TATTTCCTTTTTGTTT-TCTTTCTTTTTCATGGTGATGTTTCTTCTTCCC
1 TATTTCCTTTTTGTTTCTCTTTCTTTTTCATGGTAATGTTTCTTCTTCCC
*
10173564 AATTTCCTTTT
1 TATTTCCTTTT
10173575 CTCTTCTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
48 2 0.04
49 41 0.76
50 11 0.20
ACGTcount: A:0.08, C:0.21, G:0.07, T:0.63
Consensus pattern (50 bp):
TATTTCCTTTTTGTTTCTCTTTCTTTTTCATGGTAATGTTTCTTCTTCCC
Found at i:10174740 original size:18 final size:19
Alignment explanation
Indices: 10174717--10174752 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10174707 TTCATTATTA
*
10174717 TAATTTTATTATA-ATTTT
1 TAATTTAATTATAGATTTT
10174735 TAATTTAATTATAGATTT
1 TAATTTAATTATAGATTT
10174753 GATAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TAATTTAATTATAGATTTT
Found at i:10174776 original size:15 final size:14
Alignment explanation
Indices: 10174758--10174799 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10174748 GATTTGATAA
10174758 TTTATGTATTCATAT
1 TTTATGTA-TCATAT
*
10174773 TTTATTTAT-ATAT
1 TTTATGTATCATAT
10174786 TTTATTGTATCATA
1 TTTA-TGTATCATA
10174800 ATTACATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 10 0.43
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (14 bp):
TTTATGTATCATAT
Found at i:10175540 original size:3 final size:3
Alignment explanation
Indices: 10175532--10175556 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10175522 TCATCTCTAT
10175532 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
10175557 ACTGTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:10179513 original size:24 final size:24
Alignment explanation
Indices: 10179485--10179535 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
10179475 AGCTTGTAAA
10179485 AACCATCACTGGAGCATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
*
10179509 AACCATCACTGGAGTATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
10179533 AAC
1 AAC
10179536 ATATCCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.22
Consensus pattern (24 bp):
AACCATCACTGGAGCATCAAATTG
Found at i:10183848 original size:59 final size:58
Alignment explanation
Indices: 10183785--10183918 Score: 187
Period size: 58 Copynumber: 2.3 Consensus size: 58
10183775 TGTGGACTTG
* * * *
10183785 TTTTTTGTCCAAATTAGGCCCTAAACTTGGCAATTGTTTTCACACTGGGGCCTGAACT
1 TTTTTTGTCCAAGTTAGACCCTAAACTTGACAATTATTTTCACACTGGGGCCTGAACT
* * * *
10183843 CTTTTTGCCCAAGTTAGACCCTAAACTTGACAATTATTTTCACATTGGGGCTTGAACT
1 TTTTTTGTCCAAGTTAGACCCTAAACTTGACAATTATTTTCACACTGGGGCCTGAACT
10183901 TTTATTTGTCCAAGTTAG
1 TTT-TTTGTCCAAGTTAG
10183919 TCCTTGATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
58 52 0.80
59 13 0.20
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (58 bp):
TTTTTTGTCCAAGTTAGACCCTAAACTTGACAATTATTTTCACACTGGGGCCTGAACT
Found at i:10189614 original size:90 final size:90
Alignment explanation
Indices: 10189504--10189746 Score: 396
Period size: 90 Copynumber: 2.7 Consensus size: 90
10189494 AACAAATGAT
* *
10189504 CAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAACGGTTGAAGGTTGTCATAGAGATGC
1 CAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCATAGAGATGC
10189569 CATAGAAAATTCTCAAGCAAAGGAA
66 CATAGAAAATTCTCAAGCAAAGGAA
10189594 CAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCATAGAGATGC
1 CAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCATAGAGATGC
10189659 CATAGAAAATTCTCAAGCAAAGGAA
66 CATAGAAAATTCTCAAGCAAAGGAA
**** * * * *
10189684 CAAGAAGTTGTACATTCAATGGATGCACACAATGCTTCACCGGGTGATGATTGTCATAAAGAT
1 CAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCATAGAGAT
10189747 ACTCTTCTCG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 143 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (90 bp):
CAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCATAGAGATGC
CATAGAAAATTCTCAAGCAAAGGAA
Found at i:10203676 original size:9 final size:9
Alignment explanation
Indices: 10203662--10203692 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10203652 GTTAAACGAA
10203662 TCGAGTTAT
1 TCGAGTTAT
*
10203671 TCGAGTTAA
1 TCGAGTTAT
10203680 TCGAGTTAT
1 TCGAGTTAT
10203689 TCGA
1 TCGA
10203693 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:10204179 original size:19 final size:20
Alignment explanation
Indices: 10204139--10204180 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10204129 CAAACTTTTA
*
10204139 TTCCCCAAAACTTTTTATTT
1 TTCCCCAAAACTTTTTACTT
10204159 TTCCCCAAAAC-TTTTACTT
1 TTCCCCAAAACTTTTTACTT
10204178 TTC
1 TTC
10204181 ACCCTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
TTCCCCAAAACTTTTTACTT
Found at i:10204318 original size:17 final size:17
Alignment explanation
Indices: 10204298--10204344 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
10204288 CACATTTTAT
10204298 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
10204315 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
10204333 A-TATTTATATTA
1 ATTATTTATATTA
10204345 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:10208037 original size:18 final size:18
Alignment explanation
Indices: 10208014--10208050 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10208004 TATCAGTGTA
*
10208014 AAAAAAAAGAGAAAAGAG
1 AAAAAAAAGAAAAAAGAG
*
10208032 AAAAAATAGAAAAAAGAG
1 AAAAAAAAGAAAAAAGAG
10208050 A
1 A
10208051 GGATATTTTC
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:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAGAG
Found at i:10209323 original size:22 final size:21
Alignment explanation
Indices: 10209286--10209333 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
10209276 TTTATTTTAT
*
10209286 TTTA-TTT-TTCCGTTATTAG
1 TTTATTTTATTCCATTATTAG
10209305 TGTTATTTTATTCCATTATTAG
1 T-TTATTTTATTCCATTATTAG
10209327 TTTATTT
1 TTTATTT
10209334 GCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 9 0.36
22 12 0.48
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (21 bp):
TTTATTTTATTCCATTATTAG
Found at i:10211184 original size:43 final size:43
Alignment explanation
Indices: 10211110--10211361 Score: 256
Period size: 43 Copynumber: 5.9 Consensus size: 43
10211100 GCGTCGCTAT
* * * * *
10211110 CTTTAGCGGCGCTTTTTCCATAAATGTCGCTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCACGAC
* * * *
10211153 CTTTAGCGGCGCTCTTCCCACAAACGCCGCTACAGACCACAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCACGAC
* *
10211196 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAATACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCACGAC
* * * * *
10211239 ATTTAGCGACGCTTTACCCGCAAACGCCACTAAAAACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCACGAC
* * * *
10211282 CTTTAGCGACACTTTTCCCACAAATGCCGCTAAATAA-CA-AAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA-AACCACGAC
* ** * *
10211324 CTTTAGCGGCGCTTCTAGCAAAAACGCCACTAAAAACC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACC
10211362 TAATCTTTAA
Statistics
Matches: 171, Mismatches: 36, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.01
42 29 0.17
43 138 0.81
44 2 0.01
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAACCACGAC
Found at i:10211215 original size:86 final size:85
Alignment explanation
Indices: 10211110--10211361 Score: 285
Period size: 86 Copynumber: 2.9 Consensus size: 85
10211100 GCGTCGCTAT
* *
10211110 CTTTAGCGGCGCTTTTTCCATAAATGTCGCTAAAAACCATGACCTTTAGCGGCGCTCTT-CCCAC
1 CTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAAACCA-GACCTTTAGCGGCGCT-TTACCCAC
* * *
10211174 AAACGCCGCTACAGACCACAAC
64 AAACGCCACTAAAAACCACAAC
* * * * *
10211196 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAATACCACGACATTTAGCGACGCTTTACCCGCA
1 CTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAAACCA-GACCTTTAGCGGCGCTTTACCCACA
*
10211261 AACGCCACTAAAAACCACGAC
65 AACGCCACTAAAAACCACAAC
* * * * * *
10211282 CTTTAGCGACACTTTTCCCACAAATGCCGCTAAATAA-CAAACCTTTAGCGGCGCTTCTA-GCAA
1 CTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAA-AACCAGACCTTTAGCGGCGCTT-TACCCAC
10211345 AAACGCCACTAAAAACC
64 AAACGCCACTAAAAACC
10211362 TAATCTTTAA
Statistics
Matches: 140, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
85 34 0.24
86 105 0.75
87 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTTCCACAAATGCCGCTAAAAACCAGACCTTTAGCGGCGCTTTACCCACAA
ACGCCACTAAAAACCACAAC
Found at i:10214069 original size:10 final size:10
Alignment explanation
Indices: 10214054--10214084 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10214044 CTAATAATGT
10214054 AAGTTAAGCA
1 AAGTTAAGCA
10214064 AAGTTAAGCA
1 AAGTTAAGCA
*
10214074 AAGTCAAGCA
1 AAGTTAAGCA
10214084 A
1 A
10214085 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:10216577 original size:24 final size:24
Alignment explanation
Indices: 10216537--10216583 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
10216527 CGCTATTGCT
10216537 TATGCAAAAAATTATTTCATTTTAC
1 TATGCAAAAAA-TATTTCATTTTAC
*
10216562 TATGCTAAAAAA-ATTTTATTTT
1 TATGC-AAAAAATATTTCATTTT
10216584 GTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 5 0.25
26 6 0.30
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TATGCAAAAAATATTTCATTTTAC
Found at i:10216702 original size:75 final size:76
Alignment explanation
Indices: 10216602--10216757 Score: 253
Period size: 75 Copynumber: 2.1 Consensus size: 76
10216592 ATAAATTGAT
10216602 TTTTTTGCGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATG-GCTA-TTTTTA
1 TTTTTTGCGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTTA
10216665 AAGTAAAATTA
66 AAGTAAAATTA
* * *
10216676 TTTTTTGTGGCGTTTTTTATAAAAACGCTGCTAAATGTTTTGCTATATGAAATGCGCTATTTTTT
1 TTTTTTGCGGCG-TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGCGCTA-TTTTT
10216741 TAAAGTAAAATTA
64 TAAAGTAAAATTA
10216754 TTTT
1 TTTT
10216758 ACTATCAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
74 11 0.15
75 39 0.52
76 4 0.05
78 21 0.28
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (76 bp):
TTTTTTGCGGCGTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGCGCTATTTTTTA
AAGTAAAATTA
Found at i:10217580 original size:14 final size:14
Alignment explanation
Indices: 10217563--10217639 Score: 100
Period size: 14 Copynumber: 5.5 Consensus size: 14
10217553 ACTAATTAAT
10217563 CTAACCCTTAATCC
1 CTAACCCTTAATCC
* *
10217577 CTAACCTTTAACCC
1 CTAACCCTTAATCC
*
10217591 CTAACCCTAAATCC
1 CTAACCCTTAATCC
* *
10217605 CTAACTCTTAATCT
1 CTAACCCTTAATCC
*
10217619 CTAACCCTTAACCC
1 CTAACCCTTAATCC
10217633 CTAACCC
1 CTAACCC
10217640 ATAAACCTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 52 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAACCCTTAATCC
Found at i:10217623 original size:42 final size:43
Alignment explanation
Indices: 10217563--10217644 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
10217553 ACTAATTAAT
*
10217563 CTAACCCTTAATCCCTAACCTTTAACCCCTAACCC-TAAATCC
1 CTAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAATCC
* *
10217605 CTAACTCTTAATCTCTAACCCTTAACCCCTAACCCATAAA
1 CTAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAA
10217645 CCTTAAATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (43 bp):
CTAACCCTTAATCCCTAACCCTTAACCCCTAACCCATAAATCC
Found at i:10218121 original size:41 final size:41
Alignment explanation
Indices: 10218076--10218439 Score: 356
Period size: 41 Copynumber: 8.9 Consensus size: 41
10218066 AAATGTTTTT
* * ** **
10218076 GCGGCGCTTTTTAAAAAATACCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
10218117 GCGGCGCATTT-TCAGAAACGCCGCTAAAGATTTGAGCATTA
1 GCGGCGC-TTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
10218158 GCGGCGCATTT-TCAGAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGC-TTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * * * *
10218199 GCGTCGCTTTCTCAGAAATGCCGCTAAGGCTCTGAGCGTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * * * *
10218240 GCGACGCTTTCTCATAAATGCCACTAAAGATCTAAGCTTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
10218281 GTGGCACTTTCTCAAAAACGCCGCTAAAGATCTAAGCTTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
10218322 GCGGCACTTTCTCAAAAACGTCGCTAAAGATCTGAGAATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
10218363 GCGGCGCTTCTCTCAAAAACGCCGCTAAAG-TATGAGCATTA
1 GCGGCGCTT-TCTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * * * *
10218404 GAGGCGTTTTTTTAAAAAACACTGCTAAAGATCTGA
1 GCGGCG-CTTTCTCAAAAACGCCGCTAAAGATCTGA
10218440 AAGGTACAAA
Statistics
Matches: 276, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.01
41 245 0.89
42 28 0.10
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:10222098 original size:31 final size:31
Alignment explanation
Indices: 10222063--10222121 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
10222053 AAAATTTTAA
* *
10222063 TAAATGAAGAATATATAA-ATTTATTAAATAT
1 TAAATAAAAAATATA-AATATTTATTAAATAT
*
10222094 TAAATAAAAAATATAAATATTTTTTAAA
1 TAAATAAAAAATATAAATATTTATTAAA
10222122 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATAAAAAATATAAATATTTATTAAATAT
Found at i:10222316 original size:47 final size:47
Alignment explanation
Indices: 10222247--10222339 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
10222237 ATAAAGTGTG
10222247 TAAATATCATGCTTTAAGCTTGACCCGACCTAATCTATGAGCAACTT
1 TAAATATCATGCTTTAAGCTTGACCCGACCTAATCTATGAGCAACTT
10222294 TAAATATCATGCTTTAAGCTTGACCCGACCTAATCTATGAGCAACT
1 TAAATATCATGCTTTAAGCTTGACCCGACCTAATCTATGAGCAACT
10222340 CTAGCGACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (47 bp):
TAAATATCATGCTTTAAGCTTGACCCGACCTAATCTATGAGCAACTT
Found at i:10223897 original size:2 final size:2
Alignment explanation
Indices: 10223890--10223928 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10223880 GATTGAGGAG
*
10223890 AT AT AT AT AC AT 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 AT AT AT AT AT AT A
10223929 GATCAACCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10225232 original size:95 final size:99
Alignment explanation
Indices: 10224875--10225251 Score: 331
Period size: 101 Copynumber: 3.6 Consensus size: 99
10224865 CTCTGACATG
* *
10224875 AATTTTTTTTTAAATTGTATTGGGT-ACCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTAAA
1 AATTTTTTTTT-AACTGTA-TGGGTGA-CGGCCATTGACAAGCCAGCACCC-AAA----TTT---
10224939 TTTTTTTCGTATATTTATATCTGACTCTGACAC---AAAAAAAG-
55 TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGA
* * * * * *
10224980 AATTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGATAGGCCAACACCCAAAAAAATTTTTTAA
1 AATTTTTTTTTAA-CTGTA-TGGGTGACGGCCATTGACAAGCCAGCACCC----AAA---TTT--
10225045 AATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGA
55 --TTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGA
* * *
10225092 AATTTTTTTTTAAAATTGTACTGGGTGTCGGCCATTGACAAGCCAGCACCC-ATTTTTTTTTTTC
1 AATTTTTTTTT--AACTGTA-TGGGTGACGGCCATTGACAAGCCAGCACCCAAATTTTTTTTTTC
*
10225156 GTATATTTATATCTGACTCTGACACGAAAAAAAAAGT
63 GTATATTTATATCTGACTCTGACACGAAAAAAAAAGA
*
10225193 AA-TTTTTTTT-ACTGT-TGGGTGACGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTC
1 AATTTTTTTTTAACTGTATGGGTGACGGCCATTGACAAGCCAGCACCCAAATTTTTTTTTTC
10225252 TTTTTTTTTC
Statistics
Matches: 243, Mismatches: 16, Indels: 35
0.83 0.05 0.12
Matches are distributed among these distances:
95 28 0.12
96 12 0.05
97 4 0.02
100 8 0.03
101 46 0.19
104 2 0.01
105 44 0.18
107 6 0.02
108 41 0.17
111 8 0.03
112 10 0.04
113 32 0.13
114 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (99 bp):
AATTTTTTTTTAACTGTATGGGTGACGGCCATTGACAAGCCAGCACCCAAATTTTTTTTTTCGTA
TATTTATATCTGACTCTGACACGAAAAAAAAAGA
Found at i:10225257 original size:10 final size:10
Alignment explanation
Indices: 10225242--10225266 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10225232 GCACCCAAAT
10225242 TTTTTTTTTC
1 TTTTTTTTTC
10225252 TTTTTTTTTC
1 TTTTTTTTTC
10225262 TTTTT
1 TTTTT
10225267 CGTATATCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10238865 original size:19 final size:18
Alignment explanation
Indices: 10238832--10238871 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10238822 TTAACTTGTT
**
10238832 TTAATTAACTTAAGCATAA
1 TTAATTAACAAAAGC-TAA
10238851 TTAATTAACAAAAGCTAA
1 TTAATTAACAAAAGCTAA
10238869 TTA
1 TTA
10238872 CTAAACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAATTAACAAAAGCTAA
Found at i:10239611 original size:33 final size:33
Alignment explanation
Indices: 10239574--10239672 Score: 99
Period size: 33 Copynumber: 3.0 Consensus size: 33
10239564 ATCTTATTTG
**
10239574 TTCTTCTTCTCGGTCAGGTTCAAACCTTCTTCT
1 TTCTTCTTCTCGGTCAGACTCAAACCTTCTTCT
* * * *
10239607 TTCTTTTTCTTGATCAGACTCAAATCTTCTTCT
1 TTCTTCTTCTCGGTCAGACTCAAACCTTCTTCT
* * * **
10239640 TCCTTCTTCTCGGTTAGCCTCAAATATTCTTCT
1 TTCTTCTTCTCGGTCAGACTCAAACCTTCTTCT
10239673 CTTTGCTTCT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.15, C:0.28, G:0.09, T:0.47
Consensus pattern (33 bp):
TTCTTCTTCTCGGTCAGACTCAAACCTTCTTCT
Found at i:10239694 original size:33 final size:33
Alignment explanation
Indices: 10239600--10239697 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 33
10239590 GGTTCAAACC
* * *
10239600 TTCTTCTTTCTTTTTCTTGATCAGA-CTCAAATC
1 TTCTTCTTCCTTCTTCTTGATCA-ACCTCAAATA
* * * *
10239633 TTCTTCTTCCTTCTTCTCGGTTAGCCTCAAATA
1 TTCTTCTTCCTTCTTCTTGATCAACCTCAAATA
*
10239666 TTCTTC-TCTTTGCTTCTTGATCAACCTCAAAT
1 TTCTTCTTCCTT-CTTCTTGATCAACCTCAAAT
10239698 TTTTCCATCT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
32 4 0.08
33 47 0.92
ACGTcount: A:0.17, C:0.28, G:0.07, T:0.48
Consensus pattern (33 bp):
TTCTTCTTCCTTCTTCTTGATCAACCTCAAATA
Found at i:10244227 original size:11 final size:11
Alignment explanation
Indices: 10244211--10244252 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
10244201 TAGTTATTTA
10244211 TAATAAAATAT
1 TAATAAAATAT
10244222 TAATAAAATAT
1 TAATAAAATAT
*
10244233 CTCATTAAAATAT
1 -T-AATAAAATAT
10244246 TAATAAA
1 TAATAAA
10244253 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:10244652 original size:3 final size:3
Alignment explanation
Indices: 10244646--10244695 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10244636 AATAATAATA
10244646 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10244694 AT
1 AT
10244696 AATCCTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10245596 original size:23 final size:22
Alignment explanation
Indices: 10245553--10245613 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
10245543 TTGTTTAGAT
*
10245553 AAGAATAAAATTTAAGGAAATATA
1 AAGAATAAAA-TTAAGAAAAT-TA
*
10245577 AAGAATAAAATTAATAAAATTA
1 AAGAATAAAATTAAGAAAATTA
10245599 AA-ATATAAAAATTAA
1 AAGA-AT-AAAATTAA
10245614 ATTAAAGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 6 0.18
23 16 0.48
24 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (22 bp):
AAGAATAAAATTAAGAAAATTA
Found at i:10245617 original size:19 final size:19
Alignment explanation
Indices: 10245593--10245630 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10245583 AAAATTAATA
*
10245593 AAATTAAAATATAAAAATT
1 AAATTAAAATACAAAAATT
*
10245612 AAATTAAAGTACAAAAATT
1 AAATTAAAATACAAAAATT
10245631 CCTTCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
AAATTAAAATACAAAAATT
Found at i:10256686 original size:108 final size:106
Alignment explanation
Indices: 10256574--10257364 Score: 1039
Period size: 109 Copynumber: 7.5 Consensus size: 106
10256564 AACAATAAAT
* *
10256574 TTTTTTTCGTGTCAGAATCAGATATAAAAATACG-AAAAAATAAAAAAAATTTTGAGTACTGGCC
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTGGGTGCTGGCC
*
10256638 TGTCAATGGCCGGCACCCAGTGAATAGTAAAAAAAACTTTTTTC
66 TGTCAATGGCCGGCACCCAGTGAACAGT--AAAAAA-TTTTTTC
* ***
10256682 TTTTTTTTTCGTGTCAGAATTAGATATAAAAATACGAAAAAAAT--AAATTTTTTTGGGTGCTGG
1 --TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTGGGTGCTGG
* * *
10256745 TCTGTCAATTGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTC
64 CCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAA-ATTTTTTC
* *
10256789 TTTTTTT-GTGTCAAAATCAGATATAAAAATACGAAAAAAAATAAAAAAAATTTGGGGTGCTGGC
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATACG-AAAAAAATAAAAAAAATTTTGGGTGCTGGC
* *
10256853 CTGTCAATGGCCGGCACCTAGTGCACAGTAAAAAATTTTTTTTC
65 CTGTCAATGGCCGGCACCCAGTGAACAGTAAAAAA--TTTTTTC
* *
10256897 TTTTTTTTCATGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGC
1 -TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTGGGTGCTGGC
**
10256962 CTGTCAATGGCCGGCACCCAGTGAACAGTAAAATTTTTTTTTC
65 CTGTCAATGGCCGGCACCCAGTGAACAGTAAAA-AATTTTTTC
*
10257005 TTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGC
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT-AAAAAAAATTTTGGGTGCTGGC
* * *
10257070 CTGTCAATGGTCGGCACCCAGTGAACAGTTAAAATTATTTTTC
65 CTGTCAATGGCCGGCACCCAGTGAACAGTAAAAAAT-TTTTTC
10257113 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTTGGGTGCTGG
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT-AAAAAAAA-TTTTGGGTGCTGG
*
10257178 CCTGTCAATGGCCGGCACCCAGTGAATAGT---AAA----TT-
64 CCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAAATTTTTTC
*
10257213 TTTTTTTCGTGTCAGAATCAGATATAAAAATACAAAAAAAAATAAAAAAAAATTTTGGGTGCTGG
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATAC-GAAAAAAAT-AAAAAAAATTTTGGGTGCTGG
* *
10257278 CTTGTCAATGGCCAGCACCCAGT-ACACAGT--AAAA----TT-
64 CCTGTCAATGGCCGGCACCCAGTGA-ACAGTAAAAAATTTTTTC
10257314 TTTTTTT-GTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATT
1 TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATT
10257365 ATAGGACTTG
Statistics
Matches: 621, Mismatches: 44, Indels: 44
0.88 0.06 0.06
Matches are distributed among these distances:
98 10 0.02
99 9 0.01
100 96 0.15
101 31 0.05
104 24 0.04
105 15 0.02
106 2 0.00
107 100 0.16
108 122 0.20
109 148 0.24
110 57 0.09
111 7 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (106 bp):
TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTGGGTGCTGGCC
TGTCAATGGCCGGCACCCAGTGAACAGTAAAAAATTTTTTC
Found at i:10256841 original size:216 final size:214
Alignment explanation
Indices: 10256526--10257360 Score: 1054
Period size: 217 Copynumber: 4.0 Consensus size: 214
10256516 AGAAAATTTT
* * *
10256526 TTTTTGGGTGCTAGCCTGTCAATGACCGGCACCCAGTGAACA--ATAAATTTTTTTTC-------
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
* * *
10256582 GTGTCAGAATCAGATATAAAAATACG-AAAAAAT-AAAAAAAATTTTGAGTACTGGCCTGTCAAT
66 GTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAAT
* *
10256645 GGCCGGCACCCAGTGAATAGTAAAAAAAACTTTTTTCTTTTTTTTTCGTGTCAGAATTAGATATA
131 GGCCGGCACCCAGTGAACAGT-AAAAAAA-TTTTTTC-TTTTTTTTCGTGTCAGAATCAGATATA
**
10256710 AAAATACGAAAAAAAT-AAATT
193 AAAATACGAAAAAAATAAAAAA
* *
10256731 TTTTTGGGTGCTGGTCTGTCAATTGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
*
10256796 GTGTCAAAATCAGATATAAAAATACGAAAAAAA-ATAAAAAAAATTTGGGGTGCTGGCCTGTCAA
66 GTGTCAAAATCAGATATAAAAATACGAAAAAAATA-AAAAAAAATTTTGGGTGCTGGCCTGTCAA
* * * *
10256860 TGGCCGGCACCTAGTGCACAGTAAAAAATTTTTTTTCTTTTTTTTCATGTCAGAATCAGATATAA
130 TGGCCGGCACCCAGTGAACAGTAAAAAA-ATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAA
10256925 AAATACGAAAAAAATAAAAAAA
194 AAATACGAAAAAAAT-AAAAAA
** *
10256947 AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAATTTTTTTTTCTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
10257012 CGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAA
66 -GTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAA
* * *
10257077 TGGTCGGCACCCAGTGAACAGT-TAAAATTATTTTTC-TTTTTTTCGTGTCAGAATCAGATATAA
130 TGGCCGGCACCCAGTGAACAGTAAAAAAAT-TTTTTCTTTTTTTTCGTGTCAGAATCAGATATAA
10257140 AAATACGAAAAAAATAAAAAAAAA
194 AAATACGAAAAAAAT---AAAAAA
* *
10257164 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAATAGT--AAA-----TTT-TTTTTTC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
* * *
10257221 GTGTCAGAATCAGATATAAAAATACAAAAAAAAATAAAAAAAAATTTTGGGTGCTGGCTTGTCAA
66 GTGTCAAAATCAGATATAAAAATAC-GAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAA
*
10257286 TGGCCAGCACCCAGT-ACACAGT---AAAA-----T-TTTTTTTT-GTGTCAGAATCAGATATAA
130 TGGCCGGCACCCAGTGA-ACAGTAAAAAAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAA
10257340 AAATACGAAAAAAATAAAAAA
194 AAATACGAAAAAAATAAAAAA
10257361 AATTATAGGA
Statistics
Matches: 568, Mismatches: 39, Indels: 54
0.86 0.06 0.08
Matches are distributed among these distances:
197 6 0.01
200 34 0.06
201 8 0.01
205 38 0.07
207 16 0.03
208 25 0.04
209 61 0.11
210 3 0.01
214 66 0.12
215 64 0.11
216 118 0.21
217 128 0.23
218 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (214 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAATTTTTTTTCTTTTTTT
GTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAAT
GGCCGGCACCCAGTGAACAGTAAAAAAATTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAA
ATACGAAAAAAATAAAAAA
Found at i:10257595 original size:103 final size:101
Alignment explanation
Indices: 10257481--10257800 Score: 364
Period size: 103 Copynumber: 3.1 Consensus size: 101
10257471 ATTTTTTTTA
*
10257481 TTTTTTTCGTATTTTTATATTTGATTCTAACACGAAAAAAAAGAAAACTTTTTTTTTACTGTGTA
1 TTTTTTTCGTATTTTTATATTTGATTCTGACACGAAAAAAAAGAAAA--TTTTTTTTACTGTGTA
*
10257546 TTGGGTGCAGGCCATTGACAGGCCAGCACCTAAAATTT
64 TTGGGTGCCGGCCATTGACAGGCCAGCACCTAAAATTT
* * *
10257584 TTTTTTTCGTATTTTTATATTTGATTCTGACATGAAAAAAAAAGAAAAATTTTTTTTAATGTGCA
1 TTTTTTTCGTATTTTTATATTTGATTCTGACACG-AAAAAAAAG-AAAATTTTTTTTACTGTGTA
*
10257649 CTGGGTGCCGGCCATTGACAGGCCAGCACCTAGAAAATTTTTTTATTTAT
64 TTGGGTGCCGGCCATTGACAGGCCAGCACCT---AAA-------A-TT-T
*
10257699 TTTTTTTCGTATTTTTATATCTGATTCTGACAC--AAAAAAAG--AATTTTTTTTACTGT-TCAT
1 TTTTTTTCGTATTTTTATATTTGATTCTGACACGAAAAAAAAGAAAATTTTTTTTACTGTGT-AT
* *
10257759 TGGGTGCCGGCCATTGACAGGCCAACACC-CAAATTT
65 TGGGTGCCGGCCATTGACAGGCCAGCACCTAAAATTT
10257795 TTTTTT
1 TTTTTT
10257801 CTTTTTTGGA
Statistics
Matches: 189, Mismatches: 13, Indels: 37
0.79 0.05 0.15
Matches are distributed among these distances:
96 7 0.04
97 2 0.01
98 1 0.01
103 75 0.40
104 9 0.05
105 6 0.03
106 3 0.02
109 43 0.23
112 8 0.04
113 1 0.01
114 2 0.01
115 32 0.17
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (101 bp):
TTTTTTTCGTATTTTTATATTTGATTCTGACACGAAAAAAAAGAAAATTTTTTTTACTGTGTATT
GGGTGCCGGCCATTGACAGGCCAGCACCTAAAATTT
Found at i:10257780 original size:109 final size:111
Alignment explanation
Indices: 10257583--10257787 Score: 306
Period size: 109 Copynumber: 1.8 Consensus size: 111
10257573 ACCTAAAATT
*
10257583 TTTTTTTTCGTATTTTTATATTTGATTCTGACATGAAAAAAAAAGAAAAATTTTTTTTAATGTGC
1 TTTTTTTTCGTATTTTTATATCTGATTCTGACA--AAAAAAAAAG--AAATTTTTTTTAATGTGC
*
10257648 ACTGGGTGCCGGCCATTGACAGGCCAGCACCTAGAAAATTTTTTTATTTA
62 ACTGGGTGCCGGCCATTGACAGGCCAACACCTAGAAAATTTTTTTATTTA
* * * *
10257698 TTTTTTTTCGTATTTTTATATCTGATTCTGAC-ACAAAAAAAG-AATTTTTTTTACTGTTCATTG
1 TTTTTTTTCGTATTTTTATATCTGATTCTGACAAAAAAAAAAGAAATTTTTTTTAATGTGCACTG
10257761 GGTGCCGGCCATTGACAGGCCAACACC
66 GGTGCCGGCCATTGACAGGCCAACACC
10257788 CAAATTTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
109 44 0.52
112 9 0.11
115 31 0.37
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (111 bp):
TTTTTTTTCGTATTTTTATATCTGATTCTGACAAAAAAAAAAGAAATTTTTTTTAATGTGCACTG
GGTGCCGGCCATTGACAGGCCAACACCTAGAAAATTTTTTTATTTA
Found at i:10262827 original size:2 final size:2
Alignment explanation
Indices: 10262820--10262844 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10262810 CAAAACTAAA
10262820 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
10262845 ACAAAAATGT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10267076 original size:58 final size:59
Alignment explanation
Indices: 10267007--10267117 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 59
10266997 TTTGGGTCTG
* ** * *
10267007 AACTTGGTAATTATTGTTATATTGGGGTTTGAAT-TTTTTTTGTCCAAGTTAAGCACTA
1 AACTTAGTAATTATTCCTACATTGGGGTCTGAATGTTTTTTTGTCCAAGTTAAGCACTA
* * * *
10267065 AACTTAGTAATTGTTCCTGCGTTGGGGTCTGAATGTTTTTTTGTCTAAGTTAA
1 AACTTAGTAATTATTCCTACATTGGGGTCTGAATGTTTTTTTGTCCAAGTTAA
10267118 TCCTTGACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
58 26 0.60
59 17 0.40
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (59 bp):
AACTTAGTAATTATTCCTACATTGGGGTCTGAATGTTTTTTTGTCCAAGTTAAGCACTA
Found at i:10267592 original size:30 final size:31
Alignment explanation
Indices: 10267535--10267603 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
10267525 GTTACAAATG
* *
10267535 GTCATTGAACTATTTGAGAGTTTTTATTTAA
1 GTCATTGAACTATTTAACAGTTTTTATTTAA
10267566 GTCATTGAACTATTTAACAG-TTTTATTTAA
1 GTCATTGAACTATTTAACAGTTTTTATTTAA
*
10267596 GTAATTGA
1 GTCATTGA
10267604 TTGCTAAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (31 bp):
GTCATTGAACTATTTAACAGTTTTTATTTAA
Found at i:10274475 original size:49 final size:50
Alignment explanation
Indices: 10274422--10274544 Score: 196
Period size: 50 Copynumber: 2.5 Consensus size: 50
10274412 AGTGTGCCAA
* *
10274422 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-AACCGAGGAGTG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAACAGAGGAGAGTC-AG
10274471 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAACAGAGGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGAACAGAGGAGAGTCAG
*
10274521 TGTAAGATCATGTCTGGGACATGG
1 TGTAAGACCATGTCTGGGACATGG
10274545 TGTCACGGGG
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 33 0.48
50 35 0.51
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACGAACAGAGGAGAGTCAG
Found at i:10278495 original size:45 final size:45
Alignment explanation
Indices: 10278440--10278605 Score: 221
Period size: 45 Copynumber: 3.7 Consensus size: 45
10278430 ATTAATGAAA
* * * *
10278440 ATAAAGGTGATTGCTATGTGTTGATTTCA-CTTGATACCAATG-GTT
1 ATAAAGGTGATTGCTATGTGCTGAATTCACCCTG-TACCATTGAG-T
10278485 ATATAA-GTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGT
1 ATA-AAGGTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGT
*
10278530 ATAAAGGTGGTTGCTATGTGCTGAATTCACCCTGTACCATTGAGT
1 ATAAAGGTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGT
* *
10278575 ATAAAGGTGGTTGCTATGTGCTGATTTCACC
1 ATAAAGGTGATTGCTATGTGCTGAATTCACC
10278606 GAGTGCTATT
Statistics
Matches: 111, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
44 2 0.02
45 103 0.93
46 6 0.05
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (45 bp):
ATAAAGGTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGT
Found at i:10278617 original size:45 final size:45
Alignment explanation
Indices: 10278399--10278643 Score: 212
Period size: 45 Copynumber: 5.5 Consensus size: 45
10278389 TTGGAAATAT
* * ** * **
10278399 AGGTGGATGCTATGTGCTGATTCCACCG-GATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAG-TACCATTGAGTATAA
* * * *
10278444 AGGTGATTGCTATGTGTTGATTTCACTTGA-TACCAATG-GTTATATA
1 AGGTGGTTGCTATGTGCTGATTTCAC-CGAGTACCATTGAG-TATA-A
* * **
10278490 A-GTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGTATAA
* **
10278534 AGGTGGTTGCTATGTGCTGAATTCACCCTGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGTATAA
* * *
10278579 AGGTGGTTGCTATGTGCTGATTTCACCGAGTGCTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGTATAA
* *
10278624 GGGTGG-TGCTGTGTGCTGAT
1 AGGTGGTTGCTATGTGCTGAT
10278644 CCACCGTGTA
Statistics
Matches: 169, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
44 15 0.09
45 150 0.89
46 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.35
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGAGTATAA
Found at i:10278617 original size:90 final size:90
Alignment explanation
Indices: 10278395--10278642 Score: 238
Period size: 90 Copynumber: 2.8 Consensus size: 90
10278385 ATCGTTGGAA
* * * * * *
10278395 ATAT-AGGTGGATGCTATGTGCTGATTCCACCGGATATTAATGAAAATAAAGGTGATTGCTATGT
1 ATATAAGGTGGTTGCTATGTGCTGATTTCACCGG-TACTATTGAATATAAAGGTGGTTGCTATGT
* * *
10278459 GTTGATTTCACTTGATACCAATGGTT
65 GCTGAATTCACCTGATACCAATGGTT
* * * * *
10278485 ATATAA-GTGATTGCTATGTGCTGAATTCACCCTGTACCATTGAGTATAAAGGTGGTTGCTATGT
1 ATATAAGGTGGTTGCTATGTGCTGATTTCA-CCGGTACTATTGAATATAAAGGTGGTTGCTATGT
*
10278549 GCTGAATTCACCCTG-TACCATTGAG-T
65 GCTGAATTCA-CCTGATACCAATG-GTT
* * * *
10278575 ATA-AAGGTGGTTGCTATGTGCTGATTTCACCGAGTGCTATTGACTATAAGGGTGG-TGCTGTGT
1 ATATAAGGTGGTTGCTATGTGCTGATTTCACCG-GTACTATTGAATATAAAGGTGGTTGCTATGT
10278638 GCTGA
65 GCTGA
10278643 TCCACCGTGT
Statistics
Matches: 129, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
89 16 0.12
90 105 0.81
91 8 0.06
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (90 bp):
ATATAAGGTGGTTGCTATGTGCTGATTTCACCGGTACTATTGAATATAAAGGTGGTTGCTATGTG
CTGAATTCACCTGATACCAATGGTT
Found at i:10281364 original size:28 final size:28
Alignment explanation
Indices: 10281332--10281388 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
10281322 GGCAGCACCC
10281332 CATCATTCTATTGTTCTTCATTTCATTA
1 CATCATTCTATTGTTCTTCATTTCATTA
*
10281360 CATCATTCTATTGTTCTTCCTTTCATTA
1 CATCATTCTATTGTTCTTCATTTCATTA
10281388 C
1 C
10281389 TGGTTTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.53
Consensus pattern (28 bp):
CATCATTCTATTGTTCTTCATTTCATTA
Found at i:10286564 original size:23 final size:21
Alignment explanation
Indices: 10286521--10286565 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
10286511 TAAAACATTT
* *
10286521 AGTCTTTTTATTTTTATATTC
1 AGTCTTTTTATTTTCAAATTC
10286542 AGTCTTTTTAGATTTTCAAATTC
1 AGTCTTTTT--ATTTTCAAATTC
10286565 A
1 A
10286566 TATCCAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (21 bp):
AGTCTTTTTATTTTCAAATTC
Found at i:10287382 original size:30 final size:30
Alignment explanation
Indices: 10287348--10287407 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
10287338 TATTTTATTA
10287348 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
10287378 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
10287408 CTTGTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:10289399 original size:11 final size:11
Alignment explanation
Indices: 10289380--10289416 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
10289370 TAATTTAGCA
*
10289380 TTTATATATAT
1 TTTAAATATAT
10289391 TTTAAATAT-T
1 TTTAAATATAT
10289401 TTTAAA-ATAT
1 TTTAAATATAT
10289411 TTTAAA
1 TTTAAA
10289417 AAAAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
9 2 0.08
10 14 0.58
11 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAATATAT
Found at i:10292217 original size:23 final size:22
Alignment explanation
Indices: 10292190--10292235 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
10292180 ATTTTTAAAA
*
10292190 TTTTAAAAAATTATAAAAATTAT
1 TTTTAAAAAA-TAAAAAAATTAT
10292213 TTTTAAAAAATAAAAAAATTAT
1 TTTTAAAAAATAAAAAAATTAT
10292235 T
1 T
10292236 AAAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAATAAAAAAATTAT
Found at i:10292218 original size:31 final size:31
Alignment explanation
Indices: 10292180--10292257 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
10292170 ATTTTTTTGA
** *
10292180 ATTTTTAAAATTTTAAAAAATTATAAAAATT
1 ATTTTTAAAAAATAAAAAAATTATAAAAATT
*
10292211 ATTTTTAAAAAATAAAAAAATTATTAAAATT
1 ATTTTTAAAAAATAAAAAAATTATAAAAATT
*
10292242 A-TTTTAAAACATAAAA
1 ATTTTTAAAAAATAAAA
10292258 GAATATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 14 0.33
31 28 0.67
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
ATTTTTAAAAAATAAAAAAATTATAAAAATT
Found at i:10295063 original size:17 final size:17
Alignment explanation
Indices: 10295041--10295084 Score: 74
Period size: 15 Copynumber: 2.7 Consensus size: 17
10295031 TTTCAAATTA
10295041 TTTACAACATATATATT
1 TTTACAACATATATATT
10295058 TTTACAAC--ATATATT
1 TTTACAACATATATATT
10295073 TTTACAACATAT
1 TTTACAACATAT
10295085 TTTGTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 15 0.60
17 10 0.40
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTACAACATATATATT
Found at i:10295376 original size:15 final size:15
Alignment explanation
Indices: 10295356--10295385 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10295346 CTTTTTTGGC
*
10295356 CGATTTGCTTTCTGT
1 CGATTTGCTCTCTGT
10295371 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
10295386 TTTACCCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:10298166 original size:30 final size:28
Alignment explanation
Indices: 10298109--10298166 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
10298099 TCGTGTATAC
* *
10298109 ATTTTAAATAAAATATGTATATGTTAAA
1 ATTTTAAATAAAATATATATATATTAAA
10298137 ATTTTAAATACAAATATAATATATATTAAA
1 ATTTTAAATA-AAATAT-ATATATATTAAA
10298167 GCTACATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.38
29 6 0.23
30 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
ATTTTAAATAAAATATATATATATTAAA
Found at i:10305255 original size:237 final size:237
Alignment explanation
Indices: 10304840--10305302 Score: 728
Period size: 237 Copynumber: 2.0 Consensus size: 237
10304830 TTGATCCGAC
* * * * **
10304840 CCATTATGTAACACCCATCGTCTAATCCGGTCGATGGACCTAAGCTATAGGATACTGCAACAGTC
1 CCATTATGTAACACCCATCGCCCAATCCGGTAGACGGACCTAAGCTATAGGATACAACAACAGTC
** * * *
10304905 CAACTTGCACTTTTACTACAACACTCATGTTGACGCAGCTCGTGTATTGACATAATTCGCACGTC
66 CAACTTGCACCATTACTACAACACTCATGTTGACGCAGCTCGCGTATTAACATAATTCGCACATC
*
10304970 AATACAACTCACAGATTTTTACAACACACATACTATTACTTTACAAACCAGCTCGCATTTAGATA
131 AATACAACTCACAGATTTTTACAACACACATACTATTACTTTACAAACCAGCTCGCACTTAGATA
* * *
10305035 CTTTACAGAGGGTTTGCATATACACACCCTATAGAGTTCAAT
196 CTTTACAGAGAGTTCGCACATACACACCCTATAGAGTTCAAT
* * * * *
10305077 CCATTATGTAACACCCCTCGCCCAATCTGGTAGCCGGACCTAAGCTATAGGTTACAACAACAGTT
1 CCATTATGTAACACCCATCGCCCAATCCGGTAGACGGACCTAAGCTATAGGATACAACAACAGTC
* *
10305142 CAACTTGCACCATTACTATAACACTCATGTTGACGTAGCTCGCGTATTAACATAATTCGCACATC
66 CAACTTGCACCATTACTACAACACTCATGTTGACGCAGCTCGCGTATTAACATAATTCGCACATC
10305207 AATACAACTCACAGATTTTTACAACACACATACTATTACTTTACAAACCAGCTCGCACTTAGATA
131 AATACAACTCACAGATTTTTACAACACACATACTATTACTTTACAAACCAGCTCGCACTTAGATA
10305272 CTTTACAGAGAGTTCGCACATACACACCCTA
196 CTTTACAGAGAGTTCGCACATACACACCCTA
10305303 CAAAGTCAGT
Statistics
Matches: 204, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
237 204 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (237 bp):
CCATTATGTAACACCCATCGCCCAATCCGGTAGACGGACCTAAGCTATAGGATACAACAACAGTC
CAACTTGCACCATTACTACAACACTCATGTTGACGCAGCTCGCGTATTAACATAATTCGCACATC
AATACAACTCACAGATTTTTACAACACACATACTATTACTTTACAAACCAGCTCGCACTTAGATA
CTTTACAGAGAGTTCGCACATACACACCCTATAGAGTTCAAT
Found at i:10305516 original size:17 final size:17
Alignment explanation
Indices: 10305494--10305561 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
10305484 ACATAGTTCG
10305494 CATATAAACACAACTTA
1 CATATAAACACAACTTA
* *
10305511 CATATAAACATAGCTCT-
1 CATATAAACACAACT-TA
* *
10305528 CATATAAACA-TAGTTA
1 CATATAAACACAACTTA
*
10305544 GCATATAAGCACAACTTA
1 -CATATAAACACAACTTA
10305562 TGGATTGTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.03
16 1 0.03
17 32 0.82
18 5 0.13
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (17 bp):
CATATAAACACAACTTA
Found at i:10307755 original size:20 final size:20
Alignment explanation
Indices: 10307718--10307756 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10307708 TGTAAACAAA
* *
10307718 CAGACAATATACAGAATAAT
1 CAGACAATAAACAAAATAAT
*
10307738 CAGACAGTAAACAAAATAA
1 CAGACAATAAACAAAATAA
10307757 ACTCAGTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.15
Consensus pattern (20 bp):
CAGACAATAAACAAAATAAT
Found at i:10308375 original size:17 final size:18
Alignment explanation
Indices: 10308344--10308378 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10308334 CATGTTTTCG
10308344 GCCCATGTAGGCCCACAC
1 GCCCATGTAGGCCCACAC
10308362 GCCCATGT-GGCCCACAC
1 GCCCATGTAGGCCCACAC
10308379 AGCCTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
GCCCATGTAGGCCCACAC
Found at i:10309240 original size:7 final size:6
Alignment explanation
Indices: 10309228--10309257 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10309218 GAGAGAAGAG
10309228 AGAAAA AGAAAA AGAAAA AGAAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AG-AAAA AGAAA
10309258 CTAGTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:10309243 original size:12 final size:13
Alignment explanation
Indices: 10309228--10309257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10309218 GAGAGAAGAG
10309228 AGAAAAAG-AAAA
1 AGAAAAAGAAAAA
10309240 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
10309253 AGAAA
1 AGAAA
10309258 CTAGTAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:10313221 original size:21 final size:23
Alignment explanation
Indices: 10313197--10313242 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
10313187 TTCTTTTCTA
10313197 TTTCGGCCGATTTGC-TCA-CAG
1 TTTCGGCCGATTTGCGTCATCAG
*
10313218 TTTCTGCCGATTTGCGTCATCAG
1 TTTCGGCCGATTTGCGTCATCAG
10313241 TT
1 TT
10313243 AGTCTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
23 5 0.23
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.39
Consensus pattern (23 bp):
TTTCGGCCGATTTGCGTCATCAG
Found at i:10314734 original size:18 final size:17
Alignment explanation
Indices: 10314711--10314745 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
10314701 TTGTTAGTGA
10314711 GTAGAAGATGAAACTGTT
1 GTAGAAGATGAAA-TGTT
10314729 GTAGAAGATGAAATGTT
1 GTAGAAGATGAAATGTT
10314746 ATTTTAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (17 bp):
GTAGAAGATGAAATGTT
Found at i:10315956 original size:51 final size:51
Alignment explanation
Indices: 10315895--10316048 Score: 308
Period size: 51 Copynumber: 3.0 Consensus size: 51
10315885 AAATTAAAAG
10315895 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
10315946 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
10315997 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
10316048 A
1 A
10316049 GTAATTTTAG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:10316057 original size:33 final size:34
Alignment explanation
Indices: 10315999--10316104 Score: 105
Period size: 33 Copynumber: 3.2 Consensus size: 34
10315989 AACCAACAAT
* *
10315999 TATACATACACCAACAATGT-TTTTTAGGGT-AAA
1 TATACATAAACCAACAA-GTAATTTTAGGGTCAAA
*
10316032 TA-ACATTAAACCAACAAGTAATTTTA-GGTCAAT
1 TATACA-TAAACCAACAAGTAATTTTAGGGTCAAA
* * *
10316065 TATACATACACCAACAATTAATTTTA-GGTCAAT
1 TATACATAAACCAACAAGTAATTTTAGGGTCAAA
10316098 TATACAT
1 TATACAT
10316105 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
32 8 0.12
33 53 0.83
34 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.33
Consensus pattern (34 bp):
TATACATAAACCAACAAGTAATTTTAGGGTCAAA
Found at i:10319195 original size:26 final size:27
Alignment explanation
Indices: 10319161--10319242 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
10319151 ATAAGAACAT
*
10319161 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
10319188 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
10319214 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
10319242 T
1 T
10319243 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:10319330 original size:16 final size:16
Alignment explanation
Indices: 10319296--10319337 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
10319286 ATTATTAAGA
10319296 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
10319313 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
10319329 A-TTTATTAA
1 ATTTTATTAA
10319338 TATTTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:10319338 original size:18 final size:18
Alignment explanation
Indices: 10319296--10319330 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10319286 ATTATTAAGA
*
10319296 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
10319313 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
10319331 TTATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:10319416 original size:120 final size:119
Alignment explanation
Indices: 10319243--10319467 Score: 396
Period size: 120 Copynumber: 1.9 Consensus size: 119
10319233 TATTAATTAT
10319243 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
1 AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
* * *
10319308 TATATATTTTAATTAAAATATATTTATTAATATTTATGTTAATTTATATTTTAC
66 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTAC
* *
10319362 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAATAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
10319427 TTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
65 TTATATATTTTAATTAAAATATATTTAATAAAAATTATGTT
10319468 TAAATATGAT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 28 0.28
120 72 0.72
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.48
Consensus pattern (119 bp):
AGTATCATATATTATGATTTGAATAAATTATATAAGAATATGAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTAATTTATATTTTAC
Found at i:10319444 original size:18 final size:17
Alignment explanation
Indices: 10319416--10319450 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10319406 ATTATTAAGA
*
10319416 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10319433 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10319451 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10319450 original size:16 final size:16
Alignment explanation
Indices: 10319416--10319470 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
10319406 ATTATTAAGA
10319416 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
10319433 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
10319449 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
10319463 ATGTTTAA
1 AT-TTTAA
10319471 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:10319590 original size:156 final size:156
Alignment explanation
Indices: 10319404--10319718 Score: 578
Period size: 156 Copynumber: 2.0 Consensus size: 156
10319394 ATAAGAATAT
10319404 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
*
10319469 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTT-TTAAAATTTAAATAACAATAACAA
10319534 TAATCATTTACAAAAACAAATTTATGC
130 TAATCATTTACAAAAACAAATTTATGC
*
10319561 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
10319625 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTTTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTTTAAAATTTAAATAACAATAACAAT
* *
10319690 AATCATTTACCAAAACAATTTTATGC
131 AATCATTTACAAAAACAAATTTATGC
10319716 TAA
1 TAA
10319719 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
155 52 0.34
156 96 0.62
157 6 0.04
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTTTAAAATTTAAATAACAATAACAAT
AATCATTTACAAAAACAAATTTATGC
Found at i:10319600 original size:18 final size:17
Alignment explanation
Indices: 10319572--10319606 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10319562 AATTATAAGA
*
10319572 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10319589 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10319607 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10319835 original size:44 final size:45
Alignment explanation
Indices: 10319770--10319860 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
10319760 ACCTCTATTC
* * * *
10319770 CATTCAACCAAACACAAGATTA-TTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
10319814 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
10319859 CA
1 CA
10319861 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:10319862 original size:16 final size:16
Alignment explanation
Indices: 10319841--10319892 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
10319831 GATTAGCTAT
10319841 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
10319857 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
10319873 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
10319889 TACA
1 TACA
10319893 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:10322628 original size:35 final size:35
Alignment explanation
Indices: 10322584--10322656 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
10322574 TCACTTCACA
*
10322584 AAATACATGCACAAGTTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
10322619 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
10322654 AAA
1 AAA
10322657 AGTATGCGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (35 bp):
AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
Found at i:10334164 original size:17 final size:17
Alignment explanation
Indices: 10334142--10334174 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10334132 TCTTATATTT
10334142 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
10334159 TGATACCCATATCTTT
1 TGATACCCATATCTTT
10334175 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:10337729 original size:17 final size:17
Alignment explanation
Indices: 10337707--10337756 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
10337697 TCTCATATTT
10337707 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
10337724 TGATACCCATAACTTTC
1 TGATACCCATATCTTTC
*
10337741 TGATATCCATATCTTT
1 TGATACCCATATCTTT
10337757 GACTTTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:10338705 original size:3 final size:3
Alignment explanation
Indices: 10338697--10338721 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10338687 TAGTCCTAGA
10338697 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
10338722 TTAAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10342588 original size:49 final size:49
Alignment explanation
Indices: 10342480--10342603 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
10342470 CATTATGTGT
* * * *
10342480 TTTGCA-TTTAATTAAGTCATGCATAAAAGCATCTCATATATTAATTAAG
1 TTTGCATTTTAATTAAGTCATGCAT-TAAGAAACTCATATATTAAATAAG
** * * *
10342529 TTTGTGTTTTAATTATGTCATGCATTATGAAACTCATATGTTAAATAAG
1 TTTGCATTTTAATTAAGTCATGCATTAAGAAACTCATATATTAAATAAG
10342578 TTTGCATTTTAATTAAGTCATGCATT
1 TTTGCATTTTAATTAAGTCATGCATT
10342604 TATGCATTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
49 45 0.73
50 17 0.27
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (49 bp):
TTTGCATTTTAATTAAGTCATGCATTAAGAAACTCATATATTAAATAAG
Found at i:10343029 original size:37 final size:36
Alignment explanation
Indices: 10342986--10343080 Score: 118
Period size: 37 Copynumber: 2.6 Consensus size: 36
10342976 CATCAAGTAT
* * * *
10342986 AGAGACATGACTATTCAAATACATATGGACCAAGTGA
1 AGAGACATGACT-TTCAAATACACACGAAACAAGTGA
*
10343023 AGAGACATGACTTTTCAACTACACACGAAACAAGTGA
1 AGAGACATGAC-TTTCAAATACACACGAAACAAGTGA
10343060 AGAGACATGACCTTTCAAATA
1 AGAGACATGA-CTTTCAAATA
10343081 TCTTCCATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 48 0.96
38 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (36 bp):
AGAGACATGACTTTCAAATACACACGAAACAAGTGA
Found at i:10352075 original size:21 final size:22
Alignment explanation
Indices: 10352040--10352080 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10352030 TTATGTTTGT
10352040 TAAACATCACTTAATTAGTTAG
1 TAAACATCACTTAATTAGTTAG
*
10352062 TAAAC-TCAGTTAATTAGTT
1 TAAACATCACTTAATTAGTT
10352081 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (22 bp):
TAAACATCACTTAATTAGTTAG
Found at i:10364631 original size:14 final size:14
Alignment explanation
Indices: 10364612--10364648 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
10364602 GATTGAGTGC
10364612 AAATTAGAAACTTA
1 AAATTAGAAACTTA
10364626 AAATTAGAAACTTA
1 AAATTAGAAACTTA
10364640 AAATTAGAA
1 AAATTAGAA
10364649 TCCAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (14 bp):
AAATTAGAAACTTA
Found at i:10367249 original size:14 final size:14
Alignment explanation
Indices: 10367230--10367257 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10367220 ATTCCAATGG
10367230 CTAGTTACAACCAA
1 CTAGTTACAACCAA
10367244 CTAGTTACAACCAA
1 CTAGTTACAACCAA
10367258 TCTATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
CTAGTTACAACCAA
Found at i:10378851 original size:41 final size:41
Alignment explanation
Indices: 10378794--10378876 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
10378784 GGTTTTGAAG
10378794 AATATATATTTGAAGTAACAACCATTTGAATAAAAGTAATC
1 AATATATATTTGAAGTAACAACCATTTGAATAAAAGTAATC
* *
10378835 AATATATATTTGAAGTAACAACCGTTTGAATAAAATTAATC
1 AATATATATTTGAAGTAACAACCATTTGAATAAAAGTAATC
10378876 A
1 A
10378877 TTATGAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (41 bp):
AATATATATTTGAAGTAACAACCATTTGAATAAAAGTAATC
Found at i:10381113 original size:11 final size:10
Alignment explanation
Indices: 10381095--10381166 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
10381085 ATAAAATCAT
*
10381095 TTAAAATTTA
1 TTAAAAATTA
10381105 TTAAAAATTA
1 TTAAAAATTA
10381115 TTAAAAAAATTA
1 TT--AAAAATTA
*
10381127 TT-GAAATTA
1 TTAAAAATTA
*
10381136 TAAAAAATTA
1 TTAAAAATTA
* *
10381146 ATATAAATTA
1 TTAAAAATTA
10381156 TTTAAAAATTA
1 -TTAAAAATTA
10381167 ATTTTAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 7 0.14
10 24 0.49
11 8 0.16
12 10 0.20
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:10381164 original size:21 final size:21
Alignment explanation
Indices: 10381109--10381168 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
10381099 AATTTATTAA
10381109 AAATTATTAAAAAAATT-AT-T
1 AAATTATT-AAAAAATTAATAT
10381129 GAAATTA-TAAAAAATTAATAT
1 -AAATTATTAAAAAATTAATAT
*
10381150 AAATTATTTAAAAATTAAT
1 AAATTATTAAAAAATTAAT
10381169 TTTAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 8 0.23
20 9 0.26
21 18 0.51
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTATTAAAAAATTAATAT
Found at i:10396398 original size:22 final size:22
Alignment explanation
Indices: 10396372--10396414 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10396362 TGACCTCTTT
*
10396372 GGATTTATATTTTTTTAATTTG
1 GGATTTATATTGTTTTAATTTG
* *
10396394 GGATTTTTATTGTTTTGATTT
1 GGATTTATATTGTTTTAATTT
10396415 ATAACTGGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (22 bp):
GGATTTATATTGTTTTAATTTG
Found at i:10396931 original size:25 final size:25
Alignment explanation
Indices: 10396885--10396933 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10396875 CTATTTTTGA
* *
10396885 TAGTATATCCTGGAACTGCTATAGG
1 TAGTATATACTGGAACTACTATAGG
10396910 TAGTATATACT-GAGACTACTATAG
1 TAGTATATACTGGA-ACTACTATAG
10396934 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGGAACTACTATAGG
Found at i:10404259 original size:20 final size:19
Alignment explanation
Indices: 10404234--10404271 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
10404224 ACCAGAAAGG
10404234 AAAAATTAAAGAAAAAAAAC
1 AAAAATTAAA-AAAAAAAAC
10404254 AAAAATTAAAAAAAAAAA
1 AAAAATTAAAAAAAAAAA
10404272 GAGAGAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (19 bp):
AAAAATTAAAAAAAAAAAC
Found at i:10410527 original size:35 final size:36
Alignment explanation
Indices: 10410455--10410552 Score: 144
Period size: 35 Copynumber: 2.8 Consensus size: 36
10410445 AGTGAATTAA
*
10410455 ATCAAAGTCAAACATATATGTGATCTAAAATATGCT
1 ATCAAAGTCAAGCATATATGTGATCTAAAATATGCT
*
10410491 ATCAAAGTCAAGCACATATGTGATC-AAAATATGCT
1 ATCAAAGTCAAGCATATATGTGATCTAAAATATGCT
* * *
10410526 ATCAAAATCAAGCTTATATGTGGTCTA
1 ATCAAAGTCAAGCATATATGTGATCTA
10410553 TATCACAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 31 0.56
36 24 0.44
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (36 bp):
ATCAAAGTCAAGCATATATGTGATCTAAAATATGCT
Found at i:10411044 original size:178 final size:178
Alignment explanation
Indices: 10410737--10411095 Score: 580
Period size: 178 Copynumber: 2.0 Consensus size: 178
10410727 ATCCTAGATA
* *
10410737 ATTATTAGACATGAACTCTTGGTCCATCTTGTTGCCTATCTTTATTCCATTATCAAGGCTTTGTC
1 ATTATTAGACATGAACTCTTGGTCCATCTTGTCGCCTATCTTTATTCCATTATCAAGGCCTTGTC
*
10410802 CTCATGTCTTACCTCCAGTGAAGAAAGAGGAAAGAGAAATTTTGGAAGGTCTGACATCACCTTAT
66 CTCATATCTTACCTCCAGTGAAGAAAGAGGAAAGAGAAATTTTGGAAGGTCTGACATCACCTTAT
10410867 ATATTCTTATGAGAATCAACATATAATTCTATCATTGGATTGATTTAT
131 ATATTCTTATGAGAATCAACATATAATTCTATCATTGGATTGATTTAT
10410915 ATTATTAGACATGAACTGC-TGGTCCATCTCT-TCGCCTATCTTTATTCCATTATCAAGGCCTTG
1 ATTATTAGACATGAACT-CTTGGTCCATCT-TGTCGCCTATCTTTATTCCATTATCAAGGCCTTG
* ** * *
10410978 TCCTCATATCTTACCTCCAGTGAGGAAAGAGGAGAA-AGAAATTTTTTAAGGTCTGGCATTACCT
64 TCCTCATATCTTACCTCCAGTGAAGAAAGAGGA-AAGAGAAATTTTGGAAGGTCTGACATCACCT
* *
10411042 TATATATTCTTATGAGAATGAACATATAATTCTATCATTGTATTGATTTAT
128 TATATATTCTTATGAGAATCAACATATAATTCTATCATTGGATTGATTTAT
10411093 ATT
1 ATT
10411096 TTTATAATTT
Statistics
Matches: 168, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
178 164 0.98
179 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (178 bp):
ATTATTAGACATGAACTCTTGGTCCATCTTGTCGCCTATCTTTATTCCATTATCAAGGCCTTGTC
CTCATATCTTACCTCCAGTGAAGAAAGAGGAAAGAGAAATTTTGGAAGGTCTGACATCACCTTAT
ATATTCTTATGAGAATCAACATATAATTCTATCATTGGATTGATTTAT
Done.